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<?php
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/**
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* @file
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* Page functions.
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*
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* @copyright
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* (C) 2007-2012 EDIT
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* European Distributed Institute of Taxonomy
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* http://www.e-taxonomy.eu
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*
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* The contents of this module are subject to the Mozilla
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* Public License Version 1.1.
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* @see http://www.mozilla.org/MPL/MPL-1.1.html
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*
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* @author
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* - Andreas Kohlbecker <a.kohlbecker@BGBM.org>
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*/
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/**
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* Creates a render array representing the ocurrences associetad with the $taxon.
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*
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* The resulting render array contains two elements:
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* - 'map': A map showing all point locations of the occurences is availabale
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* - 'specimen_list': the list of occurences prepated as table for theme_table()
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*
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* @param object $taxon
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* A cdm Taxon object
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* @return
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* A render array suitable for drupal_render()
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*
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*/
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function cdm_dataportal_taxon_page_specimens($taxon) {
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$render_array = array();
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RenderHints::pushToRenderStack('taxon_page_specimens');
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$relationship_choice = variable_get(CDM_AGGREGATE_BY_TAXON_RELATIONSHIPS, unserialize(CDM_AGGREGATE_BY_TAXON_RELATIONSHIPS_DEFAULT));
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$relationship_choice['direct'] = get_selection($relationship_choice['direct']);
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$relationship_choice['invers'] = get_selection($relationship_choice['invers']);
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$by_associatedtaxon_query_parameters = array(
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'relationshipsInvers' => implode(',', $relationship_choice['invers']),
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'relationships' => implode(',', $relationship_choice['direct']),
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);
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if (isset($_REQUEST['pager']) && is_array($_REQUEST['pager'])) {
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$by_associatedtaxon_query_parameters = array_merge($by_associatedtaxon_query_parameters, $_REQUEST['pager']);
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}
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$by_associatedtaxon_query = http_build_query($by_associatedtaxon_query_parameters);
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$pager = cdm_ws_get(CDM_WS_OCCURRENCE_BY_ASSOCIATEDTAXON,
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null,
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$by_associatedtaxon_query . '&taxonUuid=' . $taxon->uuid
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);
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$specimensOrObservations = array();
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if(isset($pager->records[0])){
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$specimensOrObservations = $pager->records;
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}
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// order occurrences by date but types should be on top of the list
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$type_specimens = array();
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$other_occurrences = array();
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foreach ($specimensOrObservations as &$occurrence) {
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$typeDesignationsPager = cdm_ws_get(CDM_WS_OCCURRENCE . '/$0/specimenTypeDesignations', $occurrence->uuid);
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if (isset($typeDesignationsPager->count) && $typeDesignationsPager->count > 0) {
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$type_specimens[] = $occurrence;
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} else {
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$other_occurrences[] = $occurrence;
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}
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}
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$specimensOrObservations = array_merge($type_specimens, $other_occurrences);
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// Collect media (fieldObjectMedia, derivedUnitMedia) and add as a custom field
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// $occurrence->_fieldObjectMedia
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foreach ($specimensOrObservations as &$occurrence) {
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$occurrence->_fieldObjectMedia = cdm_ws_get(CDM_WS_DERIVEDUNIT_FACADE, array(
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$occurrence->uuid,
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'fieldObjectMedia',
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));
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$occurrence->_derivedUnitMedia = cdm_ws_get(CDM_WS_DERIVEDUNIT_FACADE, array(
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$occurrence->uuid,
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'derivedUnitMedia',
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));
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}
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// --- get map service HTTP query parameters
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if (count($specimensOrObservations) > 0) {
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$occurrence_queryDto = cdm_ws_get(CDM_WS_GEOSERVICE_OCCURRENCEMAP, $taxon->uuid, $by_associatedtaxon_query);
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$map_visibility = variable_get(SPECIMEN_MAP_VISIBILITY, SPECIMEN_MAP_VISIBILITY_DEFAULT);
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if($map_visibility == 'always' ||
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variable_get(SPECIMEN_MAP_VISIBILITY, SPECIMEN_MAP_VISIBILITY_DEFAULT) == 'automatic' &&
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(isset($occurrence_queryDto->fieldUnitPoints[0]) || isset($occurrence_queryDto->derivedUnitPoints[0]))
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)
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{
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$occurrence_query = $occurrence_queryDto->occurrenceQuery;
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$legend_format_query = null;
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$distribution_query = NULL;
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$map_render_array = compose_map('specimens', $occurrence_query, $distribution_query, $legend_format_query, array());
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}
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}
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// -------------------------------------------------------
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$render_array['map'] = $map_render_array;
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if(variable_get('cdm_dataportal_compressed_specimen_derivate_table')){
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//COMPRESSED SPECIMEN DERIVATE TABLE
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$associatedFieldUnitsQuery_parameters = array();
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if (isset($_REQUEST['pager']) && is_array($_REQUEST['pager'])) {
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$associatedFieldUnitsQuery_parameters = array_merge($associatedFieldUnitsQuery_parameters, $_REQUEST['pager']);
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}
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$by_associatedtaxon_query = http_build_query($associatedFieldUnitsQuery_parameters);
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$pager_field_units = cdm_ws_get(CDM_WS_PORTAL_TAXON,
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array($taxon->uuid, 'associatedFieldUnits'),
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$by_associatedtaxon_query . '&pageSize=' . variable_get('cdm_dataportal_compressed_specimen_derivate_table_page_size')
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);
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if (isset($pager_field_units->records[0])) {
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$field_unit_uuids = array();
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foreach ($pager_field_units->records as $field_unit) {
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$field_unit_uuids[] = $field_unit->uuid;
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}
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}
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$render_array['derivate_hierarchy_table'] = compose_specimen_table($field_unit_uuids);
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$render_array['pager'] = markup_to_render_array(
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theme('cdm_pager', array(
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'pager' => $pager_field_units,
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'path' => $_REQUEST['q'],
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'parameters' => $_REQUEST
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)),
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10 // weight
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);
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}
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else{
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//BOTTOM-UP-SPECIMEN-TABLE
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// --- generate the specimen list as table
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$specimen_table = array(
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'#theme' => 'table',
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'#weight' => 2,
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// prefix attributes and rows with '#' to let it pass toF the theme function,
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// otherwise it is handled as child render array
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'#attributes' => array('class' => 'specimens'),
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'#rows' => array(),
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);
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if ($specimensOrObservations) {
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foreach ($specimensOrObservations as $specimenOrObservation) {
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$mediaList = array();
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if (is_array($specimenOrObservation->_fieldObjectMedia)) {
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$mediaList = array_merge($mediaList, $specimenOrObservation->_fieldObjectMedia);
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}
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if (is_array($specimenOrObservation->_derivedUnitMedia)) {
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$mediaList = array_merge($mediaList, $specimenOrObservation->_derivedUnitMedia);
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}
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// typelabel will contain the typeStatus
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$type_label = '';
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$typeDesignationPager = cdm_ws_get(CDM_WS_OCCURRENCE . '/$0/specimenTypeDesignations', $specimenOrObservation->uuid);
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if (isset($typeDesignationPager) and isset($typeDesignationPager->records)) {
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$type_status = array();
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foreach ($typeDesignationPager->records as $typeDesignation) {
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if (isset($typeDesignation->typeStatus->representation_L10n)){
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$type_status[] = $typeDesignation->typeStatus->representation_L10n;
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}
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}
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$type_label = implode(', ', $type_status);
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if($type_label){
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$type_label .= ': ' ;
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}
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}
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// --- Specimen entry as dynamic label:
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// -> Dynabox for the specimenOrObservation
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$gallery_name = $specimenOrObservation->uuid;
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$derived_unit_ws_request = cdm_compose_url(CDM_WS_OCCURRENCE, array( $specimenOrObservation->uuid));
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$label_html = cdm_dynabox(
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$specimenOrObservation->uuid,
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$type_label . $specimenOrObservation->titleCache,
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$derived_unit_ws_request,
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'cdm_specimen_or_observation',
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'Click for details',
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array('div', 'div'),
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array(),
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null, // $content_element_selector
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'function(){ jQuery(\'#media_gallery_' . $gallery_name . '\').hide(); }', // open_callback
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'function(){ jQuery(\'#media_gallery_' . $gallery_name . '\').show(); }' // close_callback
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);
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// --- Render associated media.
