updates to Doxygen documenation

tripal_contact/tripal_contact.api.inc

@@ -4,7 +4,7 @@
  * @section Chado Table Descriptions
  ****************************************************************************/
  
- /****************************************************************************
+ /**
  * Implements hook_chado_contact_schema()
  * Purpose: To add descriptions and foreign keys to default table description
  * Note: This array will be merged with the array from all other implementations
@@ -25,7 +25,7 @@ function tripal_stock_chado_contact_schema() {
   return $description;
 }
 
- /****************************************************************************
+ /**
  * Implements hook_chado_contact_relationship_schema()
  * Purpose: To add descriptions and foreign keys to default table description
  * Note: This array will be merged with the array from all other implementations
@@ -52,4 +52,4 @@ function tripal_stock_chado_contact_relationship_schema() {
   );
   
   return $description;
-}
+}

tripal_contact/tripal_contact.module

@@ -12,8 +12,14 @@
 /**
  * @defgroup tripal_contact Contact Module
  * @{
- * Provides functions for managing chado contacts
+ * Currently this module only provides support for integration with Drupal 
+ * views and some support for querying using the Tripal Core API. 
+ *
+ * This module needs further development to support full management of 
+ * contact information within Chado, and full definitions for foreign 
+ * key relationships in Chado.
  * @}
+ * @ingroup tripal_modules
  */
 
 require('tripal_contact.api.inc');
@@ -30,4 +36,4 @@ function tripal_contact_views_api() {
    return array(
       'api' => 2.0,
    );
-}
+}

