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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,387 @@ | ||
| -- MySQL dump 10.13 Distrib 8.0.21, for Win64 (x86_64) | ||
| -- | ||
| -- Host: localhost Database: ramp | ||
| -- ------------------------------------------------------ | ||
| -- Server version 8.0.28 | ||
|
|
||
| /*!40101 SET @OLD_CHARACTER_SET_CLIENT=@@CHARACTER_SET_CLIENT */; | ||
| /*!40101 SET @OLD_CHARACTER_SET_RESULTS=@@CHARACTER_SET_RESULTS */; | ||
| /*!40101 SET @OLD_COLLATION_CONNECTION=@@COLLATION_CONNECTION */; | ||
| /*!50503 SET NAMES utf8 */; | ||
| /*!40103 SET @OLD_TIME_ZONE=@@TIME_ZONE */; | ||
| /*!40103 SET TIME_ZONE='+00:00' */; | ||
| /*!40014 SET @OLD_UNIQUE_CHECKS=@@UNIQUE_CHECKS, UNIQUE_CHECKS=0 */; | ||
| /*!40014 SET @OLD_FOREIGN_KEY_CHECKS=@@FOREIGN_KEY_CHECKS, FOREIGN_KEY_CHECKS=0 */; | ||
| /*!40101 SET @OLD_SQL_MODE=@@SQL_MODE, SQL_MODE='NO_AUTO_VALUE_ON_ZERO' */; | ||
| /*!40111 SET @OLD_SQL_NOTES=@@SQL_NOTES, SQL_NOTES=0 */; | ||
|
|
||
| -- | ||
| -- Table structure for table `analyte` | ||
| -- | ||
|
|
||
| DROP TABLE IF EXISTS `analyte`; | ||
| /*!40101 SET @saved_cs_client = @@character_set_client */; | ||
| /*!50503 SET character_set_client = utf8mb4 */; | ||
| CREATE TABLE `analyte` ( | ||
| `rampId` varchar(30) NOT NULL, | ||
| `type` varchar(30) DEFAULT NULL, | ||
| PRIMARY KEY (`rampId`), | ||
| KEY `analyte_rampId_RampID_IDX` (`rampId`) USING BTREE | ||
| ) ENGINE=InnoDB DEFAULT CHARSET=utf8mb3; | ||
| /*!40101 SET character_set_client = @saved_cs_client */; | ||
|
|
||
| -- | ||
| -- Table structure for table `analytehasontology` | ||
| -- | ||
|
|
||
| DROP TABLE IF EXISTS `analytehasontology`; | ||
| /*!40101 SET @saved_cs_client = @@character_set_client */; | ||
| /*!50503 SET character_set_client = utf8mb4 */; | ||
| CREATE TABLE `analytehasontology` ( | ||
| `rampCompoundId` varchar(30) DEFAULT NULL, | ||
| `rampOntologyId` varchar(30) DEFAULT NULL, | ||
| KEY `analyte_ont_ramp_id_idx` (`rampCompoundId`), | ||
| KEY `analyte_ont_id_idx` (`rampOntologyId`) | ||
| ) ENGINE=InnoDB DEFAULT CHARSET=utf8mb3; | ||
| /*!40101 SET character_set_client = @saved_cs_client */; | ||
|
|
||
| -- | ||
| -- Table structure for table `analytehaspathway` | ||
| -- | ||
|
|
||
| DROP TABLE IF EXISTS `analytehaspathway`; | ||
| /*!40101 SET @saved_cs_client = @@character_set_client */; | ||
| /*!50503 SET character_set_client = utf8mb4 */; | ||
| CREATE TABLE `analytehaspathway` ( | ||
| `rampId` varchar(30) DEFAULT NULL, | ||
| `pathwayRampId` varchar(30) DEFAULT NULL, | ||
| `pathwaySource` varchar(30) DEFAULT NULL, | ||
| KEY `pathwayRampID_IDX` (`pathwayRampId`) USING BTREE, | ||
| KEY `ahp_RampID_IDX` (`rampId`) USING BTREE, | ||
| KEY `ahp_path_source_IDX` (`pathwaySource`) | ||
| ) ENGINE=InnoDB DEFAULT CHARSET=utf8mb3; | ||
| /*!40101 SET character_set_client = @saved_cs_client */; | ||