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$gallery_html = '';
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if (count($mediaList) > 0) {
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$gallery_settings = getGallerySettings(CDM_DATAPORTAL_SPECIMEN_GALLERY_NAME);
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$captionElements = array(
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'#uri' => t('open media'),
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);
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$gallery_html = compose_cdm_media_gallerie(array(
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'mediaList' => $mediaList,
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'galleryName' => $gallery_name,
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'maxExtend' => $gallery_settings['cdm_dataportal_media_maxextend'],
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'cols' => $gallery_settings['cdm_dataportal_media_cols'],
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'maxRows' => isset($gallery_settings['cdm_dataportal_media_maxRows']) ? isset($gallery_settings['cdm_dataportal_media_maxRows']) : null,
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'captionElements' => $captionElements,
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'mediaLinkType' => 'LIGHTBOX',
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'alternativeMediaUri' => NULL,
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'galleryLinkUri' => NULL,
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));
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}
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$specimen_table['#rows'][] = array(
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// An array of table rows. Every row is an array of cells, or an associative array
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'data' => array(
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// Each cell can be either a string or an associative array
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$label_html . $gallery_html
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),
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'class' => array(
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'descriptionElement',
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'descriptionElement_IndividualsAssociation'
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),
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);
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}
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}
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$render_array['specimen_list'] = $specimen_table;
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$render_array['pager'] = markup_to_render_array(
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theme('cdm_pager', array(
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'pager' => $pager,
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'path' => $_REQUEST['q'],
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'parameters' => $_REQUEST,
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)),
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10 // weight
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);
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}
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RenderHints::popFromRenderStack();
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return $render_array;
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}
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/**
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* Creates the drupal render array for the table showing all derivated which are
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* derive from a common gathering event.
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*
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* @param $field_unit_uuids array
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* An array of uuids for cdm FieldUnit entities.
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*
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* @return array
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* A drupal render array for a table
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*
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* @ingroup compose
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*/
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function compose_specimen_table($field_unit_uuids)
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{
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// get icon images
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$expand_icon = font_awesome_icon_markup(
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'fa-plus-square-o',
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array(
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'alt' => 'Show details',
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'class' => array('expand_icon')
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)
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);
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$collapse_icon = font_awesome_icon_markup(
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'fa-minus-square-o',
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array(
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'alt' => 'Show details',
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'class' => array('collapse_icon')
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)
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);
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$detail_image_icon = '<img title="Detail Image" src="' . base_path() . drupal_get_path('module', 'cdm_dataportal') . '/images/detail_image_derivate-16x16-32.png' . '"/>';
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$checked_box_icon = '<img src="' . base_path() . drupal_get_path('module', 'cdm_dataportal') . '/images/step_done.gif' . '"/>';
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$sequence_icon = '<img title="Molecular Data" src="' . base_path() . drupal_get_path('module', 'cdm_dataportal') . '/images/sequence_derivate-16x16-32.png' . '"/>';
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$character_data_icon = '<img title="Character Data" src="' . base_path() . drupal_get_path('module', 'cdm_dataportal') . '/images/character_data_derivate-16x16-32.png' . '"/>';
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$rowcount = 0;
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$rows = array();
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foreach ($field_unit_uuids as $field_unit_uuid) {
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//get derivate hierarchy for the FieldUnit
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$derivateHierarchy = cdm_ws_get(CDM_WS_PORTAL_OCCURRENCE, array($field_unit_uuid, 'derivateHierarchy'));
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if ($derivateHierarchy) {
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//summary row
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$rows[] = array(
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'data' => array(
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array(
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'data' => $expand_icon . $collapse_icon,
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'class' => array('summary_row_cell', 'summary_row_icon', 'expand_column')
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),
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array(
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'data' => $derivateHierarchy->country,
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'class' => array('summary_row_cell')
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),
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array(
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'data' => $derivateHierarchy->date,
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'class' => array('summary_row_cell')
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),
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array(
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'data' => $derivateHierarchy->collection,
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'class' => array('summary_row_cell')
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),
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array(
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'data' => $derivateHierarchy->herbarium,
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'class' => array('summary_row_cell')
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),
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array(
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'data' => $derivateHierarchy->hasType ? $checked_box_icon : "",
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'class' => array('summary_row_cell', 'summary_row_icon')
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),
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array(
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'data' => $derivateHierarchy->hasSpecimenScan ? $checked_box_icon : "",
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'class' => array('summary_row_cell', 'summary_row_icon')
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),
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array(
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'data' => ($derivateHierarchy->hasDna ? $sequence_icon : "") . " "
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. ($derivateHierarchy->hasDetailImage ? $detail_image_icon : "") . " "
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. ($derivateHierarchy->hasCharacterData ? $character_data_icon : ""),
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'class' => array('summary_row_cell', 'summary_row_icon')
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)
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),
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'id' => ('derivate_summary' . $rowcount), // summary row id
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'class' => array('summary_row'),
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);
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//assemble field unit details
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$detail_html = "";
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// - citation
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if ($derivateHierarchy->citation) {
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$detail_html .= create_label("Citation") . $derivateHierarchy->citation . "<br>";
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}
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//assemble specimen details
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339
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if ($derivateHierarchy->derivates) {
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foreach ($derivateHierarchy->derivates as $preservedSpecimenDTO) {
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$detail_html .= "<br>";
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342
|
$detail_html .= render_cdm_specimen_page($preservedSpecimenDTO);
|
|
343
|
}
|
|
344
|
}
|
|
345
|
$detail_html .= "<br>";
|
|
346
|
//detail row resp. one BIG detail cell
|
|
347
|
$rows[] = array(
|
|
348
|
'data' => array(
|
|
349
|
array(
|
|
350
|
'data' => "", //empty first column
|
|
351
|
'class' => array('expand_column')
|
|
352
|
),
|
|
353
|
array(
|
|
354
|
'data' => $detail_html,
|
|
355
|
'colspan' => 7,
|
|
356
|
),
|
|
357
|
),
|
|
358
|
'id' => ('derivate_details' . $rowcount),//details row ID
|
|
359
|
'class' => array('detail_row'),
|
|
360
|
);
|
|
361
|
$rowcount++;
|
|
362
|
}
|
|
363
|
}
|
|
364
|
|
|
365
|
$tableId = "derivate_hierarchy_table";
|
|
366
|
$derivateHierarchyTable = array(
|
|
367
|
"#theme" => "table",
|
|
368
|
"#weight" => 2,
|
|
369
|
"#header" => array(
|
|
370
|
array(
|
|
371
|
'data' => "",
|
|
372
|
'class' => array('expand_column')
|
|
373
|
),
|
|
374
|
"Country", "Date", "Collector + collecting number", "Herbaria", "Type", "Scan", "Derivatives"),
|
|
375
|
"#rows" => $rows,
|
|
376
|
"#attributes" => array(
|
|
377
|
"id" => $tableId,
|
|
378
|
"border" => 2
|
|
379
|
)
|
|
380
|
);
|
|
381
|
|
|
382
|
//add toggle functionality to derivate hierarchy table
|
|
383
|
drupal_add_js_rowToggle("#" . $tableId);
|
|
384
|
|
|
385
|
return $derivateHierarchyTable;
|
|
386
|
}
|
|
387
|
|
|
388
|
function create_html_link($link, $openInExternalWindow=false){
|
|
389
|
$html = "";
|
|
390
|
if($link->uri && $link->uri!=""){
|
|
391
|
$html .= '<a href="' . $link->uri . '"';
|
|
392
|
if($openInExternalWindow){
|
|
393
|
$html .= ' target="_blank"';
|
|
394
|
}
|
|
395
|
$html .= '>' . $link->linkText . '</a>';
|
|
396
|
}
|
|
397
|
else{
|
|
398
|
$html .= $link->linkText;
|
|
399
|
}
|
|
400
|
return $html;
|
|
401
|
}
|
|
402
|
|
|
403
|
/**
|
|
404
|
* Creates HTML links from the given link list concatenated by default by a comma.
