changed BidsConfig and FileSelection fields in the project toml file

Author: ReboreExplore

lslautobids/convert_to_bids_and_upload.py

@@ -335,7 +335,7 @@ def convert_to_bids(self, xdf_path,subject_id,session_id, run_id, task_id,other,
         # get the anonymization number from the toml file
         toml_path = os.path.join(project_root,project_name,project_name+'_config.toml')
         data = read_toml_file(toml_path)
-        anonymization_number = data["SubjectInfo"]["anonymizationNumber"]
+        anonymization_number = data["BidsConfig"]["anonymizationNumber"]
 
         # Write the raw data to BIDS in EDF format
         # BrainVision format weird memory issues

lslautobids/gen_project_config.py

@@ -23,13 +23,14 @@
     otherFilesUsed = true # Set to true if you want to include other (non-eeg-files) files (experiment files, other modalities like eye tracking) in the dataset, else false
     expectedOtherFiles = [".edf", ".csv", "_labnotebook.tsv", "_participantform.tsv"] # List of expected other file extensions. Only the expected files will be copied to the beh folder in BIDS dataset. Give an empty list [] if you don't want any other files to be in the dataset. In this case only experiment files will be zipeed and copied to the misc folder in BIDS dataset.
   
-  [SubjectInfo]
+  [FileSelection]
     ignoreSubjects = ['sub-777'] # List of subjects to ignore during the conversion - Leave empty to include all subjects. Changing this value will not delete already existing subjects.
-    allTasks = [] # List of all possible tasks in the dataset. This will automatically be updated when new tasks are found during the conversion.
     excludeTasks = ['sampletask'] # List of tasks to exclude from the conversion for all subjects - Leave empty to include all tasks. Changing this value will not delete already existing tasks.
-    anonymizationNumber = 123 # This is an anomization number that will be added to the recording date of all subjects.
     
-  """
+  [BidsConfig]
+    anonymizationNumber = 123 # This is an anomization number that will be added to the recording date of all subjects.
+
+   """
 
 
 

lslautobids/processing_new_files.py

@@ -49,14 +49,15 @@ def process_new_files(file_status: List[str],logger) -> None:
     toml_path = os.path.join(project_path, project_name + '_config.toml')
     data = read_toml_file(toml_path)
 
-    existing_tasks = set(data.get('SubjectInfo', {}).get('allTasks', []))
+    # existing_tasks = set(data.get('SubjectInfo', {}).get('allTasks', []))
 
-    # Add only new tasks
-    updated_tasks = list(existing_tasks.union(tasks))
+    # # Add only new tasks
+    # updated_tasks = list(existing_tasks.union(tasks))
 
-    # Save updated task list back to the config
-    data['SubjectInfo']['allTasks'] = updated_tasks
-    write_toml_file(toml_path, data)
+    # # Save updated task list back to the config
+    # data['FileSelection']['allTasks'] = updated_tasks
+    
+    # write_toml_file(toml_path, data)
 
     # User prompt asking if we want to proceed to convert and upload
     if cli_args.yes:
@@ -143,11 +144,11 @@ def check_for_new_data(logger) -> None:
     toml_path = os.path.join(project_path, cli_args.project_name + '_config.toml')
     data = read_toml_file(toml_path)
 
-    ignore_subjects = data["SubjectInfo"]["ignoreSubjects"]
+    ignore_subjects = data["FileSelection"]["ignoreSubjects"]
 
     logger.info("Ignored subjects: %s", ignore_subjects)
     file_status = check_for_new_files(project_path, ignore_subjects, logger)
-    ignore_tasks = data["SubjectInfo"]["excludeTasks"]
+    ignore_tasks = data["FileSelection"]["excludeTasks"]
 
     filtered_files = [
     f for f in file_status