EDIT

<?php

/**

 * @file

 * Page 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

 */

/**

 * Returns HTML for the default title of a taxon page.

 *  * The returned title is a formatted taxon name.

 *

 * @param array $variables

 *   An associative array containing:

 *   - taxon: The taxon name being formatted for the title.

 *   - uuid: UUID for the taxon.

 *

 *  Markup for a taxon page title

 *

 */

function theme_cdm_taxon_page_title($variables) {

  $taxon = $variables['taxon'];

  RenderHints::pushToRenderStack('taxon_page_title');

  $referenceUri = '';

  $out = '';

  if (isset($taxon->name->nomenclaturalReference)) {

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

  }

  return '<span class="' . $taxon->class . '">' . $out . '</span>';

}

 * Returns HTML for the default title of a specimen page.

 *  * The returned title is a the identifier of the specimen.

 *

 * @param array $variables

 *   An associative array containing:

 *   - specimen: The specimen being formatted for the title.

 *

 *  Markup for the title of a specimen page

 *

 */

{

    RenderHints::pushToRenderStack('specimen_page_title');

    $referenceUri = '';

    $out = '';

        if ($specimen->collection) {

            if ($specimen->collection->code) {

                $collection = $specimen->collection->code;

            } elseif ($specimen->collection->name) {

                $collection = $specimen->collection->name;

            }

        }

        if ($specimen->accessionNumber) {

            $specimenID = $specimen->accessionNumber;

        } elseif ($specimen->barcode) {

            $specimenID = $specimen->barcode;

        } elseif ($specimen->catalogNumber) {

            $specimenID = $specimen->catalogNumber;

        } elseif ($specimen->titleCache) {

            $specimenID = $specimen->titleCache;

        }

        if (!isset($specimenID) and !isset($collection)) {

            $specimenID = $specimen->uuid;

        }

    }else{

        if ($specimen->titleCache) {

            $specimenID = $specimen->titleCache;

        }

        if (!isset($specimenID) and !isset($collection)) {

            $specimenID = $specimen->uuid;

        $out .= "FieldUnit ";

    }else{

        $out .= "Specimen ";

    }

        $out .= $collection." ";

    }

    $out .= $specimenID;

    return '<span class="' . $specimen->class . '">' . $out . '</span>';

}

/**

 * Returns HTML for the default title of a specimen page.

 *  * The returned title is a the identifier of the specimen.

 *

 * @param array $variables

 *   An associative array containing:

 *   - specimen: The specimen being formatted for the title.

 *

 * @return string

 *  Markup for the title of a specimen page

 *

 * @ingroup themeable

 */

function theme_cdm_specimen_dto_page_title($variables)

{

    $specimen = $variables['specimen'];

    RenderHints::pushToRenderStack('specimen_page_title');

    $referenceUri = '';

    $out = '';

    $collection = null;

    if (!($specimen->class == 'FieldUnit')) {

        if ($specimen->collection) {

            if ($specimen->collection->code) {

                $collection = $specimen->collection->code;

            } elseif ($specimen->collection->name) {

                $collection = $specimen->collection->name;

            }

        }

        if ($specimen->accessionNumber) {

            $specimenID = $specimen->accessionNumber;

        } elseif ($specimen->barcode) {

            $specimenID = $specimen->barcode;

        } elseif ($specimen->catalogNumber) {

            $specimenID = $specimen->catalogNumber;

        } elseif ($specimen->titleCache) {

            $specimenID = $specimen->titleCache;

        }

        if (!isset($specimenID) and !isset($collection)) {

            $specimenID = $specimen->uuid;

        }

    }else{

        if ($specimen->titleCache) {

            $specimenID = $specimen->titleCache;

        }

        if (!isset($specimenID) and !isset($collection)) {

            $specimenID = $specimen->uuid;

        }

    }

    if ($specimen ->class == 'FieldUnit'){

        $out .= "FieldUnit ";

    }else{

        $out .= "Specimen ";

    }

    if($collection){

        $out .= $collection." ";

    }

    $out .= $specimenID;

    RenderHints::popFromRenderStack();

 * Returns HTML for the default title for a name page.

 *

 * The returned title is a formatted name.

 *

 * @param array $variables

 *   An associative array containing:

 *   - taxon_name: The taxon name object.

 *

 *  Markup for the title of a name page

 *

 */

function theme_cdm_name_page_title($variables) {

  $taxon_name = $variables['taxon_name'];

  $referenceUri = NULL;

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

  }

    . '</span>';

  return $out;

}

/**

 * Returns HTML for the given result page including a pager.