|
|
405
|
* @param $linkList the list with Link objects having "uri" and "linkText" as members
|
|
406
|
* @return string the assembled HTML string containing the links
|
|
407
|
*/
|
|
408
|
function create_html_links($linkList, $openInExternalWindow=false, $separator=", ")
|
|
409
|
{
|
|
410
|
$html = "";
|
|
411
|
if ($linkList) {
|
|
412
|
foreach ($linkList as $link) {
|
|
413
|
$html .= create_html_link($link, $openInExternalWindow).$separator;
|
|
414
|
}
|
|
415
|
$html = rtrim($html, $separator);
|
|
416
|
}
|
|
417
|
return $html;
|
|
418
|
}
|
|
419
|
|
|
420
|
/**
|
|
421
|
* Composes a taxon page which can consist of multiple parts like
|
|
422
|
* 'General', 'Synonymy', 'Images', 'Keys'. These parts can be displayed
|
|
423
|
* as tabs or as sections of a single page.
|
|
424
|
*
|
|
425
|
* It is headed by the name of the accepted taxon without author and reference.
|
|
426
|
*
|
|
427
|
* @param $taxon
|
|
428
|
* The CDM Taxon Instance to compose the page for.
|
|
429
|
* @param $page_part
|
|
430
|
* Name of the part to display, valid values are:
|
|
431
|
* - 'description' - for the general part
|
|
432
|
* - 'images'
|
|
433
|
* - 'synonymy'
|
|
434
|
* - 'keys'
|
|
435
|
* - 'all'
|
|
436
|
*
|
|
437
|
* @return array
|
|
438
|
* A drupal render array
|
|
439
|
*
|
|
440
|
* @ingroup compose
|
|
441
|
*/
|
|
442
|
function compose_cdm_taxon_page($taxon, $page_part = 'description') {
|
|
443
|
|
|
444
|
// we better cache here since drupal_get_query_parameters has no internal static cache variable
|
|
445
|
$http_request_params = drupal_get_query_parameters();
|
|
446
|
|
|
447
|
// add all mandatory js sources
|
|
448
|
_add_js_footnotes();
|
|
449
|
|
|
450
|
|
|
451
|
$render_array = array();
|
|
452
|
$weight = 0; // the weight for the render array elements
|
|
453
|
|
|
454
|
$tabsToDisplay = variable_get('cdm_taxonpage_tabs_visibility', unserialize(TAXONPAGE_VISIBILITY_OPTIONS_DEFAULT));
|
|
455
|
|
|
456
|
$page_part = variable_get('cdm_dataportal_taxonpage_tabs', 1) ? $page_part : 'all';
|
|
457
|
|
|
458
|
$synonymy_as_tab = variable_get(CDM_SYNONYMY_AS_TAB, CDM_SYNONYMY_AS_TAB_DEFAULT) === 1;
|
|
459
|
if(!$synonymy_as_tab){
|
|
460
|
unset($tabsToDisplay["Synonymy"]);
|
|
461
|
// the synonymy is located in the general part in this case
|
|
462
|
if($page_part == 'synonymy'){
|
|
463
|
$page_part = 'description';
|
|
464
|
}
|
|
465
|
}
|
|
466
|
|
|
467
|
$media = _load_media_for_taxon($taxon);
|
|
468
|
|
|
469
|
|
|
470
|
if (!isset($media[0]) || ($tabsToDisplay["Images"] == '0')) {
|
|
471
|
taxon_page_tabs_hidden_add('images');
|
|
472
|
}
|
|
473
|
|
|
474
|
// --- GET specimensOrObservations --- //
|
|
475
|
$specimensOrObservations = cdm_ws_get(CDM_WS_TAXON, array( $taxon->uuid, 'specimensOrObservations'));
|
|
476
|
|
|
477
|
$specimensOrObservationsCount = is_array($specimensOrObservations) ? count($specimensOrObservations) : 0;
|
|
478
|
if ($specimensOrObservationsCount == 0 || ($tabsToDisplay["Specimens"] == '0')) {
|
|
479
|
taxon_page_tabs_hidden_add('specimens');
|
|
480
|
}
|
|
481
|
|
|
482
|
// --- GET polytomousKeys --- //
|
|
483
|
$polytomousKeysPager = cdm_ws_get(CDM_WS_POLYTOMOUSKEY, NULL, "findByTaxonomicScope=$taxon->uuid");
|
|
484
|
$identificationKeyCount = 0;
|
|
485
|
if ($polytomousKeysPager) {
|
|
486
|
$identificationKeyCount += $polytomousKeysPager->count;
|
|
487
|
}
|
|
488
|
if ($identificationKeyCount == 0 || ($tabsToDisplay["Keys"] == '0')) {
|
|
489
|
taxon_page_tabs_hidden_add('keys');
|
|
490
|
}
|
|
491
|
|
|
492
|
// --- GET TaxonNodeAgentRelations --- //
|
|
493
|
$current_classification_uuid = get_current_classification_uuid();
|
|
494
|
$taxon_node_agent_relations_pager = cdm_ws_get(CDM_WS_PORTAL_TAXON_TAXONNODEAGENTRELATIONS,
|
|
495
|
array(
|
|
496
|
$taxon->uuid,
|
|
497
|
$current_classification_uuid,
|
|
498
|
),
|
|
499
|
"pageSize=1&pageIndex=0"// we are only interested into the count so we are fetching only one item, o is not possible!
|
|
500
|
);
|
|
501
|
if (!$taxon_node_agent_relations_pager || $taxon_node_agent_relations_pager->count == 0){
|
|
502
|
taxon_page_tabs_hidden_add('experts');
|
|
503
|
}
|
|
504
|
|
|
505
|
if (!isset($tabsToDisplay["Synonymy"]) || $tabsToDisplay["Synonymy"] == '0') {
|
|
506
|
taxon_page_tabs_hidden_add('synonymy');
|
|
507
|
}
|
|
508
|
|
|
509
|
// -------------------------------------------- //
|
|
510
|
|
|
511
|
if (variable_get('cdm_dataportal_display_is_accepted_for', CDM_DATAPORTAL_DISPLAY_IS_ACCEPTED_FOR) && isset($_REQUEST['acceptedFor'])) {
|
|
512
|
$render_array['accepted_for'] = markup_to_render_array(cdm_accepted_for($_REQUEST['acceptedFor']), $weight++);
|
|
513
|
}
|
|
514
|
|
|
515
|
// --- PAGE PART: DESCRIPTION --- //
|
|
516
|
if (!taxon_page_tabs_hidden_check('description') && ($page_part == 'description' || $page_part == 'all')) {
|
|
517
|
|
|
518
|
$merged_tree = merged_taxon_feature_tree($taxon);
|
|
519
|
|
|
520
|
|
|
521
|
$render_array['general'] = compose_cdm_taxon_page_profile($taxon, $merged_tree, $media, !$synonymy_as_tab);
|
|
522
|
$render_array['general']['#weight'] = $weight++;
|
|
523
|
$render_array['general']['#prefix'] = '<div id="general" class="page-part">';
|
|
524
|
$render_array['general']['#suffix'] = '</div>';
|
|
525
|
}
|
|
526
|
|
|
527
|
// --- PAGE PART: IMAGES --- //
|
|
528
|
if (!taxon_page_tabs_hidden_check('images') && ($page_part == 'images' || $page_part == 'all')) {
|
|
529
|
$images_html = '<div id="images" class="page-part">';
|
|
530
|
if ($page_part == 'all') {
|
|
531
|
$images_html .= '<h2>' . t(cdm_taxonpage_tab_label('Images')) . '</h2>';
|
|
532
|
}
|
|
533
|
// Get the image gallery as configured by the admin.