tripal_core/chado_tables.schema.inc

@@ -1,6913 +0,0 @@
-<?php
-
-/**
- * Retrieves the schema for all tables
- * This function is deprecated
- *
- * @ingroup tripal_schema_api
- */
-function tripal_core_get_chado_schema (){
-
-   $schema['organism_dbxref'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'organism_dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'organism_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('organism_dbxref_id'),
-     'unique keys' => array(
-       'organism_dbxref_c1' => array('organism_id', 'dbxref_id')
-     ),
-     'indexes' => array(
-       'organism_dbxref_idx1' => array('organism_id'),
-       'organism_dbxref_idx2' => array('dbxref_id'),
-     ),
-   );
-   $schema['organismprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'organismprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'organism_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('organismprop_id'),
-     'unique keys' => array(
-       'organismprop_c1' => array('organism_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'organismprop_idx1' => array('organism_id'),
-       'organismprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['phendesc'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'phendesc_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'genotype_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'environment_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'description' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('phendesc_id'),
-     'unique keys' => array(
-       'phendesc_c1' => array('genotype_id', 'environment_id', 'type_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'phendesc_idx1' => array('genotype_id'),
-       'phendesc_idx2' => array('environment_id'),
-       'phendesc_idx3' => array('pub_id'),
-     ),
-   );
-   $schema['phenotype'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'phenotype_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'uniquename' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-       'observable_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'attr_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'cvalue_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'assay_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('phenotype_id'),
-     'unique keys' => array(
-       'phenotype_c1' => array('uniquename')
-     ),
-     'indexes' => array(
-       'phenotype_idx1' => array('cvalue_id'),
-       'phenotype_idx2' => array('observable_id'),
-       'phenotype_idx3' => array('attr_id'),
-     ),
-   );
-   $schema['organism'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'organism_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'abbreviation' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'genus' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => TRUE,
-       ),
-       'species' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => TRUE,
-       ),
-       'common_name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'comment' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('organism_id'),
-     'unique keys' => array(
-       'organism_c1' => array('genus', 'species')
-     ),
-   );
-   $schema['materialized_view'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'materialized_view_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'last_update' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'datetime',
-         'not null' => FALSE,
-       ),
-       'refresh_time' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '64',
-         'not null' => FALSE,
-       ),
-       'mv_schema' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '64',
-         'not null' => FALSE,
-       ),
-       'mv_table' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '128',
-         'not null' => FALSE,
-       ),
-       'mv_specs' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'indexed' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'query' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'special_index' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-     ),
-     'unique keys' => array(
-       'name' => array('name')
-     ),
-   );
-   $schema['libraryprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'libraryprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'library_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('libraryprop_id'),
-     'unique keys' => array(
-       'libraryprop_c1' => array('library_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'libraryprop_idx1' => array('library_id'),
-       'libraryprop_idx2' => array('type_id'),
-     ),
-   );
-
-   $schema['libraryprop_pub'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'libraryprop_pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'libraryprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('libraryprop_pub_id'),
-     'unique keys' => array(
-       'libraryprop_pub_c1' => array('libraryprop_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'libraryprop_pub_idx1' => array('libraryprop_id'),
-       'libraryprop_pub_idx2' => array('pub_id'),
-     ),
-   );
-   $schema['magedocumentation'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'magedocumentation_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'mageml_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'tableinfo_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'row_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'mageidentifier' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('magedocumentation_id'),
-     'indexes' => array(
-       'magedocumentation_idx1' => array('mageml_id'),
-       'magedocumentation_idx2' => array('tableinfo_id'),
-       'magedocumentation_idx3' => array('row_id'),
-     ),
-   );
-   $schema['mageml'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'mageml_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'mage_package' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-       'mage_ml' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('mageml_id'),
-   );
-   $schema['phenotype_comparison'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'phenotype_comparison_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'genotype1_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'environment1_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'genotype2_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'environment2_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'phenotype1_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'phenotype2_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'organism_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('phenotype_comparison_id'),
-     'unique keys' => array(
-       'phenotype_comparison_c1' => array('genotype1_id', 'environment1_id', 'genotype2_id', 'environment2_id', 'phenotype1_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'phenotype_comparison_idx1' => array('genotype1_id'),
-       'phenotype_comparison_idx2' => array('genotype2_id'),
-       'phenotype_comparison_idx4' => array('pub_id'),
-     ),
-   );
-   $schema['phenotype_comparison_cvterm'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'phenotype_comparison_cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'phenotype_comparison_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('phenotype_comparison_cvterm_id'),
-     'unique keys' => array(
-       'phenotype_comparison_cvterm_c1' => array('phenotype_comparison_id', 'cvterm_id')
-     ),
-     'indexes' => array(
-       'phenotype_comparison_cvterm_idx1' => array('phenotype_comparison_id'),
-       'phenotype_comparison_cvterm_idx2' => array('cvterm_id'),
-     ),
-   );
-   $schema['phylonode_relationship'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'phylonode_relationship_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'phylotree_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('phylonode_relationship_id'),
-     'unique keys' => array(
-       'subject_id' => array('subject_id', 'object_id', 'type_id')
-     ),
-     'indexes' => array(
-       'phylonode_relationship_idx1' => array('subject_id'),
-       'phylonode_relationship_idx2' => array('object_id'),
-       'phylonode_relationship_idx3' => array('type_id'),
-     ),
-   );
-   $schema['phylonodeprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'phylonodeprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'phylonode_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-         'default' => '',
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('phylonodeprop_id'),
-     'unique keys' => array(
-       'phylonode_id' => array('phylonode_id', 'type_id', 'value', 'rank')
-     ),
-     'indexes' => array(
-       'phylonodeprop_idx1' => array('phylonode_id'),
-       'phylonodeprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['phylotree'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'phylotree_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'analysis_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'comment' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('phylotree_id'),
-     'indexes' => array(
-       'phylotree_idx1' => array('phylotree_id'),
-     ),
-   );
-   $schema['phylotree_pub'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'phylotree_pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'phylotree_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('phylotree_pub_id'),
-     'unique keys' => array(
-       'phylotree_id' => array('phylotree_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'phylotree_pub_idx1' => array('phylotree_id'),
-       'phylotree_pub_idx2' => array('pub_id'),
-     ),
-   );
-   $schema['phylonode_pub'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'phylonode_pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'phylonode_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('phylonode_pub_id'),
-     'unique keys' => array(
-       'phylonode_id' => array('phylonode_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'phylonode_pub_idx1' => array('phylonode_id'),
-       'phylonode_pub_idx2' => array('pub_id'),
-     ),
-   );
-   $schema['phylonode_organism'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'phylonode_organism_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'phylonode_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'organism_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('phylonode_organism_id'),
-     'unique keys' => array(
-       'phylonode_id' => array('phylonode_id')
-     ),
-     'indexes' => array(
-       'phylonode_organism_idx1' => array('phylonode_id'),
-       'phylonode_organism_idx2' => array('organism_id'),
-     ),
-   );
-   $schema['phenotype_cvterm'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'phenotype_cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'phenotype_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('phenotype_cvterm_id'),
-     'unique keys' => array(
-       'phenotype_cvterm_c1' => array('phenotype_id', 'cvterm_id', 'rank')
-     ),
-     'indexes' => array(
-       'phenotype_cvterm_idx1' => array('phenotype_id'),
-       'phenotype_cvterm_idx2' => array('cvterm_id'),
-     ),
-   );
-   $schema['phenstatement'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'phenstatement_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'genotype_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'environment_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'phenotype_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('phenstatement_id'),
-     'unique keys' => array(
-       'phenstatement_c1' => array('genotype_id', 'phenotype_id', 'environment_id', 'type_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'phenstatement_idx1' => array('genotype_id'),
-       'phenstatement_idx2' => array('phenotype_id'),
-     ),
-   );
-   $schema['phylonode'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'phylonode_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'phylotree_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'parent_phylonode_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'left_idx' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'right_idx' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'label' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'distance' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'float',
-         'size' => 'big',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('phylonode_id'),
-     'unique keys' => array(
-       'phylotree_id' => array('phylotree_id', 'left_idx'),
-       'phylonode_phylotree_id_key1' => array('phylotree_id', 'right_idx')
-     ),
-   );
-   $schema['phylonode_dbxref'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'phylonode_dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'phylonode_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('phylonode_dbxref_id'),
-     'unique keys' => array(
-       'phylonode_id' => array('phylonode_id', 'dbxref_id')
-     ),
-     'indexes' => array(
-       'phylonode_dbxref_idx1' => array('phylonode_id'),
-       'phylonode_dbxref_idx2' => array('dbxref_id'),
-     ),
-   );
-   $schema['library_synonym'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'library_synonym_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'synonym_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'library_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'is_current' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => TRUE,
-         'default' => 'ru',
-       ),
-       'is_internal' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => TRUE,
-         'default' => 'als',
-       ),
-     ),
-     'primary key' => array('library_synonym_id'),
-     'unique keys' => array(
-       'library_synonym_c1' => array('synonym_id', 'library_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'library_synonym_idx1' => array('synonym_id'),
-       'library_synonym_idx2' => array('library_id'),
-       'library_synonym_idx3' => array('pub_id'),
-     ),
-   );
-   $schema['library_pub'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'library_pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'library_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('library_pub_id'),
-     'unique keys' => array(
-       'library_pub_c1' => array('library_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'library_pub_idx1' => array('library_id'),
-       'library_pub_idx2' => array('pub_id'),
-     ),
-   );
-
-   $schema['featureprop_pub'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'featureprop_pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'featureprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('featureprop_pub_id'),
-     'unique keys' => array(
-       'featureprop_pub_c1' => array('featureprop_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'featureprop_pub_idx1' => array('featureprop_id'),
-       'featureprop_pub_idx2' => array('pub_id'),
-     ),
-   );
-   $schema['featureprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'featureprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('featureprop_id'),
-     'unique keys' => array(
-       'featureprop_c1' => array('feature_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'featureprop_idx1' => array('feature_id'),
-       'featureprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['featurerange'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'featurerange_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'featuremap_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'leftstartf_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'leftendf_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'rightstartf_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'rightendf_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'rangestr' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('featurerange_id'),
-     'indexes' => array(
-       'featurerange_idx1' => array('featuremap_id'),
-       'featurerange_idx2' => array('feature_id'),
-       'featurerange_idx3' => array('leftstartf_id'),
-       'featurerange_idx4' => array('leftendf_id'),
-       'featurerange_idx5' => array('rightstartf_id'),
-       'featurerange_idx6' => array('rightendf_id'),
-     ),
-   );
-   $schema['featureset_meets'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['fnr_type'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'type' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '1024',
-         'not null' => FALSE,
-       ),
-       'residues' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'seqlen' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'md5checksum' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'char',
-         'length' => '32',
-         'not null' => FALSE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'timeaccessioned' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'datetime',
-         'not null' => FALSE,
-       ),
-       'timelastmodified' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'datetime',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['featurepos'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'featurepos_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'featuremap_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'map_feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'mappos' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'float',
-         'size' => 'big',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('featurepos_id'),
-     'indexes' => array(
-       'featurepos_idx1' => array('featuremap_id'),
-       'featurepos_idx2' => array('feature_id'),
-       'featurepos_idx3' => array('map_feature_id'),
-     ),
-   );
-   $schema['featuremap_pub'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'featuremap_pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'featuremap_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('featuremap_pub_id'),
-     'indexes' => array(
-       'featuremap_pub_idx1' => array('featuremap_id'),
-       'featuremap_pub_idx2' => array('pub_id'),
-     ),
-   );
-   $schema['feature_union'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'srcfeature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'subject_strand' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'small',
-         'not null' => FALSE,
-       ),
-       'object_strand' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'small',
-         'not null' => FALSE,
-       ),
-       'fmin' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'fmax' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['featureloc'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'featureloc_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'srcfeature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'fmin' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'is_fmin_partial' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => TRUE,
-         'default' => 'als',
-       ),
-       'fmax' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'is_fmax_partial' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => TRUE,
-         'default' => 'als',
-       ),
-       'strand' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'small',
-         'not null' => FALSE,
-       ),
-       'phase' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'residue_info' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'locgroup' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('featureloc_id'),
-     'unique keys' => array(
-       'featureloc_c1' => array('feature_id', 'locgroup', 'rank')
-     ),
-     'indexes' => array(
-       'binloc_boxrange' => array('fmin'),
-       'binloc_boxrange_src' => array('srcfeature_id', 'fmin'),
-       'featureloc_idx1' => array('feature_id'),
-       'featureloc_idx2' => array('srcfeature_id'),
-       'featureloc_idx3' => array('srcfeature_id', 'fmin', 'fmax'),
-     ),
-   );
-   $schema['featureloc_pub'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'featureloc_pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'featureloc_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('featureloc_pub_id'),
-     'unique keys' => array(
-       'featureloc_pub_c1' => array('featureloc_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'featureloc_pub_idx1' => array('featureloc_id'),
-       'featureloc_pub_idx2' => array('pub_id'),
-     ),
-   );
-   $schema['featuremap'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'featuremap_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'description' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'unittype_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('featuremap_id'),
-     'unique keys' => array(
-       'featuremap_c1' => array('name')
-     ),
-   );
-   $schema['fp_key'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'pkey' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '1024',
-         'not null' => FALSE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['genotype'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'genotype_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'uniquename' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-       'description' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('genotype_id'),
-     'unique keys' => array(
-       'genotype_c1' => array('uniquename')
-     ),
-     'indexes' => array(
-       'genotype_idx1' => array('uniquename'),
-       'genotype_idx2' => array('name'),
-     ),
-   );
-   $schema['library_cvterm'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'library_cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'library_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('library_cvterm_id'),
-     'unique keys' => array(
-       'library_cvterm_c1' => array('library_id', 'cvterm_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'library_cvterm_idx1' => array('library_id'),
-       'library_cvterm_idx2' => array('cvterm_id'),
-       'library_cvterm_idx3' => array('pub_id'),
-     ),
-   );
-   $schema['library_dbxref'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'library_dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'library_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'is_current' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => TRUE,
-         'default' => 'ru',
-       ),
-     ),
-     'primary key' => array('library_dbxref_id'),
-     'unique keys' => array(
-       'library_dbxref_c1' => array('library_id', 'dbxref_id')
-     ),
-     'indexes' => array(
-       'library_dbxref_idx1' => array('library_id'),
-       'library_dbxref_idx2' => array('dbxref_id'),
-     ),
-   );
-   $schema['library_feature'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'library_feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'library_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('library_feature_id'),
-     'unique keys' => array(
-       'library_feature_c1' => array('library_id', 'feature_id')
-     ),
-     'indexes' => array(
-       'library_feature_idx1' => array('library_id'),
-       'library_feature_idx2' => array('feature_id'),
-     ),
-   );
-   $schema['library_feature_count'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'library_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'num_features' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'feature_type' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-     ),
-     'unique keys' => array(
-       'library_feature_count_index' => array('library_id')
-     ),
-   );
-
-   $schema['library'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'library_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'organism_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'uniquename' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'is_obsolete' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-       'timeaccessioned' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'datetime',
-         'not null' => TRUE,
-         'default' => 'ow(',
-       ),
-       'timelastmodified' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'datetime',
-         'not null' => TRUE,
-         'default' => 'ow(',
-       ),
-     ),
-     'primary key' => array('library_id'),
-     'unique keys' => array(
-       'library_c1' => array('organism_id', 'uniquename', 'type_id')
-     ),
-     'indexes' => array(
-       'library_idx1' => array('organism_id'),
-       'library_idx2' => array('type_id'),
-       'library_idx3' => array('uniquename'),
-       'library_name_ind1' => array('name'),
-     ),
-   );
-   $schema['intronloc_view'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'exon1_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'exon2_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'fmin' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'fmax' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'strand' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'small',
-         'not null' => FALSE,
-       ),
-       'srcfeature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['gff3atts'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'type' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'attribute' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['gff3view'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'ref' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'source' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'type' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '1024',
