patch to bring in operon model tables

sql/patch_63_64_b.sql

+# patch_63_64_b.sql
+#
+# Title: Add tables for supporting operons
+#
+# Description:
+# Create operon, operon_transcript, operon_transcript_gene, operon_stable_id, operon_transcript_stable_id tables to represent Operon and OperonTranscript and to associated them with genes. Modify object_xref to allow xrefs to be attached to operon and operon_transcript
+
+CREATE TABLE operon (
+
+  operon_id                     INT(10) UNSIGNED NOT NULL AUTO_INCREMENT,
+  seq_region_id               INT(10) UNSIGNED NOT NULL,
+  seq_region_start            INT(10) UNSIGNED NOT NULL,
+  seq_region_end              INT(10) UNSIGNED NOT NULL,
+  seq_region_strand           TINYINT(2) NOT NULL,
+  display_label        		      VARCHAR(255) DEFAULT NULL,
+  analysis_id                 SMALLINT UNSIGNED NOT NULL,
+  PRIMARY KEY (operon_id),
+  KEY seq_region_idx (seq_region_id, seq_region_start),
+  KEY name_idx (display_label)
+
+) COLLATE=latin1_swedish_ci ENGINE=MyISAM;
+
+CREATE TABLE operon_transcript (
+
+  operon_transcript_id        INT(10) UNSIGNED NOT NULL AUTO_INCREMENT,
+  seq_region_id               INT(10) UNSIGNED NOT NULL,
+  seq_region_start            INT(10) UNSIGNED NOT NULL,
+  seq_region_end              INT(10) UNSIGNED NOT NULL,
+  seq_region_strand           TINYINT(2) NOT NULL,
+  operon_id                     INT(10) UNSIGNED NOT NULL,
+  display_label        		      VARCHAR(255) DEFAULT NULL,
+  analysis_id                 SMALLINT UNSIGNED NOT NULL,
+  PRIMARY KEY (operon_transcript_id),
+  KEY operon_idx (operon_id),
+  KEY seq_region_idx (seq_region_id, seq_region_start)
+
+) COLLATE=latin1_swedish_ci ENGINE=MyISAM;
+
+CREATE TABLE operon_transcript_gene (
+
+  operon_transcript_id        INT(10) UNSIGNED,
+  gene_id                     INT(10) UNSIGNED,
+
+  KEY operon_transcript_gene_idx (operon_transcript_id,gene_id)
+
+) COLLATE=latin1_swedish_ci ENGINE=MyISAM;
+
+CREATE TABLE operon_stable_id (
+
+  operon_id                     INT UNSIGNED NOT NULL,
+  stable_id                   VARCHAR(128) NOT NULL,
+  version                     INT(10),
+  created_date                DATETIME NOT NULL,
+  modified_date               DATETIME NOT NULL,
+
+  PRIMARY KEY (operon_id),
+  KEY stable_id_idx (stable_id, version)
+
+) COLLATE=latin1_swedish_ci ENGINE=MyISAM;
+
+CREATE TABLE operon_transcript_stable_id (
+
+  operon_transcript_id                     INT UNSIGNED NOT NULL,
+  stable_id                   VARCHAR(128) NOT NULL,
+  version                     INT(10),
+  created_date                DATETIME NOT NULL,
+  modified_date               DATETIME NOT NULL,
+
+  PRIMARY KEY (operon_transcript_id),
+  KEY stable_id_idx (stable_id, version)
+
+) COLLATE=latin1_swedish_ci ENGINE=MyISAM;
+
+alter table object_xref modify column ensembl_object_type ENUM('RawContig', 'Transcript', 'Gene', 'Translation', 'Operon', 'OperonTranscript');
+
+# Patch identifier
+INSERT INTO meta (species_id, meta_key, meta_value)
+  VALUES (NULL, 'patch', 'patch_63_64_b.sql|add_operons');
+