def render_movie(subject_fname):
args = read_args(su.get_python_argv())
if args.debug:
su.debug()
if args.rel_output_path:
mmvt_dir = op.join(su.get_links_dir(), 'mmvt')
if args.output_path == '':
args.output_path = args.play_type
args.output_path = op.join(mmvt_dir, args.subject, 'movies',
args.output_path)
su.make_dir(args.output_path)
mmvt = su.init_mmvt_addon()
mmvt.show_hide_hemi(args.hide_lh, 'lh')
mmvt.show_hide_hemi(args.hide_rh, 'rh')
mmvt.show_hide_sub_corticals(args.hide_subs)
mmvt.set_render_quality(args.quality)
mmvt.set_render_output_path(args.output_path)
mmvt.set_render_smooth_figure(args.smooth_figure)
mmvt.set_light_layers_depth(args.light_layers)
mmvt.set_brain_transparency(args.brain_trans)
mmvt.filter_nodes(args.filter_nodes)
mark_electrodes(mmvt, args)
camera_fname = su.load_camera(mmvt, mmvt_dir, args)
if not op.isfile(op.join(args.output_path, 'data.pkl')):
try:
mmvt.capture_graph(args.play_type, args.output_path,
args.selection_type)
except:
print("Graph couldn't be captured!")
su.save_blend_file(subject_fname)
mmvt.render_movie(args.play_type, args.play_from, args.play_to,
camera_fname, args.play_dt, args.set_to_camera_mode)
su.exit_blender()
def render_image(subject_fname):
args = read_args(su.get_python_argv())
if args.output_path == '':
mmvt_dir = op.join(su.get_links_dir(), 'mmvt')
args.output_path = op.join(mmvt_dir, args.subject, 'figures')
su.make_dir(args.output_path)
mmvt = su.init_mmvt_addon()
mmvt.set_render_quality(args.quality)
mmvt.set_render_output_path(args.output_path)
mmvt.set_render_smooth_figure(args.smooth_figure)
if not args.hide_lh is None:
mmvt.show_hide_hemi(args.hide_lh, 'lh')
if not args.hide_rh is None:
mmvt.show_hide_hemi(args.hide_rh, 'rh')
if not args.hide_subs is None:
mmvt.show_hide_sub_corticals(args.hide_subs)
if not args.show_elecs is None:
mmvt.show_electrodes(args.show_elecs)
if not args.show_only_lead is None:
print('Showing only the current lead: {}'.format(args.show_only_lead))
mmvt.set_show_only_lead(args.show_only_lead)
if args.curr_elec not in ['', 'None']:
print('Setting current electrode to {}'.format(args.curr_elec))
mmvt.set_current_electrode(args.curr_elec)
if op.isfile(op.join(args.output_path, 'camera.pkl')):
mmvt.load_camera()
else:
cont = input('No camera file was detected in the output folder, continue?')
if not su.is_true(cont):
return
# su.save_blend_file(subject_fname)
mmvt.render_image(args.image_name, args.output_path, args.quality, args.smooth_figure, render_background=False)
su.exit_blender()
def render_electrodes_probs(subject_fname):
args = read_args(su.get_python_argv())
figures_dir = su.get_figures_dir(args)
if args.rel_output_path:
args.output_path = op.join(figures_dir, args.output_path)
su.make_dir(args.output_path)
# Set the labeling file
labeling_fname = '{}_{}_electrodes_cigar_r_*_l_*{}*.pkl'.format(
args.subject, args.real_atlas, '_bipolar' if args.bipolar else '')
labels_fol = op.join(su.get_mmvt_dir(), args.subject, 'electrodes')
labeling_files = glob.glob(op.join(labels_fol, labeling_fname))
if len(labeling_files) == 0:
print('No labeling files in {}!'.format(labels_fol))
return
if len(labeling_files) > 1:
print(
'More than one labeling files in {}, please choose one using the --labeling flag'
.format(labels_fol))
return
else:
labeling_file = labeling_files[0]
mmvt = su.init_mmvt_addon()
mmvt.show_hide_hemi(args.hide_lh, 'lh')
mmvt.show_hide_hemi(args.hide_rh, 'rh')
mmvt.show_hide_sub_corticals(args.hide_subs)
mmvt.set_render_quality(args.quality)
mmvt.set_render_output_path(args.output_path)
mmvt.set_render_smooth_figure(args.smooth_figure)
if op.isfile(op.join(args.output_path, 'camera.pkl')):
mmvt.load_camera()
else:
# Try to find the camera in the figures folder
if op.isfile(op.join(figures_dir, 'camera.pkl')):
mmvt.set_render_output_path(figures_dir)
mmvt.load_camera()
mmvt.set_render_output_path(args.output_path)
else:
cont = input(
'No camera file was detected in the output folder, continue?')