-         'not null' => FALSE,
-       ),
-       'fstart' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'fend' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'score' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'float',
-         'size' => 'big',
-         'not null' => FALSE,
-       ),
-       'strand' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'small',
-         'not null' => FALSE,
-       ),
-       'phase' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'seqlen' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'organism_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['gffatts'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'type' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'attribute' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['intron_combined_view'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'exon1_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'exon2_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'fmin' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'fmax' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'strand' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'small',
-         'not null' => FALSE,
-       ),
-       'srcfeature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'intron_rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'transcript_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['project'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'project_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => TRUE,
-       ),
-       'description' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('project_id'),
-     'unique keys' => array(
-       'project_c1' => array('name')
-     ),
-   );
-   $schema['protein_coding_gene'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'organism_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'uniquename' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'residues' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'seqlen' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'md5checksum' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'char',
-         'length' => '32',
-         'not null' => FALSE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'is_analysis' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => FALSE,
-       ),
-       'is_obsolete' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => FALSE,
-       ),
-       'timeaccessioned' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'datetime',
-         'not null' => FALSE,
-       ),
-       'timelastmodified' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'datetime',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['studyfactorvalue'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'studyfactorvalue_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'studyfactor_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'assay_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'factorvalue' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('studyfactorvalue_id'),
-     'indexes' => array(
-       'studyfactorvalue_idx1' => array('studyfactor_id'),
-       'studyfactorvalue_idx2' => array('assay_id'),
-     ),
-   );
-   $schema['studyfactor'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'studyfactor_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'studydesign_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-       'description' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('studyfactor_id'),
-     'indexes' => array(
-       'studyfactor_idx1' => array('studydesign_id'),
-       'studyfactor_idx2' => array('type_id'),
-     ),
-   );
-   $schema['studyprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'studyprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'study_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('studyprop_id'),
-     'unique keys' => array(
-       'study_id' => array('study_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'studyprop_idx1' => array('study_id'),
-       'studyprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['studyprop_feature'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'studyprop_feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'studyprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('studyprop_feature_id'),
-     'unique keys' => array(
-       'studyprop_id' => array('studyprop_id', 'feature_id')
-     ),
-     'indexes' => array(
-       'studyprop_feature_idx1' => array('studyprop_id'),
-       'studyprop_feature_idx2' => array('feature_id'),
-     ),
-   );
-   $schema['synonym'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'synonym_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'synonym_sgml' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('synonym_id'),
-     'unique keys' => array(
-       'synonym_c1' => array('name', 'type_id')
-     ),
-     'indexes' => array(
-       'synonym_idx1' => array('type_id'),
-     ),
-   );
-   $schema['studydesignprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'studydesignprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'studydesign_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('studydesignprop_id'),
-     'unique keys' => array(
-       'studydesignprop_c1' => array('studydesign_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'studydesignprop_idx1' => array('studydesign_id'),
-       'studydesignprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['studydesign'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'studydesign_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'study_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'description' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('studydesign_id'),
-     'indexes' => array(
-       'studydesign_idx1' => array('study_id'),
-     ),
-   );
-   $schema['stockprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'stockprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'stock_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('stockprop_id'),
-     'unique keys' => array(
-       'stockprop_c1' => array('stock_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'stockprop_idx1' => array('stock_id'),
-       'stockprop_idx2' => array('type_id'),
-     ),
-     'foreign keys' => array(
-       'stock' => array(
-         'table' => 'stock',
-         'columns' => array('stock_id' => 'stock_id'),
-       ),
-       'cvterm' => array(
-         'table' => 'cvterm',
-         'columns' => array('type_id' => 'cvterm_id'),
-       ),
-     ),
-   );
-   $schema['stockprop_pub'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'stockprop_pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'stockprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('stockprop_pub_id'),
-     'unique keys' => array(
-       'stockprop_pub_c1' => array('stockprop_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'stockprop_pub_idx1' => array('stockprop_id'),
-       'stockprop_pub_idx2' => array('pub_id'),
-     ),
-   );
-
-   $schema['study'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'study_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'contact_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-       'description' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('study_id'),
-     'unique keys' => array(
-       'study_c1' => array('name')
-     ),
-     'indexes' => array(
-       'study_idx1' => array('contact_id'),
-       'study_idx2' => array('pub_id'),
-       'study_idx3' => array('dbxref_id'),
-     ),
-   );
-   $schema['study_assay'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'study_assay_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'study_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'assay_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('study_assay_id'),
-     'unique keys' => array(
-       'study_assay_c1' => array('study_id', 'assay_id')
-     ),
-     'indexes' => array(
-       'study_assay_idx1' => array('study_id'),
-       'study_assay_idx2' => array('assay_id'),
-     ),
-   );
-   $schema['tableinfo'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'tableinfo_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '30',
-         'not null' => TRUE,
-       ),
-       'primary_key_column' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '30',
-         'not null' => FALSE,
-       ),
-       'is_view' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-       'view_on_table_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'superclass_table_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'is_updateable' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 1,
-       ),
-       'modification_date' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'date',
-         'not null' => TRUE,
-         'default' => 'ow(',
-       ),
-     ),
-     'primary key' => array('tableinfo_id'),
-     'unique keys' => array(
-       'tableinfo_c1' => array('name')
-     ),
-   );
-   $schema['treatment'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'treatment_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-       'biomaterial_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'protocol_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('treatment_id'),
-     'indexes' => array(
-       'treatment_idx1' => array('biomaterial_id'),
-       'treatment_idx2' => array('type_id'),
-       'treatment_idx3' => array('protocol_id'),
-     ),
-   );
-   $schema['tripal_obo'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cv_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'unsigned' => TRUE,
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-       'file' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '1024',
-         'not null' => FALSE,
-       ),
-       'url' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '1024',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('cv_id'),
-     'indexes' => array(
-       'cv_id' => array('cv_id'),
-     ),
-   );
-   $schema['tripal_organism_views_common_name'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'nid' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'unsigned' => TRUE,
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-       'common_name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => TRUE,
-         'default' => 'NA',
-       ),
-     ),
-   );
-   $schema['type_feature_count'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'type' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '1024',
-         'not null' => FALSE,
-       ),
-       'num_features' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'big',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['stockcollectionprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'stockcollectionprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'stockcollection_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('stockcollectionprop_id'),
-     'unique keys' => array(
-       'stockcollectionprop_c1' => array('stockcollection_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'stockcollectionprop_idx1' => array('stockcollection_id'),
-       'stockcollectionprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['stockcollection_stock'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'stockcollection_stock_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'stockcollection_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'stock_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('stockcollection_stock_id'),
-     'unique keys' => array(
-       'stockcollection_stock_c1' => array('stockcollection_id', 'stock_id')
-     ),
-     'indexes' => array(
-       'stockcollection_stock_idx1' => array('stockcollection_id'),
-       'stockcollection_stock_idx2' => array('stock_id'),
-     ),
-   );
-   $schema['public_feature'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'vid' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'unsigned' => TRUE,
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-       'nid' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'unsigned' => TRUE,
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-       'sync_date' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('nid'),
-     'unique keys' => array(
-       'nid_vid' => array('nid', 'vid'),
-       'vid' => array('vid')
-     ),
-     'indexes' => array(
-       'feature_id' => array('feature_id'),
-     ),
-   );
-   $schema['public_library'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'vid' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'unsigned' => TRUE,
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-       'nid' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'unsigned' => TRUE,
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-       'library_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('nid'),
-     'unique keys' => array(
-       'nid_vid' => array('nid', 'vid'),
-       'vid' => array('vid')
-     ),
-     'indexes' => array(
-       'library_id' => array('library_id'),
-     ),
-   );
-   $schema['public_organism'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'vid' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'unsigned' => TRUE,
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-       'nid' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'unsigned' => TRUE,
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-       'organism_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('nid'),
-     'unique keys' => array(
-       'nid_vid' => array('nid', 'vid'),
-       'vid' => array('vid')
-     ),
-     'indexes' => array(
-       'organism_id' => array('organism_id'),
-     ),
-   );
-   $schema['pubprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'pubprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('pubprop_id'),
-     'unique keys' => array(
-       'pubprop_c1' => array('pub_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'pubprop_idx1' => array('pub_id'),
-       'pubprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['pubauthor'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'pubauthor_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'editor' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => FALSE,
-         'default' => 'als',
-       ),
-       'surname' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '100',
-         'not null' => TRUE,
-       ),
-       'givennames' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '100',
-         'not null' => FALSE,
-       ),
-       'suffix' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '100',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('pubauthor_id'),
-     'unique keys' => array(
-       'pubauthor_c1' => array('pub_id', 'rank')
-     ),
-     'indexes' => array(
-       'pubauthor_idx2' => array('pub_id'),
-     ),
-   );
-   $schema['pub_relationship'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'pub_relationship_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('pub_relationship_id'),
-     'unique keys' => array(
-       'pub_relationship_c1' => array('subject_id', 'object_id', 'type_id')
-     ),
-     'indexes' => array(
-       'pub_relationship_idx1' => array('subject_id'),
-       'pub_relationship_idx2' => array('object_id'),
-       'pub_relationship_idx3' => array('type_id'),
-     ),
-   );
-   $schema['protocol'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'protocol_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-       'uri' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'protocoldescription' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'hardwaredescription' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'softwaredescription' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('protocol_id'),
-     'unique keys' => array(
-       'protocol_c1' => array('name')
-     ),
-     'indexes' => array(
-       'protocol_idx1' => array('type_id'),
-       'protocol_idx2' => array('pub_id'),
-       'protocol_idx3' => array('dbxref_id'),
-     ),
-   );
-
-   $schema['protocolparam'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'protocolparam_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'protocol_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-       'datatype_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'unittype_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('protocolparam_id'),
-     'indexes' => array(
-       'protocolparam_idx1' => array('protocol_id'),
-       'protocolparam_idx2' => array('datatype_id'),
-       'protocolparam_idx3' => array('unittype_id'),
-     ),
-   );
-   $schema['pub'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'title' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'volumetitle' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'volume' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'series_name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'issue' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'pyear' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'pages' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'miniref' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'uniquename' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'is_obsolete' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => FALSE,
-         'default' => 'als',
-       ),
-       'publisher' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'pubplace' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('pub_id'),
-     'unique keys' => array(
-       'pub_c1' => array('uniquename')
-     ),
-     'indexes' => array(
-       'pub_idx1' => array('type_id'),
-     ),
-   );
-   $schema['pub_dbxref'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'pub_dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'is_current' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => TRUE,
-         'default' => 'ru',
-       ),
-     ),
-     'primary key' => array('pub_dbxref_id'),
-     'unique keys' => array(
-       'pub_dbxref_c1' => array('pub_id', 'dbxref_id')
-     ),
-     'indexes' => array(
-       'pub_dbxref_idx1' => array('pub_id'),
-       'pub_dbxref_idx2' => array('dbxref_id'),
-     ),
-   );
-   $schema['quantification'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'quantification_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'acquisition_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'operator_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'protocol_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'analysis_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'quantificationdate' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'datetime',
-         'not null' => FALSE,
-         'default' => 'ow(',
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'uri' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('quantification_id'),
-     'unique keys' => array(
-       'quantification_c1' => array('name', 'analysis_id')
-     ),
-     'indexes' => array(
-       'quantification_idx1' => array('acquisition_id'),
-       'quantification_idx2' => array('operator_id'),
-       'quantification_idx3' => array('protocol_id'),
-       'quantification_idx4' => array('analysis_id'),
-     ),
-   );
-   $schema['quantification_relationship'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'quantification_relationship_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('quantification_relationship_id'),
-     'unique keys' => array(
-       'quantification_relationship_c1' => array('subject_id', 'object_id', 'type_id')
-     ),
-     'indexes' => array(
-       'quantification_relationship_idx1' => array('subject_id'),
-       'quantification_relationship_idx2' => array('type_id'),
-       'quantification_relationship_idx3' => array('object_id'),
-     ),
-   );
-   $schema['stock_pub'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'stock_pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'stock_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('stock_pub_id'),
-     'unique keys' => array(
-       'stock_pub_c1' => array('stock_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'stock_pub_idx1' => array('stock_id'),
-       'stock_pub_idx2' => array('pub_id'),
-     ),
-   );
-   $schema['stock_relationship'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'stock_relationship_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('stock_relationship_id'),
-     'unique keys' => array(
-       'stock_relationship_c1' => array('subject_id', 'object_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'stock_relationship_idx1' => array('subject_id'),
-       'stock_relationship_idx2' => array('object_id'),
-       'stock_relationship_idx3' => array('type_id'),
-     ),
-     'foreign keys' => array(
-       'stock' => array(
-         'table' => 'stock',
-         'columns' => array('subject_id' => 'stock_id'),
-       ),
-       'cvterm' => array(
-         'table' => 'cvterm',
-         'columns' => array('type_id' => 'cvterm_id'),
-       ),
-     ),
-   );
-   $schema['stock_relationship_pub'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'stock_relationship_pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'stock_relationship_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('stock_relationship_pub_id'),
-     'unique keys' => array(
-       'stock_relationship_pub_c1' => array('stock_relationship_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'stock_relationship_pub_idx1' => array('stock_relationship_id'),
-       'stock_relationship_pub_idx2' => array('pub_id'),
-     ),
-   );
-   $schema['stockcollection'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'stockcollection_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'contact_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'uniquename' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('stockcollection_id'),
-     'unique keys' => array(
-       'stockcollection_c1' => array('uniquename', 'type_id')
-     ),
-     'indexes' => array(
-       'stockcollection_idx1' => array('contact_id'),
-       'stockcollection_idx2' => array('type_id'),
-       'stockcollection_idx3' => array('uniquename'),
-       'stockcollection_name_ind1' => array('name'),
-     ),
-   );
-   $schema['stock_genotype'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'stock_genotype_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'stock_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'genotype_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('stock_genotype_id'),
-     'unique keys' => array(
-       'stock_genotype_c1' => array('stock_id', 'genotype_id')
-     ),
-     'indexes' => array(
-       'stock_genotype_idx1' => array('stock_id'),
-       'stock_genotype_idx2' => array('genotype_id'),
-     ),
-   );
-   $schema['stock_dbxref'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'stock_dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'stock_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'is_current' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => TRUE,
-         'default' => 'ru',
-       ),
-     ),
-     'primary key' => array('stock_dbxref_id'),
-     'unique keys' => array(
-       'stock_dbxref_c1' => array('stock_id', 'dbxref_id')
-     ),
-     'indexes' => array(
-       'stock_dbxref_idx1' => array('stock_id'),
-       'stock_dbxref_idx2' => array('dbxref_id'),
-     ),
-     'foreign keys' => array(
-       'dbxref' => array(
-         'table' => 'dbxref',
-         'columns' => array('dbxref_id' => 'dbxref_id'),
-       ),
-       'stock' => array(
-         'table' => 'stock',
-         'columns' => array('stock_id' => 'stock_id'),
-       ),
-     ),
-   );
-   $schema['quantificationprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'quantificationprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'quantification_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('quantificationprop_id'),
-     'unique keys' => array(
-       'quantificationprop_c1' => array('quantification_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'quantificationprop_idx1' => array('quantification_id'),
-       'quantificationprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['stats_paths_to_root'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'total_paths' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'big',
-         'not null' => FALSE,
-       ),
-       'avg_distance' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'numeric',
-         'not null' => FALSE,
-         'precision' => 0,
-         'scale' => 0,
-       ),
-       'min_distance' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'max_distance' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['stock'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'stock_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'organism_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'uniquename' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-       'description' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'is_obsolete' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => TRUE,
-         'default' => 'als',
-       ),
-     ),
-     'primary key' => array('stock_id'),
-     'unique keys' => array(
-       'stock_c1' => array('organism_id', 'uniquename', 'type_id')
-     ),
-     'indexes' => array(
-       'stock_idx1' => array('dbxref_id'),
-       'stock_idx2' => array('organism_id'),
-       'stock_idx3' => array('type_id'),
-       'stock_idx4' => array('uniquename'),
-       'stock_name_ind1' => array('name'),
-     ),
-    'foreign keys' => array(
-       'organism' => array(
-         'table' => 'organism',
-         'columns' => array('organism_id' => 'organism_id'),
-       ),
-       'dbxref' => array(
-         'table' => 'dbxref',
-         'columns' => array('dbxref_id' => 'dbxref_id'),
-       ),
-       'cvterm' => array(
-         'table' => 'cvterm',
-         'columns' => array('type_id' => 'cvterm_id'),
-       ),
-     ),
-   );
-   $schema['stock_cvterm'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'stock_cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'stock_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('stock_cvterm_id'),
-     'unique keys' => array(
-       'stock_cvterm_c1' => array('stock_id', 'cvterm_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'stock_cvterm_idx1' => array('stock_id'),
-       'stock_cvterm_idx2' => array('cvterm_id'),
-       'stock_cvterm_idx3' => array('pub_id'),
-     ),
-   );
-   $schema['feature_synonym'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_synonym_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'synonym_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'is_current' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => TRUE,
-         'default' => 'als',
-       ),
-       'is_internal' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => TRUE,
-         'default' => 'als',
-       ),
-     ),
-     'primary key' => array('feature_synonym_id'),
-     'unique keys' => array(
-       'feature_synonym_c1' => array('synonym_id', 'feature_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'feature_synonym_idx1' => array('synonym_id'),
-       'feature_synonym_idx2' => array('feature_id'),
-       'feature_synonym_idx3' => array('pub_id'),
-     ),
-   );
-   $schema['feature_relationshipprop_pub'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_relationshipprop_pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'feature_relationshipprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('feature_relationshipprop_pub_id'),
-     'unique keys' => array(
-       'feature_relationshipprop_pub_c1' => array('feature_relationshipprop_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'feature_relationshipprop_pub_idx1' => array('feature_relationshipprop_id'),
-       'feature_relationshipprop_pub_idx2' => array('pub_id'),
-     ),
-   );
-
-   $schema['cell_line_relationship'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cell_line_relationship_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('cell_line_relationship_id'),
-     'unique keys' => array(
-       'cell_line_relationship_c1' => array('subject_id', 'object_id', 'type_id')
-     ),
-   );
-   $schema['cell_line_pub'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cell_line_pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'cell_line_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('cell_line_pub_id'),
-     'unique keys' => array(
-       'cell_line_pub_c1' => array('cell_line_id', 'pub_id')
-     ),
-   );
-   $schema['cell_line_synonym'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cell_line_synonym_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'cell_line_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'synonym_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'is_current' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => TRUE,
-         'default' => 'als',
-       ),
-       'is_internal' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => TRUE,
-         'default' => 'als',
-       ),
-     ),
-     'primary key' => array('cell_line_synonym_id'),
-     'unique keys' => array(
-       'cell_line_synonym_c1' => array('synonym_id', 'cell_line_id', 'pub_id')
-     ),
-   );
-   $schema['cell_lineprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cell_lineprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'cell_line_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('cell_lineprop_id'),
-     'unique keys' => array(
-       'cell_lineprop_c1' => array('cell_line_id', 'type_id', 'rank')
-     ),
-   );
-   $schema['cell_lineprop_pub'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cell_lineprop_pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'cell_lineprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('cell_lineprop_pub_id'),
-     'unique keys' => array(
-       'cell_lineprop_pub_c1' => array('cell_lineprop_id', 'pub_id')
-     ),
-   );
-   $schema['cell_line_library'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cell_line_library_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'cell_line_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'library_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('cell_line_library_id'),
-     'unique keys' => array(
-       'cell_line_library_c1' => array('cell_line_id', 'library_id', 'pub_id')
-     ),
-   );
-   $schema['cell_line_feature'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cell_line_feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'cell_line_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('cell_line_feature_id'),
-     'unique keys' => array(
-       'cell_line_feature_c1' => array('cell_line_id', 'feature_id', 'pub_id')
-     ),
-   );
-   $schema['cell_line'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cell_line_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'uniquename' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => TRUE,
-       ),
-       'organism_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'timeaccessioned' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'datetime',
-         'not null' => TRUE,
-         'default' => 'ow(',
-       ),
-       'timelastmodified' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'datetime',
-         'not null' => TRUE,
-         'default' => 'ow(',
-       ),
-     ),
-     'primary key' => array('cell_line_id'),
-     'unique keys' => array(
-       'cell_line_c1' => array('uniquename', 'organism_id')
-     ),
-   );
-   $schema['cell_line_cvterm'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cell_line_cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'cell_line_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('cell_line_cvterm_id'),
-     'unique keys' => array(
-       'cell_line_cvterm_c1' => array('cell_line_id', 'cvterm_id', 'pub_id', 'rank')
-     ),
-   );
-   $schema['cell_line_cvtermprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cell_line_cvtermprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'cell_line_cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('cell_line_cvtermprop_id'),
-     'unique keys' => array(
-       'cell_line_cvtermprop_c1' => array('cell_line_cvterm_id', 'type_id', 'rank')
-     ),
-   );
-   $schema['cell_line_dbxref'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cell_line_dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'cell_line_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'is_current' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => TRUE,
-         'default' => 'ru',
-       ),
-     ),
-     'primary key' => array('cell_line_dbxref_id'),
-     'unique keys' => array(
-       'cell_line_dbxref_c1' => array('cell_line_id', 'dbxref_id')
-     ),
-   );
-   $schema['channel'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'channel_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-       'definition' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('channel_id'),
-     'unique keys' => array(
-       'channel_c1' => array('name')
-     ),
-   );
-   $schema['common_ancestor_cvterm'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cvterm1_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'cvterm2_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'ancestor_cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'pathdistance1' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'pathdistance2' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'total_pathdistance' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['cv_cvterm_count_with_obs'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'num_terms_incl_obs' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'big',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['cv_leaf'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cv_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['cv_link_count'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cv_name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'relation_name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '1024',
-         'not null' => FALSE,
-       ),
-       'relation_cv_name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'num_links' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'big',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['cv_path_count'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cv_name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'relation_name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '1024',
-         'not null' => FALSE,
-       ),
-       'relation_cv_name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'num_paths' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'big',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-
-   $schema['cv_cvterm_count'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'num_terms_excl_obs' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'big',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['cv'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cv_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => TRUE,
-       ),
-       'definition' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('cv_id'),
-     'unique keys' => array(
-       'cv_c1' => array('name')
-     ),
-   );
-   $schema['common_descendant_cvterm'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cvterm1_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'cvterm2_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'ancestor_cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'pathdistance1' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'pathdistance2' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'total_pathdistance' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['contact'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'contact_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => TRUE,
-       ),
-       'description' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('contact_id'),
-     'unique keys' => array(
-       'contact_c1' => array('name')
-     ),
-   );
-   $schema['contact_relationship'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'contact_relationship_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('contact_relationship_id'),
-     'unique keys' => array(
-       'contact_relationship_c1' => array('subject_id', 'object_id', 'type_id')
-     ),
-     'indexes' => array(
-       'contact_relationship_idx1' => array('type_id'),
-       'contact_relationship_idx2' => array('subject_id'),
-       'contact_relationship_idx3' => array('object_id'),
-     ),
-   );
-   $schema['control'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'control_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'assay_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'tableinfo_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'row_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('control_id'),
-     'indexes' => array(
-       'control_idx1' => array('type_id'),
-       'control_idx2' => array('assay_id'),
-       'control_idx3' => array('tableinfo_id'),
-       'control_idx4' => array('row_id'),
-     ),
-   );
-   $schema['biomaterialprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'biomaterialprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'biomaterial_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('biomaterialprop_id'),
-     'unique keys' => array(
-       'biomaterialprop_c1' => array('biomaterial_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'biomaterialprop_idx1' => array('biomaterial_id'),
-       'biomaterialprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['biomaterial_treatment'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'biomaterial_treatment_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'biomaterial_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'treatment_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'unittype_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'float',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('biomaterial_treatment_id'),
-     'unique keys' => array(
-       'biomaterial_treatment_c1' => array('biomaterial_id', 'treatment_id')
-     ),
-     'indexes' => array(
-       'biomaterial_treatment_idx1' => array('biomaterial_id'),
-       'biomaterial_treatment_idx2' => array('treatment_id'),
-       'biomaterial_treatment_idx3' => array('unittype_id'),
-     ),
-   );
-   $schema['acquisition_relationship'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'acquisition_relationship_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('acquisition_relationship_id'),
-     'unique keys' => array(
-       'acquisition_relationship_c1' => array('subject_id', 'object_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'acquisition_relationship_idx1' => array('subject_id'),
-       'acquisition_relationship_idx2' => array('type_id'),
-       'acquisition_relationship_idx3' => array('object_id'),
-     ),
-   );
-   $schema['acquisition'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'acquisition_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'assay_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'protocol_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'channel_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'acquisitiondate' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'datetime',
-         'not null' => FALSE,
-         'default' => 'ow(',
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'uri' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('acquisition_id'),
-     'unique keys' => array(
-       'acquisition_c1' => array('name')
-     ),
-     'indexes' => array(
-       'acquisition_idx1' => array('assay_id'),
-       'acquisition_idx2' => array('protocol_id'),
-       'acquisition_idx3' => array('channel_id'),
-     ),
-   );
-   $schema['acquisitionprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'acquisitionprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'acquisition_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('acquisitionprop_id'),
-     'unique keys' => array(
-       'acquisitionprop_c1' => array('acquisition_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'acquisitionprop_idx1' => array('acquisition_id'),
-       'acquisitionprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['all_feature_names'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'organism_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['analysis'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'analysis_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'description' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'program' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => TRUE,
-       ),
-       'programversion' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => TRUE,
-       ),
-       'algorithm' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'sourcename' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'sourceversion' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'sourceuri' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'timeexecuted' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'datetime',
-         'not null' => TRUE,
-         'default' => 'ow(',
-       ),
-     ),
-     'primary key' => array('analysis_id'),
-     'unique keys' => array(
-       'analysis_c1' => array('program', 'programversion', 'sourcename')
-     ),
-   );
-   $schema['analysisfeature'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'analysisfeature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'analysis_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'rawscore' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'float',
-         'size' => 'big',
-         'not null' => FALSE,
-       ),
-       'normscore' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'float',
-         'size' => 'big',
-         'not null' => FALSE,
-       ),
-       'significance' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'float',
-         'size' => 'big',
-         'not null' => FALSE,
-       ),
-       'identity' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'float',
-         'size' => 'big',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('analysisfeature_id'),
-     'unique keys' => array(
-       'analysisfeature_c1' => array('feature_id', 'analysis_id')
-     ),
-     'indexes' => array(
-       'analysisfeature_idx1' => array('feature_id'),
-       'analysisfeature_idx2' => array('analysis_id'),
-     ),
-   );
-   $schema['analysisfeatureprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'analysisfeatureprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'analysisfeature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('analysisfeatureprop_id'),
-     'unique keys' => array(
-       'analysisfeature_id_type_id_rank' => array('analysisfeature_id', 'type_id', 'rank')
-     ),
-   );
-   $schema['assayprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'assayprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'assay_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('assayprop_id'),
-     'unique keys' => array(
-       'assayprop_c1' => array('assay_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'assayprop_idx1' => array('assay_id'),
-       'assayprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['biomaterial'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'biomaterial_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'taxon_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'biosourceprovider_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'description' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('biomaterial_id'),
-     'unique keys' => array(
-       'biomaterial_c1' => array('name')
-     ),
-     'indexes' => array(
-       'biomaterial_idx1' => array('taxon_id'),
-       'biomaterial_idx2' => array('biosourceprovider_id'),
-       'biomaterial_idx3' => array('dbxref_id'),
-     ),
-   );
-
-   $schema['biomaterial_dbxref'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'biomaterial_dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'biomaterial_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('biomaterial_dbxref_id'),
-     'unique keys' => array(
-       'biomaterial_dbxref_c1' => array('biomaterial_id', 'dbxref_id')
-     ),
-     'indexes' => array(
-       'biomaterial_dbxref_idx1' => array('biomaterial_id'),
-       'biomaterial_dbxref_idx2' => array('dbxref_id'),
-     ),
-   );
-   $schema['biomaterial_relationship'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'biomaterial_relationship_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('biomaterial_relationship_id'),
-     'unique keys' => array(
-       'biomaterial_relationship_c1' => array('subject_id', 'object_id', 'type_id')
-     ),
-     'indexes' => array(
-       'biomaterial_relationship_idx1' => array('subject_id'),
-       'biomaterial_relationship_idx2' => array('object_id'),
-       'biomaterial_relationship_idx3' => array('type_id'),
-     ),
-   );
-   $schema['assay_project'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'assay_project_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'assay_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'project_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('assay_project_id'),
-     'unique keys' => array(
-       'assay_project_c1' => array('assay_id', 'project_id')
-     ),
-     'indexes' => array(
-       'assay_project_idx1' => array('assay_id'),
-       'assay_project_idx2' => array('project_id'),
-     ),
-   );
-   $schema['assay_biomaterial'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'assay_biomaterial_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'assay_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'biomaterial_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'channel_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('assay_biomaterial_id'),
-     'unique keys' => array(
-       'assay_biomaterial_c1' => array('assay_id', 'biomaterial_id', 'channel_id', 'rank')
-     ),
-     'indexes' => array(
-       'assay_biomaterial_idx1' => array('assay_id'),
-       'assay_biomaterial_idx2' => array('biomaterial_id'),
-       'assay_biomaterial_idx3' => array('channel_id'),
-     ),
-   );
-   $schema['analysisprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'analysisprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'analysis_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('analysisprop_id'),
-     'unique keys' => array(
-       'analysisprop_c1' => array('analysis_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'analysisprop_idx1' => array('analysis_id'),
-       'analysisprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['arraydesign'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'arraydesign_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'manufacturer_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'platformtype_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'substratetype_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'protocol_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-       'version' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'description' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'array_dimensions' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'element_dimensions' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'num_of_elements' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'num_array_columns' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'num_array_rows' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'num_grid_columns' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'num_grid_rows' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'num_sub_columns' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'num_sub_rows' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('arraydesign_id'),
-     'unique keys' => array(
-       'arraydesign_c1' => array('name')
-     ),
-     'indexes' => array(
-       'arraydesign_idx1' => array('manufacturer_id'),
-       'arraydesign_idx2' => array('platformtype_id'),
-       'arraydesign_idx3' => array('substratetype_id'),
-       'arraydesign_idx4' => array('protocol_id'),
-       'arraydesign_idx5' => array('dbxref_id'),
-     ),
-   );
-   $schema['arraydesignprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'arraydesignprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'arraydesign_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('arraydesignprop_id'),
-     'unique keys' => array(
-       'arraydesignprop_c1' => array('arraydesign_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'arraydesignprop_idx1' => array('arraydesign_id'),
-       'arraydesignprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['assay'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'assay_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'arraydesign_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'protocol_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'assaydate' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'datetime',
-         'not null' => FALSE,
-         'default' => 'ow(',
-       ),
-       'arrayidentifier' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'arraybatchidentifier' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'operator_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'description' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('assay_id'),
-     'unique keys' => array(
-       'assay_c1' => array('name')
-     ),
-     'indexes' => array(
-       'assay_idx1' => array('arraydesign_id'),
-       'assay_idx2' => array('protocol_id'),
-       'assay_idx3' => array('operator_id'),
-       'assay_idx4' => array('dbxref_id'),
-     ),
-   );
-   $schema['cv_root'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cv_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'root_cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['cvterm'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'cv_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '1024',
-         'not null' => TRUE,
-       ),
-       'definition' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'is_obsolete' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-       'is_relationshiptype' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('cvterm_id'),
-     'unique keys' => array(
-       'cvterm_c1' => array('name', 'cv_id', 'is_obsolete'),
-       'cvterm_c2' => array('dbxref_id')
-     ),
-     'indexes' => array(
-       'cvterm_idx1' => array('cv_id'),
-       'cvterm_idx2' => array('name'),
-       'cvterm_idx3' => array('dbxref_id'),
-     ),
-     'foreign keys' => array(
-       'cv' => array(
-         'table' => 'cv',
-         'columns' => array('cv_id' => 'cv_id'),
-       ),
-       'dbxref' => array(
-         'table' => 'dbxref',
