284 calls to tripal_report_error()

chado_add_admin_form_set_title in tripal_core/api/tripal_core.chado_nodes.title_and_path.api.inc: Generic "Set Node Title" sub-form for setting the title of any chado node
chado_add_admin_form_set_url in tripal_core/api/tripal_core.chado_nodes.title_and_path.api.inc: Generic "Set Node URL" sub-form for setting the url of any chado node
chado_add_node_form_properties in tripal_core/api/tripal_core.chado_nodes.properties.api.inc
chado_add_node_form_relationships in tripal_core/api/tripal_core.chado_nodes.relationships.api.inc: Provides a form for adding to BASE_relationship and relationship tables
chado_analysis_insert in tripal_analysis/includes/tripal_analysis.chado_node.inc: Implements hook_insert(). When a new chado_analysis node is created we also need to add information to our chado_analysis table. This function is called on insert of a new node of type 'chado_analysis' and inserts the necessary information.
chado_analysis_update in tripal_analysis/includes/tripal_analysis.chado_node.inc: Implements hook_update(). Update analyses
chado_contact_insert in tripal_contact/includes/tripal_contact.chado_node.inc: Implements of hook_insert().
chado_contact_update in tripal_contact/includes/tripal_contact.chado_node.inc: Implements hook_update
chado_delete_custom_table in tripal_core/api/tripal_core.custom_tables.api.inc: Deletes the specified custom table
chado_delete_property in tripal_core/api/tripal_core.chado_general.api.inc: Deletes a property for a given base table record using the property name
chado_delete_record in tripal_core/api/tripal_core.chado_query.api.inc: Provides a generic function for deleting a record(s) from any chado table
chado_does_pub_exist in tripal_pub/api/tripal_pub.DEPRECATED.inc
chado_edit_custom_table in tripal_core/api/tripal_core.custom_tables.api.inc: Edits a custom table in the chado database. It supports using the Drupal Schema API array.
chado_example_insert in tripal_example/includes/tripal_example.chado_node.inc: Implementation of hook_insert(). This function is called after the node is inserted into the database. We need it so that we can insert appropriate fields as provided by the user into the database. And so that we can link the new Drupal node to the…
chado_example_update in tripal_example/includes/tripal_example.chado_node.inc: Implementation of hook_update(). This function runs after the node has been inserted into the Drupal schema and allows us to update the record in Chado.
chado_expand_var in tripal_core/api/tripal_core.chado_variables.api.inc: Retrieves fields, or tables that were excluded by default from a variable.
chado_featuremap_insert in tripal_featuremap/includes/tripal_featuremap.chado_node.inc: Implements hook_insert().
chado_featuremap_update in tripal_featuremap/includes/tripal_featuremap.chado_node.inc: Implements hook_update(). Update nodes
chado_feature_add_synonyms in tripal_feature/includes/tripal_feature.chado_node.inc: Add synonyms to a feature
chado_feature_insert in tripal_feature/includes/tripal_feature.chado_node.inc: Implements hook_insert().
chado_feature_update in tripal_feature/includes/tripal_feature.chado_node.inc: Implements hook_update().
chado_generate_var in tripal_core/api/tripal_core.chado_variables.api.inc: Generates an object containing the full details of a record(s) in Chado.
chado_get_id_for_node in tripal_core/api/tripal_core.DEPRECATED.api.inc
chado_get_node_id in tripal_core/api/tripal_core.DEPRECATED.api.inc
chado_get_node_url in tripal_core/api/tripal_core.chado_nodes.title_and_path.api.inc: Get the url of a node based on the url Format set in the admin section of the module. If the format has not yet been set than the the unique constrain and name fields will be used to generate a default format
chado_get_property in tripal_core/api/tripal_core.chado_general.api.inc: Retrieve a property for a given base table record.
