This file is indexed.

/usr/lib/python2.7/dist-packages/air_modes/Quaternion.py is in gr-air-modes 0.0.0.e47992d-5.

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
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
415
416
417
418
419
420
421
422
423
424
425
426
427
428
429
430
431
432
433
434
435
436
437
438
439
440
"""
Quaternion provides a class for manipulating quaternion objects.  This class provides:

   - a convenient constructor to convert to/from Euler Angles (RA,Dec,Roll) 
       to/from quaternions
   - class methods to multiply and divide quaternions 
"""

"""Copyright 2009 Smithsonian Astrophysical Observatory
   Released under New BSD / 3-Clause BSD License
   All rights reserved
"""
"""
   Modified 2012 by Nick Foster
   Modified from version 0.3.1
   http://pypi.python.org/pypi/Quaternion/0.03
   Added _get_angle_axis to get the angle-axis representation
   Added _latlontoquat to get a rotation quat to ECEF from lat/lon
"""


      
import numpy as np
from math import cos, sin, radians, degrees, atan2, sqrt, acos, pi

class Quat(object):
   """
   Quaternion class
   
   Example usage::

    >>> from Quaternion import Quat
    >>> quat = Quat((12,45,45))
    >>> quat.ra, quat.dec, quat.roll
    (12, 45, 45)
    >>> quat.q
    array([ 0.38857298, -0.3146602 ,  0.23486498,  0.8335697 ])
    >>> q2 = Quat([ 0.38857298, -0.3146602 ,  0.23486498,  0.8335697])
    >>> q2.ra
    11.999999315925008


   Multiplication and division operators are overloaded for the class to 
   perform appropriate quaternion multiplication and division.

   Example usage::
   
    >>> q1 = Quat((20,30,40))
    >>> q2 = Quat((30,40,50))
    >>> q = q1 / q2

   Performs the operation as q1 * inverse q2

   Example usage::

    >>> q1 = Quat((20,30,40))
    >>> q2 = Quat((30,40,50))
    >>> q = q1 * q2


   :param attitude: initialization attitude for quat

   ``attitude`` may be:
     * another Quat
     * a 4 element array (expects x,y,z,w quat form)
     * a 3 element array (expects ra,dec,roll in degrees)
     * a 3x3 transform/rotation matrix

   """
   def __init__(self, attitude):
      self._q = None
      self._equatorial = None
      self._T = None
      # checks to see if we've been passed a Quat 
      if isinstance(attitude, Quat):
         self._set_q(attitude.q)
      else:
         # make it an array and check to see if it is a supported shape
         attitude = np.array(attitude)
         if len(attitude) == 4:
            self._set_q(attitude)
         elif attitude.shape == (3,3):
            self._set_transform(attitude)
         elif attitude.shape == (3,):
            self._set_equatorial(attitude)
         elif attitude.shape == (2,):
            self._set_latlon(attitude)
         else:
            raise TypeError("attitude is not one of possible types (2, 3 or 4 elements, Quat, or 3x3 matrix)")
         

   def _set_q(self, q):
      """
      Set the value of the 4 element quaternion vector 

      :param q: list or array of normalized quaternion elements
      """
      q = np.array(q)
      if abs(np.sum(q**2) - 1.0) > 1e-6:
         raise ValueError('Quaternion must be normalized so sum(q**2) == 1; use Quaternion.normalize')
      self._q = (q if q[3] > 0 else -q)
      # Erase internal values of other representations
      self._equatorial = None
      self._T = None

   def _get_q(self):
      """
      Retrieve 4-vector of quaternion elements in [x, y, z, w] form
      
      :rtype: numpy array

      """
      if self._q is None:
         # Figure out q from available values, doing nothing others are not defined
         if self._equatorial is not None:
            self._q = self._equatorial2quat()
         elif self._T is not None:
            self._q = self._transform2quat()
      return self._q

   # use property to make this get/set automatic
   q = property(_get_q, _set_q)

   def _set_equatorial(self, equatorial):
      """Set the value of the 3 element equatorial coordinate list [RA,Dec,Roll]
         expects values in degrees
         bounds are not checked
      
         :param equatorial: list or array [ RA, Dec, Roll] in degrees
         
      """
      att = np.array(equatorial)
      ra, dec, roll = att
      self._ra0 = ra
      if ( ra > 180 ):
         self._ra0 = ra - 360
         self._roll0 = roll
      if ( roll > 180):
         self._roll0 = roll - 360
      self._equatorial = att

   def _set_latlon(self, latlon):
      self._q = self._latlontoquat(latlon)
    
   def _get_equatorial(self):
      """Retrieve [RA, Dec, Roll]