-         'columns' => array('dbxref_id' => 'dbxref_id'),
-       ),
-     ),
-   );
-   $schema['feature_dbxref'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'is_current' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => TRUE,
-         'default' => 'ru',
-       ),
-     ),
-     'primary key' => array('feature_dbxref_id'),
-     'unique keys' => array(
-       'feature_dbxref_c1' => array('feature_id', 'dbxref_id')
-     ),
-     'indexes' => array(
-       'feature_dbxref_idx1' => array('feature_id'),
-       'feature_dbxref_idx2' => array('dbxref_id'),
-     ),
-   );
-   $schema['feature_cvtermprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_cvtermprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'feature_cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('feature_cvtermprop_id'),
-     'unique keys' => array(
-       'feature_cvtermprop_c1' => array('feature_cvterm_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'feature_cvtermprop_idx1' => array('feature_cvterm_id'),
-       'feature_cvtermprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['feature_difference'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'srcfeature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'small',
-         'not null' => FALSE,
-       ),
-       'fmin' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'fmax' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'strand' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['feature_disjoint'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['feature_distance'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'srcfeature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'subject_strand' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'small',
-         'not null' => FALSE,
-       ),
-       'object_strand' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'small',
-         'not null' => FALSE,
-       ),
-       'distance' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['feature_cvterm_pub'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_cvterm_pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'feature_cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('feature_cvterm_pub_id'),
-     'unique keys' => array(
-       'feature_cvterm_pub_c1' => array('feature_cvterm_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'feature_cvterm_pub_idx1' => array('feature_cvterm_id'),
-       'feature_cvterm_pub_idx2' => array('pub_id'),
-     ),
-   );
-   $schema['feature_cvterm_dbxref'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_cvterm_dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'feature_cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('feature_cvterm_dbxref_id'),
-     'unique keys' => array(
-       'feature_cvterm_dbxref_c1' => array('feature_cvterm_id', 'dbxref_id')
-     ),
-     'indexes' => array(
-       'feature_cvterm_dbxref_idx1' => array('feature_cvterm_id'),
-       'feature_cvterm_dbxref_idx2' => array('dbxref_id'),
-     ),
-   );
-
-   $schema['f_type'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'type' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '1024',
-         'not null' => FALSE,
-       ),
-       'residues' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'seqlen' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'md5checksum' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'char',
-         'length' => '32',
-         'not null' => FALSE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'timeaccessioned' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'datetime',
-         'not null' => FALSE,
-       ),
-       'timelastmodified' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'datetime',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['feature'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'organism_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'uniquename' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-       'residues' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'seqlen' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'md5checksum' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'char',
-         'length' => '32',
-         'not null' => FALSE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'is_analysis' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => TRUE,
-         'default' => 'als',
-       ),
-       'is_obsolete' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => TRUE,
-         'default' => 'als',
-       ),
-       'timeaccessioned' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'datetime',
-         'not null' => TRUE,
-         'default' => 'ow(',
-       ),
-       'timelastmodified' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'datetime',
-         'not null' => TRUE,
-         'default' => 'ow(',
-       ),
-     ),
-     'primary key' => array('feature_id'),
-     'unique keys' => array(
-       'feature_c1' => array('organism_id', 'uniquename', 'type_id')
-     ),
-     'indexes' => array(
-       'feature_idx1' => array('dbxref_id'),
-       'feature_idx2' => array('organism_id'),
-       'feature_idx3' => array('type_id'),
-       'feature_idx4' => array('uniquename'),
-       'feature_name_ind1' => array('name'),
-     ),
-     'foreign keys' => array(
-       'organism' => array(
-         'table' => 'organism',
-         'columns' => array('organism_id' => 'organism_id'),
-       ),
-       'dbxref' => array(
-         'table' => 'dbxref',
-         'columns' => array('dbxref_id' => 'dbxref_id'),
-       ),
-       'cvterm' => array(
-         'table' => 'cvterm',
-         'columns' => array('type_id' => 'cvterm_id'),
-       ),
-     ),
-   );
-   $schema['feature_contains'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['feature_cvterm'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'is_not' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => TRUE,
-         'default' => 'als',
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('feature_cvterm_id'),
-     'unique keys' => array(
-       'feature_cvterm_c1' => array('feature_id', 'cvterm_id', 'pub_id', 'rank')
-     ),
-     'indexes' => array(
-       'feature_cvterm_idx1' => array('feature_id'),
-       'feature_cvterm_idx2' => array('cvterm_id'),
-       'feature_cvterm_idx3' => array('pub_id'),
-     ),
-   );
-   $schema['feature_expression'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_expression_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'expression_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('feature_expression_id'),
-     'unique keys' => array(
-       'feature_expression_c1' => array('expression_id', 'feature_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'feature_expression_idx1' => array('expression_id'),
-       'feature_expression_idx2' => array('feature_id'),
-       'feature_expression_idx3' => array('pub_id'),
-     ),
-   );
-   $schema['feature_expressionprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_expressionprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'feature_expression_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('feature_expressionprop_id'),
-     'unique keys' => array(
-       'feature_expressionprop_c1' => array('feature_expression_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'feature_expressionprop_idx1' => array('feature_expression_id'),
-       'feature_expressionprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['feature_pubprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_pubprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'feature_pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('feature_pubprop_id'),
-     'unique keys' => array(
-       'feature_pubprop_c1' => array('feature_pub_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'feature_pubprop_idx1' => array('feature_pub_id'),
-     ),
-   );
-   $schema['feature_relationship'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_relationship_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('feature_relationship_id'),
-     'unique keys' => array(
-       'feature_relationship_c1' => array('subject_id', 'object_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'feature_relationship_idx1' => array('subject_id'),
-       'feature_relationship_idx2' => array('object_id'),
-       'feature_relationship_idx3' => array('type_id'),
-     ),
-   );
-   $schema['feature_relationship_pub'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_relationship_pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'feature_relationship_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('feature_relationship_pub_id'),
-     'unique keys' => array(
-       'feature_relationship_pub_c1' => array('feature_relationship_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'feature_relationship_pub_idx1' => array('feature_relationship_id'),
-       'feature_relationship_pub_idx2' => array('pub_id'),
-     ),
-   );
-   $schema['feature_relationshipprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_relationshipprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'feature_relationship_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('feature_relationshipprop_id'),
-     'unique keys' => array(
-       'feature_relationshipprop_c1' => array('feature_relationship_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'feature_relationshipprop_idx1' => array('feature_relationship_id'),
-       'feature_relationshipprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['feature_pub'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('feature_pub_id'),
-     'unique keys' => array(
-       'feature_pub_c1' => array('feature_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'feature_pub_idx1' => array('feature_id'),
-       'feature_pub_idx2' => array('pub_id'),
-     ),
-   );
-   $schema['feature_phenotype'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_phenotype_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'phenotype_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('feature_phenotype_id'),
-     'unique keys' => array(
-       'feature_phenotype_c1' => array('feature_id', 'phenotype_id')
-     ),
-     'indexes' => array(
-       'feature_phenotype_idx1' => array('feature_id'),
-       'feature_phenotype_idx2' => array('phenotype_id'),
-     ),
-   );
-   $schema['feature_genotype'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_genotype_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'genotype_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'chromosome_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'cgroup' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('feature_genotype_id'),
-     'unique keys' => array(
-       'feature_genotype_c1' => array('feature_id', 'genotype_id', 'cvterm_id', 'chromosome_id', 'rank', 'cgroup')
-     ),
-     'indexes' => array(
-       'feature_genotype_idx1' => array('feature_id'),
-       'feature_genotype_idx2' => array('genotype_id'),
-     ),
-   );
-   $schema['feature_intersection'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'srcfeature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'subject_strand' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'small',
-         'not null' => FALSE,
-       ),
-       'object_strand' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'small',
-         'not null' => FALSE,
-       ),
-       'fmin' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'fmax' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['feature_meets'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['feature_meets_on_same_strand'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['f_loc'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'nbeg' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'nend' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'strand' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'small',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-
-   $schema['expressionprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'expressionprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'expression_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('expressionprop_id'),
-     'unique keys' => array(
-       'expressionprop_c1' => array('expression_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'expressionprop_idx1' => array('expression_id'),
-       'expressionprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['db_dbxref_count'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'num_dbxrefs' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'big',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['dbxref'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'db_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'accession' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => TRUE,
-       ),
-       'version' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => TRUE,
-         'default' => '',
-       ),
-       'description' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('dbxref_id'),
-     'unique keys' => array(
-       'dbxref_c1' => array('db_id', 'accession', 'version')
-     ),
-     'indexes' => array(
-       'dbxref_idx1' => array('db_id'),
-       'dbxref_idx2' => array('accession'),
-       'dbxref_idx3' => array('version'),
-     ),
-   );
-   $schema['dbxrefprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'dbxrefprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-         'default' => '',
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('dbxrefprop_id'),
-     'unique keys' => array(
-       'dbxrefprop_c1' => array('dbxref_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'dbxrefprop_idx1' => array('dbxref_id'),
-       'dbxrefprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['dfeatureloc'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'featureloc_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'srcfeature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'nbeg' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'is_nbeg_partial' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => FALSE,
-       ),
-       'nend' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'is_nend_partial' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'boolean',
-         'not null' => FALSE,
-       ),
-       'strand' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'size' => 'small',
-         'not null' => FALSE,
-       ),
-       'phase' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'residue_info' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'locgroup' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-   );
-   $schema['db'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'db_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'name' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => TRUE,
-       ),
-       'description' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'urlprefix' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-       'url' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('db_id'),
-     'unique keys' => array(
-       'db_c1' => array('name')
-     ),
-   );
-   $schema['cvtermsynonym'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cvtermsynonym_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'synonym' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '1024',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('cvtermsynonym_id'),
-     'unique keys' => array(
-       'cvtermsynonym_c1' => array('cvterm_id', 'synonym')
-     ),
-     'indexes' => array(
-       'cvtermsynonym_idx1' => array('cvterm_id'),
-     ),
-   );
-   $schema['cvterm_dbxref'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cvterm_dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'is_for_definition' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('cvterm_dbxref_id'),
-     'unique keys' => array(
-       'cvterm_dbxref_c1' => array('cvterm_id', 'dbxref_id')
-     ),
-     'indexes' => array(
-       'cvterm_dbxref_idx1' => array('cvterm_id'),
-       'cvterm_dbxref_idx2' => array('dbxref_id'),
-     ),
-   );
-   $schema['cvterm_relationship'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cvterm_relationship_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('cvterm_relationship_id'),
-     'unique keys' => array(
-       'cvterm_relationship_c1' => array('subject_id', 'object_id', 'type_id')
-     ),
-     'indexes' => array(
-       'cvterm_relationship_idx1' => array('type_id'),
-       'cvterm_relationship_idx2' => array('subject_id'),
-       'cvterm_relationship_idx3' => array('object_id'),
-     ),
-   );
-   $schema['cvtermpath'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cvtermpath_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'cv_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pathdistance' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('cvtermpath_id'),
-     'unique keys' => array(
-       'cvtermpath_c1' => array('subject_id', 'object_id', 'type_id', 'pathdistance')
-     ),
-     'indexes' => array(
-       'cvtermpath_idx1' => array('type_id'),
-       'cvtermpath_idx2' => array('subject_id'),
-       'cvtermpath_idx3' => array('object_id'),
-       'cvtermpath_idx4' => array('cv_id'),
-     ),
-   );
-   $schema['cvtermprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'cvtermprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-         'default' => '',
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('cvtermprop_id'),
-     'unique keys' => array(
-       'cvterm_id' => array('cvterm_id', 'type_id', 'value', 'rank')
-     ),
-     'indexes' => array(
-       'cvtermprop_idx1' => array('cvterm_id'),
-       'cvtermprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['eimage'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'eimage_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'eimage_data' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'eimage_type' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => TRUE,
-       ),
-       'image_uri' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'varchar',
-         'length' => '255',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('eimage_id'),
-   );
-   $schema['element'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'element_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'feature_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'arraydesign_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-       'dbxref_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('element_id'),
-     'unique keys' => array(
-       'element_c1' => array('feature_id', 'arraydesign_id')
-     ),
-     'indexes' => array(
-       'element_idx1' => array('feature_id'),
-       'element_idx2' => array('arraydesign_id'),
-       'element_idx3' => array('type_id'),
-       'element_idx4' => array('dbxref_id'),
-     ),
-   );
-   $schema['expression_cvterm'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'expression_cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'expression_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-       'cvterm_type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('expression_cvterm_id'),
-     'unique keys' => array(
-       'expression_cvterm_c1' => array('expression_id', 'cvterm_id', 'cvterm_type_id')
-     ),
-     'indexes' => array(
-       'expression_cvterm_idx1' => array('expression_id'),
-       'expression_cvterm_idx2' => array('cvterm_id'),
-       'expression_cvterm_idx3' => array('cvterm_type_id'),
-     ),
-   );
-   $schema['expression_cvtermprop'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'expression_cvtermprop_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'expression_cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('expression_cvtermprop_id'),
-     'unique keys' => array(
-       'expression_cvtermprop_c1' => array('expression_cvterm_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'expression_cvtermprop_idx1' => array('expression_cvterm_id'),
-       'expression_cvtermprop_idx2' => array('type_id'),
-     ),
-   );
-   $schema['expression_image'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'expression_image_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'expression_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'eimage_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('expression_image_id'),
-     'unique keys' => array(
-       'expression_image_c1' => array('expression_id', 'eimage_id')
-     ),
-     'indexes' => array(
-       'expression_image_idx1' => array('expression_id'),
-       'expression_image_idx2' => array('eimage_id'),
-     ),
-   );
-   $schema['expression_pub'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'expression_pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'expression_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'pub_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('expression_pub_id'),
-     'unique keys' => array(
-       'expression_pub_c1' => array('expression_id', 'pub_id')
-     ),
-     'indexes' => array(
-       'expression_pub_idx1' => array('expression_id'),
-       'expression_pub_idx2' => array('pub_id'),
-     ),
-   );
-
-   $schema['expression'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'expression_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'uniquename' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-       'md5checksum' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'char',
-         'length' => '32',
-         'not null' => FALSE,
-       ),
-       'description' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('expression_id'),
-     'unique keys' => array(
-       'expression_c1' => array('uniquename')
-     ),
-   );
-   $schema['environment_cvterm'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'environment_cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'environment_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'cvterm_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('environment_cvterm_id'),
-     'unique keys' => array(
-       'environment_cvterm_c1' => array('environment_id', 'cvterm_id')
-     ),
-     'indexes' => array(
-       'environment_cvterm_idx1' => array('environment_id'),
-       'environment_cvterm_idx2' => array('cvterm_id'),
-     ),
-   );
-   $schema['element_relationship'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'element_relationship_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('element_relationship_id'),
-     'unique keys' => array(
-       'element_relationship_c1' => array('subject_id', 'object_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'element_relationship_idx1' => array('subject_id'),
-       'element_relationship_idx2' => array('type_id'),
-       'element_relationship_idx3' => array('object_id'),
-       'element_relationship_idx4' => array('value'),
-     ),
-   );
-   $schema['elementresult'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'elementresult_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'element_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'quantification_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'signal' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'float',
-         'size' => 'big',
-         'not null' => TRUE,
-       ),
-     ),
-     'primary key' => array('elementresult_id'),
-     'unique keys' => array(
-       'elementresult_c1' => array('element_id', 'quantification_id')
-     ),
-     'indexes' => array(
-       'elementresult_idx1' => array('element_id'),
-       'elementresult_idx2' => array('quantification_id'),
-       'elementresult_idx3' => array('signal'),
-     ),
-   );
-   $schema['elementresult_relationship'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'elementresult_relationship_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'subject_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'type_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'object_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-       ),
-       'value' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-       'rank' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'int',
-         'not null' => TRUE,
-         'default' => 0,
-       ),
-     ),
-     'primary key' => array('elementresult_relationship_id'),
-     'unique keys' => array(
-       'elementresult_relationship_c1' => array('subject_id', 'object_id', 'type_id', 'rank')
-     ),
-     'indexes' => array(
-       'elementresult_relationship_idx1' => array('subject_id'),
-       'elementresult_relationship_idx2' => array('type_id'),
-       'elementresult_relationship_idx3' => array('object_id'),
-       'elementresult_relationship_idx4' => array('value'),
-     ),
-   );
-   $schema['environment'] = array(
-     'description' => t('TODO: please describe this table!'),
-     'fields' => array(
-       'environment_id' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'serial',
-         'not null' => TRUE,
-       ),
-       'uniquename' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => TRUE,
-       ),
-       'description' => array(
-         'description' => t('TODO: please describe this field!'),
-         'type' => 'text',
-         'not null' => FALSE,
-       ),
-     ),
-     'primary key' => array('environment_id'),
-     'unique keys' => array(
-       'environment_c1' => array('uniquename')
-     ),
-     'indexes' => array(
-       'environment_idx1' => array('uniquename'),
-     ),
-   );
-   return $schema;
-}

