annotate Plugin/ParsedDicomImage.cpp @ 94:63396b070632

fix mainline version
author Sebastien Jodogne <s.jodogne@gmail.com>
date Fri, 27 Nov 2015 14:43:38 +0100
parents 02ccb1677e91
children a6ba21a083e5
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>
87
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
30 #include <gdcmImageApplyLookupTable.h>
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
31 #include <gdcmImageChangePlanarConfiguration.h>
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
32 #include <gdcmImageChangePhotometricInterpretation.h>
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
33 #include <boost/lexical_cast.hpp>
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
34 #include <boost/math/special_functions/round.hpp>
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
35
26
a6492d20b2a8 modularization
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 18
diff changeset
36 #include "../Orthanc/Resources/ThirdParty/base64/base64.h"
0
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
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
39 namespace OrthancPlugins
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
40 {
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
41 class ParsedDicomImage::PImpl
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
42 {
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
43 private:
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
44 OrthancPluginContext* context_;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
45 std::string instanceId_;
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
46 gdcm::ImageReader reader_;
87
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
47 std::auto_ptr<gdcm::ImageApplyLookupTable> lut_;
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
48 std::auto_ptr<gdcm::ImageChangePhotometricInterpretation> photometric_;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
49 std::auto_ptr<gdcm::ImageChangePlanarConfiguration> interleaved_;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
50 std::string decoded_;
79
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
51 std::auto_ptr<ImageReader> png_;
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
52 bool isDecoded_;
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 bool DecodeUsingGdcm()
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
55 {
87
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
56 // Change photometric interpretation or apply LUT, if required
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
57 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
58 const gdcm::Image& image = GetImage();
87
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
59 if (image.GetPixelFormat().GetSamplesPerPixel() == 1 &&
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
60 image.GetPhotometricInterpretation() == gdcm::PhotometricInterpretation::PALETTE_COLOR)
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
61 {
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
62 lut_.reset(new gdcm::ImageApplyLookupTable());
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
63 lut_->SetInput(image);
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
64 if (!lut_->Apply())
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
65 {
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
66 OrthancPluginLogWarning(context_, "GDCM cannot apply the lookup table");
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
67 return false;
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
68 }
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
69 }
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
70 else if (image.GetPixelFormat().GetSamplesPerPixel() == 1)
31
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 if (image.GetPhotometricInterpretation() != gdcm::PhotometricInterpretation::MONOCHROME1 &&
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
73 image.GetPhotometricInterpretation() != gdcm::PhotometricInterpretation::MONOCHROME2)
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 photometric_.reset(new gdcm::ImageChangePhotometricInterpretation());
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
76 photometric_->SetInput(image);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
77 photometric_->SetPhotometricInterpretation(gdcm::PhotometricInterpretation::MONOCHROME2);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
78 if (!photometric_->Change() ||
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
79 GetImage().GetPhotometricInterpretation() != gdcm::PhotometricInterpretation::MONOCHROME2)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
80 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
81 OrthancPluginLogWarning(context_, "GDCM cannot change the photometric interpretation");
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
82 return false;
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 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
85 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
86 else
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 if (image.GetPixelFormat().GetSamplesPerPixel() == 3 &&
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
89 image.GetPhotometricInterpretation() != gdcm::PhotometricInterpretation::RGB)
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 photometric_.reset(new gdcm::ImageChangePhotometricInterpretation());
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
92 photometric_->SetInput(image);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
93 photometric_->SetPhotometricInterpretation(gdcm::PhotometricInterpretation::RGB);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
94 if (!photometric_->Change() ||
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
95 GetImage().GetPhotometricInterpretation() != gdcm::PhotometricInterpretation::RGB)
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 OrthancPluginLogWarning(context_, "GDCM cannot change the photometric interpretation");
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
98 return false;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
99 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
100 }
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 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
103
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
104 // Possibly convert planar configuration to interleaved
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 const gdcm::Image& image = GetImage();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
107 if (image.GetPlanarConfiguration() != 0 &&
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
108 image.GetPixelFormat().GetSamplesPerPixel() != 1)
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 interleaved_.reset(new gdcm::ImageChangePlanarConfiguration());
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
111 interleaved_->SetInput(image);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
112 if (!interleaved_->Change() ||
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
113 GetImage().GetPlanarConfiguration() != 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 OrthancPluginLogWarning(context_, "GDCM cannot change the planar configuration to interleaved");
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
116 return false;
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 }
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 // Decode the image to the memory buffer
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 const gdcm::Image& image = GetImage();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
124 decoded_.resize(image.GetBufferLength());
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 if (decoded_.size() > 0)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
127 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
128 image.GetBuffer(&decoded_[0]);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
129 }
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
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
132 return true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
133 }
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
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
136 bool DecodeUsingOrthanc()
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
137 {
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 * 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
