Merge pull request #151 from mlin865/flatStomach

Flat stomach
ABI-Software · Jul 13, 2021 · f2e8fa4 · f2e8fa4
2 parents fd541e3 + 7999a63
commit f2e8fa4
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Showing 3 changed files with 449 additions and 15 deletions.
diff --git a/src/scaffoldmaker/annotation/stomach_terms.py b/src/scaffoldmaker/annotation/stomach_terms.py
@@ -4,23 +4,37 @@
 
 # convention: preferred name, preferred id, followed by any other ids and alternative names
 stomach_terms = [
+    ( "antrum on serosa split margin", "None"),
     ( "body of stomach", "UBERON:0001161", " FMA:14560", "ILX:0724929"),
+    ( "body on serosa split margin", "None"),
     ( "cardia of stomach", "UBERON:0001162", " FMA:14561", "ILX:0729096"),
+    ( "dorsal stomach", "None"),
     ( "duodenum", "UBERON:0002114", " FMA:7206", "ILX:0726125"),
     ( "duodenum on greater curvature", "None"),
     ( "esophagus", "UBERON:0001043", "FMA: 7131", "ILX:0735017"),
+    ( "esophagus on serosa split margin", "None"),
     ( "esophagogastric junction", "UBERON:0007650", "FMA: 9434", "ILX:0733910"),
     ( "forestomach-glandular stomach junction", "UBERON:0012270", "ILX:0729974"),
     ( "forestomach-glandular stomach junction on inner wall", "None"),
     ( "forestomach-glandular stomach junction on outer wall", "None"),
     ( "fundus of stomach", "UBERON:0001160", " FMA:14559", "ILX:0724443"),
+    ( "fundus on serosa split margin", "None"),
     ( "gastro-esophagal junction on lesser curvature", "None"),
+    #( "greater curvature of stomach", "UBERON:0001164", "FMA: 14574", "ILX:0724395"),
     ( "junction between fundus and body on greater curvature", "None"),
+    # ( "lesser curvature of stomach", "UBERON:0001163", "FMA: 14572", "ILX:0733753"),
     ( "limiting ridge on greater curvature", "None"),
+    ( "mucosa of stomach", "UBERON:0001199", "FMA:14907", "ILX:0736669"),
     ( "pylorus", "UBERON:0001166", " FMA:14581", "ILX:0734150"),
     ( "pyloric antrum", "UBERON:0001165", " FMA:14579", "ILX:0728672"),
     ( "pylorus on greater curvature", "None"),
-    ( "stomach", "UBERON:0000945", "FMA:7148", "ILX:0736697")
+    ( "pylorus on serosa split margin", "None"),
+    ( "serosa of dorsal stomach", "None"),
+    ( "serosa of stomach", "UBERON:0001201", "FMA:14914", "ILX:0735818"),
+    ( "serosa split margin", "None"),
+    ( "serosa of ventral stomach", "None"),
+    ( "stomach", "UBERON:0000945", "FMA:7148", "ILX:0736697"),
+    ( "ventral stomach", "None"),
     ]
 
 def get_stomach_term(name : str):