| $arguments | Drupal\tripal\TripalImporter\TripalImporterBase | protected |
| $batch_size | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| $bundle_type_id | Drupal\tripal_chado\TripalImporter\ChadoImporterBase | protected |
| $chado_schema_main (defined in Drupal\tripal_chado\TripalImporter\ChadoImporterBase) | Drupal\tripal_chado\TripalImporter\ChadoImporterBase | protected |
| $connection (defined in Drupal\tripal_chado\TripalImporter\ChadoImporterBase) | Drupal\tripal_chado\TripalImporter\ChadoImporterBase | protected |
| $contact_lookups | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| $cvterm_lookups | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| $db_id | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| $fileretriever (defined in Drupal\tripal\TripalImporter\TripalImporterBase) | Drupal\tripal\TripalImporter\TripalImporterBase | protected |
| $import_id | Drupal\tripal\TripalImporter\TripalImporterBase | protected |
| $is_prepared | Drupal\tripal\TripalImporter\TripalImporterBase | protected |
| $job | Drupal\tripal\TripalImporter\TripalImporterBase | protected |
| $logger (defined in Drupal\tripal\TripalImporter\TripalImporterBase) | Drupal\tripal\TripalImporter\TripalImporterBase | protected |
| $messenger (defined in Drupal\tripal_chado\TripalImporter\ChadoImporterBase) | Drupal\tripal_chado\TripalImporter\ChadoImporterBase | protected |
| $new_accessions | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| $plugin_definition (defined in Drupal\tripal\TripalImporter\TripalImporterBase) | Drupal\tripal\TripalImporter\TripalImporterBase | protected |
| $plugin_id (defined in Drupal\tripal\TripalImporter\TripalImporterBase) | Drupal\tripal\TripalImporter\TripalImporterBase | protected |
| $pub_index | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| $pub_library_manager (defined in Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| $public (defined in Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| $publish_manager (defined in Drupal\tripal\TripalImporter\TripalImporterBase) | Drupal\tripal\TripalImporter\TripalImporterBase | protected |
| $reported (defined in Drupal\tripal\TripalImporter\TripalImporterBase) | Drupal\tripal\TripalImporter\TripalImporterBase | protected |
| __construct(array $configuration, $plugin_id, $plugin_definition, TripalPubLibraryManager $pub_library_manager, Connection $public, ChadoConnection $connection, Messenger $messenger, TripalLogger $logger, TripalFileRetriever $fileretriever, TripalBackendPublishManager $publish_manager,) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | |
| Drupal::tripal_chado::TripalImporter::ChadoImporterBase::__construct(array $configuration, $plugin_id, $plugin_definition, ChadoConnection $connection, ?Messenger $messenger=NULL, ?TripalLogger $logger=NULL, ?TripalFileRetriever $fileretriever=NULL, ?TripalBackendPublishManager $publish_manager=NULL,) | Drupal\tripal_chado\TripalImporter\ChadoImporterBase | |
| Drupal::tripal::TripalImporter::TripalImporterBase::__construct(array $configuration, $plugin_id, $plugin_definition, ?Messenger $messenger=NULL, ?TripalLogger $logger=NULL, ?TripalFileRetriever $fileretriever=NULL, ?TripalBackendPublishManager $publish_manager=NULL,) | Drupal\tripal\TripalImporter\TripalImporterBase | |
| addAnalysis($form, &$form_state) | Drupal\tripal_chado\TripalImporter\ChadoImporterBase | |
| addAuthors(string $accession, array $publication, bool $do_contact=FALSE) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| addBundleTypeProperty(string $pkey, int $record_id, string $property_table, string $termIdSpace, string $termAccession, string $value='', ?int $rank=NULL) | Drupal\tripal_chado\TripalImporter\ChadoImporterBase | protected |
| addItemsHandled($num_handled) | Drupal\tripal\TripalImporter\TripalImporterBase | protected |
| cachePublicationCvterms() | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| checkIfSupportedProperty(string $key, string|array $value, array &$missing_cvterms) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| cleanFile() | Drupal\tripal\TripalImporter\TripalImporterBase | |
| create(ContainerInterface $container, array $configuration, $plugin_id, $plugin_definition) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | static |
| createImportJob($run_args, $file_details=[]) | Drupal\tripal\TripalImporter\TripalImporterBase | |
| database_on_change(array &$form, $form_state) (defined in Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | static |
| describeUploadFileFormat() | Drupal\tripal\TripalImporter\TripalImporterBase | |
| findExistingPublications(array $publications) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | |
| form($form, &$form_state) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | |
| formQueryIdNotSet(&$form, $form_state) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| formSubmit($form, &$form_state) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | |
| formValidate($form, &$form_state) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | |
| getArguments() | Drupal\tripal\TripalImporter\TripalImporterBase | |
| getChadoConnection() | Drupal\tripal_chado\TripalImporter\ChadoImporterBase | |
| getContact(string $contact_name, string $type) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| getContactType(string $type_name) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| getNewPublicationAccessions(array $publications) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| getPublicationTypeId(array &$publications, int $index) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| getRemoteDbId(string $db_name) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| insertContacts(array $publications, bool $do_contact) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| insertMissingPublicationsDbxref(array $publications) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| insertPubDbxrefs() | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| insertPublications(array &$publications) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| insertPubProps(array $publications) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| load($import_id) | Drupal\tripal\TripalImporter\TripalImporterBase | |
| postRun() | Drupal\tripal_chado\TripalImporter\ChadoImporterBase | |
| prepareFiles() | Drupal\tripal\TripalImporter\TripalImporterBase | |
| rollbackTransaction(string $stage) | Drupal\tripal\TripalImporter\TripalImporterBase | |
| run() | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | |
| run_init() | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| setArguments(array $arguments) | Drupal\tripal\TripalImporter\TripalImporterBase | |
| setInterval($interval) | Drupal\tripal\TripalImporter\TripalImporterBase | protected |
| setItemsHandled($total_handled) | Drupal\tripal\TripalImporter\TripalImporterBase | protected |
| setJob($job) | Drupal\tripal\TripalImporter\TripalImporterBase | |
| setTotalItems($total_items) | Drupal\tripal\TripalImporter\TripalImporterBase | protected |
| specialCaseProps(&$publications) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | protected |
| startTransactions() | Drupal\tripal_chado\TripalImporter\ChadoImporterBase | |
| submitJob() | Drupal\tripal\TripalImporter\TripalImporterBase | |
| test_click_on_change(array &$form, $form_state) (defined in Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter) | Drupal\tripal_chado\Plugin\TripalImporter\PubSearchQueryImporter | static |
| xmlIsValid(string $xml) | Drupal\tripal\TripalImporter\TripalImporterBase | protected |