140 * 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
141 **/
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
142 std::string file = "/instances/" + instanceId_;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
143
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
144 const gdcm::Image& image = GetImage();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
145 if (image.GetPixelFormat().GetSamplesPerPixel() == 3 ||
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
146 image.GetPixelFormat().GetSamplesPerPixel() == 4)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
147 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
148 file += "/preview";
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
149 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
150 else
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
151 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
152 file += "/image-uint16";
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
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
155 std::string png;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
156 if (!GetStringFromOrthanc(png, context_, file))
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 return false;
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 else
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 try
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
163 {
79
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
164 png_.reset(new ImageReader(context_, png, OrthancPluginImageFormat_Png));
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
165 return true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
166 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
167 catch (Orthanc::OrthancException&)
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 return false;
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 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
172 }
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 bool Decode()
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
176 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
177 if (isDecoded_)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
178 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
179 return true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
180 }
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 if (DecodeUsingGdcm())
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
183 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
184 isDecoded_ = true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
185 return true;
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
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
188 // GDCM cannot decode this image, try and use Orthanc built-in functions
87
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
189 lut_.reset();
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
190 photometric_.reset();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
191 interleaved_.reset();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
192 decoded_.clear();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
193
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
194 if (DecodeUsingOrthanc())
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
195 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
196 isDecoded_ = true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
197 return true;
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 else
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 return false;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
202 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
203 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
204
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
205
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
206 public:
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
207 PImpl(OrthancPluginContext* context,
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
208 const std::string& instanceId) :
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
209 context_(context),
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
210 instanceId_(instanceId),
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
211 isDecoded_(false)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
212 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
213 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
214
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
215
79
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
216 OrthancPluginContext* GetContext()
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
217 {
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
218 return context_;
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
219 }
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
220
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
221
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
222 const gdcm::DataSet& GetDataSet() const
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
223 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
224 return reader_.GetFile().GetDataSet();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
225 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
226
0
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 const gdcm::Image& GetImage() const
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
229 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
230 if (interleaved_.get() != NULL)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
231 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
232 return interleaved_->GetOutput();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
233 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
234
87
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
235 if (lut_.get() != NULL)
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
236 {
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
237 return lut_->GetOutput();
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
238 }
02ccb1677e91 Support of images encoded using LUT (lookup tables)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 79
diff changeset
239
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
240 if (photometric_.get() != NULL)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
241 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
242 return photometric_->GetOutput();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
243 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
244
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
245 return reader_.GetImage();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
246 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
247
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
248
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
249 void Parse(const std::string& dicom)
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 // Prepare a memory stream over the DICOM instance
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
252 std::stringstream stream(dicom);
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 // Parse the DICOM instance using GDCM
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
255 reader_.SetStream(stream);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
256 if (!reader_.Read())
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
257 {
79
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
258 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
259 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat);
31
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 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
262
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
263
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
264 bool GetAccessor(Orthanc::ImageAccessor& accessor)
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
265 {
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
266 if (!Decode())
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
267 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
268 return false;
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
79
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
271 if (png_.get() != NULL)
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
272 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
273 // 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
274 accessor = png_->GetAccessor();
