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phylografter.sql
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-- phpMyAdmin SQL Dump
-- version 4.0.6
-- http://www.phpmyadmin.net
--
-- Host: localhost
-- Generation Time: Oct 04, 2013 at 03:40 PM
-- Server version: 5.6.13
-- PHP Version: 5.5.4
SET SQL_MODE = "NO_AUTO_VALUE_ON_ZERO";
SET time_zone = "+00:00";
/*!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 */;
/*!40101 SET NAMES utf8 */;
--
-- Database: `phylografter`
--
-- --------------------------------------------------------
--
-- Table structure for table `apg_taxon`
--
CREATE TABLE IF NOT EXISTS `apg_taxon` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`parent` int(11) DEFAULT NULL,
`next` int(11) DEFAULT NULL,
`back` int(11) DEFAULT NULL,
`depth` int(11) DEFAULT NULL,
`name` varchar(255) NOT NULL,
`rank` varchar(255) DEFAULT NULL,
PRIMARY KEY (`id`),
UNIQUE KEY `name` (`name`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=29037 ;
-- --------------------------------------------------------
--
-- Table structure for table `auth_cas`
--
CREATE TABLE IF NOT EXISTS `auth_cas` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`user_id` int(11) DEFAULT NULL,
`uuid` varchar(255) DEFAULT NULL,
`url` varchar(255) DEFAULT NULL,
`created_on` datetime DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `user_id__idx` (`user_id`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=1 ;
-- --------------------------------------------------------
--
-- Table structure for table `auth_event`
--
CREATE TABLE IF NOT EXISTS `auth_event` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`time_stamp` datetime DEFAULT NULL,
`user_id` int(11) DEFAULT NULL,
`description` longtext,
`origin` varchar(255) DEFAULT NULL,
`client_ip` varchar(255) DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `user_id__idx` (`user_id`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=2279 ;
-- --------------------------------------------------------
--
-- Table structure for table `auth_group`
--
CREATE TABLE IF NOT EXISTS `auth_group` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`description` longtext,
`role` varchar(255) DEFAULT NULL,
PRIMARY KEY (`id`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=59 ;
-- --------------------------------------------------------
--
-- Table structure for table `auth_membership`
--
CREATE TABLE IF NOT EXISTS `auth_membership` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`user_id` int(11) DEFAULT NULL,
`group_id` int(11) DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `user_id__idx` (`user_id`),
KEY `group_id__idx` (`group_id`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=90 ;
-- --------------------------------------------------------
--
-- Table structure for table `auth_permission`
--
CREATE TABLE IF NOT EXISTS `auth_permission` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`group_id` int(11) DEFAULT NULL,
`record_id` int(11) DEFAULT NULL,
`table_name` varchar(255) DEFAULT NULL,
`name` varchar(255) DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `group_id__idx` (`group_id`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=1 ;
-- --------------------------------------------------------
--
-- Table structure for table `auth_user`
--
CREATE TABLE IF NOT EXISTS `auth_user` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`reset_password_key` varchar(255) DEFAULT NULL,
`password` varchar(255) DEFAULT NULL,
`registration_key` varchar(255) DEFAULT NULL,
`email` varchar(255) DEFAULT NULL,
`first_name` varchar(128) DEFAULT NULL,
`last_name` varchar(128) DEFAULT NULL,
`registration_id` varchar(512) DEFAULT NULL,
PRIMARY KEY (`id`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=57 ;
-- --------------------------------------------------------
--
-- Table structure for table `clipboard`
--
