Description
Hello,
I have an issue when I use the function :
ss.run_sorter(sorter_name="tridesclous", recording=recording_cmr, remove_existing_folder=True, output_folder = 'Sorting_'+DataName, n_jobs=1)
The entire code works very fine on another PC. However, I wanted to use another one to go faster, but it does not work anymore when it is run on the second computer. The previous function raises an error.
It seems that it cannot write at one moment in the .json file of the sorting. The mistake seems be link to the memmap programm of numpy. But I will not touch spontaneously to numpy...
I used for the second computer :
-
Spyder 5.5.1 with python 3.12
-
neo 0.14.1
-
tridesclous 1.6.8
-
probinterface 0.2.28
-
spikeinterface 0.102.2
-
numpy 1.26.4
I do not understand why it does not work on the second computer.
Do you have an idea to solve the problem?
Thank you in advance for your help.
Error message :
``
File c:\users\cleme\documents\traitement sam\processexpe.py:366 in Get_Sorting_and_Waveform
self.sorting_TDC = ss.run_sorter(sorter_name="tridesclous", recording=recording_cmr, remove_existing_folder=True, output_folder = 'Sorting_'+DataName, n_jobs=1)
File ~\anaconda3\Lib\site-packages\spikeinterface\sorters\runsorter.py:199 in run_sorter
return run_sorter_local(**common_kwargs)
File ~\anaconda3\Lib\site-packages\spikeinterface\sorters\runsorter.py:261 in run_sorter_local
SorterClass.run_from_folder(folder, raise_error, verbose)
File ~\anaconda3\Lib\site-packages\spikeinterface\sorters\basesorter.py:310 in run_from_folder
raise SpikeSortingError(
SpikeSortingError: Spike sorting error trace:
Traceback (most recent call last):
File "C:\Users\cleme\anaconda3\Lib\site-packages\spikeinterface\sorters\basesorter.py", line 270, in run_from_folder
SorterClass._run_from_folder(sorter_output_folder, sorter_params, verbose)
File "C:\Users\cleme\anaconda3\Lib\site-packages\spikeinterface\sorters\external\tridesclous.py", line 141, in _run_from_folder
tdc.apply_all_catalogue_steps(cc, catalogue_nested_params, verbose=verbose)
File "C:\Users\cleme\anaconda3\Lib\site-packages\tridesclous\cataloguetools.py", line 60, in apply_all_catalogue_steps
cc.estimate_signals_noise(seg_num=0, duration=noise_duration)
File "C:\Users\cleme\anaconda3\Lib\site-packages\tridesclous\catalogueconstructor.py", line 526, in estimate_signals_noise
filtered_sigs = self.arrays.create_array(name, self.info['internal_dtype'], shape, 'memmap')
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Users\cleme\anaconda3\Lib\site-packages\tridesclous\iotools.py", line 143, in create_array
arr = np.memmap(self._fname(name), dtype=dtype, mode=mode, shape=shape)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Users\cleme\anaconda3\Lib\site-packages\numpy\core\memmap.py", line 229, in new
f_ctx = open(os_fspath(filename), ('r' if mode == 'c' else mode)+'b')
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'C:\Users\cleme\Documents\Traitement Sam\F438_PTENSOCS3_100624_AtlasNeuro_Jul24-E32R100S1L6NT2PEDOT_ImpG_StimE0-E6-50Hz3uA1msX1Every10s_240917_185310\SPK_240917_18h53\Sorting_SPK_240917_18h53\sorter_output\channel_group_0\catalogue_constructor\filetered_sigs_for_noise_estimation_seg_0.raw'
Spike sorting failed. You can inspect the runtime trace in C:\Users\cleme\Documents\Traitement Sam\F438_PTENSOCS3_100624_AtlasNeuro_Jul24-E32R100S1L6NT2PEDOT_ImpG_StimE0-E6-50Hz3uA1msX1Every10s_240917_185310\SPK_240917_18h53\Sorting_SPK_240917_18h53/spikeinterface_log.json.
``