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<?php
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/**
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* The description page is supposed to be the front page for a taxon.
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*
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* @param TaxonTO $taxonTO
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* @return
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*/
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function palmweb_2_cdm_taxon_page_profile($taxon, $mergedTrees, $media, $hideImages = false){
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if(!$hideImages){
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// preferred image
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// hardcoded for testing;
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$defaultRepresentationPart = false;
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$defaultRepresentationPart->width = 184;
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$defaultRepresentationPart->height = 144;
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$defaultRepresentationPart->uri = drupal_get_path('theme', 'palmweb_2').'/images/no_picture.png';
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// preferred image size 184px × 144
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$imageMaxExtend = 184;
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$out .= '<div id="taxonProfileImage">'.theme('cdm_preferredImage', $media, $defaultRepresentationPart, $imageMaxExtend).'</div>';
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}
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// description TOC
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$out .= theme('cdm_featureTreeTOCs', $mergedTrees);
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// description
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$out .= theme('cdm_featureTrees', $mergedTrees, $taxon);
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return $out;
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}
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function palmweb_2_cdm_descriptionElementDistribution($descriptionElements, $enclosingTag = "span") {
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$out = '';
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$separator = ', ';
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RenderHints::pushToRenderStack('descriptionElementDistribution');
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RenderHints::setFootnoteListKey(UUID_DISTRIBUTION);
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$itemCnt = 0;
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foreach($descriptionElements as $descriptionElement){
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// annotations as footnotes
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// $annotationFootnoteKeys = theme('cdm_annotations_as_footnotekeys', $descriptionElement);
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// // source references as footnotes
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// $sourcesFootnoteKeyList = '';
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// foreach($descriptionElement->sources as $source){
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// $_fkey = FootnoteManager::addNewFootnote(UUID_DISTRIBUTION, theme('cdm_DescriptionElementSource', $source, false));
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// $sourcesFootnoteKeyList .= theme('cdm_footnote_key', $_fkey, ($sourcesFootnoteKeyList ? $separator : ''));
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// }
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// if($annotationFootnoteKeys && $sourcesFootnoteKeyList){
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// $annotationFootnoteKeys .= $separator;
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// }
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$out .= '<' . $enclosingTag . ' class="DescriptionElement DescriptionElement-' . $descriptionElement->class .'">';
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$out .= $descriptionElement->area->representation_L10n . $annotationFootnoteKeys . $sourcesFootnoteKeyList;
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if(++$itemCnt < count($descriptionElements)){
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$out .= $separator;
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}
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$out .= "</" . $enclosingTag . ">";
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}
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$taxonTrees = cdm_ws_get(CDM_WS_PORTAL_TAXONOMY);
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foreach($taxonTrees as $taxonTree){
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if ($taxonTree->uuid == variable_get('cdm_taxonomictree_uuid', FALSE)){
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$reference = $taxonTree->reference;
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break;
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}
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}
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$referenceCitation = '('.l('<span class="reference">World Checklist of Monocotyledons</span>', path_to_reference($reference->uuid), array("class"=>"reference"), NULL, NULL, FALSE ,TRUE).')';
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if($out && strlen($out) > 0 ){
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$sourceRefs .= ' '.$referenceCitation;
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}
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if(strlen($sourceRefs) > 0){
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$sourceRefs = '<span class="sources">' . $sourceRefs . '</span>';
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}
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RenderHints::popFromRenderStack();
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return $out. $sourceRefs ;
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}
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function palmweb_2_cdm_feature_nodesTOC($featureNodes){
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$out .= '<ul>';
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$countFeatures = 0;
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$numberOfChildren = count(cdm_ws_get(CDM_WS_PORTAL_TAXONOMY_CHILDNODES_OF_TAXON, array (get_taxonomictree_uuid_selected(), substr(strrchr($_GET["q"], '/'), 1))));
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if ($numberOfChildren != 0) {
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$out .= '<li>'.l(t(theme('cdm_feature_name', 'Number of Species')), $_GET['q'], array("class"=>"toc"), NULL, generalizeString('Number Of Species')).'</li>';
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}
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foreach($featureNodes as $node){
