SRMR1_02_esg_prepro.m~

% Author: Birgit Nierula 
% nierula@cbs.mpg.de

%% SRMR1: ESG preprocessing - wrapper script

clear; clc

%% variables that need to be changed
% loop
for loop_number = 1:2
    
    % subject index
    subject_idx = [];


    %% define variables and paths
    % experiment
    srmr_nr = 1;
    % conditions
    if loop_number < 3
        conditions = 1:3;
    else
        conditions = 2:3;
    end
    % subjects
    subjects = 1:36;
    if ~isempty(subject_idx)
        new_subjects = subjects(subject_idx);
    else
        new_subjects = subjects;
    end
    subjects = new_subjects
    % sampling rate
    sampling_rate = 1000;

    % set paths
    datadir = '/data/p_02068/SRMR1_experiment/analyzed_data/';
    anadir = '/data/pt_02068/analysis/final/';
    bidsdir = '/data/p_02068/SRMR1_experiment/bids/';
    setenv('CFGDIR', '/data/pt_02068/analysis/manuscript_sep/scripts/cfg_srmr1/')

    setenv('RAWDIR', bidsdir) % here is the raw data
    setenv('RPKDIR', [datadir 'Rpeak_detected/']) % here R-peak detected data (holds only ECG channel and trigger info)
    setenv('ANADIR', [anadir 'tmp_data/']) % analysis directory
    setenv('ESGDIR', [datadir 'esg/']);
    setenv('EEGDIR', [datadir 'prepro_eeg_icaclean/'])
    setenv('BSDIR', [datadir 'bs/']);
    setenv('OTHERDIR', [datadir 'other/']);
    setenv('ZIMDIR', '/data/pt_02068/doc/LabBook_SRMR1/SRMR1/EXPERIMENT/preprocessing_ESG/');


    % settings for figures
    set(0, 'DefaulttextInterpreter', 'none')


    % add toolboxes and other sources for scripts
    addpath('/data/pt_02068/toolboxes/eeglab14_1_2b/') % eeglab toolbox
    eeglab  % start eeglab and close gui
    close


    % scripts 
    functions_path = '/data/pt_02068/analysis/manuscript_sep/scripts/functions/';
    addpath(genpath(functions_path)) % scripts

    delete(gcp('nocreate')) % clear parallel pool

    %% preprocessing loops
    esg_preprocessing_loops(loop_number, subjects, conditions, srmr_nr, sampling_rate)
end