|
|
534
|
$default_image_gallery = 'default';
|
|
535
|
$configured_image_gallery_viewer = variable_get('image_gallery_viewer', 'default');
|
|
536
|
$taxon_image_gallery = '<div class="error">No image gallery viewer configured</div>';
|
|
537
|
if($configured_image_gallery_viewer == $default_image_gallery || $configured_image_gallery_viewer == 'fsi'){
|
|
538
|
// the fsi_gallery requires a flash plugin, in case the client browser is not supporting
|
|
539
|
// flash we also need to provide an the default gallery as alternative
|
|
540
|
$taxon_image_gallery = '<div id="default-gallery-viewer">' .
|
|
541
|
call_user_func_array('taxon_image_gallery_' . $default_image_gallery, array(
|
|
542
|
$taxon,
|
|
543
|
$media,
|
|
544
|
))
|
|
545
|
. '</div>';
|
|
546
|
}
|
|
547
|
if($configured_image_gallery_viewer == 'fsi'){
|
|
548
|
$taxon_image_gallery .= '<div id="'. $configured_image_gallery_viewer .'-gallery-viewer">' .
|
|
549
|
call_user_func_array('taxon_image_gallery_' . $configured_image_gallery_viewer, array(
|
|
550
|
$taxon,
|
|
551
|
$media,
|
|
552
|
))
|
|
553
|
. '</div>';
|
|
554
|
}
|
|
555
|
$images_html .= $taxon_image_gallery;
|
|
556
|
$images_html .= '</div>';
|
|
557
|
$render_array['images'] = markup_to_render_array($images_html, $weight++);
|
|
558
|
}
|
|
559
|
|
|
560
|
// --- PAGE PART: SYNONYMY --- //
|
|
561
|
if (!taxon_page_tabs_hidden_check('synonymy') && (($page_part == 'synonymy' || $page_part == 'all') && $synonymy_as_tab)) {
|
|
562
|
$synonymy_html = '<div id="synonymy" class="page-part">';
|
|
563
|
if ($page_part == 'all') {
|
|
564
|
$synonymy_html .= '<h2>' . t(cdm_taxonpage_tab_label('Synonymy')) . '</h2>';
|
|
565
|
}
|
|
566
|
$addAcceptedTaxon = variable_get('cdm_dataportal_nomref_in_title', CDM_DATAPORTAL_NOMREF_IN_TITLE);
|
|
567
|
|
|
568
|
$synonymy_html .= theme('cdm_taxon_page_synonymy', array('taxon' => $taxon, 'addAcceptedTaxon' => $addAcceptedTaxon));
|
|
569
|
|
|
570
|
$synonymy_html .= '</div>';
|
|
571
|
$render_array['synonymy'] = markup_to_render_array($synonymy_html, $weight++);
|
|
572
|
|
|
573
|
}
|
|
574
|
|
|
575
|
// --- PAGE PART: SPECIMENS --- //
|
|
576
|
if (!taxon_page_tabs_hidden_check('specimens') && ($specimensOrObservationsCount > 0 && ($page_part == 'specimens' || $page_part == 'all'))) {
|
|
577
|
$render_array['specimens'] = array(
|
|
578
|
'#prefix' => '<div id="specimens" class="page-part">' . ($page_part == 'all' ? '<h2>' . t(cdm_taxonpage_tab_label('Specimens')) . '</h2>' : ''),
|
|
579
|
'content' => cdm_dataportal_taxon_page_specimens($taxon), // returns render array
|
|
580
|
'#suffix' => '</div>',
|
|
581
|
);
|
|
582
|
}
|
|
583
|
|
|
584
|
// --- PAGE PART: KEYS --- //
|
|
585
|
if(!taxon_page_tabs_hidden_check('keys')){
|
|
586
|
if ($identificationKeyCount == 1 && $page_part == 'keys'){
|
|
587
|
drupal_goto(path_to_key($polytomousKeysPager->records[0]->class, $polytomousKeysPager->records[0]->uuid));
|
|
588
|
}
|
|
589
|
else if ($identificationKeyCount > 0 && ($page_part == 'keys' || $page_part == 'all')) {
|
|
590
|
$keys_html = '<div id="keys" class="page-part">';
|
|
591
|
if ($page_part == 'all') {
|
|
592
|
$keys_html .= '<h2>' . t(cdm_taxonpage_tab_label('Keys')) . '</h2>';
|
|
593
|
}
|
|
594
|
$keys_html .= theme('cdm_block_IdentificationKeys', array('taxonUuid' => $taxon->uuid));
|
|
595
|
$keys_html .= '</div>';
|
|
596
|
$render_array['keys'] = markup_to_render_array($keys_html, $weight++);
|
|
597
|
}
|
|
598
|
}
|
|
599
|
|
|
600
|
// --- PAGE PART: EXPERTS --- //
|
|
601
|
|
|
602
|
if (!taxon_page_tabs_hidden_check('experts') && ($page_part == 'experts' || $page_part == 'all')) {
|
|
603
|
$render_array['experts'] = array(
|
|
604
|
'#prefix' => '<div id="experts" class="page-part">' . ($page_part == 'all' ? '<h2>' . t(cdm_taxonpage_tab_label('Experts')) . '</h2>' : ''),
|
|
605
|
'content' => compose_cdm_taxon_page_experts($taxon), // returns render array
|
|
606
|
'#suffix' => '</div>',
|
|
607
|
);
|
|
608
|
}
|
|
609
|
|
|
610
|
// ------------------ END OF PARTS -------------- //
|
|
611
|
|
|
612
|
// adjust weights of page and toc elements according to the settings
|
|
613
|
$taxontabs_weights = get_array_variable_merged(CDM_TAXONPAGE_TAB_WEIGHT, CDM_TAXONPAGE_TAB_WEIGHT_DEFAULT);
|
|
614
|
foreach($taxontabs_weights as $tab_key => $weight){
|
|
615
|
if(isset($render_array[$tab_key])){
|
|
616
|
$render_array[$tab_key]['#weight'] = $weight;
|
|
617
|
}
|
|
618
|
}
|
|
619
|
|
|
620
|
|
|
621
|
// set up the TOC for the pages which contain all pageparts
|
|
622
|
if($page_part == 'all') {
|
|
623
|
|
|
624
|
asort($taxontabs_weights);
|
|
625
|
foreach(array_keys($taxontabs_weights) as $tab_key){
|
|
626
|
if(isset($render_array[$tab_key])){
|
|
627
|
if($tab_key != 'general'){
|
|
628
|
// add entry for page part
|
|
629
|
$toc_elements[] = array(
|
|
630
|
'data' => l(t(cdm_taxonpage_tab_label(ucfirst($tab_key))), $_GET['q'], array('fragment' => $tab_key, 'query' => $http_request_params)),
|
|
631
|
'class' => array('page-part-toc-item-' . $tab_key)
|
|
632
|
);
|
|
633
|
} else {
|
|
634
|
// add content of profile part instead
|
|
635
|
if(isset($render_array['general'])) {
|
|
636
|
// in case all tabs are shown at once the feature tocs
|
|
637
|
// should be integrated into the tabs toc as sub list
|
|
638
|
// and the profile image should be on top of the page
|
|
639
|
if(isset($render_array['general']['taxon_description_feature_toc'])){;
|
|
640
|
foreach ($render_array['general']['taxon_description_feature_toc']['#items'] as $profile_toc_item){
|
|
641
|
$toc_elements[] = $profile_toc_item;
|
|
642
|
}
|
|
643
|
unset($render_array['general']['taxon_description_feature_toc']);
|
|
644
|
}
|
|
645
|
}
|
|
646
|
}
|
|
647
|
}
|
|
648
|
}
|
|
649
|
|
|
650
|
// move profile image in page structure
|
|
651
|
if(isset($render_array['general']['taxon_profile_image'])){
|
|
652
|
$render_array['profile_image'] = $render_array['general']['taxon_profile_image'];
|
|
653
|
$render_array['profile_image']['#weight'] = -100;
|
|
654
|
unset($render_array['general']['taxon_profile_image']);
|
|
655
|
}
|
|
656
|
|
|
657
|
// finally add the table of contents to the render array
|
|
658
|
$render_array['toc'] = array(
|
|
659
|
'#theme' => 'item_list',
|
|
660
|
'#items' => $toc_elements,
|
|
661
|
'#title' => t('Content'),
|
|
662
|
'#weight' => -101,
|
|
663
|
'#suffix' => '</div>',
|
|
664
|
'#prefix'=> '<div id="page-toc">'
|
|
665
|
);
|
|
666
|
}
|
|
667
|
|
|
668
|
|
|
669
|
return $render_array;
|
|
670
|
}
|
|
671
|
|
|
672
|
/**
|
|
673
|
* TODO should this function really be a compose function?
