Retrieves a chado stock variable

Parameters

$identifier: An array with the key stating what the identifier is. Supported keys (only one of the following unique keys is required):

• stock_id: the chado stock.stock_id primary key
• nid: the drupal nid of the stock

There are also some specially handled keys. They are:

• property: An array/object describing the property to select records for. It should at least have either a type_name (if unique across cvs) or type_id. Other supported keys include: cv_id/cv_name (of the type), value and rank

$options: An array of options. Supported keys include:

• Any keys supported by chado_generate_var(). See that function definition for additional details.

NOTE: the $identifier parameter can really be any array similar to $values passed into chado_select_record(). It should fully specify the stock record to be returned.

Return value

If unique values were passed in as an identifier then an object describing the stock will be returned (will be a chado variable from chado_generate_var()). Otherwise, FALSE will be returned.

Related topics

File

tripal_stock/api/tripal_stock.api.inc, line 42

Provides an application programming interface (API) to manage stocks

Code

function tripal_get_stock($identifiers, $options = array()) {

  // Set Defaults
  if (!isset($options['include_fk'])) {
    // Tells chado_generate_var to only expand 1 level
    $options['include_fk'] = array('type_id' => TRUE, 'dbxref_id' => TRUE);
  }

  // Error Checking of parameters
  if (!is_array($identifiers)) {
    tripal_report_error(
    'tripal_stock_api', 
    TRIPAL_ERROR, 
    "tripal_get_stock: The identifier passed in is expected to be an array with the key
        matching a column name in the stock table (ie: stock_id or name). You passed in %identifier.", 
    array(
      '%identifier' => print_r($identifiers, TRUE)
    )
    );
  }
  elseif (empty($identifiers)) {
    tripal_report_error(
    'tripal_stock_api', 
    TRIPAL_ERROR, 
    "tripal_get_stock: You did not pass in anything to identify the stock you want. The identifier
        is expected to be an array with the key matching a column name in the stock table
        (ie: stock_id or name). You passed in %identifier.", 
    array(
      '%identifier' => print_r($identifiers, TRUE)
    )
    );
  }

  // If one of the identifiers is property then use chado_get_record_with_property()
  if (isset($identifiers['property'])) {
    $property = $identifiers['property'];
    unset($identifiers['property']);
    $stock = chado_get_record_with_property(
    array('table' => 'stock', 'base_records' => $identifiers), 
    array('type_name' => $property), 
    $options
    );
  }

  // Else we have a simple case and we can just use chado_generate_var to get the stock
  else {

    // Try to get the stock
    $stock = chado_generate_var(
    'stock', 
    $identifiers, 
    $options
    );
  }

  // Ensure the stock is singular. If it's an array then it is not singular
  if (is_array($stock)) {
    tripal_report_error(
    'tripal_stock_api', 
    TRIPAL_ERROR, 
    "tripal_get_stock: The identifiers you passed in were not unique. You passed in %identifier.", 
    array(
      '%identifier' => print_r($identifiers, TRUE)
    )
    );
  }

  // Report an error if $stock is FALSE since then chado_generate_var has failed
  elseif ($stock === FALSE) {
    tripal_report_error(
    'tripal_stock_api', 
    TRIPAL_ERROR, 
    "tripal_get_stock: chado_generate_var() failed to return a stock based on the identifiers
        you passed in. You should check that your identifiers are correct, as well as, look
        for a chado_generate_var error for additional clues. You passed in %identifier.", 
    array(
      '%identifier' => print_r($identifiers, TRUE)
    )
    );
  }

  // Else, as far we know, everything is fine so give them their stock :)
  else {
    return $stock;
  }
}