CREATE TABLE IF NOT EXISTS `clipboard` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`nodeId` int(11) DEFAULT NULL,
`name` varchar(255) DEFAULT NULL,
`creationDate` datetime DEFAULT NULL,
`treetype` varchar(255) DEFAULT NULL,
`user` int(11) DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `nodeId__idx` (`nodeId`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=77 ;
-- --------------------------------------------------------
--
-- Table structure for table `gene`
--
CREATE TABLE IF NOT EXISTS `gene` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`name` varchar(255) NOT NULL,
`genome` varchar(255) DEFAULT NULL,
PRIMARY KEY (`id`),
UNIQUE KEY `name` (`name`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=1 ;
-- --------------------------------------------------------
--
-- Table structure for table `gnode`
--
CREATE TABLE IF NOT EXISTS `gnode` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`label` varchar(128) DEFAULT NULL,
`ntips` int(11) DEFAULT NULL,
`pruned` char(1) NOT NULL DEFAULT 'F',
`next` int(11) DEFAULT NULL,
`back` int(11) DEFAULT NULL,
`length` double DEFAULT NULL,
`age` double DEFAULT NULL,
`age_min` double DEFAULT NULL,
`age_max` double DEFAULT NULL,
`tree` int(11) DEFAULT NULL,
`snode` int(11) DEFAULT NULL,
`stree` int(11) DEFAULT NULL,
`mtime` datetime DEFAULT NULL,
`parent` int(11) DEFAULT NULL,
`parent__tmp` int(11) DEFAULT NULL,
`isleaf` char(1) DEFAULT NULL,
`viewweight` double DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `tree__idx` (`tree`),
KEY `snode__idx` (`snode`),
KEY `stree__idx` (`stree`),
KEY `parent__idx` (`parent`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=118615 ;
-- --------------------------------------------------------
--
-- Table structure for table `gtree`
--
CREATE TABLE IF NOT EXISTS `gtree` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`contributor` varchar(128) DEFAULT NULL,
`mtime` datetime DEFAULT NULL,
`title` varchar(255) DEFAULT NULL,
`comment` longtext,
`date` datetime DEFAULT NULL,
PRIMARY KEY (`id`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=366 ;
-- --------------------------------------------------------
--
-- Table structure for table `gtree_edit`
--
CREATE TABLE IF NOT EXISTS `gtree_edit` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`gtree` int(11) DEFAULT NULL,
`action` varchar(255) DEFAULT NULL,
`target_gnode` int(11) DEFAULT NULL,
`source_node` int(11) DEFAULT NULL,
`comment` longtext,
`mtime` datetime DEFAULT NULL,
`user` int(11) DEFAULT NULL,
`affected_node_id` int(11) DEFAULT NULL,
`affected_clade_id` int(11) DEFAULT NULL,
`clipboard_node` int(11) DEFAULT NULL,
`originaltreetype` varchar(255) DEFAULT NULL,
`clipboard_node__tmp` int(11) DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `gtree__idx` (`gtree`),
KEY `target_gnode__idx` (`target_gnode`),
KEY `source_node__idx` (`source_node`),
KEY `user__idx` (`user`),
KEY `clipboard_node__idx` (`clipboard_node`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=437 ;
-- --------------------------------------------------------
--
-- Table structure for table `gtree_share`
--
CREATE TABLE IF NOT EXISTS `gtree_share` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`user` int(11) DEFAULT NULL,
`gtree` int(11) DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `user__idx` (`user`),
KEY `gtree__idx` (`gtree`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=11 ;
-- --------------------------------------------------------
--
-- Table structure for table `ncbi_name`
--
CREATE TABLE IF NOT EXISTS `ncbi_name` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`taxid` int(11) NOT NULL,
`name` varchar(255) DEFAULT NULL,
`unique_name` varchar(255) DEFAULT NULL,
`name_class` varchar(255) DEFAULT NULL,
PRIMARY KEY (`id`),
UNIQUE KEY `unique_name` (`unique_name`),
KEY `taxid` (`taxid`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=234995 ;