|
|
||
| -- | ||
| -- Table structure for table `analytesynonym` | ||
| -- | ||
|
|
||
| DROP TABLE IF EXISTS `analytesynonym`; | ||
| /*!40101 SET @saved_cs_client = @@character_set_client */; | ||
| /*!50503 SET character_set_client = utf8mb4 */; | ||
| CREATE TABLE `analytesynonym` ( | ||
| `Synonym` varchar(500) DEFAULT NULL, | ||
| `rampId` varchar(30) DEFAULT NULL, | ||
| `geneOrCompound` varchar(30) DEFAULT NULL, | ||
| `source` varchar(30) DEFAULT NULL, | ||
| KEY `analSyn_RampID_IDX` (`rampId`) USING BTREE, | ||
| KEY `analSyn_syn_IDX` (`Synonym`) USING BTREE, | ||
| KEY `idx_analytesynonym_geneOrCompound` (`geneOrCompound`) | ||
| ) ENGINE=InnoDB DEFAULT CHARSET=utf8mb3; | ||
| /*!40101 SET character_set_client = @saved_cs_client */; | ||
|
|
||
| -- | ||
| -- Table structure for table `catalyzed` | ||
| -- | ||
|
|
||
| DROP TABLE IF EXISTS `catalyzed`; | ||
| /*!40101 SET @saved_cs_client = @@character_set_client */; | ||
| /*!50503 SET character_set_client = utf8mb4 */; | ||
| CREATE TABLE `catalyzed` ( | ||
| `rampCompoundId` varchar(30) DEFAULT NULL, | ||
| `rampGeneId` varchar(30) DEFAULT NULL, | ||
| `proteinType` varchar(32) DEFAULT NULL, | ||
| KEY `catal_gene_idx` (`rampGeneId`), | ||
| KEY `catal_comp_idx` (`rampCompoundId`) | ||
| ) ENGINE=InnoDB DEFAULT CHARSET=utf8mb3; | ||
| /*!40101 SET character_set_client = @saved_cs_client */; | ||
|
|
||
| -- | ||
| -- Table structure for table `chem_props` | ||
| -- | ||
|
|
||
| DROP TABLE IF EXISTS `chem_props`; | ||
| /*!40101 SET @saved_cs_client = @@character_set_client */; | ||
| /*!50503 SET character_set_client = utf8mb4 */; | ||
| CREATE TABLE `chem_props` ( | ||
| `ramp_id` varchar(30) NOT NULL, | ||
| `chem_data_source` varchar(32) DEFAULT NULL, | ||
| `chem_source_id` varchar(45) DEFAULT NULL, | ||
| `iso_smiles` varchar(256) DEFAULT NULL, | ||
| `inchi_key_prefix` varchar(32) DEFAULT NULL, | ||
| `inchi_key` varchar(32) DEFAULT NULL, | ||
| `inchi` varchar(4096) DEFAULT NULL, | ||
| `mw` float DEFAULT NULL, | ||
| `monoisotop_mass` float DEFAULT NULL, | ||
| `common_name` varchar(1024) DEFAULT NULL, | ||
| `mol_formula` varchar(64) DEFAULT NULL, | ||
| KEY `prop_source_idx` (`chem_data_source`) USING BTREE, | ||
| KEY `inchi_key_idx` (`inchi_key`) USING BTREE, | ||
| KEY `inchi_key_prefix_idx` (`inchi_key_prefix`) USING BTREE, | ||
| KEY `ramp_id_idx` (`ramp_id`) USING BTREE | ||
| ) ENGINE=InnoDB DEFAULT CHARSET=latin1 COMMENT='Holds metabolite properties for all ramp metabolites'; | ||
| /*!40101 SET character_set_client = @saved_cs_client */; | ||
|
|
||
| -- | ||
| -- Table structure for table `db_version` | ||
| -- | ||
|
|
||
| DROP TABLE IF EXISTS `db_version`; | ||
| /*!40101 SET @saved_cs_client = @@character_set_client */; | ||
| /*!50503 SET character_set_client = utf8mb4 */; | ||
| CREATE TABLE `db_version` ( | ||
