First, thank you for sharing this code and making the instructions so easy to follow! Second, I'm running into some issues with the PSTH generation - specifically, I'm recording behavior sessions using the TDT system while simultaneously recording from a camera. We then go in and manually annotate the behavior and generate a csv of those timestamps (making sure to follow the same format as the example provided). I'm hoping to combine the two during the analysis - using a combination of the TDT-generated files and my behavior timestamp csv. However, I'm getting the following errors when I try to do Step 5: PSTH Computation. Could you please help?
Thank you!!
Computing PSTH, Peak and Area for each event...
Average for group : False
Computing PSTH for event beh...
Read progress bar increment values stopped.
multiprocessing.pool.RemoteTraceback:
"""
Traceback (most recent call last):
File "/Users/mayhui/anaconda3/envs/guppy/lib/python3.9/multiprocessing/pool.py", line 125, in worker
result = (True, func(*args, **kwds))
File "/Users/mayhui/anaconda3/envs/guppy/lib/python3.9/multiprocessing/pool.py", line 51, in starmapstar
return list(itertools.starmap(args[0], args[1]))
File "/Users/mayhui/GuPPy-main/GuPPy/computePsth.py", line 375, in storenamePsth
psth, psth_baselineUncorrected, cols = helper_psth(z_score, event, filepath,
File "/Users/mayhui/GuPPy-main/GuPPy/computePsth.py", line 277, in helper_psth
psth_baselineUncorrected[i,:] = arr # extra
ValueError: could not broadcast input array from shape (37819,) into shape (30519,)
"""
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File "/Users/mayhui/GuPPy-main/GuPPy/computePsth.py", line 772, in <module>
raise e
File "/Users/mayhui/GuPPy-main/GuPPy/computePsth.py", line 763, in <module>
inputParameters = psthForEachStorename(json.loads(sys.argv[1]))
File "/Users/mayhui/GuPPy-main/GuPPy/computePsth.py", line 743, in psthForEachStorename
p.starmap(storenamePsth, zip(repeat(filepath), storesList[1,:], repeat(inputParameters)))
File "/Users/mayhui/anaconda3/envs/guppy/lib/python3.9/multiprocessing/pool.py", line 372, in starmap
return self._map_async(func, iterable, starmapstar, chunksize).get()
File "/Users/mayhui/anaconda3/envs/guppy/lib/python3.9/multiprocessing/pool.py", line 771, in get
raise self._value
ValueError: could not broadcast input array from shape (37819,) into shape (30519,)
Oddly, when I tried to run it again, I got a different error:
Computing PSTH for event beh...
Read progress bar increment values stopped.
multiprocessing.pool.RemoteTraceback:
"""
Traceback (most recent call last):
File "/Users/mayhui/anaconda3/envs/guppy/lib/python3.9/multiprocessing/pool.py", line 125, in worker
result = (True, func(*args, **kwds))
File "/Users/mayhui/anaconda3/envs/guppy/lib/python3.9/multiprocessing/pool.py", line 51, in starmapstar
return list(itertools.starmap(args[0], args[1]))
File "/Users/mayhui/GuPPy-main/GuPPy/computePsth.py", line 375, in storenamePsth
psth, psth_baselineUncorrected, cols = helper_psth(z_score, event, filepath,
File "/Users/mayhui/GuPPy-main/GuPPy/computePsth.py", line 218, in helper_psth
increment = ((-1*nSecPrev)+nSecPost)/totalTs
ZeroDivisionError: division by zero
"""
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File "/Users/mayhui/GuPPy-main/GuPPy/computePsth.py", line 772, in <module>
raise e
File "/Users/mayhui/GuPPy-main/GuPPy/computePsth.py", line 763, in <module>
inputParameters = psthForEachStorename(json.loads(sys.argv[1]))
File "/Users/mayhui/GuPPy-main/GuPPy/computePsth.py", line 743, in psthForEachStorename
p.starmap(storenamePsth, zip(repeat(filepath), storesList[1,:], repeat(inputParameters)))
File "/Users/mayhui/anaconda3/envs/guppy/lib/python3.9/multiprocessing/pool.py", line 372, in starmap
return self._map_async(func, iterable, starmapstar, chunksize).get()
File "/Users/mayhui/anaconda3/envs/guppy/lib/python3.9/multiprocessing/pool.py", line 771, in get
raise self._value
ZeroDivisionError: division by zero
Hi!
First, thank you for sharing this code and making the instructions so easy to follow! Second, I'm running into some issues with the PSTH generation - specifically, I'm recording behavior sessions using the TDT system while simultaneously recording from a camera. We then go in and manually annotate the behavior and generate a csv of those timestamps (making sure to follow the same format as the example provided). I'm hoping to combine the two during the analysis - using a combination of the TDT-generated files and my behavior timestamp csv. However, I'm getting the following errors when I try to do Step 5: PSTH Computation. Could you please help?
Thank you!!
Oddly, when I tried to run it again, I got a different error: