Patch test databases

Source: master branches of all relevant Ensembl repositories as of 10:00
today. This brings all test databases at hand to schema version 100.

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

@@ -108,4 +108,4 @@
 4000	MEDLINE	1	KNOWN	5	MEDLINE	LIT	\N	\N	\N
 4100	UniGene	1	KNOWN	5	UniGene	MISC	\N	\N	\N
 4200	RFAM	1	XREF	5	RFAM	MISC	\N	\N	\N
-11000	UCSC	\N	KNOWNXREF	100	UCSC Stable ID	MISC	\N	\N	\N
+11000	UCSC		KNOWNXREF	100	UCSC Stable ID	MISC	\N	\N	\N

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

@@ -113,3 +113,4 @@
 180	\N	patch	patch_97_98_a.sql|schema_version
 188	\N	patch	patch_98_99_a.sql|schema_version
 189	\N	patch	patch_99_100_a.sql|schema_version
+190	\N	patch	patch_99_100_b.sql|alter_externaldb_type_notnull

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

@@ -284,7 +284,7 @@ CREATE TABLE `external_db` (
   `status` enum('KNOWNXREF','KNOWN','XREF','PRED','ORTH','PSEUDO') COLLATE latin1_bin NOT NULL DEFAULT 'KNOWNXREF',
   `priority` int(11) NOT NULL DEFAULT 0,
   `db_display_name` varchar(255) COLLATE latin1_bin DEFAULT NULL,
-  `type` enum('ARRAY','ALT_TRANS','ALT_GENE','MISC','LIT','PRIMARY_DB_SYNONYM','ENSEMBL') COLLATE latin1_bin DEFAULT NULL,
+  `type` enum('ARRAY','ALT_TRANS','ALT_GENE','MISC','LIT','PRIMARY_DB_SYNONYM','ENSEMBL') COLLATE latin1_bin NOT NULL,
   `secondary_db_name` varchar(255) COLLATE latin1_bin DEFAULT NULL,
   `secondary_db_table` varchar(255) COLLATE latin1_bin DEFAULT NULL,
   `description` text COLLATE latin1_bin DEFAULT NULL,
@@ -490,7 +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=190 DEFAULT CHARSET=latin1;
+) ENGINE=MyISAM AUTO_INCREMENT=191 DEFAULT CHARSET=latin1;
 
 CREATE TABLE `meta_coord` (
   `table_name` varchar(40) COLLATE latin1_bin NOT NULL DEFAULT '',

modules/t/test-genome-DBs/multi/compara/meta.txt

-65	\N	schema_version	99
+69	\N	schema_version	100
 2	\N	schema_type	compara
 3	\N	patch	patch_84_85_a.sql|schema_version
 4	\N	patch	patch_84_85_b.sql|gene_tree_root_attr
@@ -54,3 +54,4 @@
 66	\N	patch	patch_97_98_a.sql|schema_version
 67	\N	patch	patch_97_98_b.sql|division_name
 68	\N	patch	patch_98_99_a.sql|schema_version
+70	\N	patch	patch_99_100_a.sql|schema_version

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

@@ -428,7 +428,7 @@ CREATE TABLE `meta` (
   PRIMARY KEY (`meta_id`),
   UNIQUE KEY `species_key_value_idx` (`species_id`,`meta_key`,`meta_value`(255)),
   KEY `species_value_idx` (`species_id`,`meta_value`(255))
-) ENGINE=MyISAM AUTO_INCREMENT=69 DEFAULT CHARSET=latin1;
+) ENGINE=MyISAM AUTO_INCREMENT=71 DEFAULT CHARSET=latin1;
 
 CREATE TABLE `method_link` (
   `method_link_id` int(10) unsigned NOT NULL AUTO_INCREMENT,

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

@@ -191,3 +191,4 @@
 1703	\N	patch	patch_97_98_a.sql|schema_version
 1704	\N	patch	patch_98_99_a.sql|schema_version
 1705	\N	patch	patch_99_100_a.sql|schema_version
+1706	\N	patch	patch_99_100_b.sql|alter_externaldb_type_notnull

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

@@ -284,7 +284,7 @@ CREATE TABLE `external_db` (
   `status` enum('KNOWNXREF','KNOWN','XREF','PRED','ORTH','PSEUDO') COLLATE latin1_bin NOT NULL DEFAULT 'KNOWNXREF',
   `priority` int(11) NOT NULL DEFAULT 0,
   `db_display_name` varchar(255) COLLATE latin1_bin DEFAULT NULL,
-  `type` enum('ARRAY','ALT_TRANS','ALT_GENE','MISC','LIT','PRIMARY_DB_SYNONYM','ENSEMBL') COLLATE latin1_bin DEFAULT NULL,
+  `type` enum('ARRAY','ALT_TRANS','ALT_GENE','MISC','LIT','PRIMARY_DB_SYNONYM','ENSEMBL') COLLATE latin1_bin NOT NULL,
   `secondary_db_name` varchar(255) COLLATE latin1_bin DEFAULT NULL,
   `secondary_db_table` varchar(255) COLLATE latin1_bin DEFAULT NULL,
   `description` text COLLATE latin1_bin DEFAULT NULL,
@@ -490,7 +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=1706 DEFAULT CHARSET=latin1;
+) ENGINE=MyISAM AUTO_INCREMENT=1707 DEFAULT CHARSET=latin1;
 
 CREATE TABLE `meta_coord` (
   `table_name` varchar(40) COLLATE latin1_bin NOT NULL DEFAULT '',