| `ramp_version` varchar(20) NOT NULL, | ||
| `load_timestamp` datetime NOT NULL DEFAULT CURRENT_TIMESTAMP, | ||
| `version_notes` varchar(256) DEFAULT NULL, | ||
| `met_intersects_json` varchar(10000) DEFAULT NULL, | ||
| `gene_intersects_json` varchar(10000) DEFAULT NULL, | ||
| `met_intersects_json_pw_mapped` varchar(10000) DEFAULT NULL, | ||
| `gene_intersects_json_pw_mapped` varchar(10000) DEFAULT NULL, | ||
| `db_sql_url` varchar(256) DEFAULT NULL | ||
| ) ENGINE=InnoDB DEFAULT CHARSET=latin1; | ||
| /*!40101 SET character_set_client = @saved_cs_client */; | ||
|
|
||
| -- | ||
| -- Table structure for table `entity_status_info` | ||
| -- | ||
|
|
||
| DROP TABLE IF EXISTS `entity_status_info`; | ||
| /*!40101 SET @saved_cs_client = @@character_set_client */; | ||
| /*!50503 SET character_set_client = utf8mb4 */; | ||
| CREATE TABLE `entity_status_info` ( | ||
| `status_category` varchar(64) NOT NULL, | ||
| `entity_source_id` varchar(32) NOT NULL, | ||
| `entity_source_name` varchar(45) NOT NULL, | ||
| `entity_count` int NOT NULL | ||
| ) ENGINE=InnoDB DEFAULT CHARSET=latin1 COMMENT='holds entity counts'; | ||
| /*!40101 SET character_set_client = @saved_cs_client */; | ||
|
|
||
| -- | ||
| -- Table structure for table `metabolite_class` | ||
| -- | ||
|
|
||
| DROP TABLE IF EXISTS `metabolite_class`; | ||
| /*!40101 SET @saved_cs_client = @@character_set_client */; | ||
| /*!50503 SET character_set_client = utf8mb4 */; | ||
| CREATE TABLE `metabolite_class` ( | ||
| `ramp_id` varchar(32) NOT NULL, | ||
| `class_source_id` varchar(32) NOT NULL, | ||
| `class_level_name` varchar(128) NOT NULL, | ||
| `class_name` varchar(128) NOT NULL, | ||
| `source` varchar(32) NOT NULL, | ||
| KEY `ramp_id_metclass_idx` (`ramp_id`), | ||
| KEY `class_source_id_metclass_idx` (`class_source_id`), | ||
| KEY `class_name_metclass_idx` (`class_name`), | ||
| KEY `class_source_metclass_idx` (`source`) | ||
| ) ENGINE=InnoDB DEFAULT CHARSET=latin1 COMMENT='holds rampid and class source id to metabolic class levels and names'; | ||
| /*!40101 SET character_set_client = @saved_cs_client */; | ||
|
|
||
| -- | ||
| -- Table structure for table `ontology` | ||
| -- | ||
|
|
||
| DROP TABLE IF EXISTS `ontology`; | ||
| /*!40101 SET @saved_cs_client = @@character_set_client */; | ||
| /*!50503 SET character_set_client = utf8mb4 */; | ||
| CREATE TABLE `ontology` ( | ||
| `rampOntologyId` varchar(30) DEFAULT NULL, | ||
| `commonName` varchar(64) DEFAULT NULL, | ||
| `HMDBOntologyType` varchar(30) DEFAULT NULL, | ||
| `metCount` int DEFAULT '0', | ||
| KEY `ontol_parent_idx` (`commonName`), | ||
| KEY `ontol_ramp_id_idx` (`rampOntologyId`), | ||
| KEY `ontol_term_idx` (`HMDBOntologyType`), | ||
| KEY `ontol_metCount_idx` (`metCount`) | ||
| ) ENGINE=InnoDB DEFAULT CHARSET=utf8mb3; | ||
| /*!40101 SET character_set_client = @saved_cs_client */; | ||
|
|
||