-- --------------------------------------------------------
--
-- Table structure for table `ncbi_node`
--
CREATE TABLE IF NOT EXISTS `ncbi_node` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`taxid` int(11) NOT NULL,
`name` varchar(255) DEFAULT NULL,
`parent` int(11) DEFAULT NULL,
`next` int(11) DEFAULT NULL,
`back` int(11) DEFAULT NULL,
`depth` int(11) DEFAULT NULL,
`rank` varchar(255) DEFAULT NULL,
`hidden` char(1) NOT NULL DEFAULT 'F',
`comments` longtext,
PRIMARY KEY (`id`),
UNIQUE KEY `taxid` (`taxid`),
KEY `rank` (`rank`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=119054 ;
-- --------------------------------------------------------
--
-- Table structure for table `ncbi_taxon`
--
CREATE TABLE IF NOT EXISTS `ncbi_taxon` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`taxid` int(11) NOT NULL,
`parent` int(11) DEFAULT NULL,
`next` int(11) DEFAULT NULL,
`back` int(11) DEFAULT NULL,
`depth` int(11) DEFAULT NULL,
`name` varchar(255) NOT NULL,
`rank` varchar(255) DEFAULT NULL,
PRIMARY KEY (`id`),
UNIQUE KEY `taxid` (`taxid`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=30493 ;
-- --------------------------------------------------------
--
-- Table structure for table `ottol_name`
--
CREATE TABLE IF NOT EXISTS `ottol_name` (
`id` int(11) unsigned NOT NULL AUTO_INCREMENT,
`uid` int(10) unsigned DEFAULT NULL,
`parent_uid` int(10) unsigned DEFAULT NULL,
`accepted_uid` int(10) unsigned DEFAULT NULL,
`next` int(10) unsigned DEFAULT NULL,
`back` int(10) unsigned DEFAULT NULL,
`preottol_taxid` bigint(11) unsigned DEFAULT NULL,
`preottol_parent_taxid` bigint(11) unsigned DEFAULT NULL,
`preottol_source` varchar(64) DEFAULT NULL,
`preottol_source_taxid` varchar(64) DEFAULT NULL,
`ncbi_taxid` int(11) unsigned DEFAULT NULL,
`gbif_taxid` int(10) unsigned DEFAULT NULL,
`treebase_taxid` int(11) DEFAULT NULL,
`namebank_taxid` int(11) DEFAULT NULL,
`name` varchar(255) NOT NULL,
`unique_name` varchar(255) DEFAULT NULL,
`rank` varchar(255) DEFAULT NULL,
`comments` varchar(255) DEFAULT NULL,
`mtime` timestamp NOT NULL DEFAULT CURRENT_TIMESTAMP ON UPDATE CURRENT_TIMESTAMP,
PRIMARY KEY (`id`),
UNIQUE KEY `preottol_taxid` (`preottol_taxid`),
KEY `name` (`name`),
KEY `unique_name` (`unique_name`),
KEY `gbif_taxid` (`gbif_taxid`),
KEY `uid` (`uid`),
KEY `accepted_uid` (`accepted_uid`),
KEY `parent_uid` (`parent_uid`),
KEY `nextback` (`next`,`back`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=7066018 ;
-- --------------------------------------------------------
--
-- Table structure for table `ottol_node`
--
CREATE TABLE IF NOT EXISTS `ottol_node` (
`id` int(11) unsigned NOT NULL AUTO_INCREMENT,
`uid` bigint(11) unsigned NOT NULL,
`parent` int(11) DEFAULT NULL,
`next` int(11) DEFAULT NULL,
`back` int(11) DEFAULT NULL,
`depth` int(11) DEFAULT NULL,
`name` int(11) NOT NULL,
`mtime` datetime DEFAULT NULL,
PRIMARY KEY (`id`),
UNIQUE KEY `uid` (`uid`),
KEY `name` (`name`),
KEY `next` (`next`),
KEY `depth` (`depth`),
KEY `parent` (`parent`),
KEY `back` (`back`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=1 ;
-- --------------------------------------------------------
--
-- Table structure for table `otu`
--
CREATE TABLE IF NOT EXISTS `otu` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`study` int(11) DEFAULT NULL,
`label` varchar(255) NOT NULL,
`taxon` int(11) DEFAULT NULL,
`ottol_name` int(11) unsigned DEFAULT NULL,
`tb_nexml_id` varchar(255) DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `study__idx` (`study`),
KEY `taxon__idx` (`taxon`),
KEY `ottol_name` (`ottol_name`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=394780 ;
-- --------------------------------------------------------
--
-- Table structure for table `phylogramNodeMeta`
--
CREATE TABLE IF NOT EXISTS `phylogramNodeMeta` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`tree` int(11) DEFAULT NULL,
`treeType` varchar(255) DEFAULT NULL,
