This file is indexed.

/usr/include/InsightToolkit/Common/itkEuler3DTransform.txx is in libinsighttoolkit3-dev 3.20.1-1.

This file is owned by root:root, with mode 0o644.

The actual contents of the file can be viewed below.

  1
  2
  3
  4
  5
  6
  7
  8
  9
 10
 11
 12
 13
 14
 15
 16
 17
 18
 19
 20
 21
 22
 23
 24
 25
 26
 27
 28
 29
 30
 31
 32
 33
 34
 35
 36
 37
 38
 39
 40
 41
 42
 43
 44
 45
 46
 47
 48
 49
 50
 51
 52
 53
 54
 55
 56
 57
 58
 59
 60
 61
 62
 63
 64
 65
 66
 67
 68
 69
 70
 71
 72
 73
 74
 75
 76
 77
 78
 79
 80
 81
 82
 83
 84
 85
 86
 87
 88
 89
 90
 91
 92
 93
 94
 95
 96
 97
 98
 99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
/*=========================================================================

  Program:   Insight Segmentation & Registration Toolkit
  Module:    itkEuler3DTransform.txx
  Language:  C++
  Date:      $Date$
  Version:   $Revision$

  Copyright (c) Insight Software Consortium. All rights reserved.
  See ITKCopyright.txt or http://www.itk.org/HTML/Copyright.htm for details.

     This software is distributed WITHOUT ANY WARRANTY; without even 
     the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
     PURPOSE.  See the above copyright notices for more information.

=========================================================================*/
#ifndef __itkEuler3DTransform_txx
#define __itkEuler3DTransform_txx

#include "itkEuler3DTransform.h"


namespace itk
{

// Constructor with default arguments
template <class TScalarType>
Euler3DTransform<TScalarType>
::Euler3DTransform():
  Superclass(SpaceDimension, ParametersDimension)
{
  m_ComputeZYX = false;
  m_AngleX = m_AngleY = m_AngleZ = NumericTraits<ScalarType>::Zero;
}

// Constructor with default arguments
template <class TScalarType>
Euler3DTransform<TScalarType>
::Euler3DTransform(const MatrixType & matrix,
                   const OutputPointType & offset) 
{
  m_ComputeZYX = false;
  this->SetMatrix(matrix);

  OffsetType off;
  off[0] = offset[0];
  off[1] = offset[1];
  off[2] = offset[2];
  this->SetOffset(off);
}


// Constructor with arguments
template <class TScalarType>
Euler3DTransform<TScalarType>
::Euler3DTransform(unsigned int spaceDimension,
                   unsigned int parametersDimension):
  Superclass(spaceDimension, parametersDimension)
{
  m_ComputeZYX = false;
  m_AngleX = m_AngleY = m_AngleZ = NumericTraits<ScalarType>::Zero;
}

// Set Angles
template <class TScalarType>
void
Euler3DTransform<TScalarType>
::SetVarRotation(ScalarType angleX, ScalarType angleY, ScalarType angleZ)
{
  this->m_AngleX = angleX;
  this->m_AngleY = angleY;
  this->m_AngleZ = angleZ;
}

// Set Parameters
template <class TScalarType>
void
Euler3DTransform<TScalarType>
::SetParameters( const ParametersType & parameters )
{
  itkDebugMacro( << "Setting parameters " << parameters );

  // Set angles with parameters
  m_AngleX = parameters[0];
  m_AngleY = parameters[1];
  m_AngleZ = parameters[2];
  this->ComputeMatrix();

  // Transfer the translation part
  OutputVectorType newTranslation;
  newTranslation[0] = parameters[3];
  newTranslation[1] = parameters[4];
  newTranslation[2] = parameters[5];
  this->SetVarTranslation(newTranslation);
  this->ComputeOffset();

  // Modified is always called since we just have a pointer to the
  // parameters and cannot know if the parameters have changed.
  this->Modified();

  itkDebugMacro(<<"After setting parameters ");
}


// Get Parameters
template <class TScalarType>
const typename Euler3DTransform<TScalarType>::ParametersType &
Euler3DTransform<TScalarType>
::GetParameters( void ) const
{
  this->m_Parameters[0] = m_AngleX;
  this->m_Parameters[1] = m_AngleY;
  this->m_Parameters[2] = m_AngleZ;
  this->m_Parameters[3] = this->GetTranslation()[0];
  this->m_Parameters[4] = this->GetTranslation()[1];
  this->m_Parameters[5] = this->GetTranslation()[2];

  return this->m_Parameters;
}

// Set Rotational Part
template <class TScalarType>
void
Euler3DTransform<TScalarType>
::SetRotation(ScalarType angleX,ScalarType angleY,ScalarType angleZ)
{
  m_AngleX = angleX;
  m_AngleY = angleY;
  m_AngleZ = angleZ;
  this->ComputeMatrix();
  this->ComputeOffset();
}

