[Bug]: Error when recreating a table from saved nwb file

[NeuroGuth]

What happened?

Hi,

I just followed the tutorial and then exported the nwb file. When I try to recreate the table from "nwb.general_extracellular_ephys_electrodes" I get the following error.

Best

Tim

Steps to Reproduce

>> nwb = NwbFile( ...
    'session_description', 'mouse in open exploration',...
    'identifier', 'Mouse5_Day3', ...
    'session_start_time', datetime(2018, 4, 25, 2, 30, 3, 'TimeZone', 'local'), ...
    'timestamps_reference_time', datetime(2018, 4, 25, 3, 0, 45, 'TimeZone', 'local'), ...
    'general_experimenter', 'Last Name, First Name', ... % optional
    'general_session_id', 'session_1234', ... % optional
    'general_institution', 'University of My Institution', ... % optional
    'general_related_publications', {'DOI:10.1016/j.neuron.2016.12.011'}); % optional
>> device = types.core.Device(...
    'description', 'A 12-channel array with 4 shanks and 3 channels per shank', ...
    'manufacturer', 'Array Technologies', ...
    'model_number', 'PRB_1_4_0480_123', ...
    'model_name', 'Neurovoxels 0.99', ...
    'serial_number', '1234567890' ...
);

% Add device to nwb object
nwb.general_devices.set('array', device);
>> numShanks = 4;
numChannelsPerShank = 3;
numChannels = numShanks * numChannelsPerShank;

electrodesDynamicTable = types.hdmf_common.DynamicTable(...
    'colnames', {'location', 'group', 'group_name', 'label'}, ...
    'description', 'all electrodes');

for iShank = 1:numShanks
    shankGroupName = sprintf('shank%d', iShank);
    electrodeGroup = types.core.ElectrodeGroup( ...
        'description', sprintf('electrode group for %s', shankGroupName), ...
        'location', 'brain area', ...
        'device', types.untyped.SoftLink(device) ...
    );
    
    nwb.general_extracellular_ephys.set(shankGroupName, electrodeGroup);
    for iElectrode = 1:numChannelsPerShank
        electrodesDynamicTable.addRow( ...
            'location', 'unknown', ...
            'group', types.untyped.ObjectView(electrodeGroup), ...
            'group_name', shankGroupName, ...
            'label', sprintf('%s-electrode%d', shankGroupName, iElectrode));
    end
end
electrodesDynamicTable.toTable() % Display the table

ans =

  12x5 table

    id     location                 group                group_name            label        
    __    ___________    ____________________________    __________    _____________________

     0    {'unknown'}    1x1 types.untyped.ObjectView    {'shank1'}    {'shank1-electrode1'}
     1    {'unknown'}    1x1 types.untyped.ObjectView    {'shank1'}    {'shank1-electrode2'}
     2    {'unknown'}    1x1 types.untyped.ObjectView    {'shank1'}    {'shank1-electrode3'}
     3    {'unknown'}    1x1 types.untyped.ObjectView    {'shank2'}    {'shank2-electrode1'}
     4    {'unknown'}    1x1 types.untyped.ObjectView    {'shank2'}    {'shank2-electrode2'}
     5    {'unknown'}    1x1 types.untyped.ObjectView    {'shank2'}    {'shank2-electrode3'}
     6    {'unknown'}    1x1 types.untyped.ObjectView    {'shank3'}    {'shank3-electrode1'}
     7    {'unknown'}    1x1 types.untyped.ObjectView    {'shank3'}    {'shank3-electrode2'}
     8    {'unknown'}    1x1 types.untyped.ObjectView    {'shank3'}    {'shank3-electrode3'}
     9    {'unknown'}    1x1 types.untyped.ObjectView    {'shank4'}    {'shank4-electrode1'}
    10    {'unknown'}    1x1 types.untyped.ObjectView    {'shank4'}    {'shank4-electrode2'}
    11    {'unknown'}    1x1 types.untyped.ObjectView    {'shank4'}    {'shank4-electrode3'}

>> nwb.general_extracellular_ephys_electrodes = electrodesDynamicTable;
>> nwbExport(nwb, 'test.nwb');
Warning: Namespace is missing:
  core
  hdmf-common 
> In io.spec.validateEmbeddedSpecifications>checkMissingNamespaces (line 33)
In io.spec.validateEmbeddedSpecifications (line 18)
In NwbFile/embedSpecifications (line 174)
In NwbFile/export (line 77)
In nwbExport (line 52) 
>> test = nwbRead('test.nwb');
>> test.general_extracellular_ephys_electrodes.toTable
Error using horzcat
Dimensions of arrays being concatenated are not consistent.

Error in types.util.dynamictable.nwbToTable (line 89)
matlabTable = matlabTable(:, [{'id'}, columns]);
                              ^^^^^^
Error in types.hdmf_common.DynamicTable/toTable (line 145)
        table = types.util.dynamictable.nwbToTable(obj, varargin{:});
                ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
 
>>

Error Message

Error using horzcat
Dimensions of arrays being concatenated are not consistent.

Error in types.util.dynamictable.nwbToTable (line 89)
matlabTable = matlabTable(:, [{'id'}, columns]);
                              ^^^^^^
Error in types.hdmf_common.DynamicTable/toTable (line 145)
        table = types.util.dynamictable.nwbToTable(obj, varargin{:});
                ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^

Operating System

Windows

Matlab Version

'24.2.0.2871072 (R2024b) Update 5'

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[ehennestad]

Thanks for reporting this, it should be fixed now!