chado_get_publication in tripal_pub/api/tripal_pub.DEPRECATED.inc
chado_get_record_with_property in tripal_core/api/tripal_core.chado_general.api.inc: Get all records in the base table assigned one or more properties.
chado_get_token_value in tripal_core/api/tripal_core.chado_nodes.title_and_path.api.inc: Retrieve the value of the token from the node based on the $token_info['location']
chado_insert_property in tripal_core/api/tripal_core.chado_general.api.inc: Insert a property for a given base table.
chado_insert_record in tripal_core/api/tripal_core.chado_query.api.inc: Provides a generic routine for inserting into any Chado table
chado_node_additional_dbxrefs_form in tripal_core/api/tripal_core.DEPRECATED.api.inc
chado_node_additional_dbxrefs_form_retreive in tripal_core/api/tripal_core.DEPRECATED.api.inc
chado_node_additional_dbxrefs_form_update_dbxrefs in tripal_core/api/tripal_core.DEPRECATED.api.inc
chado_node_get_unique_constraint_format in tripal_core/api/tripal_core.chado_nodes.title_and_path.api.inc: Generate the unique constraint for a given base table using the Chado Schema API definition
chado_node_properties_form in tripal_core/api/tripal_core.DEPRECATED.api.inc
chado_node_properties_form_retreive in tripal_core/api/tripal_core.DEPRECATED.api.inc
chado_node_properties_form_update_properties in tripal_core/api/tripal_core.DEPRECATED.api.inc
chado_node_relationships_form in tripal_core/api/tripal_core.DEPRECATED.api.inc
chado_node_relationships_form_retreive in tripal_core/api/tripal_core.DEPRECATED.api.inc
chado_node_relationships_form_update_relationships in tripal_core/api/tripal_core.DEPRECATED.api.inc
chado_organism_insert in tripal_organism/includes/tripal_organism.chado_node.inc: Implements hook_insert().
chado_organism_validate in tripal_organism/includes/tripal_organism.chado_node.inc: Implementation of hook_validate().
chado_pager_query in tripal_core/api/tripal_core.chado_query.api.inc: Use this function instead of pager_query() when selecting a subset of records from a Chado table.
chado_phylotree_insert in tripal_phylogeny/includes/tripal_phylogeny.chado_node.inc: Implements hook_insert().
chado_phylotree_update in tripal_phylogeny/includes/tripal_phylogeny.chado_node.inc: Implements hook_update().
chado_query in tripal_core/api/tripal_core.chado_query.api.inc: Use this function instead of db_query() to avoid switching databases when making query to the chado database.
chado_reimport_publications in tripal_pub/api/tripal_pub.DEPRECATED.inc
chado_schema_get_foreign_key in tripal_core/api/tripal_core.chado_query.api.inc: Gets the value of a foreign key relationship
chado_select_record in tripal_core/api/tripal_core.chado_query.api.inc: Provides a generic routine for selecting data from a Chado table
chado_set_node_url in tripal_core/api/tripal_core.chado_nodes.title_and_path.api.inc: Set the URL for a given node.
chado_stock_insert in tripal_stock/includes/tripal_stock.chado_node.inc: Implements hook_insert(). Inserts data from chado_stock_form() into drupal and chado
chado_stock_update in tripal_stock/includes/tripal_stock.chado_node.inc: Implements hook_update(). Handles Editing/Updating of main stock info
chado_update_existing_node_urls in tripal_core/api/tripal_core.chado_nodes.title_and_path.api.inc: Tripal Job for updating all node URLs for a particular node type.
chado_update_node_form_properties in tripal_core/api/tripal_core.chado_nodes.properties.api.inc: This function is used in hook_insert or hook_update and handles inserting of any new properties
chado_update_property in tripal_core/api/tripal_core.chado_general.api.inc: Update a property for a given base table record and property name.