|
|
674
|
* For a compose function must there always be a theme function with the same name? (ak 8.8.2013)
|
|
675
|
*
|
|
676
|
* composes and returns an render array containing the components of the taxon profile tab:
|
|
677
|
* - 'taxon_profile_image'
|
|
678
|
* - 'taxon_description_feature_toc'
|
|
679
|
* - 'taxon_description_features'
|
|
680
|
*
|
|
681
|
*
|
|
682
|
* @param object taxon
|
|
683
|
* @param object $merged_tree
|
|
684
|
* @param object media
|
|
685
|
* @param bool $add_synonymy
|
|
686
|
*
|
|
687
|
* @return array
|
|
688
|
* A Drupal render array with the following elements:
|
|
689
|
* - 'taxon_profile_image'
|
|
690
|
* - 'taxon_description_feature_toc'
|
|
691
|
* - 'taxon_description_features'
|
|
692
|
*
|
|
693
|
* @throws Exception
|
|
694
|
*
|
|
695
|
* @ingroup compose
|
|
696
|
*/
|
|
697
|
function compose_cdm_taxon_page_profile($taxon, $merged_tree, $media, $add_synonymy) {
|
|
698
|
|
|
699
|
$render_array = array();
|
|
700
|
|
|
701
|
$taxon_profile_image_settings = variable_get(CDM_TAXON_PROFILE_IMAGE, unserialize(CDM_TAXON_PROFILE_IMAGE_DEFAULT));
|
|
702
|
|
|
703
|
$hide_taxon_profile_image = FALSE;
|
|
704
|
if (variable_get('image_hide_rank', '0') != '0' && isset($taxon->name->rank->uuid)) {
|
|
705
|
$rankCompare = rank_compare($taxon->name->rank->uuid, variable_get('image_hide_rank', '-99'));
|
|
706
|
$hide_taxon_profile_image = ($rankCompare > -1);
|
|
707
|
}
|
|
708
|
|
|
709
|
if ($taxon_profile_image_settings['show'] && !$hide_taxon_profile_image) {
|
|
710
|
|
|
711
|
$representationPart = new stdClass();
|
|
712
|
$attributes = array();
|
|
713
|
if (isset($media[0])) {
|
|
714
|
// due to a bug the portal/taxon/{uuid}/media service only delivers a filtered media object
|
|
715
|
// which only contains the thumbnail representation even if the height and width filters are not set.
|
|
716
|
// -->
|
|
717
|
$preferred_media = cdm_ws_get(CDM_WS_MEDIA, $media[0]->uuid);
|
|
718
|
$preferred_representations = cdm_preferred_media_representations($preferred_media, array(
|
|
719
|
'image/jpg',
|
|
720
|
'image/jpeg',
|
|
721
|
'image/png',
|
|
722
|
'image/gif',
|
|
723
|
),
|
|
724
|
$taxon_profile_image_settings['maxextend'],
|
|
725
|
$taxon_profile_image_settings['maxextend']
|
|
726
|
);
|
|
727
|
if(count($preferred_representations) > 0){
|
|
728
|
|
|
729
|
$representation = array_shift($preferred_representations);
|
|
730
|
$representationPart = $representation->parts[0];
|
|
731
|
$attributes['alt'] = $representationPart->uri;
|
|
732
|
|
|
733
|
if (!empty($taxon_profile_image_settings['media_uri_query'])) {
|
|
734
|
$representationPart->uri = $representationPart->uri
|
|
735
|
. (strpos($representationPart->uri, '?') !== FALSE ? '&' : '?')
|
|
736
|
. $taxon_profile_image_settings['media_uri_query'];
|
|
737
|
}
|
|
738
|
}
|
|
739
|
}
|
|
740
|
else {
|
|
741
|
if ($taxon_profile_image_settings['custom_placeholder_enabled']) {
|
|
742
|
// show placeholder image instead
|
|
743
|
if (!empty($taxon_profile_image_settings['custom_placeholder_image_on']) && !empty($taxon_profile_image_settings['custom_placeholder_image_fid'])) {
|
|
744
|
// use the user provided image
|
|
745
|
$profile_image_file = file_load($taxon_profile_image_settings['custom_placeholder_image_fid']);
|
|
746
|
$url = file_create_url($profile_image_file->uri);
|
|
747
|
$image_info = image_get_info($profile_image_file->uri);
|
|
748
|
$representationPart->width = $image_info['width'];
|
|
749
|
$representationPart->height = $image_info['height'];
|
|
750
|
$representationPart->uri = $url;
|
|
751
|
}
|
|
752
|
else {
|
|
753
|
// use the hard coded default
|
|
754
|
$representationPart->width = 184;
|
|
755
|
$representationPart->height = 144;
|
|
756
|
$representationPart->uri = base_path() . drupal_get_path('module',
|
|
757
|
'cdm_dataportal') . '/images/no_picture.png';
|
|
758
|
}
|
|
759
|
$attributes['alt'] = "no image available";
|
|
760
|
}
|
|
761
|
}
|
|
762
|
|
|
763
|
if (isset($representationPart->uri)) {
|
|
764
|
$profile_image = cdm_media_gallerie_image($representationPart, $taxon_profile_image_settings['maxextend'], FALSE, $attributes);
|
|
765
|
// NOTE: style="width:${maxextend}px' is needed for IE8 !!!
