with open(fp) as f:
temp = json.load(f)
print(len(temp['neurons']))
x = temp['neurons'][0]['soma']['x']
y = temp['neurons'][0]['soma']['y']
z = temp['neurons'][0]['soma']['z']
return (x,y,z)
for k,vlist in groups.items():
if k not in [1,3,2,12]:
screenshot_params = dict(
folder = './screenshots/single_cell_views',
name='top_cluster_{0}'.format(k),
)
scene = Scene(display_inset=False, screenshot_kwargs=screenshot_params)
for i,neuron in enumerate(vlist):
if neuron not in left_neurons:
fp = cell_filepaths[neuron]
else:
fp = cell_filepaths[neuron].split('.json')[0] + '_reversed.json'
scene.add_neurons(fp, soma_color=cmap[i], render_axons=True, render_dendrites=True, dendrites_color=cmap[i],
axon_color=cmap[i], neurite_radius=18)
# pos = get_point(fp)
# print(pos)
# scene.add_sphere_at_point(pos=pos, radius= 75, color=cmap[i])
scene.render(interactive=False,camera='top', zoom=1)
scene.take_screenshot()
brainrender.SHADER_STYLE = "cartoon"
from brainrender.scene import Scene
screenshot_params = dict(
folder="./screenshots",
name="tutorial",
)
# Create a scene
scene = Scene(
screenshot_kwargs=screenshot_params
) # use screenshot_params to specify where the screenshots will be saved
scene.add_brain_regions(["TH"])
# render
scene.render(
camera="top", interactive=False
) # if interactive is false the program won't stop when the scene is rendered
# which means that the next line will be executed
scene.take_screenshot()
time.sleep(1)
# Take another screenshot from a different angle
scene.render(camera="coronal", interactive=False, zoom=0.5)
scene.take_screenshot(
) # screenshots are saved with a timestamp in the name so you won't be overwriting the previous one.
# Render interactively. You can then press 's' to take a screenshot
scene.render()
