✨ Add some handling for user-defined BIDSy atlases

CHANGELOG.md

@@ -16,6 +16,10 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 ## [unreleased]
 
+## Added
+
+- Some automatic handling of user-provided BIDSy atlas names.
+
 ## Fixed
 
 - Fixed a bug where some connectivity matrices wouldn't generate if anatomical and functional outputs were in different resolutions.

CPAC/resources/templates/lookup_table.py

@@ -1,4 +1,4 @@
-# Copyright (C) 2022  C-PAC Developers
+# Copyright (C) 2022-2023  C-PAC Developers
 
 # This file is part of C-PAC.
 
@@ -20,6 +20,7 @@
 from os import path as op
 from re import search
 from typing import Optional
+from bids.layout import parse_file_entities
 from numpy import loadtxt
 from CPAC.utils.typing import TUPLE
 
@@ -81,8 +82,15 @@ def lookup_identifier(template_path: str) -> TUPLE[str, None]:
     ('template', None)
     >>> lookup_identifier('/cpac_templates/CC200.nii.gz')
     ('CC', '200')
+    >>> lookup_identifier('s3://templateflow/tpl-MNI152NLin2009cAsym/'
+    ...                   'tpl-MNI152NLin2009cAsym_res-02_atlas-Schaefer2018_'
+    ...                   'desc-200Parcels17Networks_dseg.nii.gz")
+    ('Schaefer2018', '200Parcels17Networks')
     '''
     for key, value in LOOKUP_TABLE.items():
         if search(key, template_path) is not None:
             return value
+    _bidsy = parse_file_entities(template_path)
+    if 'atlas' in _bidsy:
+        return _bidsy['atlas'], _bidsy.get('desc')
     return 'template', None