| -- | ||
| -- Table structure for table `pathway` | ||
| -- | ||
|
|
||
| DROP TABLE IF EXISTS `pathway`; | ||
| /*!40101 SET @saved_cs_client = @@character_set_client */; | ||
| /*!50503 SET character_set_client = utf8mb4 */; | ||
| CREATE TABLE `pathway` ( | ||
| `pathwayRampId` varchar(30) NOT NULL, | ||
| `sourceId` varchar(30) DEFAULT NULL, | ||
| `type` varchar(30) DEFAULT NULL, | ||
| `pathwayCategory` varchar(30) DEFAULT NULL, | ||
| `pathwayName` varchar(250) DEFAULT NULL, | ||
| PRIMARY KEY (`pathwayRampId`), | ||
| KEY `pathway_RampID_IDX` (`pathwayRampId`) USING BTREE, | ||
| KEY `idx_pathway_sourceId` (`sourceId`), | ||
| KEY `idx_pathway_type` (`type`), | ||
| KEY `idx_pathway_pathwayCategory` (`pathwayCategory`), | ||
| FULLTEXT KEY `idx_pathway_pathwayName` (`pathwayName`) | ||
| ) ENGINE=InnoDB DEFAULT CHARSET=utf8mb3; | ||
| /*!40101 SET character_set_client = @saved_cs_client */; | ||
|
|
||
| -- | ||
| -- Table structure for table `ramp_data_object` | ||
| -- | ||
|
|
||
| DROP TABLE IF EXISTS `ramp_data_object`; | ||
| /*!40101 SET @saved_cs_client = @@character_set_client */; | ||
| /*!50503 SET character_set_client = utf8mb4 */; | ||
| CREATE TABLE `ramp_data_object` ( | ||
| `data_key` varchar(32) NOT NULL, | ||
| `data_blob` longblob NOT NULL, | ||
| PRIMARY KEY (`data_key`) | ||
| ) ENGINE=InnoDB DEFAULT CHARSET=utf8mb4 COLLATE=utf8mb4_0900_ai_ci; | ||
| /*!40101 SET character_set_client = @saved_cs_client */; | ||
|
|
||
| -- | ||
| -- Table structure for table `reaction` | ||
| -- | ||
|
|
||
| DROP TABLE IF EXISTS `reaction`; | ||
| /*!40101 SET @saved_cs_client = @@character_set_client */; | ||
| /*!50503 SET character_set_client = utf8mb4 */; | ||
| CREATE TABLE `reaction` ( | ||
| `ramp_rxn_id` varchar(16) NOT NULL, | ||
| `rxn_source_id` varchar(16) NOT NULL, | ||
| `status` int NOT NULL, | ||
| `is_transport` int NOT NULL, | ||
| `direction` varchar(8) NOT NULL, | ||
| `label` varchar(256) NOT NULL, | ||
| `equation` varchar(256) NOT NULL, | ||
| `html_equation` varchar(256) NOT NULL, | ||
| `ec_num` varchar(256) DEFAULT NULL, | ||
| `has_human_prot` int NOT NULL, | ||
| `only_human_mets` int NOT NULL, | ||
| PRIMARY KEY (`ramp_rxn_id`), | ||
| KEY `reaction_src_id_idx` (`rxn_source_id`), | ||
| KEY `reaction_ec_num_idx` (`ec_num`), | ||
| KEY `reaction_has_human_prot_idx` (`has_human_prot`) | ||
| ) ENGINE=InnoDB DEFAULT CHARSET=latin1 COMMENT='ramp primary reaction annotation table.'; | ||
| /*!40101 SET character_set_client = @saved_cs_client */; | ||
|
|
||
| -- | ||
| -- Table structure for table `reaction2met` | ||
| -- | ||
|
|
||
| DROP TABLE IF EXISTS `reaction2met`; | ||
| /*!40101 SET @saved_cs_client = @@character_set_client */; | ||
| /*!50503 SET character_set_client = utf8mb4 */; | ||
| CREATE TABLE `reaction2met` ( | ||
| `ramp_rxn_id` varchar(16) NOT NULL, | ||