tripal_core/cvterms.php

@@ -1,13 +1,37 @@
 <?php
-//
-// Copyright 2009 Clemson University
-//
+
+/** 
+ * @defgroup tripal_core_cv_api Tripal Basic CV API
+ * @{
+ * For working with controlled vocabularies see the Controlled Vocabulary
+ * API.  However, there are cases where a CV does not exist. For example in
+ * some cases a module may want to support adding of properties (such as to
+ * for an analysis) to a record but an organized CV does not exist.  The 
+ * progammer may create their own ontology and populate it, or they may use
+ * the basic CV interface provided by Tripal.  Tripal provides a CV named
+ * 'Tripal' and modules may add terms to this CV to support the functionality
+ * of their modules.  
+ * @}
+ * @ingroup tripal_api
+ */
 
 /**
-*
-*
-* @ingroup tripal_core
-*/
+ * Add a materialized view to the chado database to help speed data access.
+ *
+ * @param $name 
+ *   The name of the term
+ * @param $definition 
+ *   The definition for the term
+ * @param $cv_name 
+ *   The name of the controlled vocabulary to which the term will be added.
+ *   The default CV is 'tripal'.
+ * @param $db_name 
+ *   CV records also have a corresponding database reference.  This argument
+ *   specifies the name of the database to which this term belongs. The default
+ *   database name is 'tripal'.
+ *
+ * @ingroup tripal_core_cv_api
+ */
 function tripal_add_cvterms ($name,$definition,$cv_name = 'tripal',$db_name='tripal'){
    
