issues with cupy

[KaetzelLab]

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AttributeError                            Traceback (most recent call last)
Cell In[3], line 82
     77 data = np.squeeze(data)
     79 print(f'data size is {data.shape[0]} times and {data.shape[1]}   channels')
---> 82 connectivity_data  = calculate_connectivity(data, sfreq, time_halfbandwidth_product,
     83                                             time_window_duration, time_window_step)
     85 filename = f'{MouseID}_20s_spectral_connectivity_Day_{day}.mat'
     87 print(f'saving file to {filename} to path' )

Cell In[3], line 25, in calculate_connectivity(data, sfreq, time_halfbandwidth_product, time_window_duration, time_window_step)
     13 """time_series : array, shape (n_time_samples, n_trials, n_signals) or
     14                            (n_time_samples, n_signals)
     15 """
     17 m = Multitaper(data, sampling_frequency=sfreq,
     18                time_halfbandwidth_product=time_halfbandwidth_product,
     19                start_time=0,
     20                detrend_type = None,
     21                time_window_duration = time_window_duration,
     22                time_window_step = time_window_step)
---> 25 c = Connectivity.from_multitaper(m)
     27 connectivity_data = dict(
     28     
     29     pairwise_spectral_granger_prediction     = c.pairwise_spectral_granger_prediction(), 
     30    
     31 )
     33 return connectivity_data

File ~\Anaconda3\envs\myenv\lib\site-packages\spectral_connectivity\connectivity.py:166, in Connectivity.from_multitaper(cls, multitaper_instance, expectation_type, blocks, dtype)
    156 @classmethod
    157 def from_multitaper(
    158     cls,
   (...)
    162     dtype=xp.complex128,
    163 ):
    164     """Construct connectivity class using a multitaper instance"""
    165     return cls(
--> 166         fourier_coefficients=multitaper_instance.fft(),
    167         expectation_type=expectation_type,
    168         time=multitaper_instance.time,
    169         frequencies=multitaper_instance.frequencies,
    170         blocks=blocks,
    171         dtype=dtype,
    172     )

File ~\Anaconda3\envs\myenv\lib\site-packages\spectral_connectivity\transforms.py:249, in Multitaper.fft(self)
    239 """Compute the fast Fourier transform using the multitaper method.
    240 
    241 Returns
   (...)
    244 
    245 """
    246 time_series = _add_axes(self.time_series)
    247 time_series = _sliding_window(
    248     time_series,
--> 249     window_size=self.n_time_samples_per_window,
    250     step_size=self.n_time_samples_per_step,
    251     axis=0,
    252 )
    253 if self.detrend_type is not None:
    254     time_series = detrend(time_series, type=self.detrend_type)

File ~\Anaconda3\envs\myenv\lib\site-packages\spectral_connectivity\transforms.py:176, in Multitaper.n_time_samples_per_window(self)
    173     self._n_time_samples_per_window = self.time_series.shape[0]
    174 elif self._time_window_duration is not None:
    175     self._n_time_samples_per_window = int(
--> 176         xp.round(self.time_window_duration * self.sampling_frequency)
    177     )
    178 return self._n_time_samples_per_window

AttributeError: module 'cupy' has no attribute 'round'

[edeno]

Sorry, looks like numpy/cupy changed this function. This should be fixed in the latest release which will be available by tomorrow.