`text` varchar(255) DEFAULT NULL,
`weight` double DEFAULT NULL,
`nodeid` int(11) DEFAULT NULL,
`longesttraversal` double DEFAULT NULL,
`descendanttipcount` int(11) DEFAULT NULL,
`closestdescendantlabel` varchar(255) DEFAULT NULL,
`next` int(11) unsigned NOT NULL,
`back` int(11) unsigned NOT NULL,
`descendantlabelcount` int(11) DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `autoCollapseIdx` (`tree`,`treeType`,`next`,`back`,`weight`),
KEY `descendantLabelIdx` (`tree`,`treeType`,`next`,`back`,`text`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=859982 ;
-- --------------------------------------------------------
--
-- Table structure for table `plantlist`
--
CREATE TABLE IF NOT EXISTS `plantlist` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`major_group` varchar(255) DEFAULT NULL,
`family` varchar(255) DEFAULT NULL,
`genus_hybrid_marker` varchar(255) DEFAULT NULL,
`genus` varchar(255) DEFAULT NULL,
`species_hybrid_marker` varchar(255) DEFAULT NULL,
`species` varchar(255) DEFAULT NULL,
`infra_rank` varchar(255) DEFAULT NULL,
`infra_epithet` varchar(255) DEFAULT NULL,
`author` varchar(255) DEFAULT NULL,
`TPL_status` varchar(255) DEFAULT NULL,
`original_status` varchar(255) DEFAULT NULL,
`source` varchar(255) DEFAULT NULL,
`source_id` varchar(255) DEFAULT NULL,
`IPNI_id` varchar(255) DEFAULT NULL,
`publication` varchar(255) DEFAULT NULL,
`pub_collation` varchar(255) DEFAULT NULL,
`pub_page` varchar(255) DEFAULT NULL,
`pub_date` varchar(255) DEFAULT NULL,
`confidence__tmp` varchar(512) DEFAULT NULL,
`confidence` varchar(512) DEFAULT NULL,
PRIMARY KEY (`id`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=597067 ;
-- --------------------------------------------------------
--
-- Table structure for table `plugin_wiki_attachment`
--
CREATE TABLE IF NOT EXISTS `plugin_wiki_attachment` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`tablename` varchar(255) DEFAULT NULL,
`record_id` int(11) DEFAULT NULL,
`name` varchar(255) DEFAULT NULL,
`file` varchar(255) DEFAULT NULL,
`created_by` int(11) DEFAULT NULL,
`created_on` datetime DEFAULT NULL,
`modified_by` int(11) DEFAULT NULL,
`modified_on` datetime DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `created_by__idx` (`created_by`),
KEY `modified_by__idx` (`modified_by`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=1 ;
-- --------------------------------------------------------
--
-- Table structure for table `plugin_wiki_comment`
--
CREATE TABLE IF NOT EXISTS `plugin_wiki_comment` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`tablename` varchar(255) DEFAULT NULL,
`record_id` int(11) DEFAULT NULL,
`body` varchar(255) DEFAULT NULL,
`created_by` int(11) DEFAULT NULL,
`created_on` datetime DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `created_by__idx` (`created_by`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=1 ;
-- --------------------------------------------------------
--
-- Table structure for table `plugin_wiki_link`
--
CREATE TABLE IF NOT EXISTS `plugin_wiki_link` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`tag` int(11) DEFAULT NULL,
`table_name` varchar(255) DEFAULT NULL,
`record_id` int(11) DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `tag__idx` (`tag`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=1 ;
-- --------------------------------------------------------
--
-- Table structure for table `plugin_wiki_page`
--
CREATE TABLE IF NOT EXISTS `plugin_wiki_page` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`slug` varchar(255) DEFAULT NULL,
`title` varchar(255) DEFAULT NULL,
`active` char(1) DEFAULT NULL,
`public` char(1) DEFAULT NULL,
`body` longtext,
`role` int(11) DEFAULT NULL,
`changelog` varchar(255) DEFAULT NULL,
`created_by` int(11) DEFAULT NULL,
`created_on` datetime DEFAULT NULL,
`modified_by` int(11) DEFAULT NULL,
`modified_on` datetime DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `role__idx` (`role`),