|
|
766
|
$render_array['taxon_profile_image'] = markup_to_render_array('<div id="taxonProfileImage" style="width:' . $taxon_profile_image_settings['maxextend'] . 'px">' . $profile_image . '</div>',
|
|
767
|
-101);
|
|
768
|
}
|
|
769
|
}
|
|
770
|
|
|
771
|
if($add_synonymy){
|
|
772
|
$render_array['synonymy'] = markup_to_render_array(
|
|
773
|
theme('cdm_taxon_page_synonymy', array('taxon' => $taxon, 'addAcceptedTaxon' => true)),
|
|
774
|
-102
|
|
775
|
);
|
|
776
|
}
|
|
777
|
|
|
778
|
$pseudo_feature_blocks = array();
|
|
779
|
$pseudo_feature_block_toc_items = array();
|
|
780
|
|
|
781
|
|
|
782
|
// Render the sections for each real feature
|
|
783
|
$feature_block_list = make_feature_block_list($merged_tree->root->childNodes, $taxon);
|
|
784
|
|
|
785
|
// Bibliography
|
|
786
|
$bibliography_settings = get_bibliography_settings();
|
|
787
|
if($bibliography_settings['enabled'] == 1){
|
|
788
|
$feature_bibliography = make_pseudo_feature('Bibliography', 'BIBLIOGRAPHY');
|
|
789
|
$bibliography_block = feature_block(t('Bibliography'), $feature_bibliography);
|
|
790
|
$bibliography_item = markup_to_render_array(FootnoteManager::renderFootnoteList('BIBLIOGRAPHY', ''));
|
|
791
|
$bibliography_block->content[] = compose_feature_block_wrap_elements(array($bibliography_item), $feature_bibliography);
|
|
792
|
|
|
793
|
if(!empty($bibliography_block->content)){
|
|
794
|
$pseudo_feature_block_toc_items['Bibliography']= 'bibliography';
|
|
795
|
$pseudo_feature_blocks[] = $bibliography_block;
|
|
796
|
}
|
|
797
|
}
|
|
798
|
|
|
799
|
$render_array['taxon_description_features'] = _block_get_renderable_array(
|
|
800
|
array_merge($feature_block_list, $pseudo_feature_blocks)
|
|
801
|
);
|
|
802
|
|
|
803
|
if($pseudo_feature_block_toc_items){
|
|
804
|
foreach ($pseudo_feature_block_toc_items as $label=>$fragment){
|
|
805
|
cdm_toc_list_add_item($label, $fragment);
|
|
806
|
}
|
|
807
|
}
|
|
808
|
|
|
809
|
// create the table of content
|
|
810
|
$toc = array(
|
|
811
|
'#theme' => 'item_list',
|
|
812
|
'#items' => cdm_toc_list(),
|
|
813
|
'#title' => t('Content'),
|
|
814
|
'#weight' => -100, // move to the top
|
|
815
|
'#suffix' => '</div>',
|
|
816
|
'#prefix'=> '<div id="page-toc">'
|
|
817
|
);
|
|
818
|
$render_array['taxon_description_feature_toc'] = $toc;
|
|
819
|
|
|
820
|
return $render_array;
|
|
821
|
}
|
|
822
|
|
|
823
|
/**
|
|
824
|
* composes and returns an render array for the experts associated with the given taxon
|
|
825
|
*
|
|
826
|
* @param object taxon
|
|
827
|
*
|
|
828
|
* @return array
|
|
829
|
* A Drupal render array for a table with the experts
|
|
830
|
*
|
|
831
|
* @ingroup compose
|
|
832
|
*/
|
|
833
|
function compose_cdm_taxon_page_experts($taxon){
|
|
834
|
|
|
835
|
$render_array = array();
|
|
836
|
if(!isset($taxon->uuid)){
|
|
837
|
return $render_array;
|
|
838
|
}
|
|
839
|
|
|
840
|
$current_classification_uuid = get_current_classification_uuid();
|
|
841
|
// TODO use cdm_ws_fetchall below but this failes! needs fix!
|
|
842
|
$taxon_node_agent_relations = cdm_ws_get(CDM_WS_PORTAL_TAXON_TAXONNODEAGENTRELATIONS,
|
|
843
|
array(
|
|
844
|
$taxon->uuid,
|
|
845
|
$current_classification_uuid
|
|
846
|
)
|
|
847
|
);
|
|
848
|
|
|
849
|
$header = array(
|
|
850
|
array('data' => t('Expert')),
|
|
851
|
array('data' => t('Role'))
|
|
852
|
);
|
|
853
|
$rows = array();
|
|
854
|
|
|
855
|
|
|
856
|
foreach($taxon_node_agent_relations->records as $taxon_node_agent_relation){
|
|
857
|
|
|
858
|
|
|
859
|
$expert_role_id = $taxon_node_agent_relation->agent->uuid . '-' . $taxon_node_agent_relation->type->uuid;
|
|
860
|
$expert_details_container_id = 'expert_details_' . $expert_role_id;
|
|
861
|
|
|
862
|
$agent_label_markup = cdm_dynabox(
|
|
863
|
'expert_' . $expert_role_id,
|
|
864
|
$taxon_node_agent_relation->agent->titleCache,
|
|
865
|
// specifying both ends of the relationship will return only one record in the pager
|
|
866
|
cdm_compose_url(CDM_WS_PORTAL_AGENT,
|
|
867
|
array($taxon_node_agent_relation->agent->uuid, 'taxonNodeAgentRelations'),
|
|
868
|
'taxon_uuid=' . $taxon->uuid . '&relType_uuid=' . $taxon_node_agent_relation->type->uuid),
|
|
869
|
'cdm_taxon_expert',
|
|
870
|
'Click for details',
|
|
871
|
array('div', 'div'),
|
|
872
|
array(), // attributes
|
|
873
|
'#' . $expert_details_container_id // $content_element_selector
|
|
874
|
);
|
|
875
|
|
|
876
|
// Expert and Role
|
|
877
|
$rows[] = array(
|
|
878
|
'data' => array(
|
|
879
|
array(
|
|
880
|
'data' => $agent_label_markup,
|
|
881
|
'class' => array(html_class_attribute_ref($taxon_node_agent_relation->agent))
|
|
882
|
),
|
|
883
|
array(
|
|
884
|
'data' => $taxon_node_agent_relation->type->representation_L10n,
|
|
885
|
'class' => array(html_class_attribute_ref($taxon_node_agent_relation->type))
|
|
886
|
)
|
|
887
|
)
|
|
888
|
);
|
|
889
|
// Agent details
|
|
890
|
$rows[] = array(
|
|
891
|
'data' => array(
|
|
892
|
array(
|
|
893
|
'data' => '<!-- expert_details_container -->',
|
|
894
|
'id' => $expert_details_container_id,
|
|
895
|
'colspan' => 2
|
|
896
|
)
|
|
897
|
)
|
|
898
|
);
|
|
899
|
|
|
900
|
}
|
|
901
|
|
|
902
|
|
|
903
|
$render_array['experts_table'] = array(
|
|
904
|
'#theme' => 'table',
|
|
905
|
'#header' => $header,
|
|
906
|
'#rows' => $rows,
|
|
907
|
);
|
|
908
|
|
|
909
|
|
|
910
|
return $render_array;
|
|
911
|
}
|
|
912
|
|
|
913
|
|
|
914
|
/**
|
|
915
|
* Manages the tabs to be hidden in the taxon page.
|
|
916
|
*
|
|
917
|
* The tabs are identified by their last menu link path element:
|
|
918
|
* - description
|
|
919
|
* - synonymy
|
|
920
|
* - images
|
|
921
|
* - specimens
|
|
922
|
* - key
|
|
923
|
*
|
|
924
|
* Internally the tabs are stored in a static variable which is
|
|
925
|
* managed by drupal_static().