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
275 return true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
276 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
277
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
278 const gdcm::Image& image = GetImage();
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 size_t size = decoded_.size();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
281 void* buffer = (size ? &decoded_[0] : NULL);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
282 unsigned int height = image.GetRows();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
283 unsigned int width = image.GetColumns();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
284
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
285 if (image.GetPixelFormat().GetSamplesPerPixel() == 1 &&
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
286 (image.GetPhotometricInterpretation() == gdcm::PhotometricInterpretation::MONOCHROME1 ||
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
287 image.GetPhotometricInterpretation() == gdcm::PhotometricInterpretation::MONOCHROME2))
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
288 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
289 switch (image.GetPixelFormat())
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 case gdcm::PixelFormat::UINT16:
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
292 accessor.AssignWritable(Orthanc::PixelFormat_Grayscale16, width, height, 2 * width, buffer);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
293 return true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
294
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
295 case gdcm::PixelFormat::INT16:
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
296 accessor.AssignWritable(Orthanc::PixelFormat_SignedGrayscale16, width, height, 2 * width, buffer);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
297 return true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
298
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
299 case gdcm::PixelFormat::UINT8:
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
300 accessor.AssignWritable(Orthanc::PixelFormat_Grayscale8, width, height, width, buffer);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
301 return true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
302
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
303 default:
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
304 return false;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
305 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
306 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
307 else if (image.GetPixelFormat().GetSamplesPerPixel() == 3 &&
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
308 image.GetPhotometricInterpretation() == gdcm::PhotometricInterpretation::RGB)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
309 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
310 switch (image.GetPixelFormat())
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
311 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
312 case gdcm::PixelFormat::UINT8:
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
313 accessor.AssignWritable(Orthanc::PixelFormat_RGB24, width, height, 3 * width, buffer);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
314 return true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
315
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
316 default:
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
317 return false;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
318 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
319 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
320
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
321 return false;
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
322 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
323 };
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
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
326 template <typename TargetType, typename SourceType>
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
327 static void ChangeDynamics(Orthanc::ImageAccessor& target,
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
328 const Orthanc::ImageAccessor& source,
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
329 SourceType source1, TargetType target1,
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
330 SourceType source2, TargetType target2)
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 if (source.GetWidth() != target.GetWidth() ||
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
333 source.GetHeight() != target.GetHeight())
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
334 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
335 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageSize);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
336 }
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 float scale = static_cast<float>(target2 - target1) / static_cast<float>(source2 - source1);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
339 float offset = static_cast<float>(target1) - scale * static_cast<float>(source1);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
340
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
341 const float minValue = static_cast<float>(std::numeric_limits<TargetType>::min());
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
342 const float maxValue = static_cast<float>(std::numeric_limits<TargetType>::max());
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 for (unsigned int y = 0; y < source.GetHeight(); y++)
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 const SourceType* p = reinterpret_cast<const SourceType*>(source.GetConstRow(y));
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
347 TargetType* q = reinterpret_cast<TargetType*>(target.GetRow(y));
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 for (unsigned int x = 0; x < source.GetWidth(); x++, p++, q++)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
350 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
351 float v = (scale * static_cast<float>(*p)) + offset;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
352
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
353 if (v > maxValue)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
354 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
355 *q = std::numeric_limits<TargetType>::max();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
356 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
357 else if (v < minValue)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
358 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
359 *q = std::numeric_limits<TargetType>::min();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
360 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
361 else
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
362 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
363 *q = static_cast<TargetType>(boost::math::iround(v));
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 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
368
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
369
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
370 ParsedDicomImage::ParsedDicomImage(OrthancPluginContext* context,
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
371 const std::string& instanceId) :
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
372 pimpl_(new PImpl(context, instanceId))
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
373 {
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
374 std::string file = "/instances/" + instanceId + "/file";
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
375
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
376 std::string dicom;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
377 if (!GetStringFromOrthanc(dicom, context, file))
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
378 {
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
379 throw Orthanc::OrthancException(Orthanc::ErrorCode_UnknownResource);
0
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
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
382 pimpl_->Parse(dicom);
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
383 }
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 bool ParsedDicomImage::GetTag(std::string& result,