KEY `created_by__idx` (`created_by`),
KEY `modified_by__idx` (`modified_by`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=2 ;
-- --------------------------------------------------------
--
-- Table structure for table `plugin_wiki_page_archive`
--
CREATE TABLE IF NOT EXISTS `plugin_wiki_page_archive` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`current_record` int(11) DEFAULT NULL,
`slug` varchar(255) DEFAULT NULL,
`title` varchar(255) DEFAULT NULL,
`active` char(1) DEFAULT NULL,
`public` char(1) DEFAULT NULL,
`body` longtext,
`role` int(11) DEFAULT NULL,
`changelog` varchar(255) DEFAULT NULL,
`created_by` int(11) DEFAULT NULL,
`created_on` datetime DEFAULT NULL,
`modified_by` int(11) DEFAULT NULL,
`modified_on` datetime DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `current_record__idx` (`current_record`),
KEY `role__idx` (`role`),
KEY `created_by__idx` (`created_by`),
KEY `modified_by__idx` (`modified_by`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=2 ;
-- --------------------------------------------------------
--
-- Table structure for table `plugin_wiki_tag`
--
CREATE TABLE IF NOT EXISTS `plugin_wiki_tag` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`name` varchar(255) DEFAULT NULL,
`links` int(11) DEFAULT NULL,
`created_by` int(11) DEFAULT NULL,
`created_on` datetime DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `created_by__idx` (`created_by`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=1 ;
-- --------------------------------------------------------
--
-- Table structure for table `prune_detail`
--
CREATE TABLE IF NOT EXISTS `prune_detail` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`pruned_gnode` int(11) DEFAULT NULL,
`gtree_edit` int(11) DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `pruned_gnode__idx` (`pruned_gnode`),
KEY `gtree_edit__idx` (`gtree_edit`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=67 ;
-- --------------------------------------------------------
--
-- Table structure for table `sequence`
--
CREATE TABLE IF NOT EXISTS `sequence` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`otu` int(11) DEFAULT NULL,
`gene` int(11) DEFAULT NULL,
`data` longtext,
`ac` varchar(255) DEFAULT NULL,
`gi` int(11) DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `otu__idx` (`otu`),
KEY `gene__idx` (`gene`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=1 ;
-- --------------------------------------------------------
--
-- Table structure for table `snode`
--
CREATE TABLE IF NOT EXISTS `snode` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`label` varchar(128) DEFAULT NULL,
`otu` int(11) DEFAULT NULL,
`ottol_name` int(11) unsigned DEFAULT NULL,
`ingroup` char(1) NOT NULL DEFAULT 'F',
`isleaf` char(1) NOT NULL DEFAULT 'F',
`parent` int(11) DEFAULT NULL,
`next` int(11) DEFAULT NULL,
`back` int(11) DEFAULT NULL,
`depth` int(11) DEFAULT NULL,
`length` double DEFAULT NULL,
`age` double DEFAULT NULL,
`age_min` double DEFAULT NULL,
`age_max` double DEFAULT NULL,
`bootstrap_support` double DEFAULT NULL,
`posterior_support` double DEFAULT NULL,
`other_support` double DEFAULT NULL,
`other_support_type` varchar(255) DEFAULT NULL,
`tree` int(11) DEFAULT NULL,
`pruned` char(1) NOT NULL DEFAULT 'F',
`mtime` datetime DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `otu__idx` (`otu`),
KEY `parent__idx` (`parent`),
KEY `tree__idx` (`tree`),
KEY `treeNodeLengths` (`tree`,`length`),
KEY `treeNext` (`tree`,`next`),
KEY `ottol_name` (`ottol_name`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=1054856 ;
-- --------------------------------------------------------
--
-- Table structure for table `stree`
--
CREATE TABLE IF NOT EXISTS `stree` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`study` int(11) DEFAULT NULL,
`uploaded` datetime NOT NULL DEFAULT '2011-02-20 14:19:49',