chado_update_record in tripal_core/api/tripal_core.chado_query.api.inc: Provides a generic routine for updating into any Chado table
get_max_chado_rank in tripal_core/api/tripal_core.DEPRECATED.api.inc
pub_search in tripal_pub/api/tripal_pub.DEPRECATED.inc
tripal_add_legacy_mview in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_add_mview in tripal_core/api/tripal_core.mviews.api.inc: Add a materialized view to the chado database to help speed data access. This function supports the older style where postgres column specifications are provided using the $mv_table, $mv_specs and $indexed variables. It also supports the newer…
tripal_add_node_variable in tripal_core/api/tripal_core.tripal_variables.api.inc: Associates a variable and it's value to a node.
tripal_add_views_integration in tripal_views/api/tripal_views.api.inc: Add views integration records into the tripal_views* tables.
tripal_analysis_delete_property in tripal_analysis/api/tripal_analysis.DEPRECATED.inc
tripal_analysis_get_node in tripal_analysis/api/tripal_analysis.DEPRECATED.inc
tripal_analysis_get_property in tripal_analysis/api/tripal_analysis.DEPRECATED.inc
tripal_analysis_insert_property in tripal_analysis/api/tripal_analysis.DEPRECATED.inc
tripal_analysis_register_child in tripal_analysis/api/tripal_analysis.DEPRECATED.inc
tripal_analysis_unregister_child in tripal_analysis/api/tripal_analysis.DEPRECATED.inc
tripal_analysis_update_property in tripal_analysis/api/tripal_analysis.DEPRECATED.inc
tripal_associate_cvterm in tripal_cv/api/tripal_cv.api.inc: Add a record to a cvterm linking table (ie: feature_cvterm)
tripal_associate_dbxref in tripal_db/api/tripal_db.api.inc: Add a record to a database reference linking table (ie: feature_dbxref)
tripal_bulk_loader_delete_field in tripal_bulk_loader/api/tripal_bulk_loader.DEPRECATED.inc
tripal_bulk_loader_delete_record in tripal_bulk_loader/api/tripal_bulk_loader.DEPRECATED.inc
tripal_bulk_loader_edit_template_record_form_submit in tripal_bulk_loader/includes/tripal_bulk_loader.admin.templates.inc: Edit Record Form Submit
tripal_bulk_loader_is_record_name_unique in tripal_bulk_loader/api/tripal_bulk_loader.DEPRECATED.inc
tripal_bulk_loader_template_field_form_submit in tripal_bulk_loader/includes/tripal_bulk_loader.admin.templates.inc: Add Field Submit
tripal_bulk_loader_throw_error in tripal_bulk_loader/includes/tripal_bulk_loader.loader.inc: Used to throw a hopefully human-readable error.
tripal_clone_views_integration in tripal_views/api/tripal_views.api.inc: Clone an integration. This is often a great way to create your own module-specific integration while still benifiting from an existing (or even the lightest priority) integration.
tripal_contact_add_contact in tripal_contact/api/tripal_contact.DEPRECATED.inc
tripal_contact_delete_property in tripal_contact/api/tripal_contact.DEPRECATED.inc
tripal_contact_get_property in tripal_contact/api/tripal_contact.DEPRECATED.inc
tripal_contact_insert_property in tripal_contact/api/tripal_contact.DEPRECATED.inc
tripal_contact_update_property in tripal_contact/api/tripal_contact.DEPRECATED.inc
tripal_core_chado_delete in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_chado_get_foreign_key in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_chado_insert in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_chado_node_cleanup_orphaned in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_chado_node_sync_form in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_chado_node_sync_records in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_chado_schema_exists in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_chado_select in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_chado_update in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_create_custom_table in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_delete_property in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_delete_property_by_id in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_edit_custom_table in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_expand_chado_vars in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_generate_chado_var in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_get_chado_tables in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_get_chado_table_schema in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_get_chado_version in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_get_property in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_get_token_value_for_property in tripal_core/includes/tripal_core.search.inc: Retrieve values for all tokens for an entity property getter function.