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if(hasFeatureNodeDescriptionElements($node)){
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$featureRepresentation = isset($node->feature->representation_L10n) ? $node->feature->representation_L10n : 'Feature';
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// HACK to implement images for taxa, should be removed
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if($node->feature->uuid != UUID_IMAGE){
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$countFeatures++;
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$out .= '<li>'.l(t(theme('cdm_feature_name', $featureRepresentation)), $_GET['q'], array("class"=>"toc"), NULL, generalizeString($featureRepresentation)).'</li>';
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}
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}
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}
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//Setting the Anchor to the Bibliography section if the option is enabled
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$show_bibliography = variable_get('cdm_show_bibliography', 1);
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if ($show_bibliography && $countFeatures != 0) {
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$out .= '<li>'.l(t(theme('cdm_feature_name', 'Bibliography')), $_GET['q'], array("class"=>"toc"), NULL, generalizeString('Bibliography')).'</li>';
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}
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$out .= '</ul>';
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return $out;
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}
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function palmweb_2_cdm_feature_nodes($mergedFeatureNodes, $taxon){
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RenderHints::pushToRenderStack('feature_nodes');
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$gallery_settings = getGallerySettings(CDM_DATAPORTAL_DESCRIPTION_GALLERY_NAME);
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//Creating an array to place the description elements in
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$bibliographyOut = array();
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$countFeatures = 0;
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$numberOfChildren = count(cdm_ws_get(CDM_WS_PORTAL_TAXONOMY_CHILDNODES_OF_TAXON, array (get_taxonomictree_uuid_selected(), $taxon->uuid)));
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if ($numberOfChildren != 0) {
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$out .= '<a name="number_of_species"> </a><H2>Number of Species</H2><div class="content"> <ul class="description">';
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$out .= '<li class=\"descriptionText DescriptionElement\">' . $numberOfChildren . " Species." . '</li></ul>';
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}
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foreach($mergedFeatureNodes as $node){
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if(hasFeatureNodeDescriptionElements($node)) {
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$featureRepresentation = isset($node->feature->representation_L10n) ? $node->feature->representation_L10n : 'Feature';
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$block->module = 'cdm_dataportal';
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//if the option is enabled the description elements will be added to the array
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$show_bibliography = variable_get('cdm_show_bibliography', 1);
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if ($show_bibliography) {
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$bibliographyOut[] = $node->descriptionElements;
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}
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$media_list = array();
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if($node->feature->uuid != UUID_IMAGE) {
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$countFeatures++;
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$block->delta = generalizeString($featureRepresentation);
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$block->subject = '<span class="'. html_class_atttibute_ref($node->feature) . '">' . theme('cdm_feature_name', $featureRepresentation) . '</span>';
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$block->module = "cdm_dataportal-feature";
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$block->content = '';
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/*
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* Content/DISTRIBUTION
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*/
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if($node->feature->uuid == UUID_DISTRIBUTION){
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if(variable_get(DISTRIBUTION_TEXTDATA_DISPLAY_ON_TOP, 0)){
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$distributionTextDataList = array();
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$distributionElementsList = array();
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foreach($node->descriptionElements as $descriptionElement){
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if($descriptionElement->class == "TextData"){
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$distributionTextDataList[] = $descriptionElement;
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} else {
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$distributionElementsList[] = $descriptionElement;
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}
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}
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if(count($distributionTextDataList) > 0){
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$node->descriptionElements = $distributionElementsList;
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$block->content .= theme('cdm_descriptionElements', $distributionTextDataList, $node->feature->uuid, $taxon->uuid);
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}
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}
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// Display cdm distribution map TODO this is a HACK to a proper generic implementation?
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$block->content .= theme('cdm_distribution_map', $taxon);
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$block->content .= theme('cdm_descriptionElements', $node->descriptionElements, $node->feature->uuid, $taxon->uuid);
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}
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/*
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* Content/COMMON_NAME
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*/
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else if ($node->feature->uuid == UUID_COMMON_NAME){
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//TODO why is theme_cdm_descriptionElement_CommonTaxonName not beeing used???
