Update GUI and python definition

src/Import/acq/acqread_python.m

@@ -8,34 +8,41 @@
 %     import: the import struct of importing settings
 % ● History
 %   Introduced in PsPM 6.1.2
-%   Written in May 2024 by Madni Abdul Wahab (Uni Bonn)
-
+%   Written in May 2024 by Madni Abdul Wahab (Uni Bonn) and Teddy
+
+    %% Initialise python
+    if isempty(options.python_path)
+      psts = pspm_check_python;
+    else
+      psts = pspm_check_python(options.python_path);
+    end
+
     %% Set the Python environment and the filename
     py_filename = py.str(filename);
     acq_data = py.bioread.read(py_filename); % Load the data using Bioread
-    
+
     num_channels = length(acq_data.channels); % Determine the number of channels
     data.channels = cell(1, num_channels);
-    
+
     %% Iterate through each channel
     for idx = 1:num_channels
-        channel = acq_data.channels{idx}; 
-        data.channels{idx} = struct(); 
-        
+        channel = acq_data.channels{idx};
+        data.channels{idx} = struct();
+
         % Convert Python dir() list to MATLAB cell array
         attrs = cell(py.dir(channel));
-        
+
         % Convert all attributes to strings to ensure compatibility with startsWith
         attrs = cellfun(@char, attrs, 'UniformOutput', false);
-        
+
         % Manually filter out private attributes (those starting with '_') in MATLAB
         filtered_attrs = attrs(~startsWith(attrs, '_'));
-        
+
         % Iterate over attributes and fetch their values
         for attr_name = filtered_attrs
             % Python getattr to get attribute value
             attr_value = py.getattr(channel, attr_name{1});
-            
+
             % Try converting Python data types to MATLAB data types
             try
                 if isa(attr_value, 'py.numpy.ndarray')
@@ -55,10 +62,10 @@
             catch
                 matlab_value = []; % If conversion fails, set as empty
             end
-            
+
             % Assign converted value to the struct
             data.channels{idx}.(char(attr_name{1})) = matlab_value;
         end
     end
-    
+
     return;

src/pspm_get_acq_python.m

@@ -0,0 +1,34 @@
+function [sts, import, sourceinfo] = pspm_get_acq_python(datafile, import)
+% ● Description
+%   pspm_get_acq is the main function for import of biopac/acknowledge files
+% ● Format
+%   [sts, import, sourceinfo] = pspm_get_acq(datafile, import);
+%   this function uses the conversion routine acqread.m version 2.0 (2007-08-21)
+%   by Sebastien Authier and Vincent Finnerty at the University of Montreal
+%   which supports all files created with Windows/PC versions of
+%   AcqKnowledge (3.9.0 or below), BSL (3.7.0 or below), and BSL PRO
+%   (3.7.0 or below).
+% ● Arguments
+%   datafile: the acq data file
+%     import: the struct for importing settings
+%   .channel: data channels to be imported
+%      .type: data channel types to be imported
+%        .sr: sampling frequency
+%      .data: imported data
+%    .marker: imported markers
+% ● History
+%   Introduced in PsPM 6.1.2
+%   Written in 2024 by Teddy
+
+%% initialise
+global settings
+if isempty(settings)
+  pspm_init;
+end
+sts = -1;
+sourceinfo = [];
+addpath(pspm_path('Import','acq'));
+
+%% load data but suppress output
+[sts, data] = evalc('acqread_python(datafile)');
+end

src/pspm_init.m

@@ -373,6 +373,20 @@
   'autosr',           1,...
   'help',             helptext_import_acq);
 %
+% 4.10 bioread converted Biopac Acqknowledge (any version, with python)
+defaults.import.datatypes(end+1) = struct(...
+  'short',            'acq_python',...
+  'long',             'Biopac Acqknowledge (any version) with python',...
+  'ext',              'acq',...
+  'funct',            @pspm_get_acq_python,...
+  'channeltypes',        {{defaults.importchanneltypes.type}},...
+  'chandescription',  'channel',...
+  'multioption',      1,...
+  'searchoption',     1,...
+  'automarker',       0,...
+  'autosr',           1,...
+  'help',             helptext_import_acq_python);
+%
 % 4.8 exported Biopac Acqknowledge (tested on version 4.2.0)
 defaults.import.datatypes(end+1) = struct(...
   'short',            'acqmat',...

src/pspm_text.m

@@ -5,6 +5,7 @@ function pspm_text(path)
 %   Introduced in PsPM 6.0
 %   Written and maintained in 2022 by Teddy Chao (UCL)
 helptext_import_acq = '';
+helptext_import_acq_python = 'Load acq files directly to PsPM with Python';
 helptext_import_acqmat = '';
 helptext_import_bioread = 'Loads mat files which have been converted using the bioread tool acq2mat. Bioread can be installed using pip (installed by python) or can be downloaded and installed manually from here https://github.com/njvack/bioread. It requires python and the python libraries numpy and scipy.';
 helptext_import_csv = 'Read using comma as a delimiter.';