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cxImageEnveloper.cpp
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1 /*=========================================================================
2 This file is part of CustusX, an Image Guided Therapy Application.
3 
4 Copyright (c) 2008-2014, SINTEF Department of Medical Technology
5 All rights reserved.
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7 Redistribution and use in source and binary forms, with or without
8 modification, are permitted provided that the following conditions are met:
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10 1. Redistributions of source code must retain the above copyright notice,
11  this list of conditions and the following disclaimer.
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13 2. Redistributions in binary form must reproduce the above copyright notice,
14  this list of conditions and the following disclaimer in the documentation
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21 THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
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30 OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
31 =========================================================================*/
32 
33 
34 #include "cxImageEnveloper.h"
35 #include "cxImage.h"
36 #include "cxVolumeHelpers.h"
37 #include "vtkImageData.h"
39 #include "cxTypeConversions.h"
40 #include "cxBoundingBox3D.h"
41 #include "cxImageTF3D.h"
42 
43 
44 namespace cx
45 {
47 {
48  return ImageEnveloperPtr(new ImageEnveloper());
49 }
50 
51 ImageEnveloper::ImageEnveloper() : mMaxEnvelopeVoxels(10*1000*1000)
52 {
53 
54 }
55 
57 {
58  mMaxEnvelopeVoxels = maxVoxels;
59 }
60 
61 void ImageEnveloper::setImages(std::vector<ImagePtr> images)
62 {
63  mImages = images;
64 }
65 
67 {
68  ImageParameters box = this->createEnvelopeParametersFromImage(mImages[0]);
69  for(unsigned i = 1; i < mImages.size(); ++i)
70  box = selectParametersWithSmallestExtent(box, this->createEnvelopeParametersFromImage(mImages[i]));
71 
72  box.limitVoxelsKeepBounds(mMaxEnvelopeVoxels);
73 
74  ImagePtr retval = this->createEnvelopeFromParameters(box);
75 
76  return retval;
77 }
78 
79 ImageParameters ImageEnveloper::createEnvelopeParametersFromImage(ImagePtr img)
80 {
81  ImageParameters retval;
82 
83  DoubleBoundingBox3D bb = findEnclosingBoundingBox(mImages, img->get_rMd().inverse());
84 
85  retval.setSpacingKeepDim(this->getMinimumSpacingFromAllImages(img->get_rMd().inverse()));
86  retval.setDimKeepBoundsAlignSpacing(bb.range().array());
87  retval.mParentVolume = img->getUid();
88 
89  Vector3D shift = bb.bottomLeft();
90 
91  retval.m_rMd = img->get_rMd() * createTransformTranslate(shift);
92 
93  return retval;
94 }
95 
96 ImageParameters ImageEnveloper::selectParametersWithSmallestExtent(ImageParameters a, ImageParameters b)
97 {
98  if (a.getVolume() <= b.getVolume())
99  return a;
100  else
101  return b;
102 }
103 
104 ImageParameters ImageEnveloper::selectParametersWithFewestVoxels(ImageParameters a, ImageParameters b)
105 {
106  if (a.getNumVoxels() <= b.getNumVoxels())
107  return a;
108  else
109  return b;
110 }
111 
112 Eigen::Array3d ImageEnveloper::getMinimumSpacingFromAllImages(Transform3D qMr)
113 {
114  Eigen::Array3d retval;
115  retval = this->getTransformedSpacing(mImages[0]->getSpacing(), qMr * mImages[0]->get_rMd());
116  for (unsigned i = 1; i < mImages.size(); ++i)
117  {
118  Eigen::Array3d current = this->getTransformedSpacing(mImages[i]->getSpacing(), qMr * mImages[i]->get_rMd());
119  retval = retval.min(current);
120  }
121  return retval;
122 }
123 
124 Eigen::Array3d ImageEnveloper::getTransformedSpacing(Eigen::Array3d spacing, Transform3D qMd)
125 {
126  Eigen::Array3d retval;
127 
128  //Create spacing vectors in img coord syst (d)
129  Vector3D sx = Vector3D(spacing[0], 0, 0);
130  Vector3D sy = Vector3D(0, spacing[1], 0);
131  Vector3D sz = Vector3D(0, 0, spacing[2]);
132 
133  //Transform to q coord syst
134  sx = qMd.vector(sx);
135  sy = qMd.vector(sy);
136  sz = qMd.vector(sz);
137 
138  //Find spacing for each axis
139  for (unsigned i = 0; i < 3; ++i)
140  {
141  retval[i] = std::max(fabs(sx[i]), fabs(sy[i]));
142  retval[i] = std::max(retval[i], fabs(sz[i]));
143  }
144 
145  return retval;
146 }
147 
148 ImagePtr ImageEnveloper::createEnvelopeFromParameters(ImageParameters box)
149 {
150  int maxRange = this->getMaxScalarRange();
151 
152  vtkImageDataPtr imageData = generateVtkImageDataUnsignedShort(box.getDim(), box.getSpacing(), maxRange, 1);
153 
154  QString uid = QString("envelope_image_%1").arg(box.mParentVolume);
155  ImagePtr retval(new Image(uid, imageData));
156  retval->get_rMd_History()->setRegistration(box.m_rMd);
157  retval->get_rMd_History()->setParentSpace(box.mParentVolume);
158  retval->setAcquisitionTime(QDateTime::currentDateTime());
159  retval->setModality("SC");
160 
161  return retval;
162 }
163 
164 int ImageEnveloper::getMaxScalarRange()
165 {
166  int maxRange = 0;
167  for (unsigned i=0; i<mImages.size(); ++i)
168  maxRange = std::max<int>(maxRange, mImages[i]->getBaseVtkImageData()->GetScalarRange()[1]);
169  return maxRange;
170 }
171 
172 } // namespace cx
vtkImageDataPtr generateVtkImageDataUnsignedShort(Eigen::Array3i dim, Vector3D spacing, const unsigned short initValue, int components)
Transform3D Transform3D
Transform3D is a representation of an affine 3D transform.
boost::shared_ptr< class Image > ImagePtr
Definition: cxDicomWidget.h:48
Vector3D bottomLeft() const
static ImageEnveloperPtr create()
void limitVoxelsKeepBounds(unsigned long maxVolumeSize)
DoubleBoundingBox3D findEnclosingBoundingBox(std::vector< DataPtr > data, Transform3D qMr)
void setDimKeepBoundsAlignSpacing(Eigen::Array3d bounds)
Transform3D createTransformTranslate(const Vector3D &translation)
Representation of a floating-point bounding box in 3D. The data are stored as {xmin,xmax,ymin,ymax,zmin,zmax}, in order to simplify communication with vtk.
virtual void setImages(std::vector< ImagePtr > images)
Eigen::Vector3d Vector3D
Vector3D is a representation of a point or vector in 3D.
Definition: cxVector3D.h:63
virtual ImagePtr getEnvelopingImage()
vtkSmartPointer< class vtkImageData > vtkImageDataPtr
void setMaxEnvelopeVoxels(long maxVoxels)
boost::shared_ptr< class ImageEnveloper > ImageEnveloperPtr
void setSpacingKeepDim(Eigen::Array3d spacing)