patched test dbs with patch_96_97_b and updated fixtures

modules/t/test-genome-DBs/circ/core/SQLite/table.sql

 -- 
 -- Created by SQL::Translator::Producer::SQLite
--- Created on Tue Feb 12 11:45:04 2019
+-- Created on Tue Feb 12 15:00:15 2019
 -- 
 
 BEGIN TRANSACTION;
@@ -142,7 +142,8 @@ CREATE TABLE "biotype" (
   "attrib_type_id" integer,
   "description" text,
   "biotype_group" enum,
-  "so_acc" varchar(64)
+  "so_acc" varchar(64),
+  "so_term" varchar(1023)
 );
 
 CREATE UNIQUE INDEX "name_type_idx" ON "biotype" ("name", "object_type");

modules/t/test-genome-DBs/circ/core/meta.txt

@@ -127,3 +127,4 @@
 127	\N	patch	patch_94_95_c.sql|ox_key_update
 128	\N	patch	patch_95_96_a.sql|schema_version
 129	\N	patch	patch_96_97_a.sql|schema_version
+130	\N	patch	patch_96_97_b.sql|biotype_so_term

modules/t/test-genome-DBs/circ/core/table.sql

@@ -114,6 +114,7 @@ CREATE TABLE `biotype` (
   `description` text,
   `biotype_group` enum('coding','pseudogene','snoncoding','lnoncoding','mnoncoding','LRG','undefined','no_group') DEFAULT NULL,
   `so_acc` varchar(64) DEFAULT NULL,
+  `so_term` varchar(1023) DEFAULT NULL,
   PRIMARY KEY (`biotype_id`),
   UNIQUE KEY `name_type_idx` (`name`,`object_type`)
 ) ENGINE=MyISAM DEFAULT CHARSET=latin1;
@@ -489,7 +490,7 @@ CREATE TABLE `meta` (
   PRIMARY KEY (`meta_id`),
   UNIQUE KEY `species_key_value_idx` (`species_id`,`meta_key`,`meta_value`),
   KEY `species_value_idx` (`species_id`,`meta_value`)
-) ENGINE=MyISAM AUTO_INCREMENT=130 DEFAULT CHARSET=latin1;
+) ENGINE=MyISAM AUTO_INCREMENT=131 DEFAULT CHARSET=latin1;
 
 CREATE TABLE `meta_coord` (
   `table_name` varchar(40) COLLATE latin1_bin NOT NULL DEFAULT '',

modules/t/test-genome-DBs/homo_sapiens/core/SQLite/table.sql

 -- 
 -- Created by SQL::Translator::Producer::SQLite
--- Created on Tue Feb 12 11:45:08 2019
+-- Created on Tue Feb 12 15:00:19 2019
 -- 
 
 BEGIN TRANSACTION;
@@ -142,7 +142,8 @@ CREATE TABLE "biotype" (
   "attrib_type_id" integer,
   "description" text,
   "biotype_group" enum,
-  "so_acc" varchar(64)
+  "so_acc" varchar(64),
+  "so_term" varchar(1023)
 );
 
 CREATE UNIQUE INDEX "name_type_idx" ON "biotype" ("name", "object_type");

modules/t/test-genome-DBs/homo_sapiens/core/biotype.txt

-64	protein_coding	gene	core,otherfeatures,rnaseq,vega,presite	\N	\N	coding	SO:0001217
-65	protein_coding	transcript	core,otherfeatures,rnaseq,vega,presite	\N	\N	coding	SO:0000234
-87	tRNA	gene	core,otherfeatures,presite	76	\N	snoncoding	SO:0001263
+64	protein_coding	gene	core,otherfeatures,rnaseq,vega,presite	\N	\N	coding	SO:0001217	protein_coding_gene
+65	protein_coding	transcript	core,otherfeatures,rnaseq,vega,presite	\N	\N	coding	SO:0000234	mRNA
+87	tRNA	gene	core,otherfeatures,presite	76	\N	snoncoding	SO:0001263	ncRNA_gene

modules/t/test-genome-DBs/homo_sapiens/core/meta.txt

@@ -106,3 +106,4 @@
 173	\N	patch	patch_94_95_c.sql|ox_key_update
 174	\N	patch	patch_95_96_a.sql|schema_version
 175	\N	patch	patch_96_97_a.sql|schema_version
+176	\N	patch	patch_96_97_b.sql|biotype_so_term

modules/t/test-genome-DBs/homo_sapiens/core/table.sql

@@ -114,6 +114,7 @@ CREATE TABLE `biotype` (
   `description` text,
   `biotype_group` enum('coding','pseudogene','snoncoding','lnoncoding','mnoncoding','LRG','undefined','no_group') DEFAULT NULL,
   `so_acc` varchar(64) DEFAULT NULL,
+  `so_term` varchar(1023) DEFAULT NULL,
   PRIMARY KEY (`biotype_id`),
   UNIQUE KEY `name_type_idx` (`name`,`object_type`)
 ) ENGINE=MyISAM AUTO_INCREMENT=88 DEFAULT CHARSET=latin1;
@@ -489,7 +490,7 @@ CREATE TABLE `meta` (
   PRIMARY KEY (`meta_id`),
   UNIQUE KEY `species_key_value_idx` (`species_id`,`meta_key`,`meta_value`),
   KEY `species_value_idx` (`species_id`,`meta_value`)
-) ENGINE=MyISAM AUTO_INCREMENT=176 DEFAULT CHARSET=latin1;
+) ENGINE=MyISAM AUTO_INCREMENT=177 DEFAULT CHARSET=latin1;
 