    
@@ -52,10 +76,11 @@ function tripal_add_cvterms ($name,$definition,$cv_name = 'tripal',$db_name='tri
    }
 }
 /**
-*
-*
-* @ingroup tripal_core
-*/
+ * Add a database to the Chado 'db' table.
+ * NOTE: This function is deprecated and may not be used in future releases of Tripal
+ *  
+ * @ingroup tripal_core_cv_api
+ */
 function tripal_add_db($db_name,$description,$urlprefix,$url){
    $previous_db = tripal_db_set_active('chado');  // use chado database
 
@@ -79,58 +104,12 @@ function tripal_add_db($db_name,$description,$urlprefix,$url){
    return $db->db_id;
 }
 
-/**
-*
-*
-* @ingroup tripal_core
-*/
-function tripal_delete_db($db_name){
-   $previous_db = tripal_db_set_active('chado');  // use chado database
-   $sql = "DELETE FROM {db} WHERE name ='%s'";
-   db_query($sql,$db_name);
-   tripal_db_set_active($previous_db);  // now use drupal database 
-   
-}
 
 /**
-*
-*
-* @ingroup tripal_core
-*/
-function tripal_add_cv($cv_name,$definition){
-   $previous_db = tripal_db_set_active('chado');  // use chado database
-
-   // use this SQL statement to get the db_id for the database name
-   $id_sql = "SELECT cv_id FROM {cv} WHERE name = '%s'";
-
-   $cv = db_fetch_object(db_query($sql,$cv_name));
-
-   // if the database doesn't exist then let's add it.
-   if(!$cv){
-      $sql = "
-         INSERT INTO {cv} (name,definition) VALUES 
-         ('%s','%s');
-      ";
-      db_query($sql,$cv_name,$definition);
-    
-      # now get the id for this new db entry
-      $cv = db_fetch_object(db_query($sql,$cv_name));
-   }
-   tripal_db_set_active($previous_db);  // now use drupal database	
-   return $cv->cv_id;
-}
-
-/************************************************************************
- * Get cvterm_id for a tripal cvterm by passing its name
- * This function is deprecated
- *
- * @param $cvterm
- *   The name of the cvterm to return
- *
- * @return
- *   A database result for the cvterm?
- *
- * @ingroup tripal_cv_api
+ * Get cvterm_id for a tripal term by passing its name
+ * NOTE: This function is deprecated and may not be used in future releases of Tripal
+ *  
+ * @ingroup tripal_core_cv_api
  */
 function tripal_get_cvterm_id ($cvterm){
 	$sql = "SELECT CVT.cvterm_id FROM {cvterm} CVT

tripal_core/jobs.php

@@ -3,7 +3,21 @@
 /** 
  * @defgroup tripal_jobs_api Tripal Jobs API
  * @{
- * Provides an application programming interface (API) to interact with the Tripal Jobs
+ * Tripal offers a job management subsystem for managing tasks that may require an extended period of time for 
+ * completion.  Drupal uses a UNIX-based cron job to handle tasks such as  checking  the  availability of updates, 
+ * indexing new nodes for searching, etc.   Drupal's cron uses the web interface for launching these tasks, however, 
+ * Tripal provides several administrative tasks that may time out and not complete due to limitations of the web 
+ * server.  Examples including syncing of a large number of features between chado and Drupal.  To circumvent this, 
+ * as well as provide more fine-grained control and monitoring, Tripal uses a jobs management sub-system built into 
+ * the Tripal Core module.   It is anticipated that this functionality will be used for managing analysis jobs provided by 
+ * future tools, with eventual support for distributed computing.   
+ *
+ * The  Tripal jobs management system allows administrators to submit tasks to be performed which can then  be 
+ * launched through a UNIX command-line PHP script or cron job.  This command-line script can be added to a cron 
+ * entry along-side the Drupal cron entry for automatic, regular launching of Tripal jobs.  The order of execution of 
+ * waiting jobs is determined first by priority and second by the order the jobs were entered.  
+ *
+ * The API functions described below provide a programmatic interface for adding, checking and viewing jobs.
  * @}
  * @ingroup tripal_api
  */

tripal_core/mviews.php

@@ -1,7 +1,14 @@
 <?php
-//
-// Copyright 2009 Clemson University
-//
+
+/** 
+ * @defgroup tripal_mviews_api Tripal Materalized Views API
+ * @{
+ * Provides an application programming interface (API) to manage materialized views in Chado.
+ * The Perl-based chado comes with an interface for managing materialzed views.  This
+ * API provides an alternative Drupal-based method.  
+ * @}
+ * @ingroup tripal_api
+ */
 
 /**
  * Add a materialized view to the chado database to help speed data access.
@@ -21,7 +28,7 @@
  * @param $special_index  
  *   function
  *
- * @ingroup tripal_core_api
+ * @ingroup tripal_mviews_api
  */
 function tripal_add_mview ($name,$modulename,$mv_table,$mv_specs,$indexed,$query,$special_index){
 
@@ -76,7 +83,7 @@ function tripal_add_mview ($name,$modulename,$mv_table,$mv_specs,$indexed,$query
  * @return
  *   The unique identifier for the given view
  *
- * @ingroup tripal_core_api
+ * @ingroup tripal_mviews_api
  */
 function tripal_mviews_get_mview_id ($view_name){
 
@@ -137,7 +144,7 @@ function tripal_mviews_action ($op,$mview_id){
 * @return
 *   True if successful, false otherwise
 *
-* @ingroup tripal_core_api
+* @ingroup tripal_mviews_api
 */
 function tripal_update_mview ($mview_id){
    $sql = "SELECT * FROM {tripal_mviews} WHERE mview_id = %d ";
@@ -162,7 +169,7 @@ function tripal_update_mview ($mview_id){
 /**
 *
 *
-* @ingroup tripal_core
+* @ingroup tripal_mviews_api
 */
 function tripal_mview_report ($mview_id) {
    // get this mview details
@@ -249,7 +256,7 @@ function tripal_mview_report ($mview_id) {
 /**
 *
 *
-* @ingroup tripal_core
+* @ingroup tripal_mviews_api
 */
 function tripal_mviews_report () {
    $mviews = db_query("SELECT * FROM {tripal_mviews} ORDER BY name");

tripal_core/tripal_core.api.inc

@@ -10,93 +10,51 @@
 /**
  * @defgroup tripal_api Tripal API
  * @{
- * Provides an application programming interface (API) for the tripal package
+ * Provides an application programming interface (API) for Tripal
  *
  * The Tripal API currently provides generic insert/update/select functions for all chado content as 
  * well as some module specific functions that insert/update/delete/select specific chado content. 
  *
- * This API is currently in it's infancy so some necessary functions might be missing. If you come 
- * across a missing function that you think should be included go to the sourceforge feature request * page and request it's inclusion in the API. Such feature requests with a working function * definition will be given priority.
+ * This API is currently in its infancy and some necessary functions might be missing. If you find
+ * a missing function that you think should be included go to the sourceforge feature request 
+ * page and request it's inclusion in the API. Such feature requests with a working function 
+ * definition will be given priority.
  * @}
  */
 
-/** 
- * @defgroup tripal_core_api Tripal Core API
- * @ingroup tripal_api
- */
-
-/** 
- * @defgroup tripal_schema_api Tripal Schema API
- * @{
- * Provides an application programming interface (API) used to describe chado tables to 
- * drupal/tripal
- * @}
- * @ingroup tripal_api
- */
 require_once "tripal_core.schema.api.inc";
 
 /** 
- * @defgroup tripal_chado_api Tripal Chado DB API
+ * @defgroup tripal_chado_api Tripal Chado API
  * @{
- * Provides an application programming interface (API) to interact with the Chado database.
+ * Provides an application programming interface (API) to manage data withing the Chado database.
+ * This includes functions for selecting, inserting, updating and deleting records 
+ * in Chado tables.  The functions will ensure proper integrity contraints are met
+ * for inserts and updates.  
+ *
+ * Also, a set of functions is provided for creating template variables.  First,
+ * is the tripal_core_generate_chado_vars which is used to select one ore more
+ * records from a table and return an array with foreign key relationships fully
+ * populated.  For example, if selecting a feature, the organism_id and type_id
+ * would be present in the returned array as a nested array with their respective
+ * foreign keys also nested.  The only fields that are not included are text
+ * fields (which may be very large) or many-to-many foreign key relationships.  
+ * However, these fields and relationships can be expanded using the 
+ * tripal_core_expand_chado_vars.
+ * 
+ * When a row from a chado table is selected using these two functions, it provides
+ * a way for users who want to cutomize Drupal template files to access all data
+ * associate with a specific record.
+ *
+ * Finally, the property tables in Chado generally follow the same format.  Therefore
+ * there is a set of functions for inserting, updating and deleting properties for
+ * any table.  This provides quick lookup of properties (provided the CV term is
+ * known).
+ *
  * @}
  * @ingroup tripal_api
  */
  
-// just a temporary function for debugging
-function tripal_core_chado_insert_test(){
-   $ivalues =  array(
-     'organism_id' => array(
-         'genus' => 'Lens',
-         'species' => 'culinaris',
-      ),
-     'name' => 'orange1.1g000034m.g',
-     'uniquename' => 'orange1.1g000034m.g9',
-     'type_id' => array (
-         'cv_id' => array (
-            'name' => 'sequence',
-         ),
-         'name' => 'gene',
-         'is_obsolete' => 0
-      ),
-   );
-   $umatch = array(
-     'organism_id' => array(
-         'genus' => 'Lens',
-         'species' => 'culinaris',
-      ),
-     'uniquename' => 'orange1.1g000034m.g9',
-     'type_id' => array (
-         'cv_id' => array (
-            'name' => 'sequence',
-         ),
-         'name' => 'gene',
-         'is_obsolete' => 0
-      ),
-   );
-   $uvalues = array(
-      'name' => 'orange1.1g000034m.g',
-      'type_id' => array (
-         'cv_id' => array (
-            'name' => 'sequence',
-         ),
-         'name' => 'mRNA',
-         'is_obsolete' => 0
-      ),
-   );
-   $select_multiple = array(
-     'dbxref_id' => array(
-       'db_id' => 2,
-     )
-   );
-   //$result = tripal_core_chado_insert('feature',$ivalues);
-   //return "$result->feature_id";
-   $result = tripal_core_chado_update('feature',$umatch,$uvalues);
-   //$result = tripal_core_chado_select('feature',array('type_id', 'uniquename'),$select_multiple);
-   return $result;
-
-}
-
 /**
 * Provides a generic routine for inserting into any Chado table
 *

tripal_core/tripal_core.schema.api.inc

@@ -7,6 +7,35 @@
  *        hook_chado_<table name>_schema().
  */
 
+/** 
+ * @defgroup tripal_schema_api Tripal Schema API
+ * @{
+ * Provides an application programming interface (API) for describing Chado tables.
+ * This API consists of a set of functions, one for each table in Chado.  Each 
+ * function simply returns a Drupal style array that defines the table. 
+ * 
+ * Because Drupal 6 does not handle foreign key relationships, a separate 
+ * hook is used to define the foreign key relationships for each table.  As
+ * of version 0.3b of Tripal, not all foreign key relationships have been 
+ * defined.  Therefore, if you need a foreign key you must create the appropriate
+ * hook.  Hooks are named hook_chado_table_schema() where 'hook' is replaced
+ * with the module name, and 'table' is replaced by the Chado table name.
+ *
+ * The functions provided in this documentation should not be called as is, but if you need
+ * the Drupal-style array definition for any table, use the following function
+ * call:
+ *
+ *   $table_desc = module_invoke_all('chado_'.$table.'_schema');
+ * 
+ * where the variable $table contains the name of the table you want to 
+ * retireve.  The function call above uses the Drupal hook infrastructure to
+ * call the appropriate function in the Schema API as well as the appropriate
+ * hook to add in any foreign key relationships. 
+ * 
+ * @}
+ * @ingroup tripal_api
+ */
+
 /**
  *
  * @ingroup tripal_schema_api