tripal_core_insert_property in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_install_chado in tripal_core/includes/tripal_core.chado_install.inc: Install Chado Schema
tripal_core_is_chado_installed in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_is_chado_local in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_is_tripal_node_type in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_report_error in tripal_core/api/tripal_core.DEPRECATED.api.inc: @todo Remove. This was not in Tripal 1.x.
tripal_core_schema_exists in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_update_property in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_core_update_property_by_id in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_create_files_dir in tripal_core/api/tripal_core.files.api.inc: Creates a directory for a module in the Drupal's public files directory.
tripal_create_moddir in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_create_mod_subdir in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_custom_tables_get_table_id in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_cv_add_cv in tripal_cv/api/tripal_cv.DEPRECATED.inc
tripal_cv_add_cvterm in tripal_cv/api/tripal_cv.DEPRECATED.inc
tripal_cv_add_obo_ref in tripal_cv/api/tripal_cv.DEPRECATED.inc
tripal_cv_cvterm_name_autocomplete in tripal_cv/api/tripal_cv.DEPRECATED.inc
tripal_cv_get_cv in tripal_cv/api/tripal_cv.DEPRECATED.inc
tripal_cv_get_cvterm_by_id in tripal_cv/api/tripal_cv.DEPRECATED.inc
tripal_cv_get_cvterm_by_name in tripal_cv/api/tripal_cv.DEPRECATED.inc
tripal_cv_get_cvterm_by_synonym in tripal_cv/api/tripal_cv.DEPRECATED.inc
tripal_cv_get_cvterm_options in tripal_cv/api/tripal_cv.DEPRECATED.inc
tripal_cv_get_cv_by_id in tripal_cv/api/tripal_cv.DEPRECATED.inc
tripal_cv_get_cv_by_name in tripal_cv/api/tripal_cv.DEPRECATED.inc
tripal_cv_get_cv_id in tripal_cv/api/tripal_cv.DEPRECATED.inc
tripal_cv_get_cv_options in tripal_cv/api/tripal_cv.DEPRECATED.inc
tripal_cv_obo_add_cvterm_dbxref in tripal_cv/includes/tripal_cv.obo_loader.inc: Adds a database reference to a cvterm
tripal_cv_obo_parse in tripal_cv/includes/tripal_cv.obo_loader.inc: Parse the OBO file and populate the templ loading table
tripal_cv_obo_quiterror in tripal_cv/includes/tripal_cv.obo_loader.inc: Immediately terminates loading of the OBO file.
tripal_cv_submit_obo_job in tripal_cv/api/tripal_cv.DEPRECATED.inc
tripal_cv_update_cvtermpath in tripal_cv/api/tripal_cv.DEPRECATED.inc
tripal_db_add_db in tripal_db/api/tripal_db.DEPRECATED.inc
tripal_db_add_dbxref in tripal_db/api/tripal_db.DEPRECATED.inc
tripal_db_add_dbxref_link in tripal_db/api/tripal_db.DEPRECATED.inc
tripal_db_get_db in tripal_db/api/tripal_db.DEPRECATED.inc
tripal_db_get_dbxref in tripal_db/api/tripal_db.DEPRECATED.inc
tripal_db_get_dbxref_by_accession in tripal_db/api/tripal_db.DEPRECATED.inc
tripal_db_get_db_by_db_id in tripal_db/api/tripal_db.DEPRECATED.inc
tripal_db_get_db_by_name in tripal_db/api/tripal_db.DEPRECATED.inc
tripal_db_get_db_options in tripal_db/api/tripal_db.DEPRECATED.inc
tripal_db_set_active in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_delete_phylotree in tripal_phylogeny/api/tripal_phylogeny.api.inc: Deletes a phylotree record from Chado.