|
|
926
|
*
|
|
927
|
* @param string $add_tab
|
|
928
|
* Optional parameter. The given string will be added to the array of tabs
|
|
929
|
*
|
|
930
|
* @return
|
|
931
|
* The array of tabs
|
|
932
|
*/
|
|
933
|
function taxon_page_tabs_hidden_add($add_tab = NULL) {
|
|
934
|
$tabs = &drupal_static('taxon_page_tabs_hidden');
|
|
935
|
|
|
936
|
if(!isset($tabs)){
|
|
937
|
$tabs = array();
|
|
938
|
}
|
|
939
|
|
|
940
|
if (isset($add_tab) && !array_key_exists($add_tab, $tabs)) {
|
|
941
|
$tabs[] = $add_tab;
|
|
942
|
}
|
|
943
|
|
|
944
|
return $tabs;
|
|
945
|
}
|
|
946
|
|
|
947
|
/**
|
|
948
|
* Manages the tabs to be hidden in the taxon page.
|
|
949
|
*
|
|
950
|
* The tabs names are identified by their last menu link path element:
|
|
951
|
* - description
|
|
952
|
* - synonymy
|
|
953
|
* - images
|
|
954
|
* - specimens
|
|
955
|
* - key
|
|
956
|
*
|
|
957
|
* Internally the tabs are stored in a static variable which is
|
|
958
|
* managed by drupal_static().
|
|
959
|
*
|
|
960
|
* @param string $tabname
|
|
961
|
* The name of the tab to check
|
|
962
|
*
|
|
963
|
* @return boolean
|
|
964
|
* True if the tab or section is to be hidden
|
|
965
|
*/
|
|
966
|
function taxon_page_tabs_hidden_check($tabname) {
|
|
967
|
|
|
968
|
$tabs = &drupal_static('taxon_page_tabs_hidden');
|
|
969
|
|
|
970
|
if(!isset($tabs)){
|
|
971
|
$tabs = array();
|
|
972
|
}
|
|
973
|
|
|
974
|
return array_search($tabname, $tabs) !== FALSE;
|
|
975
|
}
|
|
976
|
|
|
977
|
/**
|
|
978
|
* Implements the hook_preprocess_HOOK() for theme_menu_local_tasks()
|
|
979
|
*
|
|
980
|
* - Removes the tabs to be hidden, @see taxon_page_tabs_hidden_add()
|
|
981
|
* - Renames tabs according to the settings // TODO (this will replace the theme_cdm_taxonpage_tab() function !!!)
|
|
982
|
*
|
|
983
|
* @param array $variables
|
|
984
|
* The variables array
|
|
985
|
*/
|
|
986
|
function cdm_dataportal_preprocess_menu_local_tasks(&$variables) {
|
|
987
|
|
|
988
|
$hidden_tabs = taxon_page_tabs_hidden_add();
|
|
989
|
|
|
990
|
if (is_array($variables['primary'])) {
|
|
991
|
foreach ($variables['primary'] as $key => &$element) {
|
|
992
|
|
|
993
|
// 1. Remove the tabs to be hidden
|
|
994
|
foreach ($hidden_tabs as $tab) {
|
|
995
|
if ($element['#link']['path'] == 'cdm_dataportal/taxon/%/' . $tab) {
|
|
996
|
// remove the tab
|
|
997
|
unset($variables['primary'][$key]);
|
|
998
|
}
|
|
999
|
}
|
|
1000
|
}
|
|
1001
|
}
|
|
1002
|
}
|
|
1003
|
|
|
1004
|
|
|
1005
|
|
|
1006
|
/**
|
|
1007
|
* Implements the hook_preprocess_HOOK() for theme_menu_local_task()
|
|
1008
|
*
|
|
1009
|
*
|
|
1010
|
* @param array $variables
|
|
1011
|
* An associative array containing:
|
|
1012
|
* - element: A render element containing:
|
|
1013
|
* #link: A menu link array with 'title', 'href', and 'localized_options' keys.
|
|
1014
|
* #active: A boolean indicating whether the local task is active.
|
|
1015
|
*
|
|
1016
|
*/
|
|
1017
|
function cdm_dataportal_preprocess_menu_local_task(&$variables) {
|
|
1018
|
|
|
1019
|
$link = $variables['element']['#link'];
|
|
1020
|
if (preg_match('/cdm_dataportal\/.*\/refresh$/', $link['href'])) {
|
|
1021
|
$link['title'] = '<img class="refresh" src="' . base_path() . drupal_get_path('module', 'cdm_dataportal') . '/images/view-refresh.png' . '" alt="' . check_plain($link['title']) . '" title="' . check_plain($link['title']) . '"/>';
|
|
1022
|
$link['localized_options']['html'] = TRUE;
|
|
1023
|
|
|
1024
|
$variables['element']['#link'] = $link;
|
|
1025
|
}
|
|
1026
|
}
|
|
1027
|
|
|
1028
|
/* =================== block composition ===================== */
|
|
1029
|
|
|
1030
|
/**
|
|
1031
|
* Composes and returns an render array for the classification breadcrumbs of the given taxon.
|
|
1032
|
*
|
|
1033
|
* @param taxon
|
|
1034
|
*
|
|
1035
|
* @return array
|
|
1036
|
* A Drupal render array for a table with the experts
|
|
1037
|
*
|
|
1038
|
* @ingroup compose
|
|
1039
|
*/
|
|
1040
|
function compose_classification_breadcrumbs($taxon_uuid) {
|
|
1041
|
|
|
1042
|
_add_js_taxonomic_children('#classification-breadcrumbs .taxonomic-children-button');
|
|
1043
|
|
|
1044
|
$render_array = array();
|
|
1045
|
|
|
1046
|
$render_array['#theme'] = 'item_list';
|
|
1047
|
$render_array['#type'] = 'ul';
|
|
1048
|
$render_array['#attributes'] = array(
|
|
1049
|
'id' => 'classification-breadcrumbs',
|
|
1050
|
'class' => 'breadcrumbs inline',
|
|
1051
|
);
|
|
1052
|
|
|
1053
|
$items = array();
|
|
1054
|
|
|
1055
|
$parent_taxon_nodes = null;
|
|
1056
|
if($taxon_uuid){
|
|
1057
|
$parent_taxon_nodes = cdm_ws_taxonomy_pathFromRoot($taxon_uuid);
|
|
1058
|
}
|
|
1059
|
|
|
1060
|
$classifications = cdm_ws_fetch_all(CDM_WS_PORTAL_TAXONOMY);
|
|
1061
|
// find current classification in list
|
|
1062
|
$classification = null;
|
|
1063
|
$current_classification_uuid = get_current_classification_uuid();
|
|
1064
|
foreach ($classifications as $classification){
|
|
1065
|
if($classification->uuid == $current_classification_uuid){
|
|
1066
|
break;
|
|
1067
|
}
|
|
1068
|
}
|
|
1069
|
|
|
1070
|
$node_name = '';
|
|
1071
|
if(count($classifications) > 1 ){
|
|
1072
|
// need to add the current classification as first label
|
|
1073
|
|
|
1074
|
$label = $classification->titleCache;
|
|
1075
|
if(strlen($label) > 20){
|
|
1076
|
$label = substr($label, 0, strpos($label, ' ', 15)) . '...';
|
|
1077
|
}
|
|
1078
|
$node_name = font_awesome_icon_markup('fa-th-list') . ' ' . l($label, '#', array(
|
|
1079
|
'attributes' => array(
|
|
1080
|
'class' => 'taxonomic-children-button classification-chooser',
|
|
1081
|
'data-destination-uri' => drupal_get_destination(),
|
|
1082
|
