started to re-define Identifiers table for storing synonyms

saezlab · Oct 17, 2024 · 8fb9020 · 8fb9020
1 parent 36de690
commit 8fb9020
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Showing 2 changed files with 6 additions and 3 deletions.
diff --git a/omnipath_metabo/schema/_main.py b/omnipath_metabo/schema/_main.py
@@ -126,8 +126,8 @@ def load(self):
         _log('inserting identifiers.')
         with raw_con.cursor() as cursor:
             query = """
-                    INSERT INTO identifiers (identifier, structure_id, resource_id) VALUES %s
-                    """
+                INSERT INTO identifiers (identifier, structure_id, resource_id, id_type) VALUES %s
+                """
             psycopg2.extras.execute_values(cursor, query, insert_ids, page_size = 1000)
 
 

diff --git a/omnipath_metabo/schema/_structure.py b/omnipath_metabo/schema/_structure.py
@@ -1,4 +1,4 @@
-from sqlalchemy import create_engine, Column, ForeignKey, Integer, String, types
+from sqlalchemy import Boolean, create_engine, Column, ForeignKey, Integer, String, types
 from sqlalchemy.orm import relationship
 from ._base import Base
 from pypath.inputs import hmdb, swisslipids, lipidmaps, ramp
@@ -29,6 +29,9 @@ class Identifier(Base):
         nullable = False,
     )
     resource_id = Column(Integer, ForeignKey('resources.id'), nullable = False)
+    authoritative = Column(Boolean)
+    id_type = Column(Integer, ForeignKey('resources.id'), nullable = False)
+
 
 
 class Resource(Base):