def write_to_fsee_old(npmovie, name='fsee_data'):
def rotz(theta):
''' Returns a 3x3 rotation matrix corresponding to rotation around the *z* axis. '''
return np.array([
[ np.cos(theta), -np.sin(theta), 0],
[ np.sin(theta), np.cos(theta), 0],
[0, 0, 1]])
frames = smp.get_active_frames(npmovie)
positions = []
attitudes = []
states = {}
flydra_coordinates_longaxis = smp.sa1_to_flydra_img_transform(npmovie.kalmanobj.long_axis[frames], fix_sign=False)*-1
sa1_theta = np.arctan2(flydra_coordinates_longaxis[:,1], flydra_coordinates_longaxis[:,0])
#sa1_theta = np.arctan2(npmovie.kalmanobj.long_axis[:,0], npmovie.kalmanobj.long_axis[:,1])[frames]
sa1_time = npmovie.timestamps[frames]
flydra_theta, flydra_time = smp.interp_sa1_data_to_flydra(npmovie, sa1_theta, sa1_time, return_time=True)
for i in range(len(flydra_theta)):
flydra_frame = i + npmovie.sa1_start_index
positions.append( npmovie.trajec.positions[flydra_frame,:] )
print i, flydra_frame, npmovie.trajec.positions[flydra_frame,:]
theta = flydra_theta[i]
attitudes.append( rotz(theta) )
states.setdefault('positions', positions)
states.setdefault('attitudes', attitudes)
save(states, name)
return 1
def write_to_fsee(npmovie, name='fsee_data'):
def rotz(theta):
''' Returns a 3x3 rotation matrix corresponding to rotation around the *z* axis. '''
return np.array([ [ np.cos(theta), -np.sin(theta), 0],
[ np.sin(theta), np.cos(theta), 0],
[0, 0, 1]])
frames = smp.get_active_frames(npmovie)
positions = []
attitudes = []
states = {}
for i in range(len(npmovie.sync2d3d.pos2d)):
positions.append( npmovie.sync2d3d.pos3d_est[i,:] )
print npmovie.sync2d3d.yaw[i]
attitudes.append( rotz(npmovie.sync2d3d.yaw[i]) )
states.setdefault('positions', positions)
states.setdefault('attitudes', attitudes)
save(states, name)
return 1
def process_movie(MOVIE_ID, movie_info=None, dataset=None):
if movie_info is None:
filename = '/home/floris/data/windtunnel/SA1/movie_info'
fname = (filename)
fd = open( fname, mode='r' )
movie_info = pickle.load(fd)
fd.close()
movie_filename = movie_info[MOVIE_ID]['Path'] + MOVIE_ID + '.avi'
print 'loading: ', movie_filename
movie = pm.Movie(movie_filename)
npmovie = pm.npMovie()
npmovie.objid = movie_info[MOVIE_ID]['Obj_ID']
npmovie.epochtime = movie_info[MOVIE_ID]['EpochTime']
npmovie.filename = MOVIE_ID
npmovie.id = MOVIE_ID
npmovie.behavior = movie_info[MOVIE_ID]['Behavior']
npmovie.path = movie_info[MOVIE_ID]['Path']
npmovie.posttype = movie_info[MOVIE_ID]['PostType']
npmovie.extras = movie_info[MOVIE_ID]['Extras']
npmovie.trigger_stamp = movie_info[MOVIE_ID]['Trigger Stamp']
npmovie.timestamps = movie_info[MOVIE_ID]['Timestamps']
# make a mask
mask = np.ones([movie.height, movie.width])
mask[0:movie.height-movie.width, :] = 0
movie.mask = mask
# make a tracking mask -- 0 where no tracking desired
tracking_mask = np.abs(nim.plot_circle(1024,1024,[512,512], 150)-1)
npmovie.tracking_mask = tracking_mask
npmovie.calc_background(movie)
npmovie.load_frames(movie, timerange=None)
npmovie.fps = 5000.
npmovie.obj = pm.Object(npmovie)
pm.auto_adjust_uimg(npmovie)
pm.segment_fly(npmovie)
frames = smp.get_active_frames(npmovie)
if len(frames) < 5:
del(movie)
return npmovie
pm.calc_obj_pos(npmovie)
pm.calc_obj_motion(npmovie)
pm.smooth_legs(npmovie)
pm.calc_polarpos(npmovie)
pm.smooth_axis_ratio(npmovie)
trajec, time_err = sa1a.get_flydra_trajectory(npmovie, dataset)
print 'trajectory in process_movie: ', trajec
npmovie.trajec = copy.copy(trajec)
clas.calc_fly_coordinates(npmovie)
smp.calc_frame_of_landing(npmovie)
if trajec is not None:
smp.sync_2d_3d_data(npmovie)
if len(npmovie.sync2d3d.frames3d) > 2:
smp.calc_body_orientations(npmovie)
smp.calc_smoothyaw(npmovie, plot=False)
else:
npmovie.sync2d3d = None
npmovie.cluster = None
#strobe_img = pm.strobe_image(movie)
#movie_info[MOVIE_ID].setdefault('StrobeImg', strobe_img)
#npmovie_filename = '/home/floris/data/windtunnel/SA1/sa1_npmovie_' + MOVIE_ID
#pm.save(npmovie, npmovie_filename)
del(movie)
return npmovie