tripal_featuremap_add_featuremap_dbxref in tripal_featuremap/api/tripal_featuremap.DEPRECATED.inc
tripal_featuremap_delete_property in tripal_featuremap/api/tripal_featuremap.DEPRECATED.inc
tripal_featuremap_get_property in tripal_featuremap/api/tripal_featuremap.DEPRECATED.inc
tripal_featuremap_insert_property in tripal_featuremap/api/tripal_featuremap.DEPRECATED.inc
tripal_featuremap_update_property in tripal_featuremap/api/tripal_featuremap.DEPRECATED.inc
tripal_feature_add_cvterm in tripal_feature/api/tripal_feature.DEPRECATED.inc
tripal_feature_add_dbxref in tripal_feature/api/tripal_feature.DEPRECATED.inc
tripal_feature_analysis_delete_property in tripal_feature/api/tripal_feature.DEPRECATED.inc
tripal_feature_analysis_delete_property_by_id in tripal_feature/api/tripal_feature.DEPRECATED.inc
tripal_feature_analysis_get_property in tripal_feature/api/tripal_feature.DEPRECATED.inc
tripal_feature_analysis_insert_property in tripal_feature/api/tripal_feature.DEPRECATED.inc
tripal_feature_analysis_update_property in tripal_feature/api/tripal_feature.DEPRECATED.inc
tripal_feature_analysis_update_property_by_id in tripal_feature/api/tripal_feature.DEPRECATED.inc
tripal_feature_delete_property in tripal_feature/api/tripal_feature.DEPRECATED.inc
tripal_feature_delete_property_by_id in tripal_feature/api/tripal_feature.DEPRECATED.inc
tripal_feature_get_property in tripal_feature/api/tripal_feature.DEPRECATED.inc
tripal_feature_gff3_exporter in tripal_feature/includes/tripal_feature.gff_exporter.inc
tripal_feature_insert_property in tripal_feature/api/tripal_feature.DEPRECATED.inc
tripal_feature_load_fasta in tripal_feature/includes/tripal_feature.fasta_loader.inc: Actually load a fasta file. This is the function called by tripal jobs
tripal_feature_load_fasta_feature in tripal_feature/includes/tripal_feature.fasta_loader.inc: A helper function for tripal_feature_load_fasta() to load a single feature
tripal_feature_load_gff3 in tripal_feature/includes/tripal_feature.gff_loader.inc: Actually load a GFF3 file. This is the function called by tripal jobs
tripal_feature_load_gff3_alias in tripal_feature/includes/tripal_feature.gff_loader.inc: Load any aliases for a feature
tripal_feature_load_gff3_dbxref in tripal_feature/includes/tripal_feature.gff_loader.inc: Load the dbxref attribute for a feature
tripal_feature_load_gff3_derives_from in tripal_feature/includes/tripal_feature.gff_loader.inc: Load the derives from attribute for a gff3 feature
tripal_feature_load_gff3_fasta in tripal_feature/includes/tripal_feature.gff_loader.inc: Load the FASTA sequences at the bottom of a GFF3 file
tripal_feature_load_gff3_feature in tripal_feature/includes/tripal_feature.gff_loader.inc: Create the feature record & link it to it's analysis
tripal_feature_load_gff3_featureloc in tripal_feature/includes/tripal_feature.gff_loader.inc: Insert the location of the feature
tripal_feature_load_gff3_ontology in tripal_feature/includes/tripal_feature.gff_loader.inc: Load the cvterms for a feature. Assumes there is a dbxref.accession matching a cvterm.name
tripal_feature_load_gff3_parents in tripal_feature/includes/tripal_feature.gff_loader.inc: Load the parents for a gff3 feature
tripal_feature_load_gff3_property in tripal_feature/includes/tripal_feature.gff_loader.inc: Load a preoprty (featurepop) for the feature
tripal_feature_load_gff3_target in tripal_feature/includes/tripal_feature.gff_loader.inc: Load the target attribute of a gff3 record
tripal_feature_reverse_complement in tripal_feature/api/tripal_feature.DEPRECATED.inc
tripal_feature_update_property in tripal_feature/api/tripal_feature.DEPRECATED.inc
tripal_feature_update_property_by_id in tripal_feature/api/tripal_feature.DEPRECATED.inc
tripal_file_directory_path in tripal_core/api/tripal_core.DEPRECATED.api.inc: @todo Remove. This was not in Tripal 1.x.