| `rxn_source_id` varchar(16) NOT NULL, | ||
| `ramp_cmpd_id` varchar(16) NOT NULL, | ||
| `substrate_product` int NOT NULL, | ||
| `met_source_id` varchar(32) NOT NULL, | ||
| `met_name` varchar(256) DEFAULT NULL, | ||
| `is_cofactor` int NOT NULL DEFAULT '0', | ||
| KEY `rxn2met_rxn_ramp_id_idx` (`ramp_rxn_id`), | ||
| KEY `rxn2met_rxn_source_id_idx` (`rxn_source_id`), | ||
| KEY `rxn2met_met_ramp_id_idx` (`ramp_cmpd_id`), | ||
| KEY `rxn2met_subs_prod_idx` (`substrate_product`), | ||
| KEY `rxn2met_met_source_id_idx` (`met_source_id`), | ||
| KEY `rxn2met_iscofactor_idx` (`is_cofactor`) | ||
| ) ENGINE=InnoDB DEFAULT CHARSET=latin1 COMMENT='holds reaction to metabolite mapping.'; | ||
| /*!40101 SET character_set_client = @saved_cs_client */; | ||
|
|
||
| -- | ||
| -- Table structure for table `reaction2protein` | ||
| -- | ||
|
|
||
| DROP TABLE IF EXISTS `reaction2protein`; | ||
| /*!40101 SET @saved_cs_client = @@character_set_client */; | ||
| /*!50503 SET character_set_client = utf8mb4 */; | ||
| CREATE TABLE `reaction2protein` ( | ||
| `ramp_rxn_id` varchar(16) NOT NULL, | ||
| `rxn_source_id` varchar(16) NOT NULL, | ||
| `ramp_gene_id` varchar(16) NOT NULL, | ||
| `uniprot` varchar(16) NOT NULL, | ||
| `protein_name` varchar(16) NOT NULL, | ||
| KEY `rxn_prot_ramp_id_idx` (`ramp_rxn_id`), | ||
| KEY `rxn2prot_source_id_idx` (`rxn_source_id`), | ||
| KEY `rxn2prot_ramp_gene_id_idx` (`ramp_gene_id`), | ||
| KEY `rxn2prot_uniprot_idx` (`uniprot`) | ||
| ) ENGINE=InnoDB DEFAULT CHARSET=latin1 COMMENT='maps reaction ids to associated uniprot ids and their ramp ids'; | ||
| /*!40101 SET character_set_client = @saved_cs_client */; | ||
|
|
||
| -- | ||
| -- Table structure for table `reaction_protein2met` | ||
| -- | ||
|
|
||
| DROP TABLE IF EXISTS `reaction_protein2met`; | ||
| /*!40101 SET @saved_cs_client = @@character_set_client */; | ||
| /*!50503 SET character_set_client = utf8mb4 */; | ||
| CREATE TABLE `reaction_protein2met` ( | ||
| `ramp_rxn_id` varchar(16) NOT NULL, | ||
| `rxn_source_id` varchar(16) NOT NULL, | ||
| `ramp_gene_id` varchar(16) NOT NULL, | ||
| `gene_source_id` varchar(16) NOT NULL, | ||
| `substrate_product` int NOT NULL, | ||
| `ramp_cmpd_id` varchar(16) NOT NULL, | ||
| `cmpd_source_id` varchar(45) NOT NULL, | ||
| `cmpd_name` varchar(256) DEFAULT NULL, | ||
| `is_cofactor` int NOT NULL DEFAULT '0', | ||
| KEY `rxn_p2m_rxn_ramp_id_idx` (`ramp_rxn_id`), | ||
| KEY `rxn_p2m_rxn_source_id_idx` (`rxn_source_id`), | ||
| KEY `rxn_p2m_rxn_gene_ramp_id_idx` (`ramp_gene_id`), | ||
| KEY `rxn_p2m_gene_source_id_idx` (`gene_source_id`), | ||
| KEY `rxn_subprod_idx` (`substrate_product`), | ||
| KEY `rxn_p2m_ramp_cmpd_id_idx` (`ramp_cmpd_id`), | ||
| KEY `rxn_p2m_cmpd_source_id_idx` (`cmpd_source_id`), | ||
| KEY `rxn_p2m_iscofactor_idx` (`is_cofactor`) | ||
| ) ENGINE=InnoDB DEFAULT CHARSET=latin1; | ||
