From 44bdd5ed9683bfcbd5c4ea5cab6bd01a3d5a9499 Mon Sep 17 00:00:00 2001
From: tjc <tjc@ee4ac58c-ac51-4696-9907-e4b3aa274f04>
Date: Wed, 29 Jul 2009 09:00:40 +0000
Subject: [PATCH] sql for extra terms used by Artemis in chado

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11461 ee4ac58c-ac51-4696-9907-e4b3aa274f04
---
 etc/chado_extra.sql | 65 +++++++++++++++++++++++++++++++++++++++++++++
 1 file changed, 65 insertions(+)
 create mode 100644 etc/chado_extra.sql

diff --git a/etc/chado_extra.sql b/etc/chado_extra.sql
new file mode 100644
index 000000000..37ead6098
--- /dev/null
+++ b/etc/chado_extra.sql
@@ -0,0 +1,65 @@
+--
+-- Add extra terms used by Artemis with Chado
+--
+
+-- 
+-- add term for evidence codes
+--
+INSERT INTO dbxref 
+     ( db_id, accession ) 
+VALUES
+     ( (SELECT db_id FROM db WHERE name = 'null'), 'Typically an evidence code' );
+
+INSERT INTO cvterm 
+     ( cv_id,  name, dbxref_id ) 
+VALUES 
+     ( (SELECT cv_id FROM cv WHERE name ='feature_property'), 'evidence', 
+       (SELECT dbxref_id FROM dbxref WHERE accession='Typically an evidence code') );
+
+--
+-- database used for controlled curation terms
+--
+INSERT INTO db ( name ) VALUES (  'CCGEN' );
+
+-- 
+-- add terms for literature
+--
+INSERT INTO cv
+ ( name, definition) 
+VALUES
+ ( 'genedb_literature', 'terms for literature' );
+
+INSERT INTO dbxref 
+ ( db_id, accession ) 
+VALUES  
+ ( (SELECT db_id FROM db WHERE name = 'null'), 'unfetched literature type');
+
+INSERT INTO dbxref 
+ ( db_id, accession ) 
+VALUES  
+ ( (SELECT db_id FROM db WHERE name = 'null'), 'journal literature type' );
+
+INSERT INTO dbxref 
+ ( db_id, accession ) 
+VALUES   
+ ( (SELECT db_id FROM db WHERE name = 'null'), 'unknown literature type' );
+
+INSERT INTO cvterm 
+ ( cv_id, name, dbxref_id ) 
+VALUES 
+ ( (SELECT cv_id FROM cv WHERE name = 'genedb_literature'), 'unfetched', 
+   (SELECT dbxref_id FROM dbxref WHERE accession='unfetched literature type') );
+
+INSERT INTO cvterm 
+ ( cv_id, name, dbxref_id ) 
+VALUES 
+ ( (SELECT cv_id FROM cv WHERE name = 'genedb_literature'), 'journal', 
+   (SELECT dbxref_id FROM dbxref WHERE accession='journal literature type') );
+       
+INSERT INTO cvterm 
+ ( cv_id, name, dbxref_id ) 
+VALUES 
+ ( (SELECT cv_id FROM cv WHERE name = 'genedb_literature'), 'unknown', 
+   (SELECT dbxref_id FROM dbxref WHERE accession='unknown literature type') );
+
+
-- 
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