      :rtype: numpy array
      """
      if self._equatorial is None:
         if self._q is not None:
            self._equatorial = self._quat2equatorial()
         elif self._T is not None:
            self._q = self._transform2quat()
            self._equatorial = self._quat2equatorial()
      return self._equatorial

   equatorial = property(_get_equatorial,_set_equatorial)

   def _get_ra(self):
      """Retrieve RA term from equatorial system in degrees"""
      return self.equatorial[0]
        
   def _get_dec(self):
      """Retrieve Dec term from equatorial system in degrees"""
      return self.equatorial[1]
        
   def _get_roll(self):
      """Retrieve Roll term from equatorial system in degrees"""
      return self.equatorial[2]

   ra = property(_get_ra)
   dec = property(_get_dec)
   roll = property(_get_roll)

   def _set_transform(self, T):
      """
      Set the value of the 3x3 rotation/transform matrix
      
      :param T: 3x3 array/numpy array
      """
      transform = np.array(T)
      self._T = transform

   def _get_transform(self):
      """
      Retrieve the value of the 3x3 rotation/transform matrix

      :returns: 3x3 rotation/transform matrix
      :rtype: numpy array
      
      """
      if self._T is None:
         if self._q is not None:
            self._T = self._quat2transform()
         elif self._equatorial is not None:
            self._T = self._equatorial2transform()
      return self._T

   transform = property(_get_transform, _set_transform)

   def _quat2equatorial(self):
      """
      Determine Right Ascension, Declination, and Roll for the object quaternion
      
      :returns: RA, Dec, Roll
      :rtype: numpy array [ra,dec,roll]
      """
      
      q = self.q
      q2 = self.q**2

      ## calculate direction cosine matrix elements from $quaternions
      xa = q2[0] - q2[1] - q2[2] + q2[3] 
      xb = 2 * (q[0] * q[1] + q[2] * q[3]) 
      xn = 2 * (q[0] * q[2] - q[1] * q[3]) 
      yn = 2 * (q[1] * q[2] + q[0] * q[3]) 
      zn = q2[3] + q2[2] - q2[0] - q2[1] 

      ##; calculate RA, Dec, Roll from cosine matrix elements
      ra   = degrees(atan2(xb , xa)) ;
      dec  = degrees(atan2(xn , sqrt(1 - xn**2)));
      roll = degrees(atan2(yn , zn)) ;
      if ( ra < 0 ):
         ra += 360
      if ( roll < 0 ):
         roll += 360

      return np.array([ra, dec, roll])


   def _quat2transform(self):
      """
      Transform a unit quaternion into its corresponding rotation matrix (to
      be applied on the right side).
      
      :returns: transform matrix
      :rtype: numpy array
      
      """
      x, y, z, w = self.q
      xx2 = 2 * x * x
      yy2 = 2 * y * y
      zz2 = 2 * z * z
      xy2 = 2 * x * y
      wz2 = 2 * w * z
      zx2 = 2 * z * x
      wy2 = 2 * w * y
      yz2 = 2 * y * z
      wx2 = 2 * w * x
      
      rmat = np.empty((3, 3), float)
      rmat[0,0] = 1. - yy2 - zz2
      rmat[0,1] = xy2 - wz2
      rmat[0,2] = zx2 + wy2
      rmat[1,0] = xy2 + wz2
      rmat[1,1] = 1. - xx2 - zz2
      rmat[1,2] = yz2 - wx2
      rmat[2,0] = zx2 - wy2
      rmat[2,1] = yz2 + wx2
      rmat[2,2] = 1. - xx2 - yy2
      
      return rmat

   def _equatorial2quat( self ):
      """Dummy method to return return quat. 

      :returns: quaternion
      :rtype: Quat
      
      """
      return self._transform2quat()
   
   def _equatorial2transform( self ):
      """Construct the transform/rotation matrix from RA,Dec,Roll

      :returns: transform matrix
      :rtype: 3x3 numpy array

      """
      ra = radians(self._get_ra())
      dec = radians(self._get_dec())
      roll = radians(self._get_roll())
      ca = cos(ra)
      sa = sin(ra)
      cd = cos(dec)
      sd = sin(dec)
      cr = cos(roll)
      sr = sin(roll)
      
      # This is the transpose of the transformation matrix (related to translation
      # of original perl code
      rmat = np.array([[ca * cd,                    sa * cd,                  sd     ],
                       [-ca * sd * sr - sa * cr,   -sa * sd * sr + ca * cr,   cd * sr],
                       [-ca * sd * cr + sa * sr,   -sa * sd * cr - ca * sr,   cd * cr]])

      return rmat.transpose()

   def _transform2quat( self ):
      """Construct quaternion from the transform/rotation matrix 