tripal_get_analysis in tripal_analysis/api/tripal_analysis.api.inc: Retrieves an chado analysis variable
tripal_get_chado_custom_schema in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_get_cv in tripal_cv/api/tripal_cv.api.inc: Retrieves a chado controlled vocabulary variable
tripal_get_cvterm in tripal_cv/api/tripal_cv.api.inc: Retrieves a chado controlled vocabulary term variable
tripal_get_db in tripal_db/api/tripal_db.api.inc: Retrieves a chado db variable
tripal_get_dbxref in tripal_db/api/tripal_db.api.inc: Retrieves a chado database reference variable
tripal_get_feature_sequences in tripal_feature/api/tripal_feature.api.inc: Retrieves the sequences for a given feature.
tripal_get_max_chado_rank in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_get_moddir in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_get_module_active_jobs in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_get_multiple_stocks in tripal_stock/api/tripal_stock.api.inc: Retrieves a chado stock variable
tripal_get_organism in tripal_organism/api/tripal_organism.api.inc: Retrieves a chado organism variable
tripal_get_publication in tripal_pub/api/tripal_pub.api.inc: Retrieves a chado publication array
tripal_get_stock in tripal_stock/api/tripal_stock.api.inc: Retrieves a chado stock variable
tripal_insert_bulk_loader_template in tripal_bulk_loader/api/tripal_bulk_loader.api.templates.inc: Inserts a bulk loader template record.
tripal_insert_contact in tripal_contact/api/tripal_contact.api.inc: Adds a contact to the Chado contact table
tripal_insert_cv in tripal_cv/api/tripal_cv.api.inc: Adds a controlled vocabular to the CV table of Chado.
tripal_insert_cvterm in tripal_cv/api/tripal_cv.api.inc: Add's a controlled vocabulary term to Chado.
tripal_insert_db in tripal_db/api/tripal_db.api.inc: Adds a new database to the Chado DB table and returns the DB object.
tripal_insert_dbxref in tripal_db/api/tripal_db.api.inc: Add a database reference
tripal_insert_phylotree in tripal_phylogeny/api/tripal_phylogeny.api.inc: Inserts a phylotree record into Chado.
tripal_insert_variable in tripal_core/api/tripal_core.tripal_variables.api.inc: Adds a new variable name.
tripal_jobs_cancel in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_jobs_check_running in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_jobs_get_end_time in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_jobs_get_start_time in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_jobs_get_submit_date in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_jobs_launch in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_jobs_rerun in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_job_set_progress in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_library_delete_property in tripal_library/api/tripal_library.DEPRECATED.inc
tripal_library_get_property in tripal_library/api/tripal_library.DEPRECATED.inc
tripal_library_insert_property in tripal_library/api/tripal_library.DEPRECATED.inc
tripal_library_update_property in tripal_library/api/tripal_library.DEPRECATED.inc
tripal_mviews_action in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_mviews_get_mview_id in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_organism_get_image_url in tripal_organism/api/tripal_organism.DEPRECATED.inc
tripal_organism_get_organism_by_nid in tripal_organism/api/tripal_organism.DEPRECATED.inc
tripal_organism_get_organism_by_organism_id in tripal_organism/api/tripal_organism.DEPRECATED.inc
tripal_organism_get_synced in tripal_organism/api/tripal_organism.DEPRECATED.inc
tripal_phylogeny_get_node_types_vocab in tripal_phylogeny/includes/tripal_phylogeny.import_tree.inc
tripal_phylogeny_import_tree_file in tripal_phylogeny/includes/tripal_phylogeny.import_tree.inc: Imports a tree file.
