def output_frames_fluori2d_sample():
# output fluorimetry 2D-image
lset = LatticeSettings()
lset.set_camera(zoom=1.0,
base_position=(-2.0, 0.4292, 0.4292),
focal_point=(0, 0.4292, 0.4292))
lset.set_particle(sphere_resolution=16)
lset.set_movie(frame_interval=0.033,
exposure_time=0.033,
frame_end_time=10.0)
lset.set_fluori2d(cutoff_depth=5.0e-8,
cutoff_psf=1.0e-7,
pixel_len=66.7e-9,
gauss_param=(1.0, 5.0e-8, 5.0e-8))
lvis = LatticeVisualizer(['./hdf5_lattice/test_model.h5'],
image_file_dir='my_image',
movie_filename='test_model.avi',
settings=lset)
# create data only(and show preview interactive mode)
# lvis.output_frames_fluori2d(output_image=False, \
# data_filename=FLUORI2D_DATA)
# create data and output fluori2d image
# lvis.output_frames_fluori2d(num_div=16)
# create data and output fluori2d movie
lvis.output_movie_fluori2d(num_div=16)
def output_movie_sample():
# output movie by constant interval frame data.
lset=LatticeSettings()
lset.set_image(height=640, width=860)
lset.set_camera(zoom=5.0,focal_point = (0.5, 0.1, 0.1),
base_position = (-2.0, 0.1, 0.1))
lset.set_particle(sphere_resolution=16)
lset.set_movie(frame_interval=0.1, exposure_time=0.3,
frame_end_time = 3.0)
lset.set_species_legend(width=0.2)
lset.set_time_legend(width=0.1)
lvis=LatticeVisualizer([DATA_FILE],
image_file_dir='my_image',
movie_filename='lattice.mp4',settings=lset)
# view mode: snapshot
lvis.output_movie(0)
def output_movie_sample():
# output movie by constant interval frame data.
lset = LatticeSettings()
lset.set_image(height=640, width=860)
lset.set_camera(zoom=5.0,
focal_point=(0.5, 0.1, 0.1),
base_position=(-2.0, 0.1, 0.1))
lset.set_particle(sphere_resolution=16)
lset.set_movie(frame_interval=0.1, exposure_time=0.3, frame_end_time=3.0)
lset.set_species_legend(width=0.2)
lset.set_time_legend(width=0.1)
lvis = LatticeVisualizer([DATA_FILE],
image_file_dir='my_image',
movie_filename='lattice.mp4',
settings=lset)
# view mode: snapshot
lvis.output_movie(0)
def output_frames_fluori2d_sample():
# output fluorimetry 2D-image
lset=LatticeSettings()
lset.set_camera(zoom=1.0,base_position=(-2.0, 0.4292, 0.4292), focal_point=(0, 0.4292, 0.4292))
lset.set_particle(sphere_resolution=16)
lset.set_movie(frame_interval=0.033, exposure_time=0.033, frame_end_time=10.0)
lset.set_fluori2d(cutoff_depth=5.0e-8, cutoff_psf=1.0e-7, pixel_len=66.7e-9, gauss_param=(1.0, 5.0e-8, 5.0e-8))
lvis=LatticeVisualizer(['./hdf5_lattice/test_model.h5'],
image_file_dir='my_image',
movie_filename='test_model.avi',
settings=lset)
# create data only(and show preview interactive mode)
# lvis.output_frames_fluori2d(output_image=False, \
# data_filename=FLUORI2D_DATA)
# create data and output fluori2d image
# lvis.output_frames_fluori2d(num_div=16)
# create data and output fluori2d movie
lvis.output_movie_fluori2d(num_div=16)