tripal_cv/charts.php

@@ -2,7 +2,114 @@
 
 
 /**
- * Generates JSON used for generating a chart
+ * Generates JSON used for generating a Google chart of count data associated
+ * with a controlled vocabulary.  An example would be features assigned to
+ * Gene Ontology terms.  
+ * To generate a chart, the progammer must first create a materialized view that
+ * will generate count data for a given controlled vocabulary.  For example, the Tripal
+ * Analysis GO creates a materialized view for counting Gene Ontology assignments
+ * to features.  This view is created on install of the module and is named
+ * 'go_count_analysis'.
+ *
+ * Next, an HTML 'div' box must be added to the desired page
+ * with a class name of 'tripal_cv_chart', and an id of the following format:
+ *
+ *  tripal_[module_name]_cv_chart_[unique id]
+ *
+ * where [module_name] is the name of the tripal module (e.g. tripal_analyisis_go)
+ * and [unique id] is some unique identifier that the contolling module 
+ * recognizes. This string is the $chart_id variable passed as the first argument
+ * to the function.  For example, the Tripal GO Analysis module generates 
+ * chart ids of the form:
+ * 
+ *  tripal_analysis_go_cv_chart_10_2_bp
+ * 
+ * In this case the module that will manage this chart is identified as 'tripal_analysis_go' and within
+ * the [unique id] portion contains the
+ * organism_id (e.g. 10), analysis_id (e.g. 2) and chart type (bp = biological process). 
+ *
+ * Second, the programmer must then define a hook in the controlling module for setting
+ * some options used to build the chart.  The hook has the form:  hook_cv_chart($chart_id).
+ * This hook should accept the full $chart_id as the single parameter.  For the Tripal
+ * Analysis GO module the hook is named:  tripal_analysis_go_cv_chart.  
+ *
+ * The array returned by this hook must have the following fields:  
+ *  - count_mview
+ *      the name of the materialized view that contains the count data
+ *      this materialized view must have at least two columns, one with the cvterm_id
+ *      for each term and a second column containing the counts
+ *  - cvterm_id_column
+ *      the column name in the materialized view that contains
+ *      the cvterm_ids
+ *  - count_column
+ *      the column name in the materialized view that contains the
+ *      counts
+ *  - filter
+ *      an SQL compatible WHERE clause string (whithout the word 'WHERE')
+ *      that can be used for filtering the records in the materialized view.
+ *  - title
+ *      the title for the chart
+ *  - type
+ *      the type of chart to create (see Google Charts documenation). Leave
+ *      blank for a pie chart.
+ *  - size 
+ *      the dimensions of the chart in pixels (see Google Charts documenations 
+ *      for exact size limitations).
+ *
+ * Example from the tripal_analysis_go module:
+ * @code
+ *  function tripal_analysis_go_cv_chart($chart_id){
+ *  
+ *    // The CV module will create the JSON array necessary for buillding a
+ *    // pie chart using jgChart and Google Charts.  We have to pass to it
+ *    // a table that contains count information, tell it which column 
+ *    // contains the cvterm_id and provide a filter for getting the
+ *    // results we want from the table.
+ *    $organism_id = preg_replace("/^tripal_analysis_go_cv_chart_(\d+)-(\d+)_(bp|cc|mf)$/","$1",$chart_id);
+ *    $analysis_id = preg_replace("/^tripal_analysis_go_cv_chart_(\d+)-(\d+)_(bp|cc|mf)$/","$2",$chart_id);
+ *    $type        = preg_replace("/^tripal_analysis_go_cv_chart_(\d+)-(\d+)_(bp|cc|mf)$/","$3",$chart_id);
+ *  
+ *    $sql = "SELECT * FROM {Analysis} WHERE analysis_id = %d";
+ *    $previous_db = tripal_db_set_active('chado');  // use chado database
+ *    $analysis = db_fetch_object(db_query($sql,$analysis_id));
+ *    tripal_db_set_active($previous_db);  // now use drupal database  
+ *   
+ *    if(strcmp($type,'mf')==0){
+ *       $class = 'molecular_function';
+ *       $title = "Number of Molecular Function Terms From $analysis->name Analysis";
+ *    }
+ *    if(strcmp($type,'cc')==0){
+ *       $class = 'cellular_component';
+ *       $title = "Number of Cellular Component Terms From $analysis->name Analysis";
+ *    }
+ *    if(strcmp($type,'bp')==0){
+ *       $class = 'biological_process';
+ *       $title = "Number of Biological Process Terms From $analysis->name Analysis";
+ *    }
+ *    $options = array(
+ *       count_mview      => 'go_count_analysis',
+ *       cvterm_id_column => 'cvterm_id',
+ *       count_column     => 'feature_count',
+ *       filter           => "
+ *          CNT.organism_id = $organism_id AND 
+ *          CNT.analysis_id = $analysis_id AND 
+ *          CNT.cvterm_id IN ( 
+ *            SELECT CVTR.subject_id 
+ *            FROM {CVTerm_relationship} CVTR 
+ *              INNER JOIN CVTerm CVT on CVTR.object_id = CVT.cvterm_id
+ *              INNER JOIN CV on CVT.cv_id = CV.cv_id
+ *            WHERE CVT.name = '$class' AND  
+ *                   CV.name = '$class'
+ *          )
+ *       ",
+ *       type             => 'p',
+ *       size             => '550x175',
+ *       title            => $title,
+ *    );
+ *    return $options;
+ *  }
+ *
+ * @endcode
  *
  * @param $chart_id
  *   The unique identifier for the chart
@@ -10,6 +117,9 @@
  * @return
  *   JSON array needed for the js caller
  *
+ * With these three components (materialized view, a 'div' box with proper CSS class and ID, and a hook_cv_chart)
+ * a chart will be created on the page.  There is no need to call this function directly.
+ *
  * @ingroup tripal_cv
  */
 function tripal_cv_chart($chart_id){
@@ -18,8 +128,8 @@ function tripal_cv_chart($chart_id){
   $tripal_mod = preg_replace("/^(tripal_.+?)_cv_chart_(.+)$/","$1",$chart_id);
   $callback = $tripal_mod . "_cv_chart";
 
-  // now call the function in the module responsible for the chart.  This 
-  // should call the tripal_cv_count_chart with the proper parameters set
+  // now call the function in the module responsible for the chart to fill out
+  // an options array needed by the tripal_cv_count_chart call below.
   $opt = call_user_func_array($callback,array($chart_id));
 
   // build the JSON array to return to the javascript caller
@@ -32,27 +142,38 @@ function tripal_cv_chart($chart_id){
 }
 
  /**
-  * Determines the counts needed for the chart to be rendered
+  * This function generates an array with fields compatible with Google charts used
+  * for generating pie charts of counts associated with terms in
+  * a controlled vocabulary.  An example would be counts of features assigned
+  * to terms in the Sequence Ontology.
   *
   * @param $cnt_table
-  *   The table containing counts for the various cvterms
+  *   The name of the table (most likely a materialized view) that
+  *   contains count data for each term.  The table must have at least
+  *   two columns, one with the cvterm_id for each term, and a second
+  *   column with the count (i.e. features assigned the term).
   * @param $fk_column
-  *   The column in the count table to join it to the cvterm table
+  *   This is the name of the column in the $cnt_table that holds the 
+  *   cvterm_id for each term.
   * @param $cnt_column
-  *   The name of the column in the count table containing the counts
+  *   The name of the column in the $cnt_table containing the counts
   * @param $filter
-  *   A Filter string. Default is (1=1).
+  *   An SQL compatible 'where' clause (without the word 'WHERE') used
+  *   to filter the records in the $cnt_table
   * @param $title
   *   The title of the chart to be rendered.
   * @param $type
-  *   The type of chart to be rendered. Default is p3 (pie chart).
+  *   The type of chart to be rendered. The value used here is the same as
+  *   the type names for Google charts. Default is p3 (pie chart).
   * @param $size
-  *   The size of the chart to be rendered. Default is 300x75.
-  *
+  *   The size in pixels of the chart to be rendered. Default is 300x75. The
+  *   size of the chart is constrained by Google charts.  See the Google
+  *   chart documentation for exact limitations.
+  *  
   * @return 
-  *   An options array needed to render the chart specified
+  *   An array that has the settings needed for Google Charts to creat the chart.
   *
-  * @ingroup tripal_cv_api
+  * @ingroup tripal_cv
   */
 function tripal_cv_count_chart($cnt_table, $fk_column,
    $cnt_column, $filter = null, $title = '', $type = 'p3', $size='300x75') {

tripal_cv/trees.php

@@ -1,9 +1,5 @@
 <?php
 
-//
-// Copyright 2009 Clemson University
-//
-
 /**
 *
 * @ingroup tripal_cv
@@ -85,7 +81,7 @@ function tripal_cv_update_tree() {
 *    jQuery code that builds a tree for browsing the ontology.  This function
 *    should be called to generate the root level branches of the tree.
 *
-* @ingroup tripal_cv_api
+* @ingroup tripal_cv
 */
 function tripal_cv_init_tree($cv_id,$cnt_table = null, $fk_column = null,
    $cnt_column = null, $filter = null, $label = null) {

tripal_cv/tripal_cv.api.inc

@@ -1,10 +1,20 @@
 <?php
 
 /**
- * @defgroup tripal_cv_api Controlled Vocabulary Module API
+ * @defgroup tripal_cv_api CV Module API
  * @ingroup tripal_api
  * @ingroup tripal_cv
- * Provides an application programming interface (API) to controlled vocabularies
+ * This module provides a set of functions to simplify working with
+ * controlled vocabularies.  Most of the API functions deal with retrieving
+ * terms or their parent vocabularies.  
+ * 
+ * However, the API also supports
+ * generation of trees for browsing a vocabulary as well as generation of 
+ * pie graphs for display of hierarchical counts of terms.  Version 0.3b of
+ * Tripal provides a feature browser and a feature summary chart uses
+ * the API functions provided here.  But in general charts and trees can be
+ * created for any controlled vocabulary.
+ *
  */
 
 /**

tripal_cv/tripal_cv.module

@@ -18,9 +18,8 @@ require_once "tripal_cv.api.inc";
 function tripal_cv_init(){
 
    // add the tripal_cv JS and CSS
-   drupal_add_css(drupal_get_path('theme', 'tripal').
-                                  '/css/tripal_cv.css');
-   drupal_add_js(drupal_get_path('theme', 'tripal').'/js/tripal_cv.js');
+   drupal_add_css(drupal_get_path('theme', 'tripal').'/css/tripal_cv.css');
+   drupal_add_js (drupal_get_path('theme', 'tripal').'/js/tripal_cv.js');
 
    // add the jsTree JS and CSS
    drupal_add_css(drupal_get_path('theme', 'tripal').'/js/jsTree/source/tree_component.css');

tripal_db/tripal_db.api.inc

@@ -1,10 +1,10 @@
 <?php
 
 /**
- * @defgroup tripal_db_api External Database Module API
+ * @defgroup tripal_db_api Database Module API
  * @ingroup tripal_api
  * @ingroup tripal_db
- * Provides an application programming interface (API) to manage databases
+ * Provides an application programming interface (API) to manage references to external databases
  */
 
 /**