 *

 * @param array $variables

 *   An associative array containing:

 *   - pager: The cdmlib pager object containing the result set of cdm base

 *     objects (currently this function can only handle taxon instances =>

 *     TODO)

 *   - path: The target path for the pager links, this will usually point to

 *     'cdm_dataportal/search/results/taxon'

 *

 *  Markup for the result page

 *

 * @throws Exception

 *

 */

  // If the pager contains records of SearchResults, extract the taxa and use

  // them as records instead.

  if (isset($pager->records[0]) && $pager->records[0]->class == "SearchResult") {

    $freetextSearchResults = $pager->records;

    $taxa = array();

    // $highlightedFragments = array();

    foreach ($pager->records as $searchResult) {

      $taxa[] = &$searchResult->entity;

      /*

       if(!isset($searchResult->fieldHighlightMap)){

      $searchResult->fieldHighlightMap = NULL;

      }

      $fragmentHighlighting[] = $searchResult->fieldHighlightMap;

      */

    }

    $pager->records = $taxa;

  }

  $out = '<div class="page_options">';

  if (isset($_REQUEST['ws'])) {

    if (cdm_dataportal_search_form_path_for_ws($_REQUEST['ws'])) {

      $out .= '<div id="backButton">' . l(t('Modify search'), cdm_dataportal_search_form_path_for_ws($_REQUEST['ws'])) . '</div>';

    }

  }

  if (  count(cdm_ws_fetch_all(CDM_WS_PORTAL_TAXONOMY)) > 1 ) { // FIXME use a count REST method for this!!!

    if ($classification != NULL) {

      $out .=  $classification->titleCache ;

    } else {

     $out .= t('any classification');

    }

  // List results.

  if (isset($pager->records) && count($pager->records) > 0) {

    $out .= '<div id="search_results">';

    $out .= drupal_render($list_of_taxa);

    $out .= theme('cdm_pager', array(

        'pager' => $pager,

        'path' => $path,

        'parameters' => $_REQUEST,

    ));

  } else {

  return $out;

}

 * Returns HTML for the given result page including a pager.

 *

 * @param array $variables

 *   An associative array containing:

 *   - pager: TODO

 *   - path: The target path for the pager links, this will usually point to

 *     'cdm_dataportal/search/results/taxon'

 *

 * @return string

 *  Markup for the result page

 *

 * @throws Exception

 *

 * @ingroup themeable

 */

function theme_cdm_search_specimen_results($variables)

{

    $pager = $variables['pager'];

    $path = $variables['path'];

    // Add thumbnails checkbox and refine search link.

    $out = '<div class="page_options">';

    //if (isset($_REQUEST['ws'])) {

     //   if (cdm_dataportal_search_form_path_for_ws($_REQUEST['ws'])) {

     //       $out .= '<div id="backButton">' . l(t('Modify search'), cdm_dataportal_search_form_path_for_ws($_REQUEST['ws'])) . '</div>';

     //   }

    //}

    if (variable_get(SEARCH_RESULTS_SHOW_THUMBNAIL_CHECKBOX, SEARCH_RESULTS_SHOW_THUMBNAIL_CHECKBOX_DEFAULT)) {

        $out .= '<form name="pageoptions"><div id="showThumbnails"><input class="showThumbnails" type="checkbox" name="showThumbnails" ' . (do_showThumbnails() == 1 ? 'checked="checked"' : '') . '> ' . t('Display image thumbnails') . '</div></form>';

    }

    $out .= '</div>';

    // List results.

    if (isset($pager->data) ) {

        $data = json_decode($pager->data, true);

        $out .= '<div id="search_results">';

        $list_of_result = compose_table_of_blast_result($data);

        $out .= $list_of_result;

        $out .= '</div>';

       // $out .= theme('cdm_pager', array(

       //     'pager' => $pager,

       //     'path' => $path,

       //     'parameters' => $_REQUEST,

        //));

    } else {

        $out .= '<h4 class="error">' . t('Sorry, no matching entries found.') . '</h4>';

    }

    return $out;

}

 * TODO Implementation of Hook taxon_image_gallery()

 *

 * @param object $media

 *  Markup for the default media gallery

function taxon_image_gallery_default($taxon, $media) {

  $hasImages = isset($media[0]);

  if ($hasImages) {

    $maxExtend = 150;

    $cols = 3;

    $maxRows = FALSE;

    $alternativeMediaUri = NULL;

    /* Comment @WA: was in D5:

    $captionElements = array(

      'title',

      'rights',

    */

    $captionElements = array(

      'title',

      'description',

      'artist',

      'location',

      'rights',

    $gallery_name = $taxon->uuid;

    $mediaLinkType = 'LIGHTBOX';

    // $gallery_settings = getGallerySettings(CDM_DATAPORTAL_MEDIA_GALLERY_NAME);

    $gallery_settings = getGallerySettings(CDM_DATAPORTAL_TAXON_MEDIA_GALLERY_NAME_TAB);

    $out = '<div class="image-gallerie">';

      'galleryName' => $gallery_name,

      'maxExtend' => $gallery_settings['cdm_dataportal_media_maxextend'],

      'cols' => $gallery_settings['cdm_dataportal_media_cols'],

      'maxRows' => 0, // Ignore maxrows settings.

