Merge f6ad172 into bc3c8e3

Ensembl · Aug 23, 2022 · b271182 · b271182
2 parents bc3c8e3 + f6ad172
commit b271182
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Showing 6 changed files with 12 additions and 6 deletions.
diff --git a/modules/t/test-genome-DBs/homo_sapiens/core/external_db.txt b/modules/t/test-genome-DBs/homo_sapiens/core/external_db.txt
@@ -109,3 +109,4 @@
 4100	UniGene	1	KNOWN	5	UniGene	MISC	\N	\N	\N
 4200	RFAM	1	XREF	5	RFAM	MISC	\N	\N	\N
 11000	UCSC		KNOWNXREF	100	UCSC Stable ID	MISC	\N	\N	\N
+0	GeneCards		XREF	50	GeneCards	MISC	\N	\N	\N
diff --git a/modules/t/test-genome-DBs/homo_sapiens/core/meta.txt b/modules/t/test-genome-DBs/homo_sapiens/core/meta.txt
@@ -1,4 +1,4 @@
-1	\N	schema_version	108
+1	\N	schema_version	109
 2	1	assembly.default	NCBI34
 3	1	species.taxonomy_id	9606
 26	1	species.classification	Homo sapiens
@@ -124,3 +124,5 @@
 198	\N	patch	patch_106_107_a.sql|schema_version
 199	\N	patch	patch_106_107_b.sql|Added index for seq_region_mapping
 200	\N	patch	patch_107_108_a.sql|schema_version
+201	\N	patch	patch_108_109_a.sql|schema_version
+202	\N	patch	patch_108_109_b.sql|Added xref source GeneCards into external_db
diff --git a/modules/t/test-genome-DBs/homo_sapiens/core/table.sql b/modules/t/test-genome-DBs/homo_sapiens/core/table.sql
@@ -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=201 DEFAULT CHARSET=latin1;
+) ENGINE=MyISAM AUTO_INCREMENT=203 DEFAULT CHARSET=latin1;
 
 CREATE TABLE `meta_coord` (
   `table_name` varchar(40) COLLATE latin1_bin NOT NULL DEFAULT '',

diff --git a/modules/t/test-genome-DBs/multi/compara/meta.txt b/modules/t/test-genome-DBs/multi/compara/meta.txt
@@ -1,4 +1,4 @@
-98	\N	schema_version	108
+100	\N	schema_version	109
 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
@@ -76,3 +76,5 @@
 96	\N	patch	patch_106_107_a.sql|schema_version
 97	\N	patch	patch_106_107_b.sql|case_sensitive_stable_id
 99	\N	patch	patch_107_108_a.sql|schema_version
+101	\N	patch	patch_108_109_a.sql|schema_version
+102	\N	patch	patch_108_109_b.sql|gene_member_qc_key
diff --git a/modules/t/test-genome-DBs/multi/compara/table.sql b/modules/t/test-genome-DBs/multi/compara/table.sql
@@ -176,15 +176,15 @@ CREATE TABLE `gene_member_hom_stats` (
 ) ENGINE=MyISAM DEFAULT CHARSET=latin1;
 
 CREATE TABLE `gene_member_qc` (
-  `gene_member_stable_id` varchar(128) CHARACTER SET latin1 COLLATE latin1_bin NOT NULL,
+  `gene_member_id` int(10) unsigned NOT NULL,
   `genome_db_id` int(10) unsigned NOT NULL,
   `seq_member_id` int(10) unsigned DEFAULT NULL,
   `n_species` int(11) DEFAULT NULL,
   `n_orth` int(11) DEFAULT NULL,
   `avg_cov` float DEFAULT NULL,
   `status` varchar(50) NOT NULL,
   KEY `genome_db_id` (`genome_db_id`),
-  KEY `gene_member_stable_id` (`gene_member_stable_id`)
+  KEY `gene_member_id` (`gene_member_id`)
 ) ENGINE=MyISAM DEFAULT CHARSET=latin1;
 
 CREATE TABLE `gene_tree_node` (
@@ -436,7 +436,7 @@ 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=100 DEFAULT CHARSET=latin1;
+) ENGINE=MyISAM AUTO_INCREMENT=103 DEFAULT CHARSET=latin1;
 
 CREATE TABLE `method_link` (
   `method_link_id` int(10) unsigned NOT NULL AUTO_INCREMENT,

diff --git a/modules/t/test-genome-DBs/mus_musculus/core/external_db.txt b/modules/t/test-genome-DBs/mus_musculus/core/external_db.txt
@@ -0,0 +1 @@
+0	GeneCards		XREF	50	GeneCards	MISC	\N	\N	\N