// Compose
template <class TScalarType>
void
Euler3DTransform<TScalarType>
::SetIdentity(void)
{
  Superclass::SetIdentity();
  m_AngleX = 0;
  m_AngleY = 0;
  m_AngleZ = 0;
}


// Compute angles from the rotation matrix
template <class TScalarType>
void
Euler3DTransform<TScalarType>
::ComputeMatrixParameters(void)
{
  if(m_ComputeZYX)
    {
    m_AngleY = -vcl_asin(this->GetMatrix()[2][0]);
    double C = vcl_cos(m_AngleY);
    if(vcl_fabs(C)>0.00005)
      {
      double x = this->GetMatrix()[2][2] / C;
      double y = this->GetMatrix()[2][1] / C;
      m_AngleX = vcl_atan2(y,x);
      x = this->GetMatrix()[0][0] / C;
      y = this->GetMatrix()[1][0] / C;
      m_AngleZ = vcl_atan2(y,x);
      }
    else
      {
      m_AngleX = NumericTraits< ScalarType >::Zero;
      double x = this->GetMatrix()[1][1];
      double y = -this->GetMatrix()[0][1];
      m_AngleZ = vcl_atan2(y,x);
      }
    }
  else
    {
    m_AngleX = vcl_asin(this->GetMatrix()[2][1]);
    double A = vcl_cos(m_AngleX);
    if(vcl_fabs(A)>0.00005)
      {
      double x = this->GetMatrix()[2][2] / A;
      double y = -this->GetMatrix()[2][0] / A;
      m_AngleY = vcl_atan2(y,x);

      x = this->GetMatrix()[1][1] / A;
      y = -this->GetMatrix()[0][1] / A;
      m_AngleZ = vcl_atan2(y,x);
      }
    else
      {
      m_AngleZ = NumericTraits< ScalarType >::Zero;
      double x = this->GetMatrix()[0][0];
      double y = this->GetMatrix()[1][0];
      m_AngleY = vcl_atan2(y,x);
      }
    }
  this->ComputeMatrix();
}


// Compute the matrix
template <class TScalarType>
void
Euler3DTransform<TScalarType>
::ComputeMatrix( void )
{
  // need to check if angles are in the right order
  const ScalarType cx = vcl_cos(m_AngleX);
  const ScalarType sx = vcl_sin(m_AngleX);
  const ScalarType cy = vcl_cos(m_AngleY);
  const ScalarType sy = vcl_sin(m_AngleY);
  const ScalarType cz = vcl_cos(m_AngleZ);
  const ScalarType sz = vcl_sin(m_AngleZ);
  const ScalarType one = NumericTraits< ScalarType >::One;
  const ScalarType zero = NumericTraits< ScalarType >::Zero;

  Matrix<TScalarType,3,3> RotationX;
  RotationX[0][0]=one;  RotationX[0][1]=zero; RotationX[0][2]=zero;
  RotationX[1][0]=zero; RotationX[1][1]=cx;   RotationX[1][2]=-sx;
  RotationX[2][0]=zero; RotationX[2][1]=sx;   RotationX[2][2]=cx;


  Matrix<TScalarType,3,3> RotationY;
  RotationY[0][0]=cy;   RotationY[0][1]=zero; RotationY[0][2]=sy;
  RotationY[1][0]=zero; RotationY[1][1]=one;  RotationY[1][2]=zero;
  RotationY[2][0]=-sy;  RotationY[2][1]=zero; RotationY[2][2]=cy;

  
  Matrix<TScalarType,3,3> RotationZ;
  RotationZ[0][0]=cz;   RotationZ[0][1]=-sz;  RotationZ[0][2]=zero;
  RotationZ[1][0]=sz;   RotationZ[1][1]=cz;   RotationZ[1][2]=zero;
  RotationZ[2][0]=zero; RotationZ[2][1]=zero; RotationZ[2][2]=one;

