bouts = []
for i, bout in track(_bouts.iterrows()):
bouts.append(LocomotionBout(bout, linearize_to=center_line))
# %%
f = plt.figure(figsize=(12, 12))
axes = f.subplot_mosaic("""
AAADDD
AAAEEE
AAAFFF
BBBGGG
CCCHHI
""")
f.tight_layout()
_ = draw.Hairpin(ax=axes["A"])
for n, bout in enumerate(bouts):
# draw 2d and linearized tracking
draw.Tracking(bout.x, bout.y, ax=axes["A"])
draw.Tracking(bout.linearized.x, bout.linearized.y, ax=axes["B"])
# draw speed accel and ang vel along track
axes["D"].plot(bout.linearized.x, bout.speed, color="k", alpha=0.5)
axes["E"].plot(bout.linearized.x, bout.acceleration, color="k", alpha=0.5)
axes["F"].plot(bout.linearized.x, bout.thetadot, color="k", alpha=0.5)
axes["G"].plot(bout.linearized.x, bout.thetadotdot, color="k", alpha=0.5)
# mark peak acceleration etc
# peak_accel = np.where(bout.acceleration > np.percentile(bout.acceleration, 80))[0]
import matplotlib.pyplot as plt
from loguru import logger
import kino.draw.locomotion as draw_locomotion
from analysis.load import load_complete_bouts
import draw
logger.remove()
logger.add(sys.stdout, level="INFO")
"""
Plots complete bouts through the arena,
but with the linearized track also
"""
# load and clean complete bouts
bouts = load_complete_bouts(keep=10, duration_max=12)
# %%
f, ax = plt.subplots(figsize=(7, 9))
draw.Hairpin(alpha=0.25)
# plot paws/com trajectory
draw_locomotion.plot_locomotion_2D(bouts[1], ax)
plt.show()
# %%
from myterial import pink
import draw
f, ax = plt.subplots(figsize=(7, 10))
# load and draw tracking data
from fcutils.path import files
for fp in files(
"/Users/federicoclaudi/Dropbox (UCL)/Rotation_vte/Locomotion/analysis/control/",
"*.h5",
):
tracking = pd.read_hdf(fp, key="hdf")
tracking.x = 20 - tracking.x + 20
# draw.Tracking.scatter(tracking.x, tracking.y, c=tracking.theta, vmin=0, vmax=360, cmap='bwr', lw=1, ec='k')
draw.Tracking(tracking.x, tracking.y, alpha=0.7)
# draw hairpin arena
draw.Hairpin(ax)
# draw waypoints
wps = Waypoints()
for wp in wps:
draw.Arrow(wp.x, wp.y, wp.theta, 2, width=4, color=pink, outline=True)
# fit dubin path
dubin = DubinPath(wps).fit()
draw.Tracking(dubin.x, dubin.y, lw=2, color="k")
plt.show()
c=c[::5],
s=50,
alpha=0.8,
)
if __name__ == "__main__":
tr = HairpinTrace()
import sys
sys.path.append("./")
# try:
# from data.dbase.db_tables import Tracking
# trk = Tracking.get_session_tracking(
# "FC_210413_AAA1110750_d11", body_only=True
# )
# except:
# trk = None
import draw
tr.draw()
draw.Hairpin()
plt.show()
# merge bouts for heatmaps
X, Y, S, A, T, AV, AA = merge_locomotion_bouts(bouts)
# %%
f = plt.figure(figsize=(20, 20))
f._save_name = "complete_bouts"
axes = f.subplot_mosaic("""
AABC
AADE
""")
for ax in "ABCDE":
axes[ax].axis("equal")
draw.Hairpin(ax=axes[ax], set_ax=True if ax == "A" else False)
if ax != "A":
axes[ax].axis("equal")
axes[ax].axis("off")
# draw tracking traces
for bout in bouts:
draw.Tracking(bout.x + 0.5, bout.y + 0.5, ax=axes["A"])
# draw speed heatmap
draw.Tracking.heatmap(
X + 0.5,
Y + 0.5,
c=S,
gridsize=(40, 60),
left_line,
center_line,
right_line,
left_to_track,
center_to_track,
right_to_track,
control_points,
) = tp.extract_track_from_image(points_spacing=2,
k=K,
apply_extra_spacing=True,
restrict_extremities=True)
# ? plot
f, ax = plt.subplots(figsize=(8, 12))
_ = draw.Hairpin()
P = [0, 0.125, 1]
colors = make_palette(pink_dark, blue_dark, len(P))
traces = []
for n, p in enumerate(P):
trace, _ = tp.fit_best_trace(
control_points,
center_line,
K,
angle_cost=p,
length_cost=(1 - p) * 5e-3,
)
# draw best trace
X = convolve_with_gaussian(trace.x, kernel_width=11)
# speed
axes["C"].plot(centered_bout.x, bout.body.speed, color="k", alpha=0.25)
# draw the v_max
for y_max in [2.5]:
vmax = np.sqrt((y_max * 60) / (center_line.curvature))
vmax[np.isinf(vmax)] = np.nan
# vmax = vmax * VMAX_FACTOR + VMAX_SHIFT
axes["C"].plot(center_line.comulative_distance,
vmax,
label=f"y_max: {y_max}",
lw=3)
# draw the track
draw.Hairpin(ax=axes["A"], set_ax=True)
draw.Tracking(left_line.x, left_line.y, ax=axes["A"])
draw.Tracking(center_line.x, center_line.y, ls="--", ax=axes["A"])
draw.Tracking.scatter(
center_line.x,
center_line.y,
c=center_line.curvature,
ax=axes["A"],
s=75,
ec="k",
lw=0.5,
zorder=100,
)
draw.Tracking(right_line.x, right_line.y, ax=axes["A"])