if not su.is_true(cont):
return
mmvt.set_electrodes_labeling_file(labeling_file)
mmvt.show_electrodes()
mmvt.color_the_relevant_lables(True)
leads = mmvt.get_leads()
for lead in leads:
electrodes = mmvt.get_lead_electrodes(lead)
for electrode in electrodes:
print(electrode)
mmvt.clear_cortex()
mmvt.set_current_electrode(electrode, lead)
mmvt.render_image(electrode)
su.save_blend_file(subject_fname)
su.exit_blender()
def pre_blender_call(args):
if args.output_path == '':
mmvt_dir = su.get_link_dir(su.get_links_dir(), 'mmvt')
args.output_path = op.join(mmvt_dir, args.subject, 'figures')
su.make_dir(args.output_path)
args.log_fname = op.join(args.output_path, 'mmvt_calls.log')
args.images_log_fname = op.join(args.output_path, 'images_names.txt')
if op.isfile(args.log_fname):
os.remove(args.log_fname)
return args
def render_electrodes_probs(subject_fname):
args = read_args(su.get_python_argv())
figures_dir = su.get_figures_dir(args)
if args.rel_output_path:
args.output_path = op.join(figures_dir, args.output_path)
su.make_dir(args.output_path)
# Set the labeling file
labeling_fname = '{}_{}_electrodes_cigar_r_*_l_*{}*.pkl'.format(args.subject, args.real_atlas,
'_bipolar' if args.bipolar else '')
labels_fol = op.join(su.get_mmvt_dir(), args.subject, 'electrodes')
labeling_files = glob.glob(op.join(labels_fol, labeling_fname))
if len(labeling_files) == 0:
print('No labeling files in {}!'.format(labels_fol))
return
if len(labeling_files) > 1:
print('More than one labeling files in {}, please choose one using the --labeling flag'.format(labels_fol))
return
else:
labeling_file = labeling_files[0]
mmvt = su.init_mmvt_addon()
mmvt.show_hide_hemi(args.hide_lh, 'lh')
mmvt.show_hide_hemi(args.hide_rh, 'rh')
mmvt.show_hide_sub_corticals(args.hide_subs)
mmvt.set_render_quality(args.quality)
mmvt.set_render_output_path(args.output_path)
mmvt.set_render_smooth_figure(args.smooth_figure)
if op.isfile(op.join(args.output_path, 'camera.pkl')):
mmvt.load_camera()
else:
# Try to find the camera in the figures folder
if op.isfile(op.join(figures_dir, 'camera.pkl')):
mmvt.set_render_output_path(figures_dir)
mmvt.load_camera()
mmvt.set_render_output_path(args.output_path)
else:
cont = input('No camera file was detected in the output folder, continue?')
if not su.is_true(cont):
return
mmvt.set_electrodes_labeling_file(labeling_file)
mmvt.show_electrodes()
mmvt.color_the_relevant_lables(True)
leads = mmvt.get_leads()
for lead in leads:
electrodes = mmvt.get_lead_electrodes(lead)
for electrode in electrodes:
print(electrode)
mmvt.clear_cortex()
mmvt.set_current_electrode(electrode, lead)
mmvt.render_image(electrode)
su.save_blend_file(subject_fname)
su.exit_blender()
def render_image(subject_fname):
args = read_args(su.get_python_argv())
if args.output_path == '':
mmvt_dir = op.join(su.get_links_dir(), 'mmvt')
args.output_path = op.join(mmvt_dir, args.subject, 'figures')
su.make_dir(args.output_path)
mmvt = su.init_mmvt_addon()
mmvt.set_render_quality(args.quality)
mmvt.set_render_output_path(args.output_path)
mmvt.set_render_smooth_figure(args.smooth_figure)
if not args.hide_lh is None:
mmvt.show_hide_hemi(args.hide_lh, 'lh')
if not args.hide_rh is None:
mmvt.show_hide_hemi(args.hide_rh, 'rh')
if not args.hide_subs is None:
mmvt.show_hide_sub_corticals(args.hide_subs)
if not args.show_elecs is None:
mmvt.show_electrodes(args.show_elecs)
if not args.show_only_lead is None:
print('Showing only the current lead: {}'.format(args.show_only_lead))
mmvt.set_show_only_lead(args.show_only_lead)
if args.curr_elec not in ['', 'None']:
print('Setting current electrode to {}'.format(args.curr_elec))
mmvt.set_current_electrode(args.curr_elec)
if not args.show_connections is None:
mmvt.show_hide_connections(args.show_connections)
if op.isfile(op.join(args.output_path, 'camera.pkl')):
mmvt.load_camera()
else:
cont = input(
'No camera file was detected in the output folder, continue?')
