Ensure that the environ variable of database location is used through out.

databases/cpt_descriptions.sql

@@ -0,0 +1,49 @@
+create table cpt_descriptions as 
+with short_desc as (
+select
+code, 
+str as short_desc
+from mrconso
+where SAB = 'CPT' and tty='AB' ),
+consumer_desc as (
+select
+code, 
+str as consumer_desc
+from mrconso
+where SAB = 'CPT' and tty='ETCF'
+),
+clinician_desc as (
+select
+code, 
+str as clinician_desc
+from mrconso
+where SAB = 'CPT' and tty='ETCLIN'
+),
+medium_descriptor as (
+select
+code, 
+str as medium_desc
+from mrconso
+where SAB = 'CPT' and tty='SY'),
+full_descriptor as (
+select
+code, 
+str as full_desc
+from mrconso
+where SAB = 'CPT' and tty='PT'
+)
+
+SELECT 
+sd.code,
+short_desc,
+consumer_desc,
+clinician_desc,
+medium_desc,
+full_desc
+
+from short_desc sd
+    join consumer_desc cd on sd.code = cd.code
+    join clinician_desc cl_d on sd.code = cl_d.code
+    join medium_descriptor md on sd.code = md.code
+    join full_descriptor fd on sd.code = fd.code
+;

databases/umls.sh

@@ -109,6 +109,8 @@ if [ ! -e umls.db ]; then
 	sqlite3 umls.db "ALTER TABLE descriptions ADD COLUMN STY TEXT"
 	sqlite3 umls.db "CREATE INDEX X_CUI_desc ON descriptions (CUI)"
 	sqlite3 umls.db "UPDATE descriptions SET STY = (SELECT GROUP_CONCAT(MRSTY.TUI, '|') FROM MRSTY WHERE MRSTY.CUI = descriptions.CUI GROUP BY MRSTY.CUI)"
+	sqlite3 umls.db "CREATE INDEX sab_tty on mrconso(sab,tty)"
+	sqlite3 umls.db ".read databases/cpt_descriptions.sql"
 else
 	echo "=> umls.db already exists"
 fi