raab/GP2023_chirp_detection
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started trying the chirps in chasing part

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sprause 2023-01-20 13:41:08 +01:00
parent 4a29cdf84d
commit 2da26f9702
1 changed files with 19 additions and 15 deletions
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34
code/behavior.py
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@ -5,8 +5,9 @@ import matplotlib.pyplot as plt
from IPython import embed from IPython import embed
from pandas import read_csv from pandas import read_csv
from modules.logger import makeLogger
logger = makeLogger(__name__)
class Behavior: class Behavior:
"""Load behavior data from csv file as class attributes """Load behavior data from csv file as class attributes
@ -95,19 +96,20 @@ def correct_chasing_events(
len_diff = len(onset_ids) - len(offset_ids) len_diff = len(onset_ids) - len(offset_ids)
longer_array = onset_ids longer_array = onset_ids
shorter_array = offset_ids shorter_array = offset_ids
logger.info(f'Onsets are greater than offsets by {len_diff}')
elif len(onset_ids) < len(offset_ids): elif len(onset_ids) < len(offset_ids):
len_diff = len(offset_ids) - len(onset_ids) len_diff = len(offset_ids) - len(onset_ids)
longer_array = offset_ids longer_array = offset_ids
shorter_array = onset_ids shorter_array = onset_ids
logger.info(f'Offsets are greater than offsets by {len_diff}')
elif len(onset_ids) == len(offset_ids): elif len(onset_ids) == len(offset_ids):
logger.info('Chasing events are equal')
print('Chasing events are equal')
return category, timestamps return category, timestamps
# Correct the wrong chasing events; delete double events # Correct the wrong chasing events; delete double events
wrong_ids = [] wrong_ids = []
for i in range(len(longer_array)-len_diff+1): for i in range(len(longer_array)-(len_diff+1)):
if (shorter_array[i] > longer_array[i]) & (shorter_array[i] < longer_array[i+1]): if (shorter_array[i] > longer_array[i]) & (shorter_array[i] < longer_array[i+1]):
pass pass
else: else:
@ -129,11 +131,12 @@ def main(datapath: str):
# chirps are not sorted in time (presumably due to prior groupings) # chirps are not sorted in time (presumably due to prior groupings)
# get and sort chirps and corresponding fish_ids of the chirps # get and sort chirps and corresponding fish_ids of the chirps
chirps = bh.chirps[np.argsort(bh.chirps)] chirps = bh.chirps[np.argsort(bh.chirps)]
chirps_ids = bh.chirps_ids[np.argsort(bh.chirps)] chirps_fish_ids = bh.chirps_ids[np.argsort(bh.chirps)]
category = bh.behavior category = bh.behavior
timestamps = bh.start_s timestamps = bh.start_s
# Correct for # Correct for doubles in chasing on- and offsets to get the right on-/offset pairs
# Get rid of tracking faults (two onsets or two offsets after another)
category, timestamps = correct_chasing_events(category, timestamps) category, timestamps = correct_chasing_events(category, timestamps)
# split categories # split categories
@ -156,11 +159,11 @@ def main(datapath: str):
# plt.show() # plt.show()
# Get fish ids # Get fish ids
all_fish_ids = np.unique(chirps_ids) all_fish_ids = np.unique(chirps_fish_ids)
# Associate chirps to inidividual fish # Associate chirps to inidividual fish
fish1 = chirps[chirps_ids == all_fish_ids[0]] fish1 = chirps[chirps_fish_ids == all_fish_ids[0]]
fish2 = chirps[chirps_ids == all_fish_ids[1]] fish2 = chirps[chirps_fish_ids == all_fish_ids[1]]
fish = [len(fish1), len(fish2)] fish = [len(fish1), len(fish2)]
#### Chirp counts per fish general ##### #### Chirp counts per fish general #####
@ -170,14 +173,15 @@ def main(datapath: str):
ax2.bar(x, fish, width=width) ax2.bar(x, fish, width=width)
ax2.set_ylabel('Chirp count') ax2.set_ylabel('Chirp count')
# plt.show() # plt.show()
embed()
##### Count chirps emitted during chasing events and chirps emitted out of chasing events ##### ##### Count chirps emitted during chasing events and chirps emitted out of chasing events #####
chirps_in_chasing = []
# Check if on- and offset are equal in length to get the right on-/offset pairs for onset, offset in zip(chasing_onset, chasing_offset):
# Get rid of tracking faults (two onsets or two offsets after another) if chirps.any((chirps > onset) & (chirps < offset)):
chirps_in_chasing.append(chirps)
print(chirps_in_chasing)
embed() embed()
exit()
if __name__ == '__main__': if __name__ == '__main__':