`newick` longtext,
`clade_labels_represent` varchar(255) DEFAULT NULL,
`clade_labels_comment` longtext,
`branch_lengths_represent` varchar(255) DEFAULT NULL,
`branch_lengths_comment` longtext,
`newick_idstr` longtext,
`type` varchar(128) NOT NULL,
`comment` longtext,
`contributor` varchar(128) NOT NULL,
`author_contributed` char(1) DEFAULT NULL,
`tb_tree_id` varchar(128) DEFAULT NULL,
`last_modified` timestamp NULL DEFAULT NULL ON UPDATE CURRENT_TIMESTAMP,
PRIMARY KEY (`id`),
KEY `study__idx` (`study`),
KEY `last_modified` (`last_modified`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=6176 ;
-- --------------------------------------------------------
--
-- Table structure for table `stree_tag`
--
CREATE TABLE IF NOT EXISTS `stree_tag` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`tag` varchar(255) NOT NULL,
`name` varchar(255) DEFAULT NULL,
`value` varchar(255) DEFAULT NULL,
`stree` int(11) DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `stree__idx` (`stree`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=4463 ;
-- --------------------------------------------------------
--
-- Table structure for table `study`
--
CREATE TABLE IF NOT EXISTS `study` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`focal_clade` int(11) DEFAULT NULL,
`focal_clade_ottol` int(11) unsigned DEFAULT NULL,
`citation` varchar(1024) NOT NULL,
`label` varchar(255) DEFAULT NULL,
`year_published` int(11) DEFAULT NULL,
`contributor` varchar(128) NOT NULL,
`comment` longtext,
`uploaded` datetime NOT NULL DEFAULT '2011-02-19 11:44:46',
`treebase_id` int(11) DEFAULT NULL,
`doi` varchar(255) DEFAULT NULL,
`last_modified` timestamp NULL DEFAULT NULL ON UPDATE CURRENT_TIMESTAMP,
PRIMARY KEY (`id`),
KEY `focal_clade__idx` (`focal_clade`),
KEY `citation` (`citation`(255)),
KEY `focal_clade_ottol` (`focal_clade_ottol`),
KEY `last_modified` (`last_modified`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=2651 ;
-- --------------------------------------------------------
--
-- Table structure for table `study_file`
--
CREATE TABLE IF NOT EXISTS `study_file` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`study` int(11) DEFAULT NULL,
`file` varchar(255) DEFAULT NULL,
`data` longblob,
`uploaded` datetime NOT NULL DEFAULT '2011-02-21 00:15:28',
`description` varchar(255) DEFAULT NULL,
`source` varchar(255) DEFAULT NULL,
`filename` varchar(255) DEFAULT NULL,
`contributor` varchar(128) NOT NULL,
`comment` longtext,
PRIMARY KEY (`id`),
KEY `study__idx` (`study`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=1689 ;
-- --------------------------------------------------------
--
-- Table structure for table `study_tag`
--
CREATE TABLE IF NOT EXISTS `study_tag` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`tag` varchar(255) NOT NULL,
`name` varchar(255) DEFAULT NULL,
`value` varchar(255) DEFAULT NULL,
`study` int(11) NOT NULL,
PRIMARY KEY (`id`),
KEY `study__idx` (`study`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=4343 ;
-- --------------------------------------------------------
--
-- Table structure for table `taxon`
--
CREATE TABLE IF NOT EXISTS `taxon` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`apg_taxon` int(11) DEFAULT NULL,
`name` varchar(255) NOT NULL,
`rank` varchar(255) DEFAULT NULL,
`ncbi_taxid` int(11) DEFAULT NULL,
`namebank_id` int(11) DEFAULT NULL,
`tb_taxid` int(11) DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `apg_taxon__idx` (`apg_taxon`),
KEY `ncbi_taxid` (`ncbi_taxid`),
KEY `name` (`name`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=137239 ;
-- --------------------------------------------------------
--
-- Table structure for table `taxon_copy`
--
CREATE TABLE IF NOT EXISTS `taxon_copy` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`parent` int(11) DEFAULT NULL,
`ncbi_taxon` int(11) DEFAULT NULL,
`apg_taxon` int(11) DEFAULT NULL,
`name` varchar(255) NOT NULL,