  /** Aply the rotation first around Y then X then Z */
  if(m_ComputeZYX)
    {
    this->SetVarMatrix(RotationZ*RotationY*RotationX);
    }
  else
    {
    // Like VTK transformation order
    this->SetVarMatrix(RotationZ*RotationX*RotationY);
    }
}


// Set parameters
template<class TScalarType>
const typename Euler3DTransform<TScalarType>::JacobianType &
Euler3DTransform<TScalarType>::
GetJacobian( const InputPointType & p ) const
{
  // need to check if angles are in the right order
  const double cx = vcl_cos(m_AngleX);
  const double sx = vcl_sin(m_AngleX);
  const double cy = vcl_cos(m_AngleY);
  const double sy = vcl_sin(m_AngleY); 
  const double cz = vcl_cos(m_AngleZ);
  const double sz = vcl_sin(m_AngleZ);

  this->m_Jacobian.Fill(0.0);

  const double px = p[0] - this->GetCenter()[0];
  const double py = p[1] - this->GetCenter()[1];
  const double pz = p[2] - this->GetCenter()[2];


  if ( m_ComputeZYX )
    {
    this->m_Jacobian[0][0] = (cz*sy*cx+sz*sx)*py+(-cz*sy*sx+sz*cx)*pz;
    this->m_Jacobian[1][0] = (sz*sy*cx-cz*sx)*py+(-sz*sy*sx-cz*cx)*pz;
    this->m_Jacobian[2][0] = (cy*cx)*py+(-cy*sx)*pz;  
    
    this->m_Jacobian[0][1] = (-cz*sy)*px+(cz*cy*sx)*py+(cz*cy*cx)*pz;
    this->m_Jacobian[1][1] = (-sz*sy)*px+(sz*cy*sx)*py+(sz*cy*cx)*pz;
    this->m_Jacobian[2][1] = (-cy)*px+(-sy*sx)*py+(-sy*cx)*pz;
    
    this->m_Jacobian[0][2] = (-sz*cy)*px+(-sz*sy*sx-cz*cx)*py
                                        +(-sz*sy*cx+cz*sx)*pz;
    this->m_Jacobian[1][2] = (cz*cy)*px+(cz*sy*sx-sz*cx)*py+(cz*sy*cx+sz*sx)*pz;  
    this->m_Jacobian[2][2] = 0;
    }
  else
    {
    this->m_Jacobian[0][0] = (-sz*cx*sy)*px + (sz*sx)*py + (sz*cx*cy)*pz;
    this->m_Jacobian[1][0] = (cz*cx*sy)*px + (-cz*sx)*py + (-cz*cx*cy)*pz;
    this->m_Jacobian[2][0] = (sx*sy)*px + (cx)*py + (-sx*cy)*pz;  
    
    this->m_Jacobian[0][1] = (-cz*sy-sz*sx*cy)*px + (cz*cy-sz*sx*sy)*pz;
    this->m_Jacobian[1][1] = (-sz*sy+cz*sx*cy)*px + (sz*cy+cz*sx*sy)*pz;
    this->m_Jacobian[2][1] = (-cx*cy)*px + (-cx*sy)*pz;
    
    this->m_Jacobian[0][2] = (-sz*cy-cz*sx*sy)*px + (-cz*cx)*py 
                                                  + (-sz*sy+cz*sx*cy)*pz;
    this->m_Jacobian[1][2] = (cz*cy-sz*sx*sy)*px + (-sz*cx)*py 
                                                 + (cz*sy+sz*sx*cy)*pz;
    this->m_Jacobian[2][2] = 0;
    }
 
  // compute derivatives for the translation part
  unsigned int blockOffset = 3;  
  for(unsigned int dim=0; dim < SpaceDimension; dim++ ) 
    {
    this->m_Jacobian[ dim ][ blockOffset + dim ] = 1.0;
    }

  return this->m_Jacobian;

}
  
// Print self
template<class TScalarType>
void
Euler3DTransform<TScalarType>::
PrintSelf(std::ostream &os, Indent indent) const
{
  Superclass::PrintSelf(os,indent);

  os << indent << "Euler's angles: AngleX=" << m_AngleX  
     << " AngleY=" << m_AngleY  
     << " AngleZ=" << m_AngleZ  
     << std::endl;
  os << indent << "m_ComputeZYX = " << m_ComputeZYX << std::endl;
}

} // namespace

#endif