Using Script to Import EEGLAB files - How to import with Condition folders

Discussions
1

Dear Brainstorm community,

So far, I've been manually using the GUI to import individual EEGLAB files which are already preprocessed and epoched. The data is an ERP study, with 4 conditions of interest, with the event values of interest under EEG.event.type being 'Go_Happy', 'Go_Angry', 'NoGo_Happy', and 'NoGo_Angry'.

When using the GUI to import, I can select these 4 conditions, and Brainstorm imports the epochs into their own unique event-named folders like this:

Screen Shot 2020-03-27 at 5.30.40 PM

I would like to however script this process using 'process_import_data_epoch'. I have tried many combinations of filling in the 'eventtypes' field, but I keep ending up with a generic folder with all the epochs under it like this:

Screen Shot 2020-03-27 at 5.33.06 PM
Screen Shot 2020-03-27 at 5.33.06 PM2090×1014 334 KB

This is my Conditions selection screen when using the GUI:

Screen Shot 2020-03-27 at 5.33.55 PM
Screen Shot 2020-03-27 at 5.33.55 PM1540×754 73.5 KB

and the Import EEG-EEGLAB file screen:

Screen Shot 2020-03-27 at 5.34.30 PM
Screen Shot 2020-03-27 at 5.34.30 PM1630×906 109 KB

Any help as to what I can do to get the epochs into their individual condition folders while using the script would be greatly appreciated.

Thank you,
Paul

2

You need to enter only "type" as the option "Event types", together with the option "Create one condition for each event type".

Example for a file where I want to use the parameter "cell" to classify my epochs:

image

image
image800×428 16.2 KB

From the pipeline editor, it looks like this:

image
image462×605 16.2 KB

The output structure in the database explorer:
image

1 Like
3

(watch out for the additional input parameters: the DC offset correction must be added as a separate process - in my example, the GUI version is corrected but not the script version)

4

Hi there,
I am trying to do the same, import with condition folders in scripting mode not through the gui. I have no problems with the gui, imports them perfectly but writing the code, I can't find the right combination in "process_import_data_epoch" to do that. Probably I am missing something very obvious...
My attempt is as follows:

sFiles = bst_process('CallProcess', 'process_import_data_epoch', sFiles, [], ...
    'ImportMode','Event',...
    'UseEvents', 1,...
    'TimeRange',[-3000,2990],... 
    'GetAllEpochs',1,...
    'eventstypes','type',...
    'subjectname',  SNames{sb}, ....
    'datafile',     {pFile, 'EEG-EEGLAB'}, ...
    'split',        0, ...
    'ignoreshort',  1, ...
    'channelalign', 0, ...
    'usectfcomp',   0, ...
    'usessp',       0, ...
    'freq',         [], ...
    'baseline',     []);

Any suggestions of what I am doing wrong will be appreciated, thanks!!

5

Probably I am missing something very obvious...

  • Update Brainstorm
  • Configure the process Import MEG/EEG: Existing epochs in order to obtain what you want (and make sure you really have existing epochs in the file, otherwise you need to select the "Events" process)
  • Generate the script for calling the process Import MEG/EEG: Existing epochs
  • Do not try to modify the list of parameters (this "GetAllEpochs" you added is not linked to anything). The process executed from the GUI or from a script do exactly the same thing. If there are issues that are not available in the process options, then they won't be available from a script.

Starting by reading the Scripting tutorial would probably help you:
https://neuroimage.usc.edu/brainstorm/Tutorials/Scripting#Starting_a_new_script

1 Like