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Schroeder-Lab / Data

For pre-processing raw data (two-photon, ephys, bonsai, ...) and loading/saving data.
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Error when trying to plot the z Trace #6

Closed mariacozan closed 1 year ago

mariacozan commented 1 year ago

I am having this error message appear when running the main_preprocess code on these datasets:

Glaucus,2022-08-10 Glaucus,2022-08-18 Glaucus,2022-10-10 Giuseppina,2022-11-16 Giuseppina,2022-10-28 Giuseppina,2022-11-03 Hedes,2022-08-05

Traceback (most recent call last):

File "C:\Users\maria\anaconda3\envs\new_Spyder\lib\site-packages\spyder_kernels\customize\spyderpdb.py", line 881, in run super(SpyderPdb, self).run(cmd, globals, locals)

File "C:\Users\maria\anaconda3\envs\new_Spyder\lib\bdb.py", line 580, in run exec(cmd, globals, locals)

File "c:\users\maria\documents\github\data\twop\main_preprocess.py", line 54, in fc = process_s2p_directory(

File "C:\Users\maria\Documents\GitHub\Data\TwoP\runners.py", line 289, in process_s2p_directory results = Parallel(n_jobs=jobnum, verbose=5)(

File "C:\Users\maria\anaconda3\envs\new_Spyder\lib\site-packages\joblib\parallel.py", line 1048, in call if self.dispatch_one_batch(iterator):

File "C:\Users\maria\anaconda3\envs\new_Spyder\lib\site-packages\joblib\parallel.py", line 864, in dispatch_one_batch self._dispatch(tasks)

File "C:\Users\maria\anaconda3\envs\new_Spyder\lib\site-packages\joblib\parallel.py", line 782, in _dispatch job = self._backend.apply_async(batch, callback=cb)

File "C:\Users\maria\anaconda3\envs\new_Spyder\lib\site-packages\joblib_parallel_backends.py", line 208, in apply_async result = ImmediateResult(func)

File "C:\Users\maria\anaconda3\envs\new_Spyder\lib\site-packages\joblib_parallel_backends.py", line 572, in init self.results = batch()

File "C:\Users\maria\anaconda3\envs\new_Spyder\lib\site-packages\joblib\parallel.py", line 263, in call return [func(*args, **kwargs)

File "C:\Users\maria\anaconda3\envs\new_Spyder\lib\site-packages\joblib\parallel.py", line 263, in return [func(*args, **kwargs)

File "C:\Users\maria\Documents\GitHub\Data\TwoP\runners.py", line 146, in _process_s2p_singlePlane ax[3].plot(zTrace)

File "C:\Users\maria\anaconda3\envs\new_Spyder\lib\site-packages\matplotlib\axes_axes.py", line 1635, in plot lines = [self._get_lines(args, data=data, **kwargs)]

File "C:\Users\maria\anaconda3\envs\new_Spyder\lib\site-packages\matplotlib\axes_base.py", line 312, in call yield from self._plot_args(this, kwargs)

File "C:\Users\maria\anaconda3\envs\new_Spyder\lib\site-packages\matplotlib\axes_base.py", line 459, in _plot_args raise ValueError("x, y, and format string must not be None")

ValueError: x, y, and format string must not be None

It looks to me like there is some issue when trying to plot the Z traces as the plot that is being produced looks like this: image

liadJB commented 1 year ago

Solved by checking whether the user produced a z-trace from the z stack or not.