      :returns: quaternion formed from transform matrix
      :rtype: numpy array
      """

      # Code was copied from perl PDL code that uses backwards index ordering
      T = self.transform.transpose()  
      den = np.array([ 1.0 + T[0,0] - T[1,1] - T[2,2],
                       1.0 - T[0,0] + T[1,1] - T[2,2],
                       1.0 - T[0,0] - T[1,1] + T[2,2],
                       1.0 + T[0,0] + T[1,1] + T[2,2]])
      
      max_idx = np.flatnonzero(den == max(den))[0]

      q = np.zeros(4)
      q[max_idx] = 0.5 * sqrt(max(den))
      denom = 4.0 * q[max_idx]
      if (max_idx == 0):
         q[1] =  (T[1,0] + T[0,1]) / denom 
         q[2] =  (T[2,0] + T[0,2]) / denom 
         q[3] = -(T[2,1] - T[1,2]) / denom 
      if (max_idx == 1):
         q[0] =  (T[1,0] + T[0,1]) / denom 
         q[2] =  (T[2,1] + T[1,2]) / denom 
         q[3] = -(T[0,2] - T[2,0]) / denom 
      if (max_idx == 2):
         q[0] =  (T[2,0] + T[0,2]) / denom 
         q[1] =  (T[2,1] + T[1,2]) / denom 
         q[3] = -(T[1,0] - T[0,1]) / denom 
      if (max_idx == 3):
         q[0] = -(T[2,1] - T[1,2]) / denom 
         q[1] = -(T[0,2] - T[2,0]) / denom 
         q[2] = -(T[1,0] - T[0,1]) / denom 

      return q
      
   def _get_angle_axis(self):
      lim = 1e-12
      norm = np.linalg.norm(self.q)
      if norm < lim:
         angle = 0
         axis = [0,0,0]
      else:
         rnorm = 1.0 / norm
         angle = acos(max(-1, min(1, rnorm*self.q[3])));
         sangle = sin(angle)
         if sangle < lim:
            axis = [0,0,0]
         else:
            axis = (rnorm / sangle) * np.array(self.q[0:3])

         angle *= 2

      return (angle, axis)

   def _latlontoquat ( self, latlon ):
      q = np.zeros(4)
      
      lon = latlon[1]*(pi/180.)
      lat = latlon[0]*(pi/180.)
      zd2 = 0.5*lon
      yd2 = -0.25*pi - 0.5*lat
      Szd2 = sin(zd2)
      Syd2 = sin(yd2)
      Czd2 = cos(zd2)
      Cyd2 = cos(yd2)
      q[0] = -Szd2*Syd2
      q[1] = Czd2*Syd2
      q[2] = Szd2*Cyd2
      q[3] = Czd2*Cyd2

      return q

   def __div__(self, quat2):
      """
      Divide one quaternion by another.
      
      Example usage::

       >>> q1 = Quat((20,30,40))
       >>> q2 = Quat((30,40,50))
       >>> q = q1 / q2

      Performs the operation as q1 * inverse q2

      :returns: product q1 * inverse q2
      :rtype: Quat

      """
      return self * quat2.inv()


   def __mul__(self, quat2):
      """
      Multiply quaternion by another.

      Example usage::

        >>> q1 = Quat((20,30,40))
        >>> q2 = Quat((30,40,50))
        >>> (q1 * q2).equatorial
        array([ 349.73395729,   76.25393056,  127.61636727])

      :returns: product q1 * q2
      :rtype: Quat

      """
      q1 = self.q
      q2 = quat2.q
      mult = np.zeros(4)
      mult[0] = q1[3]*q2[0] - q1[2]*q2[1] + q1[1]*q2[2] + q1[0]*q2[3]
      mult[1] = q1[2]*q2[0] + q1[3]*q2[1] - q1[0]*q2[2] + q1[1]*q2[3]
      mult[2] = -q1[1]*q2[0] + q1[0]*q2[1] + q1[3]*q2[2] + q1[2]*q2[3]
      mult[3] = -q1[0]*q2[0] - q1[1]*q2[1] - q1[2]*q2[2] + q1[3]*q2[3]
      return Quat(mult)

   def inv(self):
      """
      Invert the quaternion 

      :returns: inverted quaternion
      :rtype: Quat
      """
      return Quat([self.q[0], self.q[1], self.q[2], -self.q[3]])

        
        


def normalize(array):
   """ 
   Normalize a 4 element array/list/numpy.array for use as a quaternion
   
   :param quat_array: 4 element list/array
   :returns: normalized array
   :rtype: numpy array

   """
   quat = np.array(array)
   return quat / np.sqrt(np.dot(quat, quat))