Error in 'start parameter extraction' #45
Description
Hello. I am trying to use ALMA toolbox. When I'm trying to use 'Automatic Kinematic Analysis' and push 'start parameter extraction', 3 errors occur randomly. The error codes are below. I am not sure whether these errors occur beacuse of my file format or values, so I attach my deeplabcut files that I used as test sample.
M444_mod3.csv
M444_mod4.csv
M444_mod5.csv
Traceback (most recent call last):
File "C:\Users\timothy\alma-master\Panels\AnalyzeStride.py", line 694, in ExtractParameters
parameters, pd_dataframe_coords, is_stance, bodyparts = KinematicsFunctions.extract_parameters(self.frame_rate, self.df, self.cutoff_f, 'toe',
File "C:\Users\timothy\alma-master\Functions\KinematicsFunctions.py", line 737, in extract_parameters
pairwise_dtw_res_x_5 = pairwise_dtw(toe_xs)
File "C:\Users\timothy\alma-master\Functions\KinematicsFunctions.py", line 194, in pairwise_dtw
distance, _ = fastdtw.fastdtw(iterable[i], iterable[j], dist=euclidean)
File "C:\Users\timothy\anaconda3\envs\ALMA\lib\site-packages\fastdtw\fastdtw.py", line 53, in fastdtw
return __fastdtw(x, y, radius, dist)
File "C:\Users\timothy\anaconda3\envs\ALMA\lib\site-packages\fastdtw\fastdtw.py", line 73, in __fastdtw
__fastdtw(x_shrinked, y_shrinked, radius=radius, dist=dist)
File "C:\Users\timothy\anaconda3\envs\ALMA\lib\site-packages\fastdtw\fastdtw.py", line 73, in __fastdtw
__fastdtw(x_shrinked, y_shrinked, radius=radius, dist=dist)
File "C:\Users\timothy\anaconda3\envs\ALMA\lib\site-packages\fastdtw\fastdtw.py", line 73, in __fastdtw
__fastdtw(x_shrinked, y_shrinked, radius=radius, dist=dist)
File "C:\Users\timothy\anaconda3\envs\ALMA\lib\site-packages\fastdtw\fastdtw.py", line 68, in __fastdtw
return dtw(x, y, dist=dist)
File "C:\Users\timothy\anaconda3\envs\ALMA\lib\site-packages\fastdtw\fastdtw.py", line 130, in dtw
return __dtw(x, y, None, dist)
File "C:\Users\timothy\anaconda3\envs\ALMA\lib\site-packages\fastdtw\fastdtw.py", line 141, in __dtw
dt = dist(x[i-1], y[j-1])
File "C:\Users\timothy\anaconda3\envs\ALMA\lib\site-packages\scipy\spatial\distance.py", line 536, in euclidean
return minkowski(u, v, p=2, w=w)
File "C:\Users\timothy\anaconda3\envs\ALMA\lib\site-packages\scipy\spatial\distance.py", line 479, in minkowski
u = _validate_vector(u)
File "C:\Users\timothy\anaconda3\envs\ALMA\lib\site-packages\scipy\spatial\distance.py", line 318, in _validate_vector
raise ValueError("Input vector should be 1-D.")
ValueError: Input vector should be 1-D.
0 NaN
1 0.291959
2 NaN
3 NaN
4 NaN
5 0.325325
6 0.367034
7 NaN
8 0.375375
9 NaN
Name: cycle duration (s), dtype: float64
Traceback (most recent call last):
File "C:\Users\timothy\alma-master\Panels\AnalyzeStride.py", line 707, in ExtractParameters
KinematicsFunctions.make_parameters_output(os.path.join(os.path.dirname(self.output_path), f'continuous_strides_parameters_{self.filename}.csv'), parameters_truncated)
File "C:\Users\timothy\alma-master\Functions\KinematicsFunctions.py", line 201, in make_parameters_output
parameters.to_csv(pathname)
File "C:\Users\timothy\anaconda3\envs\ALMA\lib\site-packages\pandas\core\generic.py", line 3902, in to_csv
return DataFrameRenderer(formatter).to_csv(
File "C:\Users\timothy\anaconda3\envs\ALMA\lib\site-packages\pandas\io\formats\format.py", line 1152, in to_csv
csv_formatter.save()
File "C:\Users\timothy\anaconda3\envs\ALMA\lib\site-packages\pandas\io\formats\csvs.py", line 247, in save
with get_handle(
File "C:\Users\timothy\anaconda3\envs\ALMA\lib\site-packages\pandas\io\common.py", line 739, in get_handle
check_parent_directory(str(handle))
File "C:\Users\timothy\anaconda3\envs\ALMA\lib\site-packages\pandas\io\common.py", line 604, in check_parent_directory
raise OSError(rf"Cannot save file into a non-existent directory: '{parent}'")
OSError: Cannot save file into a non-existent directory: 'D:\Disk\M444\alma_test\continuous_strides_parameters_D:\Disk\M444\alma_test'
0 NaN
1 NaN
2 0.158492
3 NaN
4 NaN
5 NaN
6 NaN
7 NaN
8 0.191859
9 NaN
10 NaN
11 NaN
Name: cycle duration (s), dtype: float64
Traceback (most recent call last):
File "C:\Users\timothy\alma-master\Panels\AnalyzeStride.py", line 707, in ExtractParameters
KinematicsFunctions.make_parameters_output(os.path.join(os.path.dirname(self.output_path), f'continuous_strides_parameters_{self.filename}.csv'), parameters_truncated)
File "C:\Users\timothy\alma-master\Functions\KinematicsFunctions.py", line 201, in make_parameters_output
parameters.to_csv(pathname)
AttributeError: 'NoneType' object has no attribute 'to_csv'