 CREATE TABLE `meta_coord` (
   `table_name` varchar(40) COLLATE latin1_bin NOT NULL DEFAULT '',

modules/t/test-genome-DBs/homo_sapiens/empty/SQLite/table.sql

 -- 
 -- Created by SQL::Translator::Producer::SQLite
--- Created on Tue Feb 12 11:45:11 2019
+-- Created on Tue Feb 12 15:00:22 2019
 -- 
 
 BEGIN TRANSACTION;
@@ -142,7 +142,8 @@ CREATE TABLE "biotype" (
   "attrib_type_id" integer,
   "description" text,
   "biotype_group" enum,
-  "so_acc" varchar(64)
+  "so_acc" varchar(64),
+  "so_term" varchar(1023)
 );
 
 CREATE UNIQUE INDEX "name_type_idx" ON "biotype" ("name", "object_type");

modules/t/test-genome-DBs/homo_sapiens/empty/meta.txt

@@ -106,3 +106,4 @@
 155	\N	patch	patch_94_95_c.sql|ox_key_update
 156	\N	patch	patch_95_96_a.sql|schema_version
 157	\N	patch	patch_96_97_a.sql|schema_version
+158	\N	patch	patch_96_97_b.sql|biotype_so_term

modules/t/test-genome-DBs/homo_sapiens/empty/table.sql

@@ -114,6 +114,7 @@ CREATE TABLE `biotype` (
   `description` text,
   `biotype_group` enum('coding','pseudogene','snoncoding','lnoncoding','mnoncoding','LRG','undefined','no_group') DEFAULT NULL,
   `so_acc` varchar(64) DEFAULT NULL,
+  `so_term` varchar(1023) DEFAULT NULL,
   PRIMARY KEY (`biotype_id`),
   UNIQUE KEY `name_type_idx` (`name`,`object_type`)
 ) ENGINE=MyISAM DEFAULT CHARSET=latin1;
@@ -489,7 +490,7 @@ CREATE TABLE `meta` (
   PRIMARY KEY (`meta_id`),
   UNIQUE KEY `species_key_value_idx` (`species_id`,`meta_key`,`meta_value`),
   KEY `species_value_idx` (`species_id`,`meta_value`)
-) ENGINE=MyISAM AUTO_INCREMENT=158 DEFAULT CHARSET=latin1;
+) ENGINE=MyISAM AUTO_INCREMENT=159 DEFAULT CHARSET=latin1;
 
 CREATE TABLE `meta_coord` (
   `table_name` varchar(40) COLLATE latin1_bin NOT NULL DEFAULT '',

modules/t/test-genome-DBs/homo_sapiens/patch/SQLite/table.sql

 -- 
 -- Created by SQL::Translator::Producer::SQLite
--- Created on Tue Feb 12 11:45:14 2019
+-- Created on Tue Feb 12 15:00:25 2019
 -- 
 
 BEGIN TRANSACTION;
@@ -142,7 +142,8 @@ CREATE TABLE "biotype" (
   "attrib_type_id" integer,
   "description" text,
   "biotype_group" enum,
-  "so_acc" varchar(64)
+  "so_acc" varchar(64),
+  "so_term" varchar(1023)
 );
 
 CREATE UNIQUE INDEX "name_type_idx" ON "biotype" ("name", "object_type");

modules/t/test-genome-DBs/homo_sapiens/patch/meta.txt

@@ -111,3 +111,4 @@
 2118	\N	patch	patch_94_95_c.sql|ox_key_update
 2119	\N	patch	patch_95_96_a.sql|schema_version
 2120	\N	patch	patch_96_97_a.sql|schema_version
+2121	\N	patch	patch_96_97_b.sql|biotype_so_term

modules/t/test-genome-DBs/homo_sapiens/patch/table.sql

@@ -114,6 +114,7 @@ CREATE TABLE `biotype` (
   `description` text,
   `biotype_group` enum('coding','pseudogene','snoncoding','lnoncoding','mnoncoding','LRG','undefined','no_group') DEFAULT NULL,
   `so_acc` varchar(64) DEFAULT NULL,
+  `so_term` varchar(1023) DEFAULT NULL,
   PRIMARY KEY (`biotype_id`),
   UNIQUE KEY `name_type_idx` (`name`,`object_type`)
 ) ENGINE=MyISAM DEFAULT CHARSET=latin1;
@@ -489,7 +490,7 @@ CREATE TABLE `meta` (
   PRIMARY KEY (`meta_id`),
   UNIQUE KEY `species_key_value_idx` (`species_id`,`meta_key`,`meta_value`),
   KEY `species_value_idx` (`species_id`,`meta_value`)
-) ENGINE=MyISAM AUTO_INCREMENT=2121 DEFAULT CHARSET=latin1;
+) ENGINE=MyISAM AUTO_INCREMENT=2122 DEFAULT CHARSET=latin1;
 