tripal_project_delete_property in tripal_project/api/tripal_project.DEPRECATED.inc
tripal_project_get_property in tripal_project/api/tripal_project.DEPRECATED.inc
tripal_project_insert_property in tripal_project/api/tripal_project.DEPRECATED.inc
tripal_project_update_property in tripal_project/api/tripal_project.DEPRECATED.inc
tripal_publication_exists in tripal_pub/api/tripal_pub.api.inc: The publication table of Chado only has a unique constraint for the uniquename of the publiation, but in reality a publication can be considered unique by a combination of the title, publication type, published year and series name (e.g. journal name…
tripal_pub_add_authors in tripal_pub/includes/tripal_pub.pub_importers.inc: Add one or more authors to a publication
tripal_pub_add_publication in tripal_pub/includes/tripal_pub.pub_importers.inc: Adds a new publication to the Chado, along with all properties and database cross-references. If the publication does not already exist in Chado then it is added. If it does exist nothing is done. If the $update parameter is TRUE then the…
tripal_pub_add_publications in tripal_pub/includes/tripal_pub.pub_importers.inc: Adds publications that have been retrieved from a remote database and consolidated into an array of details.
tripal_pub_add_pub_dbxref in tripal_pub/api/tripal_pub.DEPRECATED.inc
tripal_pub_delete_property in tripal_pub/api/tripal_pub.DEPRECATED.inc
tripal_pub_get_property in tripal_pub/api/tripal_pub.DEPRECATED.inc
tripal_pub_get_publication_array in tripal_pub/includes/tripal_pub.pub_importers.inc: This function generates an array suitable for use with the tripal_pub_create_citation function for any publication already stored in the Chado tables.
tripal_pub_get_pubs_by_dbxref in tripal_pub/api/tripal_pub.DEPRECATED.inc
tripal_pub_get_pubs_by_title_type_pyear_series in tripal_pub/api/tripal_pub.DEPRECATED.inc
tripal_pub_get_pub_by_uniquename in tripal_pub/api/tripal_pub.DEPRECATED.inc
tripal_pub_get_raw_data in tripal_pub/api/tripal_pub.DEPRECATED.inc
tripal_pub_get_remote_search_results in tripal_pub/api/tripal_pub.DEPRECATED.inc
tripal_pub_import_by_dbxref in tripal_pub/api/tripal_pub.DEPRECATED.inc
tripal_pub_import_publications in tripal_pub/api/tripal_pub.DEPRECATED.inc
tripal_pub_import_publications_by_import_id in tripal_pub/api/tripal_pub.DEPRECATED.inc
tripal_pub_insert_property in tripal_pub/api/tripal_pub.DEPRECATED.inc
tripal_pub_PMID_fetch in tripal_pub/includes/importers/tripal_pub.PMID.inc: Retreives from PubMed a set of publications from the previously initiated query.
tripal_pub_PMID_parse_publication_type in tripal_pub/includes/importers/tripal_pub.PMID.inc: Parses the section from the XML returned from PubMed that contains information about a publication
tripal_pub_PMID_parse_pubxml in tripal_pub/includes/importers/tripal_pub.PMID.inc: This function parses the XML containing details of a publication and converts it into an associative array of where keys are Tripal Pub ontology terms and the values are extracted from the XML. The XML should contain only a single publication record.
tripal_pub_PMID_search_init in tripal_pub/includes/importers/tripal_pub.PMID.inc: Initailizes a PubMed Search using a given search string
tripal_pub_update_property in tripal_pub/api/tripal_pub.DEPRECATED.inc
tripal_pub_update_publications in tripal_pub/api/tripal_pub.DEPRECATED.inc
tripal_search_chado_token_across_nodetypes_getter_callback in tripal_core/includes/tripal_core.search.inc: Implements a getter callback for foreign keys collon between content types.
