Annotation

src/scaffoldmaker/annotation/stellate_terms.py

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+"""
+Common resource for stellate annotation terms.
+"""
+
+# convention: preferred name, preferred id, followed by any other ids and alternative names
+stellate_terms = [
+    ( "stellate arm 1", None),
+    ( "stellate arm 2", None),
+    ( "stellate arm 3", None),
+    ( "stellate face 2-3", None),
+    ( "stellate face 1-2", None),
+    ( "stellate face 3-1", None),
+    ( "cervicothoracic ganglion", "UBERON:2441", "FMA:6469", "ILX:733799")
+    ]
+
+def get_stellate_term(name : str):
+    """
+    Find term by matching name to any identifier held for a term.
+    Raise exception if name not found.
+    :return ( preferred name, preferred id )
+    """
+    for term in stellate_terms:
+        if name in term:
+            return ( term[0], term[1] )
+    raise NameError("Stellate annotation term '" + name + "' not found.")