Looping multiple files (.rhs) to convert to (.edf) using script

Discussions
1

this is the code I am using:

folder = 'C:\Users\garim\RHS';
all_files = dir(fullfile(folder, '*.rhs')); % Get all .rhs files in the folder

if isempty(all_files)
    disp('No .rhs files found in the folder.');
else
    new_filenames = cell(length(all_files), 1); % Preallocate cell array to store new filenames

    for i = 1:length(all_files)
        old_filepath = fullfile(folder, all_files(i).name);
        new_filepath = [old_filepath '_BS.edf']; % Append "_BS.edf" suffix to the original filename
        movefile(old_filepath, new_filepath); % Rename the file
        new_filenames{i} = new_filepath; % Store the new filename with full path
    end
end

% Update all_files to include full paths
for i = 1:length(all_files)
    all_files(i).name = new_filenames{i};
end

% Display the updated original filenames and the new filenames
disp('Updated Original Filenames with Full Paths:');
disp({all_files.name}');
disp('New Filenames with Full Paths:');
disp(new_filenames);



%RawFiles = cell(length(all_files), 1); % Preallocate cell array to store pairs of filenames

for i = 1:length(all_files)
    sFiles = [];
    SubjectNames = {...
    'NewSubject'};
    RawFiles = {all_files(i).name, new_filenames{i}};

% Start a new report
bst_report('Start', sFiles);

% Process: Create link to raw file
sFiles = bst_process('CallProcess', 'process_import_data_raw', sFiles, [], ...
    'subjectname',    SubjectNames{i}, ...
    'datafile',       {RawFiles{i}, 'EEG-INTAN'}, ...
    'channelreplace', 1, ...
    'channelalign',   1, ...
    'evtmode',        'value');

% Process: DC offset correction: [0.000s,total duration]
sFiles = bst_process('CallProcess', 'process_baseline', sFiles, [], ...
    'baseline',    [0, ], ...
    'sensortypes', 'MEG, EEG', ...
    'method',      'bl', ...  % DC offset correction:    x_std = x - μ
    'read_all',    0);

% Process: Notch filter: 50Hz
sFiles = bst_process('CallProcess', 'process_notch', sFiles, [], ...
    'sensortypes', 'MEG, EEG', ...
    'freqlist',    50, ...
    'cutoffW',     1, ...
    'useold',      0, ...
    'read_all',    0);

% Process: Band-pass:1Hz-70Hz
sFiles = bst_process('CallProcess', 'process_bandpass', sFiles, [], ...
    'sensortypes', 'MEG, EEG', ...
    'highpass',    1, ...
    'lowpass',     70, ...
    'tranband',    0, ...
    'attenuation', 'strict', ...  % 60dB
    'ver',         '2019', ...  % 2019
    'mirror',      0, ...
    'read_all',    0);

% Process: Export to file: Raw
sFiles = bst_process('CallProcess', 'process_export_file', sFiles, [], ...
    'exportraw', {RawFiles{i}, 'EEG-EDF'});

% Save and display report
ReportFile = bst_report('Save', sFiles);
bst_report('Open', ReportFile);
% bst_report('Export', ReportFile, ExportDir);
% bst_report('Email', ReportFile, username, to, subject, isFullReport);

% Delete temporary files
% gui_brainstorm('EmptyTempFolder');

end

It doesnt solve the issue plus gives an error:

Screenshot 2024-05-11 005747
Screenshot 2024-05-11 005747875×677 21.8 KB

2

This happens because of the unexpected extension.
Brainstorm uses either the old or the new InTan reader, and the selection of the reader depends on the extension of the file. .rhd (new reader) or .rhs (old reader).

In your case, for an arbitrary and unclear reason the extension of the Intant files is changed from .rhs to .edf. So, no reader can be chosen for that file.

FYI. This error is not possible through the GUI as Brainstorm verifies that the extension of the files matches the file format.

3

I have been trying to loop across this script multiple files at once but failing miserably, kindly help fix the issue please.

4

Hi @Kshitij, in my comment above I provided all the information that is required to understand what is the issue with script that you shared. If you are not experienced in writing Matlab scripts, check this list of Matlab resources:
brainstorm3/CONTRIBUTING.md at master · brainstorm-tools/brainstorm3 · GitHub

Keep in mind that the goal of the forum is to provide support on Brainstorm usage, rather than Matlab support