 CREATE TABLE `meta_coord` (
   `table_name` varchar(40) COLLATE latin1_bin NOT NULL DEFAULT '',

modules/t/test-genome-DBs/homo_sapiens/xref/SQLite/table.sql

 -- 
 -- Created by SQL::Translator::Producer::SQLite
--- Created on Tue Feb 12 11:45:15 2019
+-- Created on Tue Feb 12 15:00:26 2019
 -- 
 
 BEGIN TRANSACTION;

modules/t/test-genome-DBs/mapping/core/SQLite/table.sql

 -- 
 -- Created by SQL::Translator::Producer::SQLite
--- Created on Tue Feb 12 11:45:18 2019
+-- Created on Tue Feb 12 15:00:29 2019
 -- 
 
 BEGIN TRANSACTION;
@@ -142,7 +142,8 @@ CREATE TABLE "biotype" (
   "attrib_type_id" integer,
   "description" text,
   "biotype_group" enum,
-  "so_acc" varchar(64)
+  "so_acc" varchar(64),
+  "so_term" varchar(1023)
 );
 
 CREATE UNIQUE INDEX "name_type_idx" ON "biotype" ("name", "object_type");

modules/t/test-genome-DBs/mapping/core/meta.txt

@@ -67,3 +67,4 @@
 160	\N	patch	patch_94_95_c.sql|ox_key_update
 161	\N	patch	patch_95_96_a.sql|schema_version
 162	\N	patch	patch_96_97_a.sql|schema_version
+163	\N	patch	patch_96_97_b.sql|biotype_so_term

modules/t/test-genome-DBs/mapping/core/table.sql

@@ -114,6 +114,7 @@ CREATE TABLE `biotype` (
   `description` text,
   `biotype_group` enum('coding','pseudogene','snoncoding','lnoncoding','mnoncoding','LRG','undefined','no_group') DEFAULT NULL,
   `so_acc` varchar(64) DEFAULT NULL,
+  `so_term` varchar(1023) DEFAULT NULL,
   PRIMARY KEY (`biotype_id`),
   UNIQUE KEY `name_type_idx` (`name`,`object_type`)
 ) ENGINE=MyISAM DEFAULT CHARSET=latin1;
@@ -489,7 +490,7 @@ CREATE TABLE `meta` (
   PRIMARY KEY (`meta_id`),
   UNIQUE KEY `species_key_value_idx` (`species_id`,`meta_key`,`meta_value`),
   KEY `species_value_idx` (`species_id`,`meta_value`)
-) ENGINE=MyISAM AUTO_INCREMENT=163 DEFAULT CHARSET=latin1;
+) ENGINE=MyISAM AUTO_INCREMENT=164 DEFAULT CHARSET=latin1;
 
 CREATE TABLE `meta_coord` (
   `table_name` varchar(40) COLLATE latin1_bin NOT NULL DEFAULT '',

modules/t/test-genome-DBs/multi/compara/SQLite/table.sql

 -- 
 -- Created by SQL::Translator::Producer::SQLite
--- Created on Tue Feb 12 11:45:21 2019
+-- Created on Tue Feb 12 15:00:32 2019
 -- 
 
 BEGIN TRANSACTION;

modules/t/test-genome-DBs/mus_musculus/core/SQLite/table.sql

 -- 
 -- Created by SQL::Translator::Producer::SQLite
--- Created on Tue Feb 12 11:45:24 2019
+-- Created on Tue Feb 12 15:00:36 2019
 -- 
 
 BEGIN TRANSACTION;
@@ -142,7 +142,8 @@ CREATE TABLE "biotype" (
   "attrib_type_id" integer,
   "description" text,
   "biotype_group" enum,
-  "so_acc" varchar(64)
+  "so_acc" varchar(64),
+  "so_term" varchar(1023)
 );
 
 CREATE UNIQUE INDEX "name_type_idx" ON "biotype" ("name", "object_type");

modules/t/test-genome-DBs/mus_musculus/core/meta.txt

@@ -184,3 +184,4 @@
 1696	\N	patch	patch_94_95_c.sql|ox_key_update
 1697	\N	patch	patch_95_96_a.sql|schema_version
 1698	\N	patch	patch_96_97_a.sql|schema_version
+1699	\N	patch	patch_96_97_b.sql|biotype_so_term