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
387 uint16_t group,
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
388 uint16_t element,
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
389 bool stripSpaces)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
390 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
391 const gdcm::Tag tag(group, element);
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 if (pimpl_->GetDataSet().FindDataElement(tag))
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
394 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
395 const gdcm::ByteValue* value = pimpl_->GetDataSet().GetDataElement(tag).GetByteValue();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
396 if (value)
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 result = std::string(value->GetPointer(), value->GetLength());
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
399
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
400 if (stripSpaces)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
401 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
402 result = Orthanc::Toolbox::StripSpaces(result);
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
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
405 return true;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
406 }
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
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
409 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
410 }
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
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
413 bool ParsedDicomImage::GetCornerstoneMetadata(Json::Value& json)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
414 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
415 using namespace Orthanc;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
416
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
417 ImageAccessor accessor;
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
418 if (!pimpl_->GetAccessor(accessor))
0
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 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
421 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
422
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
423 float windowCenter, windowWidth;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
424
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
425 switch (accessor.GetFormat())
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
426 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
427 case PixelFormat_Grayscale8:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
428 case PixelFormat_Grayscale16:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
429 case PixelFormat_SignedGrayscale16:
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 int64_t a, b;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
432 Orthanc::ImageProcessing::GetMinMaxValue(a, b, accessor);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
433 json["minPixelValue"] = (a < 0 ? static_cast<int32_t>(a) : 0);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
434 json["maxPixelValue"] = (b > 0 ? static_cast<int32_t>(b) : 1);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
435 json["color"] = false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
436
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
437 windowCenter = static_cast<float>(a + b) / 2.0f;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
438
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
439 if (a == b)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
440 {
1
828c61fc8253 default window width set to 256
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 0
diff changeset
441 windowWidth = 256.0f; // Arbitrary value
0
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 else
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
444 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
445 windowWidth = static_cast<float>(b - a) / 2.0f;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
446 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
447
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
448 break;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
449 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
450
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
451 case PixelFormat_RGB24:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
452 json["minPixelValue"] = 0;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
453 json["maxPixelValue"] = 255;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
454 json["color"] = true;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
455 windowCenter = 127.5f;
1
828c61fc8253 default window width set to 256
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 0
diff changeset
456 windowWidth = 256.0f;
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
457 break;
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 default:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
460 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
461 }
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 const gdcm::Image& image = pimpl_->GetImage();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
464 json["slope"] = image.GetSlope();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
465 json["intercept"] = image.GetIntercept();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
466 json["rows"] = image.GetRows();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
467 json["columns"] = image.GetColumns();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
468 json["height"] = image.GetRows();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
469 json["width"] = image.GetColumns();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
470 json["columnPixelSpacing"] = image.GetSpacing(1);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
471 json["rowPixelSpacing"] = image.GetSpacing(0);
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 json["windowCenter"] = windowCenter * image.GetSlope() + image.GetIntercept();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
474 json["windowWidth"] = windowWidth * image.GetSlope();
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 try
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
477 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
478 std::string width, center;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
479 if (GetTag(center, 0x0028, 0x1050 /*DICOM_TAG_WINDOW_CENTER*/) &&
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
480 GetTag(width, 0x0028, 0x1051 /*DICOM_TAG_WINDOW_WIDTH*/))
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 float a = boost::lexical_cast<float>(width);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
483 float b = boost::lexical_cast<float>(center);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
484 json["windowWidth"] = a;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
485 json["windowCenter"] = b;
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 catch (boost::bad_lexical_cast&)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
489 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
490 }
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 true;
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
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
496 bool ParsedDicomImage::EncodeUsingDeflate(Json::Value& result,
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
497 uint8_t compressionLevel /* between 0 and 9 */)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
498 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
499 using namespace Orthanc;
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 ImageAccessor accessor;
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
502 if (!pimpl_->GetAccessor(accessor))
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
503 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
504 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
505 }
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 result = Json::objectValue;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
508 result["Orthanc"] = Json::objectValue;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
509 if (!GetCornerstoneMetadata(result))
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
510 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
511 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
