function tripal_library_update_7200
2.x tripal_library.install | tripal_library_update_7200() |
This is the required update for tripal_library when upgrading from Drupal core API 6.x.
File
- tripal_library/
tripal_library.install, line 267 - Installation of the library module
Code
function tripal_library_update_7200() {
// Make sure we have the full API loaded this will help during a
// site upgrade when the tripal_core module is disabled.
module_load_include('module', 'tripal_core', 'tripal_core');
tripal_core_import_api();
module_load_include('inc', 'tripal_cv', 'api/tripal_cv.api');
// the library types were formerly in a vocabulary named 'tripal_library_types'.
// rename that to just be 'library_type'.
try {
$check = chado_query("SELECT cv_id FROM {cv} WHERE name = 'library_type'")->fetchObject();
if (!$check->cv_id) {
$sql = "UPDATE {cv} SET name = 'library_type' WHERE name = 'tripal_library_types'";
chado_query($sql);
}
}
catch (\PDOException $e) {
$error = $e->getMessage();
throw new DrupalUpdateException('Failed to change the vocabulary from tripal_library_types to library_type: ' . $error);
}
// add the library_property CV
try {
$cv = tripal_insert_cv(
'library_property',
'Contains properties for libraries.'
);
if ($cv) {
$cv_id = $cv->cv_id;
// Set as Default CV for library properties.
$is_set = tripal_get_default_cv('libraryprop', 'type_id');
if (!$is_set) {
tripal_set_default_cv('libraryprop', 'type_id', 'library_property', $cv_id);
}
}
}
catch (\PDOException $e) {
$error = $e->getMessage();
throw new DrupalUpdateException('Failed to add library_property vocabulary: ' . $error);
}
// add the library_type CV
try {
// Note: tripal_insert_cv will only insert it if doesn't already exist
// so this doesn't conflict with the update above.
$cv = tripal_insert_cv(
'library_type',
'Contains terms for types of libraries (e.g. BAC, cDNA, FOSMID, etc).'
);
if ($cv) {
$cv_id = $cv->cv_id;
// Set as Default CV for library types.
$is_set = tripal_get_default_cv('library', 'type_id');
if (!$is_set) {
tripal_set_default_cv('library', 'type_id', 'library_type', $cv_id);
}
}
}
catch (\PDOException $e) {
$error = $e->getMessage();
throw new DrupalUpdateException('Failed to add library_type vocabulary: ' . $error);
}
// For Tripal in Drupal 6 the library_description cvterm was stored in the
// 'tripal' CV. It should be stored in the new library_property CV that
// is added by this module for Tripal 2.0 and Drupal 7. So, we need to
// reset the CV ID for that term and rename the term to 'Library Description'
try {
$sql = "
UPDATE {cvterm}
SET
name = 'Library Description',
cv_id = (SELECT cv_id FROM {cv} WHERE name = 'library_property')
WHERE
name = 'library_description' AND
cv_id = (SELECT cv_id FROM {cv} WHERE name = 'tripal')
";
chado_query($sql);
}
catch (\PDOException $e) {
$error = $e->getMessage();
throw new DrupalUpdateException('Failed to change library_description property type to the library_property CV and update the name: ' . $error);
}
// During the upgrade from D6 to D7 the vocabulary terms assigned to libraries were
// copied to the field_data_taxonomyextra table rather than to the correct
// field_data_taxonomy_vocabulary_[vid] table. We'll move them.
$vid = db_query("SELECT vid FROM {taxonomy_vocabulary} WHERE name = 'Library'")->fetchField();
if ($vid) {
try {
if (db_table_exists('field_data_taxonomyextra')) {
// first move from the field_data_taxonomyextra table
$sql = "
INSERT INTO {field_data_taxonomy_vocabulary_$vid}
(entity_type, bundle, deleted, entity_id, revision_id, language, delta, taxonomy_vocabulary_" . $vid . "_tid)
(SELECT entity_type, bundle, deleted, entity_id, revision_id, language, delta, taxonomyextra_tid
FROM field_data_taxonomyextra
WHERE bundle = 'chado_feature')
";
db_query($sql);
$sql = "DELETE FROM field_data_taxonomyextra WHERE bundle = 'chado_library'";
db_query($sql);
// next move from the field_revision_taxonomyextra table
$sql = "
INSERT INTO {field_revision_taxonomy_vocabulary_$vid}
(entity_type, bundle, deleted, entity_id, revision_id, language, delta, taxonomy_vocabulary_" . $vid . "_tid)
(SELECT entity_type, bundle, deleted, entity_id, revision_id, language, delta, taxonomyextra_tid
FROM field_revision_taxonomyextra
WHERE bundle = 'chado_feature')
";
db_query($sql);
$sql = "DELETE FROM field_revision_taxonomyextra WHERE bundle = 'chado_library'";
db_query($sql);
}
}
catch (\PDOException $e) {
$error = $e->getMessage();
throw new DrupalUpdateException('Could not move library taxonomy terms: ' . $error);
}
}
}