EDIT

      $enclosing_tag = $this->enclosing_tag;

    }

  }

}

      } // END of loop over sources

      // annotations footnotes separate from sources

        cdm_entity_annotations_as_footnote_keys($entity, $footnote_list_key_suggestion), ', '

      );

    // footnotes for sources and annotations or put into into bibliography if requested ...

    if ($config['add_footnote_keys'] == 1) {

          $entity, ',',

          $footnote_list_key_suggestion,

          $config['link_to_reference'] == 1,

            /*

             * Footnotes for the feature block

             */

          }

        } // END all other features

      );

    }

    return $block;

  }

    $text_data_out, $feature

  );

  return  markup_to_render_array(  // FIXME markup_to_render_array should no longer be needed

    '<div class="common-taxon-name">' . $common_name_out . '</div>'

 *    Put source references into the bibliography when this param is TRUE.

 *

 * @return String

 *

 * @throws \Exception re-throw exception from theme()

 * @see cdm_entities_annotations_footnote_keys()

 * @$original_source_footnote_tag

 *    null will cause bibliography_footnote_list_key to use the default

 */

  $cdm_entity,

  $separator = ',',

  $footnote_list_key_suggestion = null,

  }

  // Sort and render footnote keys.

  asort($footnote_keys);

}

/**

  $foot_note_keys = [];

  if (isset($footnote_list_key_suggestion)) {

    $footnote_list_key = $footnote_list_key_suggestion;

  } else {

  return $foot_note_keys;

}

/**

 * Creates markup for an array of foot note keys

 *

 *

 * @return string

 */

  $footnotes_markup = '';

  foreach ($footnote_keys as $foot_note_key) {

    try {

    } catch (Exception $e) {

      drupal_set_message("Exception: " . $e->getMessage(), 'error');

    }

 * @return string

 * @throws \Exception

 */

  if (variable_get('cdm_dataportal_annotations_footnotes', CDM_DATAPORTAL_ALL_FOOTNOTES)) {

    return '';

  }

}

/**

 * @return string

 *   The footnote key markup

 */

  if (!is_object($footnoteKey) or !isset($footnoteKey->footnoteListKey)) {

    return '';

 *

 * @return string

 */

  _add_js_footnotes();

  if($enclosing_tag == null){

    $enclosing_tag = 'span';

 *

 * @return string

 */

  if (variable_get('cdm_dataportal_all_footnotes', CDM_DATAPORTAL_ALL_FOOTNOTES)) {

    return '';

  }

  $out .= '</span>';

  if ($show_annotations) {

  }

  return $out;

}

          // footnotes should be rendered in the parent element so we

          // are relying on the FootnoteListKey set there

          $_fkey2 = FootnoteManager::addNewFootnote(RenderHints::getFootnoteListKey(), $citation_footnote_str);

        }

        $type_citation_markup .= '&nbsp;(' . t('designated by') . '&nbsp;<span class="typeReference">' . $authorteam_str . '</span>';

    RenderHints::getFootnoteListKey(),

    (isset($derivedUnitFacadeInstance->collection->titleCache) ? $derivedUnitFacadeInstance->collection->titleCache : FALSE)

  );

  $out .= '</' . $enclosing_tag .'>';

  RenderHints::popFromRenderStack();

  RenderHints::popFromRenderStack();

  if(RenderHints::getFootnoteListKey() == $key) {

    RenderHints::clearFootnoteListKey();

  }

  return $render_array;

  }

  if ($footnote_markup) {

    $fnkey = FootnoteManager::addNewFootnote(RenderHints::getFootnoteListKey(), $footnote_markup);

  }

  return $footnote_key_markup;

}

  }

  if ($footnote_markup) {

    $fnkey = FootnoteManager::addNewFootnote(RenderHints::getFootnoteListKey(), $footnote_markup);

  }

  return $footnote_key_markup;

}

    // footnotes should be rendered in the parent element so we

    // are relying on the FootnoteListKey set there

    $fkey_typeDesignation = FootnoteManager::addNewFootnote(RenderHints::getFootnoteListKey(), $typeDesignation->citation->titleCache);

  }

  return $res;

}

        $derivatives[] = $occurrence_elements;

        // all footnotes which has been assembled so far (e.g. from typeDesignations) to here

//        if (!empty($foonote_li_elements)) {

//            $derivatives[] =  array(

//                '#markup' =>  '<div class="footnotes">' . $foonote_li_elements . '</div>',

    $special_annotations_array = array();

    $special_annotations_array[] = $taxon->name;

    $special_annotations_array[] = $taxon;

    $accepted_name .= '</div>';

    RenderHints::popFromRenderStack();

  }

          $status_markup[] = sprintf($tokes['status'], '');

        }

      }

      $render_array['taxon-node-status']['#prefix'] = '<div class="taxon-node-status">';

      $render_array['taxon-node-status']['#suffix'] = '</div>';

    }

      if($sensu_strings['order_by_key'] != $sensu_reference->titleCache){

        $sensu_reference_markup = cdm_reference_markup($sensu_reference);

        $footnote_key = FootnoteManager::addNewFootnote($footnote_list_key, $sensu_reference_markup);

        $joined_refs[$ref_key]['markup'] = '<span class="sensu">' . $sensu_strings['markup'] . $footnote_key . '</span>';

      }

    }

    $out .= '</ul>';

  }

  $out .= '<ul class="footnotes">' . $footnotes . '</ul>';

  $out .= '</div>';

    $referenceUri = FALSE;

  }

  $out_taxon_part = render_taxon_or_name($taxon, $taxonUri, $referenceUri, TRUE, FALSE, $skip_tags, $is_invalid);

  $name_relations = cdm_name_relationships_for_taxon($taxon);

  $name_relations_render_array = compose_name_relationships_inline($name_relations, $taxon->name->uuid, $taxon->uuid);

      $referenceUri = url(path_to_reference($synonym->name->nomenclaturalReference->uuid));

    }

    $out .= render_taxon_or_name($synonym->name, NULL, $referenceUri);

    $out .= '</span>';

  }

  RenderHints::popFromRenderStack();

            }

            $out .= '<span class="classifications"><span class="separator"> : </span>' . implode(', ', $classification_titles) . '</span>';

          }

          if ($showMedia_synonyms) {

            $out .= theme('cdm_taxon_list_thumbnails', array('taxon' => $acceptedTaxon));

          }

        }

        $out .= '<span class="classifications"><span class="separator"> : </span>' . implode(', ', $classification_titles) . '</span>';

      }

      if ($showMedia_taxa) {

        $out .= theme('cdm_taxon_list_thumbnails', array('taxon' => $taxon));

/* ============================ annotations ============================= */

/**

 * Created markup for the annotations

 * @param null $annotations

    $out .= '</li>';

  }

  $out .= '</ul>';

  RenderHints::popFromRenderStack();

  return $out;

  );

  $out .= drupal_render($description_list_item);

  return $out;

}

  // ------- footnotes ------- //

  $out .= '<ul class="footnotes">';

  $out .= '</ul>';

  $out .= '</div>';

  // all foonotes of the homotypic group and also of the accepted taxon are

  // rendered here, both should have the same footnote key

  $out .= '<ul class="footnotes">';

  $out .= '</ul>';

  $out .= '</div>';