512 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
513
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
514 ImageBuffer buffer;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
515 buffer.SetMinimalPitchForced(true);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
516
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
517 ImageAccessor converted;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
518
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 switch (accessor.GetFormat())
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
521 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
522 case Orthanc::PixelFormat_RGB24:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
523 converted = accessor;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
524 break;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
525
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
526 case Orthanc::PixelFormat_Grayscale8:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
527 case Orthanc::PixelFormat_Grayscale16:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
528 buffer.SetFormat(Orthanc::PixelFormat_SignedGrayscale16);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
529 buffer.SetWidth(accessor.GetWidth());
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
530 buffer.SetHeight(accessor.GetHeight());
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
531 converted = buffer.GetAccessor();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
532 ImageProcessing::Convert(converted, accessor);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
533 break;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
534
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
535 case Orthanc::PixelFormat_SignedGrayscale16:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
536 converted = accessor;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
537 break;
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 default:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
540 // Unsupported pixel format
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
541 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
542 }
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 // Sanity check: The pitch must be minimal
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
545 assert(converted.GetSize() == converted.GetWidth() * converted.GetHeight() *
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
546 GetBytesPerPixel(converted.GetFormat()));
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
547 result["Orthanc"]["Compression"] = "Deflate";
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
548 result["sizeInBytes"] = converted.GetSize();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
549
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
550 std::string z;
79
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
551 CompressUsingDeflate(z, pimpl_->GetContext(), converted.GetConstBuffer(), converted.GetSize());
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
552
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
553 result["Orthanc"]["PixelData"] = base64_encode(z);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
554
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
555 return true;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
556 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
557
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
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
560 bool ParsedDicomImage::EncodeUsingJpeg(Json::Value& result,
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
561 uint8_t quality /* between 0 and 100 */)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
562 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
563 using namespace Orthanc;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
564
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
565 ImageAccessor accessor;
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
566 if (!pimpl_->GetAccessor(accessor))
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
567 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
568 return false;
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
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
571 result = Json::objectValue;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
572 result["Orthanc"] = Json::objectValue;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
573 GetCornerstoneMetadata(result);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
574
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
575 ImageBuffer buffer;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
576 buffer.SetMinimalPitchForced(true);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
577
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
578 ImageAccessor converted;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
579
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
580 if (accessor.GetFormat() == Orthanc::PixelFormat_Grayscale8 ||
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
581 accessor.GetFormat() == Orthanc::PixelFormat_RGB24)
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 result["Orthanc"]["Stretched"] = false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
584 converted = accessor;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
585 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
586 else if (accessor.GetFormat() == Orthanc::PixelFormat_Grayscale16 ||
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
587 accessor.GetFormat() == Orthanc::PixelFormat_SignedGrayscale16)
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 result["Orthanc"]["Stretched"] = true;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
590 buffer.SetFormat(Orthanc::PixelFormat_Grayscale8);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
591 buffer.SetWidth(accessor.GetWidth());
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
592 buffer.SetHeight(accessor.GetHeight());
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
593 converted = buffer.GetAccessor();
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 int64_t a, b;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
596 Orthanc::ImageProcessing::GetMinMaxValue(a, b, accessor);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
597 result["Orthanc"]["StretchLow"] = static_cast<int32_t>(a);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
598 result["Orthanc"]["StretchHigh"] = static_cast<int32_t>(b);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
599
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
600 if (accessor.GetFormat() == Orthanc::PixelFormat_Grayscale16)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
601 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
602 ChangeDynamics<uint8_t, uint16_t>(converted, accessor, a, 0, b, 255);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
603 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
604 else
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
605 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
606 ChangeDynamics<uint8_t, int16_t>(converted, accessor, a, 0, b, 255);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
607 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
608 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
609 else
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
610 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
611 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
612 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
613
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
614 result["Orthanc"]["Compression"] = "Jpeg";
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
615 result["sizeInBytes"] = converted.GetSize();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
616
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
617 std::string jpeg;
79
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
618 WriteJpegToMemory(jpeg, pimpl_->GetContext(), converted, quality);
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
619
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
620 result["Orthanc"]["PixelData"] = base64_encode(jpeg);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
621 return true;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
622 }
26
a6492d20b2a8 modularization
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 18
diff changeset
623 }