Patch up compara and variation test DBs that seem to have been overlooked by the patcher

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

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 -- Created by SQL::Translator::Producer::SQLite
--- Created on Wed May 31 14:52:26 2017
+-- Created on Wed May 31 17:43:50 2017
 -- 
 
 BEGIN TRANSACTION;

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

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 -- Created by SQL::Translator::Producer::SQLite
--- Created on Wed May 31 14:52:31 2017
+-- Created on Wed May 31 17:43:54 2017
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 BEGIN TRANSACTION;

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

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 -- Created by SQL::Translator::Producer::SQLite
--- Created on Wed May 31 14:52:35 2017
+-- Created on Wed May 31 17:43:59 2017
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 BEGIN TRANSACTION;

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

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 -- Created by SQL::Translator::Producer::SQLite
--- Created on Wed May 31 14:52:40 2017
+-- Created on Wed May 31 17:44:04 2017
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 BEGIN TRANSACTION;

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

 1	\N	schema_type	variation
-2	\N	schema_version	88
+2	\N	schema_version	89
 3	\N	patch	patch_84_85_a.sql|schema version
 4	\N	patch	patch_84_85_b.sql|create sample_synonym
 5	\N	patch	patch_84_85_c.sql|drop column moltype from variation_synonym
@@ -16,3 +16,5 @@
 16	\N	patch	patch_86_87_a.sql|schema version
 17	\N	patch	patch_87_88_a.sql|schema version
 18	\N	patch	patch_87_88_b.sql|seq_region_name_255
+19	\N	patch	patch_88_89_a.sql|schema version
+20	\N	patch	patch_88_89_b.sql|Drop strain_gtype_poly table

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

@@ -168,7 +168,7 @@ 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=19 DEFAULT CHARSET=latin1;
+) ENGINE=MyISAM AUTO_INCREMENT=21 DEFAULT CHARSET=latin1;
 
 CREATE TABLE `meta_coord` (
   `table_name` varchar(40) NOT NULL,
@@ -404,12 +404,6 @@ CREATE TABLE `source` (
   PRIMARY KEY (`source_id`)
 ) ENGINE=MyISAM AUTO_INCREMENT=2 DEFAULT CHARSET=latin1;
 
-CREATE TABLE `strain_gtype_poly` (
-  `variation_id` int(10) unsigned NOT NULL,
-  `sample_name` varchar(100) DEFAULT NULL,
-  PRIMARY KEY (`variation_id`)
-) ENGINE=MyISAM DEFAULT CHARSET=latin1;
-
 CREATE TABLE `structural_variation` (
   `structural_variation_id` int(10) unsigned NOT NULL AUTO_INCREMENT,
   `variation_name` varchar(255) DEFAULT NULL,

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

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 -- Created by SQL::Translator::Producer::SQLite
--- Created on Wed May 31 14:52:44 2017
+-- Created on Wed May 31 17:44:08 2017
 -- 
 
 BEGIN TRANSACTION;

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

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 -- Created by SQL::Translator::Producer::SQLite
--- Created on Wed May 31 14:52:48 2017
+-- Created on Wed May 31 17:44:12 2017
 -- 
 
 BEGIN TRANSACTION;
@@ -360,7 +360,7 @@ CREATE TABLE genomic_align_block (
 --
 CREATE TABLE genomic_align_tree (
   node_id INTEGER PRIMARY KEY AUTOINCREMENT NOT NULL,
-  parent_id bigint NOT NULL DEFAULT 0,
+  parent_id bigint,
   root_id bigint NOT NULL DEFAULT 0,
   left_index integer NOT NULL DEFAULT 0,
   right_index integer NOT NULL DEFAULT 0,

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

-23	\N	schema_version	88
+33	\N	schema_version	89
 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
@@ -27,3 +27,5 @@
 30	\N	patch	patch_87_88_g.sql|genome_db.strain_name
 31	\N	patch	patch_87_88_h.sql|exon_boundaries
 32	\N	patch	patch_87_88_i.sql|genome_db.display_name
+34	\N	patch	patch_88_89_a.sql|schema_version
+35	\N	patch	patch_88_89_b.sql|genomic_align_tree_parent_id_null

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

@@ -330,7 +330,7 @@ CREATE TABLE `genomic_align_block` (
 
 CREATE TABLE `genomic_align_tree` (
   `node_id` bigint(20) unsigned NOT NULL AUTO_INCREMENT,
-  `parent_id` bigint(20) unsigned NOT NULL DEFAULT '0',
+  `parent_id` bigint(20) unsigned DEFAULT NULL,
   `root_id` bigint(20) unsigned NOT NULL DEFAULT '0',
   `left_index` int(10) NOT NULL DEFAULT '0',
   `right_index` int(10) NOT NULL DEFAULT '0',
@@ -434,7 +434,7 @@ 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=33 DEFAULT CHARSET=latin1;
+) ENGINE=MyISAM AUTO_INCREMENT=36 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/SQLite/table.sql

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 -- Created by SQL::Translator::Producer::SQLite
--- Created on Wed May 31 14:52:52 2017
+-- Created on Wed May 31 17:44:16 2017
 -- 
 
 BEGIN TRANSACTION;

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

 1	\N	schema_type	variation
-2	\N	schema_version	88
+2	\N	schema_version	89
 6	1	species.production_name	mus_musculus
 15	1	web_config	sv_study#Keane 2011 (DGVa study estd118)#Keane 2011#estd118
 14	1	web_config	set#All failed variants#All failed variants#variation_set_fail_all#failed
@@ -43,3 +43,5 @@
 49	\N	patch	patch_86_87_a.sql|schema version
 50	\N	patch	patch_87_88_a.sql|schema version
 51	\N	patch	patch_87_88_b.sql|seq_region_name_255
+52	\N	patch	patch_88_89_a.sql|schema version
+53	\N	patch	patch_88_89_b.sql|Drop strain_gtype_poly table

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

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 -- Created by SQL::Translator::Producer::SQLite
--- Created on Wed May 31 14:52:56 2017
+-- Created on Wed May 31 17:44:20 2017
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 BEGIN TRANSACTION;

modules/t/test-genome-DBs/ontology/ontology/SQLite/table.sql

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 -- Created by SQL::Translator::Producer::SQLite
--- Created on Wed May 31 14:52:58 2017
+-- Created on Wed May 31 17:44:22 2017
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 BEGIN TRANSACTION;

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

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 -- Created by SQL::Translator::Producer::SQLite
--- Created on Wed May 31 14:53:03 2017
+-- Created on Wed May 31 17:44:27 2017
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 BEGIN TRANSACTION;

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

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 -- Created by SQL::Translator::Producer::SQLite
--- Created on Wed May 31 14:53:07 2017
+-- Created on Wed May 31 17:44:31 2017
 -- 
 
 BEGIN TRANSACTION;