tripal_search_chado_token_getter_callback in tripal_core/includes/tripal_core.search.inc: Implements a getter callback for chado token formats.
tripal_search_update_default_index in tripal_core/includes/tripal_core.search.inc: The Search API provides a default node index which has a number of node-specific fields enabled by default. We want to ensure our chado fields are also enabled by default thus making for easier enabling of Tripal search.
tripal_set_default_cv in tripal_cv/api/tripal_cv.api.inc: This function sets the default vocabulary for a given table and field.
tripal_stock_get_all_stocks in tripal_stock/api/tripal_stock.DEPRECATED.inc
tripal_stock_get_stocks in tripal_stock/api/tripal_stock.DEPRECATED.inc
tripal_stock_get_stocks_by_stockprop in tripal_stock/api/tripal_stock.DEPRECATED.inc
tripal_stock_get_stock_by_name_identifier in tripal_stock/api/tripal_stock.DEPRECATED.inc
tripal_stock_get_stock_by_nid in tripal_stock/api/tripal_stock.DEPRECATED.inc
tripal_stock_get_stock_by_stock_id in tripal_stock/api/tripal_stock.DEPRECATED.inc
tripal_update_cvtermpath in tripal_cv/api/tripal_cv.api.inc: Updates the cvtermpath table of Chado for the specified CV.
tripal_update_mview in tripal_core/api/tripal_core.DEPRECATED.api.inc
tripal_update_phylotree in tripal_phylogeny/api/tripal_phylogeny.api.inc: Updates a phylotree record into Chado.
tripal_validate_phylotree in tripal_phylogeny/api/tripal_phylogeny.api.inc: Validates an $options array for insert or update of a phylotree record.
tripal_views_add_field_to_integration in tripal_views/api/tripal_views.DEPRECATED.inc
tripal_views_admin_disable_view in tripal_views/api/tripal_views.DEPRECATED.inc
tripal_views_admin_enable_view in tripal_views/api/tripal_views.DEPRECATED.inc
tripal_views_clone_integration in tripal_views/api/tripal_views.DEPRECATED.inc
tripal_views_get_integration_array_for_chado_table in tripal_views/includes/tripal_views_integration.inc: Returns the array needed to integrate a given chado table with views
tripal_views_get_lightest_priority_setup in tripal_views/api/tripal_views.DEPRECATED.inc
tripal_views_get_setup_id in tripal_views/api/tripal_views.DEPRECATED.inc
tripal_views_get_table_lightest_priority in tripal_views/api/tripal_views.DEPRECATED.inc
tripal_views_integration_add_entry in tripal_views/api/tripal_views.DEPRECATED.inc
tripal_views_integration_ajax_join_field in tripal_views/includes/tripal_views_integration_UI.inc
tripal_views_integration_export_entry in tripal_views/api/tripal_views.DEPRECATED.inc
tripal_views_integration_remove_entry_by_setup_id in tripal_views/api/tripal_views.DEPRECATED.inc
tripal_views_integration_remove_entry_by_table_name in tripal_views/api/tripal_views.DEPRECATED.inc
tripal_views_integration_update_entry in tripal_views/api/tripal_views.DEPRECATED.inc
tripal_views_is_integrated in tripal_views/api/tripal_views.DEPRECATED.inc
tripal_views_is_lightest_priority_setup in tripal_views/api/tripal_views.DEPRECATED.inc
tripal_views_make_view_compatible_with_external in tripal_views/api/tripal_views.DEPRECATED.inc
tripal_views_rebuild_views_integrations in tripal_views/api/tripal_views.DEPRECATED.inc
tripal_views_remove_join_from_integration in tripal_views/api/tripal_views.DEPRECATED.inc
tripal_views_views_data in tripal_views/tripal_views.views.inc: Implements hook_views_data().