      'captionElements' => $captionElements,

      'mediaLinkType' => $mediaLinkType,

      'alternativeMediaUri' => NULL,

      'galleryLinkUri' => NULL,

      'showCaption' => $gallery_settings['cdm_dataportal_show_thumbnail_captions'],

    ));

    $out .= '</div>';

  }

  else {

    $out = 'No images available.';

  }

  return $out;

}

/**

 * TODO Implementation of Hook taxon_image_gallery()

 *

 * @param object $media

 *

 * @return string

 *  Markup for the fsi media gallery

function taxon_image_gallery_fsi($taxon, $media) {

  $flashLink = isset($media[0]);

  if ($flashLink) {

    if (module_exists("fsi_gallery")) {

      $out = theme("fsi_gallery", array('taxon' => $taxon, 'media' => $media));

    }

    else {

      $message = t('In order to use the FSI gallery you must enable the according ') . l(t("module"), "admin/modules");

      drupal_set_message($message, "error");

      $out = '<h3>' . $message . '</h3>';

    }

  }

  else {

    $out = 'No images available.';

  }

  return $out;

}

/**

 * @todo Please document this function.

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

 */

function theme_cdm_media_page($variables) {

  $mediarepresentation_uuid = $variables['mediarepresentation_uuid'];

  $partId = $variables['partId'];

  $out = '';

  // Determine which representation and which part to show

  if (!$mediarepresentation_uuid) {

      $preferred_representation = array_shift($representations);

      $mediarepresentation_uuid = $preferred_representation->uuid;

    }

    foreach ($media->representations as $representation) {

      if ($representation->uuid == $mediarepresentation_uuid) {

        break;

      }

      $active_representation_index++;

  }

  if (is_uuid($partId)) {

    foreach ($media->representations[$active_representation_index]->parts as $part) {

  }

    $active_part_index = $partId;

  $title = $media_metadata['title'];

  $imageMaxExtend = variable_get('image-page-maxextend', 400);

  if (!$title) {

    $title = 'Media ' . $media->uuid . '';

  }

  drupal_set_title($title, PASS_THROUGH);

  $out .= '<div class="media cdm_media_viewer_image">';

      // taxon page with tabs

      $out .= '<div id="backToGalleryButton">' . l(t('Back to images'), $_SESSION['cdm']['last_gallery']) . '</div>';

    } else {

      // tabless mode

      $out .= '<div id="backToGalleryButton">' . l(t('Back to taxon page'), $_SESSION['cdm']['last_gallery']) . '</div>';

    }

  // General media metadata.

  if ($cdm_standard_image_viewer_settings['media_representation_details_enabled'] == 1){

    // Tabs for the different representations.

    // Representation(-part) specific metadata.

    $thumbnailMaxExtend = 100;

    $out .= '<h3>' .t('Media representations') .'</h3><ul id="media-representations">';

    $r_i = 0;

    foreach ($media->representations as $representation) {

      $out .= '<li><strong>'. t('Representation') . ' ' . $r_i . "</strong> ($representation->mimeType)" ;

      // parts

      $active_part_index = 0;

      $table_class_attribute = '';

      if($partIdx == $active_part_index && $active_representation_index == $r_i ){

        $table_class_attribute = 'class="active"';

      foreach ($representation->parts as $part) {

        $out .= '<tr><th>' . t('Part') . ' ' . ($active_part_index + 1) . '</th></tr><tr><td>';

        switch ($part->class) {

          case 'ImageFile':

            $out .= $part->width . 'x' . $part->height . ' px - ' . $part->size . ' kB';

            break;

          case 'AudioFile':

          case 'MovieFile':

            $out .= t('Duration') . ': ' . $part->duration . 's - ' . $part->size . ' kB';

            break;

          default:

            $out .= $part->size . 'k';

        }

          . cdm_media_gallerie_image($part, $thumbnailMaxExtend, TRUE);

        $active_part_index++;

      }

      $out .= '</table>';

      $out .=  '</li>';

      $r_i++;

}

/**

 * @todo Please document this function.

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

 */

function theme_cdm_polytomousKey_page($variables) {

  $polytomousKey = $variables['polytomousKey'];

  drupal_set_title($polytomousKey->titleCache, PASS_THROUGH);

  $out = theme("cdm_IdentificationKey", array(

    'identificationKey' => $polytomousKey,

    'doLinkToKeyPage' => FALSE,

    'showIdentificationKeyTitle' => FALSE,

    ));

  // Key nodes in linked style.

  $out .= theme('cdm_polytomousKey', array('polytomousKey' => $polytomousKey));

  /*

   * (wrapping the content in the cdm_dataportal.node becomes obsolete then).

   */

  return '<div id="identificationKey">' . $out . '</div>';