EDIT

<?php

/**

 * @file

 * Reference theming functions.

 *

 * @copyright

 *   (C) 2007-2012 EDIT

 *   European Distributed Institute of Taxonomy

 *   http://www.e-taxonomy.eu

 *

 *   The contents of this module are subject to the Mozilla

 *   Public License Version 1.1.

 * @see http://www.mozilla.org/MPL/MPL-1.1.html

 */

/**

 * Used by:

 * - theme_cdm_typedesignations

 * @param array $variables

 *   An associative array containing:

 *   - reference

 *   - microReference

 *      Whether to create a link to the reference page, links to the reference URI or DOI are always

 *      created when this data is available

 *      reference suitable for zoological publications.

 *

 * @return string

 *    the markup for the reference

 * @ingroup themeable

 */

function theme_cdm_reference($variables) {

  $reference = $variables['reference'];

  $microReference = $variables['microReference'];

  $doLink = $variables['doLink'];

  $referenceStyle = $variables['referenceStyle'];

  else {

  if ($referenceStyle == "zoology") {

    $year = '';

      $year = timePeriodToString($reference->datePublished, true, 'YYYY');

    $citation = $author_team->titleCache . (!empty($year) ? '. ' . $year : '');

  }

  else {

    $citation = $reference->titleCache;

  }

  if (isset($doLink) && $doLink === TRUE) {

    $out = '<span class="reference">';

    $out .= l($citation, path_to_reference($reference->uuid), array(

      'attributes' => array(

        "class" => "reference",

      ),

      'absolute' => TRUE,

      'html' => TRUE,

    ));

    $out .= '</span>';

  }

  else {

    $out = '<span class="reference">' . $citation . '</span>';

  }

  if (!empty($microReference)) {

    $out .= ": " . $microReference;

  }

    $out .= cdm_doi($reference->doi);

  }

  if (isset($reference->uri)){

    $out .= cdm_external_uri($reference->uri);

  }

  return $out;

}

 * @param $reference

 * @param $out

 * @return string

 */

function cdm_external_uri($uri, $iconified = true)

{

  if (!empty($uri)) {

    if($iconified){

      return l(font_awesome_icon_markup('fa-external-link', array('class' => array('superscript'))), $uri, array('html' => TRUE));

    } else {

      return l($uri, $uri);

/**

 * Creates markup for a CDM Doi entity.

 *

 * @param $doi

 *  The CDM DOI

 *

 * @return string

 *  Markup

 */

function cdm_doi($doi, $iconified = true) {

  if (!empty($doi)) {

    $doi_resolve_uri = 'http://doi.org/' . $doi->prefix;

    if (isset($doi->suffix)) {

      $doi_resolve_uri .= '/' . $doi->suffix;

    }

    if($iconified){

      return l(font_awesome_icon_markup('fa-external-link-square', array('class' => array('superscript'))), $doi_resolve_uri, array('html' => TRUE));

    } else {

      return l($doi_resolve_uri, $doi_resolve_uri);

    }

 * @todo Please document this function.

 * @see http://drupal.org/node/1354

 */

function theme_cdm_OriginalSource($variables) {

  $out = '';

  $source = $variables['source'];

  $do_link_to_name_used_in_source = $variables['do_link_to_name_used_in_source'];

        'reference' => $source->citation,

        'microReference' => $source->citationMicroReference,

    if(!empty($name_in_source_render_array)) {

      $out .=  ' <span class="nameUsedInSource">(' . t('as') . ' ' . $name_in_source_render_array['#markup'] . ')</span>';

    $id_with_namespace = '';

    if( isset($source->idNamespace) && $source->idNamespace ) {

      $id_with_namespace = $source->idNamespace . '/';

    }

    } else {

      $id_with_namespace = NULL;

    }

      $out .=  ' <span class="idInSource">[' . $id_with_namespace . ']</span>';

  }

  return $out;