'data-cdm-align-with' => array('prev')
|
|
1083
|
),
|
|
1084
|
'html' => true
|
|
1085
|
));
|
|
1086
|
}
|
|
1087
|
|
|
1088
|
$rank_limit_uuid = variable_get(TAXONTREE_RANKLIMIT, TAXONTREE_RANKLIMIT_DEFAULT);
|
|
1089
|
|
|
1090
|
$rank_separator = '<span> '
|
|
1091
|
. font_awesome_icon_markup('fa-chevron-right')
|
|
1092
|
. ' </span>';
|
|
1093
|
$more_children_icon = font_awesome_icon_markup('fa-sitemap fa-rotate-270');
|
|
1094
|
$more_children_label = '...';
|
|
1095
|
|
|
1096
|
$items[] = $node_name;
|
|
1097
|
|
|
1098
|
$more_children_for = null;
|
|
1099
|
if($parent_taxon_nodes){
|
|
1100
|
foreach ($parent_taxon_nodes as $node) {
|
|
1101
|
|
|
1102
|
$is_first_item = count($items) == 0;
|
|
1103
|
$is_last_item = count($items) == count($parent_taxon_nodes);
|
|
1104
|
$node_name = cdm_dataportal_shortname_of($node);
|
|
1105
|
$path = path_to_taxon($node->taxonUuid);
|
|
1106
|
|
|
1107
|
if($node->taxonomicChildrenCount > 0) {
|
|
1108
|
$more_children_for = $node->taxonUuid;
|
|
1109
|
} else {
|
|
1110
|
$more_children_for = null;
|
|
1111
|
}
|
|
1112
|
|
|
1113
|
// 'fa-sitemap'
|
|
1114
|
|
|
1115
|
$items[] =
|
|
1116
|
($is_first_item ? '' : ' ')
|
|
1117
|
. $rank_separator
|
|
1118
|
. l(
|
|
1119
|
'<span class="' . html_class_attribute_ref($node) . '">' . $node_name . '</span>',
|
|
1120
|
$path,
|
|
1121
|
array(
|
|
1122
|
'attributes' => array(
|
|
1123
|
'class' => array('taxonomic-children-button'),
|
|
1124
|
'data-cdm-taxon-uuid' => array($node->taxonUuid),
|
|
1125
|
'data-cdm-classification-mode' => array('siblings'),
|
|
1126
|
'data-cdm-align-with' => array('prev')
|
|
1127
|
),
|
|
1128
|
'html' => true
|
|
1129
|
)
|
|
1130
|
);
|
|
1131
|
}
|
|
1132
|
}
|
|
1133
|
|
|
1134
|
// add more button to the end
|
|
1135
|
if(!$parent_taxon_nodes) {
|
|
1136
|
// not taxon focused yet, adding button to make the root nodes available
|
|
1137
|
$items[] = '<span>'
|
|
1138
|
. $more_children_icon . ' ' .
|
|
1139
|
'<span class="taxonomic-children-button" data-classification-uuid="' . $current_classification_uuid
|
|
1140
|
. '" data-rank-limit-uuid="' . $rank_limit_uuid . '" data-cdm-align-with="prev"> ' . $more_children_label . '<span>'
|
|
1141
|
. '</span>';
|
|
1142
|
} else if($more_children_for){
|
|
1143
|
// last parent item has child taxon nodes
|
|
1144
|
$items[] = ' <span>'
|
|
1145
|
. $more_children_icon . ' ' .
|
|
1146
|
'<span class="taxonomic-children-button" data-cdm-taxon-uuid="' .$more_children_for
|
|
1147
|
. '" data-cdm-classification-mode="children" data-cdm-align-with="prev"> ' . $more_children_label . '</span>'
|
|
1148
|
. '</span>';
|
|
1149
|
|
|
1150
|
}
|
|
1151
|
|
|
1152
|
$render_array['#items'] = $items;
|
|
1153
|
|
|
1154
|
return $render_array;
|
|
1155
|
}
|
|
1156
|
|
|
1157
|
|
|
1158
|
/**
|
|
1159
|
* @param $specimen_uuid
|
|
1160
|
* @return array
|
|
1161
|
* The drupal render array for the page
|
|
1162
|
*
|
|
1163
|
* @ingroup compose
|
|
1164
|
*/
|
|
1165
|
function compose_cdm_specimen_page($specimen_uuid)
|
|
1166
|
{
|
|
1167
|
drupal_set_title("Specimen Details");
|
|
1168
|
$specimen = cdm_ws_get(CDM_WS_PORTAL_OCCURRENCE, array($specimen_uuid, 'specimenDerivates'));
|
|
1169
|
|
|
1170
|
$render_array = array();
|
|
1171
|
RenderHints::pushToRenderStack('specimen_page');
|
|
1172
|
|
|
1173
|
$detail_html = render_cdm_specimen_page($specimen, true);
|
|
1174
|
$render_array['specimen_html'] = array(
|
|
1175
|
'#markup' => $detail_html
|
|
1176
|
);
|
|
1177
|
|
|
1178
|
RenderHints::popFromRenderStack();
|
|
1179
|
return $render_array;
|
|
1180
|
}
|
|
1181
|
|
|
1182
|
/**
|
|
1183
|
* @param $named_area_uuid
|
|
1184
|
* @return array
|
|
1185
|
* The drupal render array for the page
|
|
1186
|
*
|
|
1187
|
* @ingroup compose
|
|
1188
|
*/
|
|
1189
|
function compose_cdm_named_area_page($named_area_uuid)
|
|
1190
|
{
|
|
1191
|
|
|
1192
|
$named_area = cdm_ws_get(CDM_WS_PORTAL_TERM, array($named_area_uuid));
|
|
1193
|
|
|
1194
|
$render_array = array();
|
|
1195
|
RenderHints::pushToRenderStack('named_area_page');
|
|
1196
|
|
|
1197
|
$groups = array();
|
|
1198
|
@_description_list_group_add($groups, t('Name') . ':', $named_area->representation_L10n);
|
|
1199
|
@_description_list_group_add($groups, t('IdInVocabulary') . ':', $named_area->idInVocabulary);
|
|
1200
|
if(isset($named_area->level)) {
|
|
1201
|
@_description_list_group_add($groups, t('Level') . ':', $named_area->level->representation_L10n);
|
|
1202
|
}
|
|
1203
|
|
|
1204
|
$name_area_details_elements = array(
|
|
1205
|
// '#title' => $title,
|
|
1206
|
'#theme' => 'description_list',
|
|
1207
|
'#groups' => $groups,
|
|
1208
|
'#attributes' => array('class' => html_class_attribute_ref($named_area)),
|
|
1209
|
);
|
|
1210
|
|
|
1211
|
$render_array[] = $name_area_details_elements;
|
|
1212
|
|
|
1213
|
RenderHints::popFromRenderStack();
|
|
1214
|
return $render_array;
|
|
1215
|
}
|
|
1216
|
|
|
1217
|
/**
|
|
1218
|
* Provides the the label string for taxon page tabs.
|
|
1219
|
*
|
|
1220
|
* The $tabname as passed to the method will be returned if no override
|
|
1221
|
* label is configured in the settings.
|
|
1222
|
*/
|
|
1223
|
function cdm_taxonpage_tab_label($tabname) {
|
|
1224
|
static $taxon_tabs_labels = null;
|
|
1225
|
if($taxon_tabs_labels == null){
|
|
1226
|
$taxon_tabs_labels = get_array_variable_merged(CDM_TAXONPAGE_TAB_LABELS, CDM_TAXONPAGE_TAB_LABELS_DEFAULT);
|
|
1227
|
}
|
|
1228
|
$tabname_key = strtolower($tabname);
|
|
1229
|
if(isset($taxon_tabs_labels[$tabname_key]) && $taxon_tabs_labels[$tabname_key]){
|
|
1230
|
return $taxon_tabs_labels[$tabname_key];
|
|
1231
|
}
|
|
1232
|
return $tabname;
|
|
1233
|
}
|