| /*!40101 SET character_set_client = @saved_cs_client */; | ||
|
|
||
| -- | ||
| -- Table structure for table `source` | ||
| -- | ||
|
|
||
| DROP TABLE IF EXISTS `source`; | ||
| /*!40101 SET @saved_cs_client = @@character_set_client */; | ||
| /*!50503 SET character_set_client = utf8mb4 */; | ||
| CREATE TABLE `source` ( | ||
| `sourceId` varchar(30) CHARACTER SET utf8 COLLATE utf8_general_ci NOT NULL, | ||
| `rampId` varchar(30) CHARACTER SET utf8 COLLATE utf8_general_ci DEFAULT NULL, | ||
| `IDtype` varchar(30) CHARACTER SET utf8 COLLATE utf8_general_ci DEFAULT NULL, | ||
| `geneOrCompound` varchar(30) CHARACTER SET utf8 COLLATE utf8_general_ci DEFAULT NULL, | ||
| `commonName` varchar(256) CHARACTER SET utf8 COLLATE utf8_general_ci DEFAULT NULL, | ||
| `priorityHMDBStatus` varchar(32) CHARACTER SET utf8 COLLATE utf8_bin DEFAULT NULL, | ||
| `dataSource` varchar(32) CHARACTER SET utf8 COLLATE utf8_bin DEFAULT NULL, | ||
| `pathwayCount` int NOT NULL DEFAULT '0', | ||
| KEY `source_RampID_IDX` (`rampId`) USING BTREE, | ||
| KEY `source_sid_RampID_IDX` (`sourceId`) USING BTREE, | ||
| KEY `source_comName_RampID_IDX` (`commonName`) USING BTREE, | ||
| KEY `source_datasrc_IDX` (`dataSource`), | ||
| KEY `source_pathCount_IDX` (`pathwayCount`), | ||
| KEY `idx_source_geneOrCompound` (`geneOrCompound`), | ||
| KEY `idx_source_IDtype` (`IDtype`) | ||
| ) ENGINE=InnoDB DEFAULT CHARSET=utf8mb3 COLLATE=utf8_bin; | ||
| /*!40101 SET character_set_client = @saved_cs_client */; | ||
|
|
||
| -- | ||
| -- Table structure for table `version_info` | ||
| -- | ||
|
|
||
| DROP TABLE IF EXISTS `version_info`; | ||
| /*!40101 SET @saved_cs_client = @@character_set_client */; | ||
| /*!50503 SET character_set_client = utf8mb4 */; | ||
| CREATE TABLE `version_info` ( | ||
| `ramp_db_version` varchar(16) NOT NULL, | ||
| `db_mod_date` date NOT NULL, | ||
| `status` varchar(16) NOT NULL, | ||
| `data_source_id` varchar(32) NOT NULL, | ||
| `data_source_name` varchar(128) NOT NULL, | ||
| `data_source_url` varchar(128) NOT NULL, | ||
| `data_source_version` varchar(128) NOT NULL, | ||
| KEY `status_index` (`status`), | ||
| KEY `data_source_index` (`data_source_id`) | ||
| ) ENGINE=InnoDB DEFAULT CHARSET=latin1; | ||
| /*!40101 SET character_set_client = @saved_cs_client */; | ||
| /*!40103 SET TIME_ZONE=@OLD_TIME_ZONE */; | ||
|
|
||
| /*!40101 SET SQL_MODE=@OLD_SQL_MODE */; | ||
| /*!40014 SET FOREIGN_KEY_CHECKS=@OLD_FOREIGN_KEY_CHECKS */; | ||
| /*!40014 SET UNIQUE_CHECKS=@OLD_UNIQUE_CHECKS */; | ||
| /*!40101 SET CHARACTER_SET_CLIENT=@OLD_CHARACTER_SET_CLIENT */; | ||
| /*!40101 SET CHARACTER_SET_RESULTS=@OLD_CHARACTER_SET_RESULTS */; | ||
| /*!40101 SET COLLATION_CONNECTION=@OLD_COLLATION_CONNECTION */; | ||
| /*!40111 SET SQL_NOTES=@OLD_SQL_NOTES */; | ||
|
|
||
| -- Dump completed on 2023-10-30 14:02:17 |
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