`rank` varchar(255) DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `ncbi_taxon__idx` (`ncbi_taxon`),
KEY `apg_taxon__idx` (`apg_taxon`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=33452 ;
-- --------------------------------------------------------
--
-- Table structure for table `treebase_matrix`
--
CREATE TABLE IF NOT EXISTS `treebase_matrix` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`study` int(11) DEFAULT NULL,
`label` varchar(255) DEFAULT NULL,
`type` varchar(255) DEFAULT NULL,
`nchar` int(11) DEFAULT NULL,
`ntax` int(11) DEFAULT NULL,
`tb_matrix_id` int(11) NOT NULL,
PRIMARY KEY (`id`),
UNIQUE KEY `tb_matrix_id` (`tb_matrix_id`),
KEY `study__idx` (`study`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=1 ;
-- --------------------------------------------------------
--
-- Table structure for table `treebase_matrix_row`
--
CREATE TABLE IF NOT EXISTS `treebase_matrix_row` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`otu` int(11) DEFAULT NULL,
`data` longtext NOT NULL,
PRIMARY KEY (`id`),
KEY `otu__idx` (`otu`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=1 ;
-- --------------------------------------------------------
--
-- Table structure for table `treeMeta`
--
CREATE TABLE IF NOT EXISTS `treeMeta` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`tree` int(11) DEFAULT NULL,
`treeType` varchar(255) DEFAULT NULL,
`depth` int(11) DEFAULT NULL,
PRIMARY KEY (`id`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=191 ;
-- --------------------------------------------------------
--
-- Table structure for table `treeMetaDepthDetail`
--
CREATE TABLE IF NOT EXISTS `treeMetaDepthDetail` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`treeMeta` int(11) DEFAULT NULL,
`depth` int(11) DEFAULT NULL,
`nodeCount` double DEFAULT NULL,
`tipCount` double DEFAULT NULL,
`longestlabel` int(11) DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `treeMeta__idx` (`treeMeta`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=5995 ;
-- --------------------------------------------------------
--
-- Table structure for table `unique_user`
--
CREATE TABLE IF NOT EXISTS `unique_user` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`first_name` varchar(255) DEFAULT NULL,
`last_name` varchar(255) DEFAULT NULL,
PRIMARY KEY (`id`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=34 ;
-- --------------------------------------------------------
--
-- Table structure for table `userEdit`
--
CREATE TABLE IF NOT EXISTS `userEdit` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`username` varchar(200) COLLATE utf8mb4_unicode_ci DEFAULT NULL,
`timestamp` datetime DEFAULT NULL,
`tableName` varchar(100) COLLATE utf8mb4_unicode_ci DEFAULT NULL,
`rowId` int(11) DEFAULT NULL,
`fieldName` varchar(100) COLLATE utf8mb4_unicode_ci DEFAULT NULL,
`previousValue` longtext COLLATE utf8mb4_unicode_ci,
`updatedValue` longtext COLLATE utf8mb4_unicode_ci,
PRIMARY KEY (`id`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8mb4 COLLATE=utf8mb4_unicode_ci AUTO_INCREMENT=15566 ;
-- --------------------------------------------------------
--
-- Table structure for table `user_map`
--
CREATE TABLE IF NOT EXISTS `user_map` (
`id` int(11) NOT NULL AUTO_INCREMENT,
`auth_user_id` int(11) DEFAULT NULL,
`unique_user_id` int(11) DEFAULT NULL,
PRIMARY KEY (`id`),
KEY `auth_user_id__idx` (`auth_user_id`),
KEY `unique_user_id__idx` (`unique_user_id`)
) ENGINE=InnoDB DEFAULT CHARSET=utf8 AUTO_INCREMENT=45 ;
--
-- Constraints for dumped tables
--
--
-- Constraints for table `auth_cas`
--
ALTER TABLE `auth_cas`
ADD CONSTRAINT `auth_cas_ibfk_1` FOREIGN KEY (`user_id`) REFERENCES `auth_user` (`id`) ON DELETE CASCADE;
--
-- Constraints for table `auth_event`
--
ALTER TABLE `auth_event`
ADD CONSTRAINT `auth_event_ibfk_1` FOREIGN KEY (`user_id`) REFERENCES `auth_user` (`id`) ON DELETE CASCADE;
--
