Error with some file #8
Description
As run by Kieran, then reported this error:
python3 /opt/homebrew/lib/python3.9/site-packages/fitseq/fitseq.py
--input /Users/kierancollins/Desktop/data/data2/starcode/216c.csv
--processes 8
--t-seq 0 3 5 7
--min-iter 10
--max-iter-num 100
--min-step 0.001
--output-mean-fitness 216mean.csv
-o 216test.csv
Estimating Malthusian fitness for 4343 lineages...
-- Estimating initial guesses of global parameters
0%| | 0/4343 [00:00<?, ?it/s]
100%|████████████████████████████████████████████████████████████████████████████████████████████████| 4343/4343 [00:00<00:00, 9281.03it/s]
-- Optimizing fitness for every lineage with global parms
100%|█████████████████████████████████████████████████████████████████████████████████████████████| 4343/4343 [00:00<00:00, 1416915.24it/s]
multiprocessing.pool.RemoteTraceback:
"""
Traceback (most recent call last):
File "/opt/homebrew/Cellar/python@3.9/3.9.12/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 125, in worker
result = (True, func(*args, **kwds))
File "/opt/homebrew/Cellar/python@3.9/3.9.12/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 51, in starmapstar
return list(itertools.starmap(args[0], args[1]))
File "/opt/homebrew/lib/python3.9/site-packages/fitseq/fitseq.py", line 292, in fun_x_est_lineage
x0=x0_global[i],
TypeError: 'NoneType' object is not subscriptable
"""
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File "/opt/homebrew/lib/python3.9/site-packages/fitseq/fitseq.py", line 570, in
main()
File "/opt/homebrew/lib/python3.9/site-packages/fitseq/fitseq.py", line 464, in main
pool_obj.starmap(
File "/opt/homebrew/Cellar/python@3.9/3.9.12/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 372, in starmap
return self._map_async(func, iterable, starmapstar, chunksize).get()
File "/opt/homebrew/Cellar/python@3.9/3.9.12/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 771, in get
raise self._value