Problems of import a .pl2 file

weipenghu2005 · March 5, 2021, 12:54pm

Hi,

I am trying to import a .pl2 file into the brainstorm. As indicated by the tutorial, I set pass to the SDK package, and review the raw file. However, I received an error report as the following,

Is there any method of solving the problem?
Many thanks!

Peng-Hu

Francois · March 5, 2021, 2:04pm

Could you please share a short example file?
(upload it somewhere and post the download link here)

weipenghu2005 · March 6, 2021, 1:29am

Hi, Francois,

Here is the link,

https://www.dropbox.com/s/t1syklaneh48i92/2021-03-01.pl2?dl=0

Many thanks,

Peng-Hu Wei

Francois · March 8, 2021, 11:28am

Thank you for the example file.
Indeed, it seems that there is something wrong in the Brainstorm reader.

@mpompolas @MartinC
Could you check your code with the attached file?
Since you have some experience with this file format and this SDK, you might be much more efficient, and I will avoid damaging your existing use cases.
It seems like AnalogChannels{i}.NumValues is not the appropriate place to get the number of samples, since it is set to zero in the example while it is possible to read data from this file with PL2ReadFirstDataBlock.

github.com

brainstorm-tools/brainstorm3/blob/master/toolbox/io/in_fopen_plexon.m#L111


    hdr.isMiscChannels = isMiscChannels;
    
elseif strcmpi(plexonFormat, '.pl2')
    %% Read using Plexon SDK
    if exist('PL2GetFileIndex', 'file') ~= 2
        error(['Please install Plexon''s Matlab offline files SDK.' 10 ...
            'More information here: https://neuroimage.usc.edu/brainstorm/e-phys/Introduction#Importing_PL2_Plexon_files']);
    end
    
    % Read metadata
    newHeader = PL2GetFileIndex(DataFile);
    hdr.chan_headers = cell2mat(newHeader.AnalogChannels);
    newHeader.EventChannels = cell2mat(newHeader.EventChannels);
    CHANNELS_SELECTED = find([hdr.chan_headers.Enabled]);
    one_channel = hdr.chan_headers(CHANNELS_SELECTED(1));
    isMiscChannels = ~isDataChannel({hdr.chan_headers(CHANNELS_SELECTED).Name});
    
    % Extract header
    hdr.NumSamples        = one_channel.NumValues;
    hdr.SamplingFrequency = one_channel.SamplesPerSecond;
    hdr.FirstTimeStamp    = 0;

mpompolas · March 19, 2021, 12:31pm

Hi @weipenghu2005.

Please update Brainstorm and try again