-- Constraints for table `auth_membership`
--
ALTER TABLE `auth_membership`
ADD CONSTRAINT `auth_membership_ibfk_1` FOREIGN KEY (`user_id`) REFERENCES `auth_user` (`id`) ON DELETE CASCADE,
ADD CONSTRAINT `auth_membership_ibfk_2` FOREIGN KEY (`group_id`) REFERENCES `auth_group` (`id`) ON DELETE CASCADE;
--
-- Constraints for table `auth_permission`
--
ALTER TABLE `auth_permission`
ADD CONSTRAINT `auth_permission_ibfk_1` FOREIGN KEY (`group_id`) REFERENCES `auth_group` (`id`) ON DELETE CASCADE;
--
-- Constraints for table `gnode`
--
ALTER TABLE `gnode`
ADD CONSTRAINT `gnode_ibfk_4` FOREIGN KEY (`parent`) REFERENCES `gnode` (`id`) ON DELETE NO ACTION,
ADD CONSTRAINT `gnode_ibfk_5` FOREIGN KEY (`parent`) REFERENCES `gnode` (`id`) ON DELETE NO ACTION;
--
-- Constraints for table `gtree_edit`
--
ALTER TABLE `gtree_edit`
ADD CONSTRAINT `gtree_edit_ibfk_1` FOREIGN KEY (`gtree`) REFERENCES `gtree` (`id`) ON DELETE CASCADE,
ADD CONSTRAINT `gtree_edit_ibfk_2` FOREIGN KEY (`target_gnode`) REFERENCES `gnode` (`id`) ON DELETE CASCADE,
ADD CONSTRAINT `gtree_edit_ibfk_3` FOREIGN KEY (`source_node`) REFERENCES `snode` (`id`) ON DELETE CASCADE,
ADD CONSTRAINT `gtree_edit_ibfk_4` FOREIGN KEY (`user`) REFERENCES `auth_user` (`id`) ON DELETE CASCADE,
ADD CONSTRAINT `gtree_edit_ibfk_5` FOREIGN KEY (`clipboard_node`) REFERENCES `snode` (`id`) ON DELETE CASCADE;
--
-- Constraints for table `gtree_share`
--
ALTER TABLE `gtree_share`
ADD CONSTRAINT `gtree_share_ibfk_1` FOREIGN KEY (`user`) REFERENCES `unique_user` (`id`) ON DELETE CASCADE,
ADD CONSTRAINT `gtree_share_ibfk_2` FOREIGN KEY (`gtree`) REFERENCES `gtree` (`id`) ON DELETE CASCADE;
--
-- Constraints for table `ncbi_name`
--
ALTER TABLE `ncbi_name`
ADD CONSTRAINT `ncbi_name_ibfk_1` FOREIGN KEY (`taxid`) REFERENCES `ncbi_node` (`taxid`) ON DELETE NO ACTION;
--
-- Constraints for table `otu`
--
ALTER TABLE `otu`
ADD CONSTRAINT `otu_ibfk_1` FOREIGN KEY (`study`) REFERENCES `study` (`id`) ON DELETE CASCADE,
ADD CONSTRAINT `otu_ibfk_2` FOREIGN KEY (`ottol_name`) REFERENCES `ottol_name` (`id`) ON DELETE SET NULL;
--
-- Constraints for table `plugin_wiki_attachment`
--
ALTER TABLE `plugin_wiki_attachment`
ADD CONSTRAINT `plugin_wiki_attachment_ibfk_1` FOREIGN KEY (`created_by`) REFERENCES `auth_user` (`id`) ON DELETE CASCADE,
ADD CONSTRAINT `plugin_wiki_attachment_ibfk_2` FOREIGN KEY (`modified_by`) REFERENCES `auth_user` (`id`) ON DELETE CASCADE;
--
-- Constraints for table `plugin_wiki_comment`
--
ALTER TABLE `plugin_wiki_comment`
ADD CONSTRAINT `plugin_wiki_comment_ibfk_1` FOREIGN KEY (`created_by`) REFERENCES `auth_user` (`id`) ON DELETE CASCADE;
--
-- Constraints for table `plugin_wiki_link`
--
ALTER TABLE `plugin_wiki_link`
ADD CONSTRAINT `plugin_wiki_link_ibfk_1` FOREIGN KEY (`tag`) REFERENCES `plugin_wiki_tag` (`id`) ON DELETE CASCADE;
--
-- Constraints for table `plugin_wiki_page`
--
ALTER TABLE `plugin_wiki_page`
ADD CONSTRAINT `plugin_wiki_page_ibfk_1` FOREIGN KEY (`role`) REFERENCES `auth_group` (`id`) ON DELETE CASCADE,
ADD CONSTRAINT `plugin_wiki_page_ibfk_2` FOREIGN KEY (`created_by`) REFERENCES `auth_user` (`id`) ON DELETE CASCADE,
ADD CONSTRAINT `plugin_wiki_page_ibfk_3` FOREIGN KEY (`modified_by`) REFERENCES `auth_user` (`id`) ON DELETE CASCADE;
--
-- Constraints for table `plugin_wiki_page_archive`
--
ALTER TABLE `plugin_wiki_page_archive`
ADD CONSTRAINT `plugin_wiki_page_archive_ibfk_1` FOREIGN KEY (`current_record`) REFERENCES `plugin_wiki_page` (`id`) ON DELETE CASCADE,
ADD CONSTRAINT `plugin_wiki_page_archive_ibfk_2` FOREIGN KEY (`role`) REFERENCES `auth_group` (`id`) ON DELETE CASCADE,
ADD CONSTRAINT `plugin_wiki_page_archive_ibfk_3` FOREIGN KEY (`created_by`) REFERENCES `auth_user` (`id`) ON DELETE CASCADE,
ADD CONSTRAINT `plugin_wiki_page_archive_ibfk_4` FOREIGN KEY (`modified_by`) REFERENCES `auth_user` (`id`) ON DELETE CASCADE;
--
-- Constraints for table `plugin_wiki_tag`
--