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import torch
import numpy as np
import matplotlib.pyplot as plt
class TrajectoryGenerator(object):
def __init__(self, options, place_cells):
self.options = options
self.place_cells = place_cells
def plot_trajectory(self, traj, box_width, box_height, idx=0, step=2):
"""
Visualize one trajectory from traj dict.
Args:
traj: dictionary containing trajectory info
box_width, box_height: dimensions of the environment
idx: which trajectory to plot from the batch (default: 0)
step: plot an arrow every 'step' frames
"""
# Extract trajectory for one rat
x = traj["target_x"][idx] # shape (samples,)
y = traj["target_y"][idx]
hd = traj["target_hd"][idx] # head directions in radians
# Also add starting point
x0 = traj["init_x"][idx, 0]
y0 = traj["init_y"][idx, 0]
hd0 = traj["init_hd"][idx, 0]
x = np.concatenate([[x0], x])
y = np.concatenate([[y0], y])
hd = np.concatenate([[hd0], hd])
# Plot trajectory
plt.figure(figsize=(6, 6))
plt.plot(x, y, "-o", markersize=2, label="trajectory")
# Add arrows for head direction
for t in range(0, len(x), step):
dx = 0.1 * np.cos(hd[t])
dy = 0.1 * np.sin(hd[t])
plt.arrow(
x[t], y[t], dx, dy, head_width=0.05, head_length=0.08, fc="r", ec="r"
)
# Draw box boundaries
plt.axhline(y=-box_height / 2, color="k")
plt.axhline(y=box_height / 2, color="k")
plt.axvline(x=-box_width / 2, color="k")
plt.axvline(x=box_width / 2, color="k")
plt.xlim([-box_width / 2 - 0.2, box_width / 2 + 0.2])
plt.ylim([-box_height / 2 - 0.2, box_height / 2 + 0.2])
plt.gca().set_aspect("equal", adjustable="box")
plt.xlabel("x position (m)")
plt.ylabel("y position (m)")
plt.title(f"Trajectory {idx}")
plt.legend()
plt.show()
def avoid_wall(self, position, hd, box_width, box_height):
"""
Compute distance and angle to nearest wall
"""
x = position[:, 0]
y = position[:, 1]
dists = [
box_width / 2 - x,
box_height / 2 - y,
box_width / 2 + x,
box_height / 2 + y,
]
d_wall = np.min(dists, axis=0)
angles = np.arange(4) * np.pi / 2
theta = angles[np.argmin(dists, axis=0)]
hd = np.mod(hd, 2 * np.pi)
a_wall = hd - theta
a_wall = np.mod(a_wall + np.pi, 2 * np.pi) - np.pi
is_near_wall = (d_wall < self.border_region) * (np.abs(a_wall) < np.pi / 2)
turn_angle = np.zeros_like(hd)
turn_angle[is_near_wall] = np.sign(a_wall[is_near_wall]) * (
np.pi / 2 - np.abs(a_wall[is_near_wall])
)
return is_near_wall, turn_angle
def generate_trajectory(self, box_width, box_height, batch_size):
"""Generate a random walk in a rectangular box"""
samples = self.options.sequence_length
dt = 0.02 # time step increment (seconds)
sigma = 5.76 * 2 # stdev rotation velocity (rads/sec)
b = 0.13 * 2 * np.pi # forward velocity rayleigh dist scale (m/sec)
mu = 0 # turn angle bias
self.border_region = 0.03 # meters
# Initialize variables
position = np.zeros([batch_size, samples + 2, 2])
head_dir = np.zeros([batch_size, samples + 2])
position[:, 0, 0] = np.random.uniform(-box_width / 2, box_width / 2, batch_size)
position[:, 0, 1] = np.random.uniform(
-box_height / 2, box_height / 2, batch_size
)
head_dir[:, 0] = np.random.uniform(0, 2 * np.pi, batch_size)
velocity = np.zeros([batch_size, samples + 2])
# Generate sequence of random boosts and turns
random_turn = np.random.normal(mu, sigma, [batch_size, samples + 1])
random_vel = np.random.rayleigh(b, [batch_size, samples + 1])
v = np.abs(np.random.normal(0, b * np.pi / 2, batch_size))
for t in range(samples + 1):
# Update velocity
v = random_vel[:, t]
turn_angle = np.zeros(batch_size)
if not self.options.periodic:
# If in border region, turn and slow down
is_near_wall, turn_angle = self.avoid_wall(
position[:, t], head_dir[:, t], box_width, box_height
)
v[is_near_wall] *= 0.25
# Update turn angle
turn_angle += dt * random_turn[:, t]
# Take a step
velocity[:, t] = v * dt
update = velocity[:, t, None] * np.stack(
[np.cos(head_dir[:, t]), np.sin(head_dir[:, t])], axis=-1
)
position[:, t + 1] = position[:, t] + update
# Rotate head direction
head_dir[:, t + 1] = head_dir[:, t] + turn_angle
# Periodic boundaries
if self.options.periodic:
position[:, :, 0] = (
np.mod(position[:, :, 0] + box_width / 2, box_width) - box_width / 2
)
position[:, :, 1] = (
np.mod(position[:, :, 1] + box_height / 2, box_height) - box_height / 2
)
head_dir = np.mod(head_dir + np.pi, 2 * np.pi) - np.pi # Periodic variable
traj = {}
# Input variables
traj["init_hd"] = head_dir[:, 0, None]
traj["init_x"] = position[:, 1, 0, None]
traj["init_y"] = position[:, 1, 1, None]
traj["ego_v"] = velocity[:, 1:-1]
ang_v = np.diff(head_dir, axis=-1)
traj["phi_x"], traj["phi_y"] = np.cos(ang_v)[:, :-1], np.sin(ang_v)[:, :-1]
# Target variables
traj["target_hd"] = head_dir[:, 1:-1]
traj["target_x"] = position[:, 2:, 0]
traj["target_y"] = position[:, 2:, 1]
# for i in range(5):
# self.plot_trajectory(traj, box_width, box_height, i)
# raise Exception("dog")
return traj
def get_generator(self, batch_size=None, box_width=None, box_height=None):
"""
Returns a generator that yields batches of trajectories
"""
if not batch_size:
batch_size = self.options.batch_size
if not box_width:
box_width = self.options.box_width
if not box_height:
box_height = self.options.box_height
while True:
traj = self.generate_trajectory(box_width, box_height, batch_size)
v = np.stack(
[
traj["ego_v"] * np.cos(traj["target_hd"]),
traj["ego_v"] * np.sin(traj["target_hd"]),
],
axis=-1,
)
v = torch.tensor(v, dtype=torch.float32).transpose(0, 1)
pos = np.stack([traj["target_x"], traj["target_y"]], axis=-1)
pos = torch.tensor(pos, dtype=torch.float32).transpose(0, 1)
# Put on GPU if GPU is available
pos = pos.to(self.options.device)
place_outputs = self.place_cells.get_activation(pos)
init_pos = np.stack([traj["init_x"], traj["init_y"]], axis=-1)
init_pos = torch.tensor(init_pos, dtype=torch.float32)
init_pos = init_pos.to(self.options.device)
init_actv = self.place_cells.get_activation(init_pos).squeeze()
v = v.to(self.options.device)
inputs = (v, init_actv)
yield (inputs, place_outputs, pos)
def get_test_batch(self, batch_size=None, box_width=None, box_height=None):
"""For testing performance, returns a batch of smample trajectories"""
if not batch_size:
batch_size = self.options.batch_size
if not box_width:
box_width = self.options.box_width
if not box_height:
box_height = self.options.box_height
traj = self.generate_trajectory(box_width, box_height, batch_size)
v = np.stack(
[
traj["ego_v"] * np.cos(traj["target_hd"]),
traj["ego_v"] * np.sin(traj["target_hd"]),
],
axis=-1,
)
v = torch.tensor(v, dtype=torch.float32).transpose(0, 1)
pos = np.stack([traj["target_x"], traj["target_y"]], axis=-1)
pos = torch.tensor(pos, dtype=torch.float32).transpose(0, 1)
pos = pos.to(self.options.device)
place_outputs = self.place_cells.get_activation(pos)
init_pos = np.stack([traj["init_x"], traj["init_y"]], axis=-1)
init_pos = torch.tensor(init_pos, dtype=torch.float32)
init_pos = init_pos.to(self.options.device)
init_actv = self.place_cells.get_activation(init_pos).squeeze()
v = v.to(self.options.device)
inputs = (v, init_actv)
return (inputs, pos, place_outputs)
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