Martynas Dervinis

KeyError: "'ndx-aibs-ecephys' not a namespace" when loading NWB files

3

**Describe the bug** I get the following error when I try to read NWB files (Visual Coding Neuropixels experiment) after loading them with NWBHDF5IO function of pynwb package: ``` Traceback...

NameError: name 'comm' is not defined

2

After installation and running ```py.test``` I get the following error: ``` (bmtk-env) user@user-S5520SC:~/bmtk/bmtk$ py.test =========================================================================================== test session starts =========================================================================================== platform linux -- Python 3.10.4, pytest-7.1.1, pluggy-1.0.0 rootdir: /home/user/bmtk collected 322...

abfwrite

5

Is there an abfwrite equivalent for matlab?

Exception has occurred: KeyError x 'data'

4

I get this error by executing this line: ``` derivedData = mat73.loadmat('some_mat_file.mat') ```

ImportError: libasound.so.2: cannot open shared object file: No such file or directory

2

Hi, After following developer installation instructions and attempting to launch Phy, I get the following error: ``` $ phy template-gui params.py Traceback (most recent call last): File "/home/martynas-cph/phy/bin/phy", line 33,...

[Bug]: Cannot load NWB file generated using Python

1

### What happened? The issue has originally been reported [here](https://github.com/AllenInstitute/AllenSDK/issues/2513#issuecomment-1208227325). ### Steps to Reproduce ```matlab Refer to the allensdk issue ``` ### Error Message ```matlab Refer to the allensdk issue...

mountainsort5 fails at parameter validation stage

3

I get the following error when attempting to run mountainsort5: ``` sorting = ms5.sorting_scheme2(recording=recording_cached, sorting_parameters=params) Traceback (most recent call last): File "/mnt/c/Users/m329786/code_repositories/nwb2spikesort/master_file.py", line 150, in sorting = ms5.sorting_scheme2(recording=recording_cached, sorting_parameters=params) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^...

Getting following error when spike sorting tetrodes: The size of tensor a must match the size of tensor b at non-singleton dimension 0

10

``` Exception has occurred: RuntimeError The size of tensor a (16) must match the size of tensor b (2561540) at non-singleton dimension 0 File "C:\Users\m329786\code_repositories\nwb2spikesort\run_kilosort4.py", line 57, in run_kilosort(settings=settings, probe_name=probe_file,...

SpikeInterface fails with spykingcircus2 spike sorting tetrode data

21

This is the full error output: ``` Exception has occurred: SpikeSortingError Spike sorting error trace: Traceback (most recent call last): File "/home/m329786/anaconda3/envs/si_env/lib/python3.11/site-packages/spikeinterface/sorters/basesorter.py", line 270, in run_from_folder SorterClass._run_from_folder(sorter_output_folder, sorter_params, verbose) File...