if not su.is_true(cont):
return
# su.save_blend_file(subject_fname)
mmvt.render_image(args.image_name,
args.output_path,
args.quality,
args.smooth_figure,
render_background=False)
su.exit_blender()
def render_movie(subject_fname):
args = read_args(su.get_python_argv())
if args.rel_output_path:
mmvt_dir = op.join(su.get_links_dir(), 'mmvt')
args.output_path = op.join(mmvt_dir, args.subject, 'movies', args.output_path)
su.make_dir(args.output_path)
mmvt = su.init_mmvt_addon()
mmvt.show_hide_hemi(args.hide_lh, 'lh')
mmvt.show_hide_hemi(args.hide_rh, 'rh')
mmvt.show_hide_sub_corticals(args.hide_subs)
mmvt.set_render_quality(args.quality)
mmvt.set_render_output_path(args.output_path)
mmvt.set_render_smooth_figure(args.smooth_figure)
if op.isfile(op.join(args.output_path, 'camera.pkl')):
mmvt.load_camera()
else:
cont = input('No camera file was detected in the output folder, continue?')
if not su.is_true(cont):
return
if not op.isfile(op.join(args.output_path, 'data.pkl')):
mmvt.capture_graph(args.play_type, args.output_path, args.selection_type)
su.save_blend_file(subject_fname)
mmvt.render_movie(args.play_type, args.play_from, args.play_to, args.play_dt)
su.exit_blender()
def render_image_blender(subject_fname):
args = read_args(su.get_python_argv())
if args.debug:
su.debug()
mmvt_dir = su.get_link_dir(su.get_links_dir(), 'mmvt')
subject = su.get_subject_name(subject_fname)
if args.output_path == '':
args.output_path = op.join(mmvt_dir, args.subject, 'figures')
su.make_dir(args.output_path)
mmvt = su.init_mmvt_addon()
mmvt.set_render_quality(args.quality)
mmvt.set_render_output_path(args.output_path)
mmvt.set_render_smooth_figure(args.smooth_figure)
if not args.hide_lh is None:
mmvt.show_hide_hemi(args.hide_lh, 'lh')
if not args.hide_rh is None:
mmvt.show_hide_hemi(args.hide_rh, 'rh')
if not args.hide_subs is None:
mmvt.show_hide_sub_corticals(args.hide_subs)
if not args.show_elecs is None:
mmvt.show_electrodes(args.show_elecs)
if not args.show_only_lead is None:
print('Showing only the current lead: {}'.format(args.show_only_lead))
mmvt.set_show_only_lead(args.show_only_lead)
if args.curr_elec not in ['', 'None']:
print('Setting current electrode to {}'.format(args.curr_elec))
mmvt.set_current_electrode(args.curr_elec)
if not args.show_connections is None:
mmvt.show_hide_connections(args.show_connections)
mmvt.filter_nodes(args.filter_nodes)
if args.inflated:
mmvt.show_inflated()
mmvt.set_inflated_ratio = args.inflated_ratio
mmvt.set_background_color(args.background_color)
mmvt.set_lighting(args.lighting)
for image_name, camera in zip(args.image_name, args.camera):
if camera == '':
camera = op.join(mmvt_dir, subject, 'camera', 'camera.pkl')
print('Camera fname: {}'.format(camera))
if op.isfile(camera):
mmvt.load_camera(camera)
else:
camera = op.join(mmvt_dir, subject, 'camera', 'camera.pkl')
print('Camera was not found, loading default camera')
mmvt.load_camera(camera)
# if args.interactive:
# cont = input('No camera file was detected in the output folder, continue?')
# if not su.is_true(cont):
# continue
# else:
# su.stdout_print('No camera file was detected in the output folder!!!')
# continue
# su.save_blend_file(subject_fname)
print('Rendering {}->{}'.format(image_name, args.output_path))
mmvt.render_image(image_name,
args.output_path,
args.quality,
args.smooth_figure,
render_background=False,
overwrite=args.overwrite)
su.stdout_print('*** finish rendering! ***')
su.exit_blender()