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$block->content .= theme('cdm_common_names', $node->descriptionElements);
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/*
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}else if($node->feature->uuid == UUID_IMAGE_SOURCES) {
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$block->content .= theme('cdm_image_sources', $node->descriptionElements);
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*/
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}
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/*
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* Content/ALL OTHER FEATURES
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*/
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else {
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$block->content .= theme('cdm_descriptionElements', $node->descriptionElements, $node->feature->uuid, $taxon->uuid);
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/*
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* Content/ALL OTHER FEATURES/Subordinate Features
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*
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* subordinate features are printed inline in one floating text,
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* it is expected that supordinate features only "contain" TextData elements
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*/
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// TODO move into own theme
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if(count($node->children) > 0){
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//TODO support more than one level of childen http://dev.e-taxonomy.eu/trac/ticket/2393
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$text = '';
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foreach ($node->children as $child){
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if (is_array($child->descriptionElements)){
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foreach ($child->descriptionElements as $element) {
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if(is_array($element->media)){
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// append media of supordinate emelents to list of main feature
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$media_list = array_merge($media_list, $element->media);
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}
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$description = str_replace("\n", "<br/>", $element->multilanguageText_L10n->text);
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//TODO use localized version of feature name, the locale must match the locale of the multilanguage text (http://dev.e-taxonomy.eu/trac/ticket/2394)
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$description = str_replace($element->feature->titleCache, '<em>' . $element->feature->titleCache . '</em>', $description);
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}
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$text .= " " . $description;
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$description = '';
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}
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}
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$block->content .= $text;
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}
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}
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/*
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* Media/ALL FEATURES
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*/
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$media_list = array_merge($media_list, cdm_dataportal_media_from_descriptionElements($node->descriptionElements));
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$captionElements = array('title', 'rights');
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$gallery = theme('cdm_media_gallerie', $media_list, CDM_DATAPORTAL_DESCRIPTION_GALLERY_NAME.'_'.$node->feature->uuid,
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$gallery_settings['cdm_dataportal_media_maxextend'],
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$gallery_settings['cdm_dataportal_media_cols'],
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$gallery_settings['cdm_dataportal_media_maxRows'],
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$captionElements
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);
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$block->content .= $gallery;
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$block->content .= theme('cdm_footnotes', $node->feature->uuid);
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$block->content .= theme('cdm_annotation_footnotes', $node->feature->uuid);
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// add anchor to subject
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$block->subject = '<a name="'.$block->delta.'"></a>'. $block->subject;
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$out .= theme('block', $block);
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}
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}
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}
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//calling the theme function for Bibliography to add it to the output
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//Add the display of the number of taxa in the selected genus
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$show_bibliography = variable_get('cdm_show_bibliography', 1);
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if ($show_bibliography && $countFeatures !=0) {
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$out .= theme('cdm_descriptionElementBibliography', $bibliographyOut);
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}
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RenderHints::popFromRenderStack();
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return $out;
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}
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function palmweb_2_cdm_search_results($pager, $path, $parameters){
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$showThumbnails = $_SESSION['pageoptions']['searchtaxa']['showThumbnails'];
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if( !is_numeric($showThumbnails)){
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//AT RBG KEW - 14/11/2011 - Set the show thumbnails to 0 by default
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$showThumbnails = 0;
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}
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$setSessionUri = url('cdm_api/setvalue/session', "var=[pageoption][searchtaxa][showThumbnails]&val=");
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drupal_add_js('$(document).ready(function() {
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// init
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if('.$showThumbnails.' == 1){
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$(\'.media_gallery\').show(20);
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} else {
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$(\'.media_gallery\').hide(20);
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}
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// add change hander
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$(\'#showThumbnails\').change(
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function(event){
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var state = 0;
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if($(this).is(\':checked\')){
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$(\'.media_gallery\').show(20);
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state = 1;
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} else {
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$(\'.media_gallery\').hide(20);
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}
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// store state in session variable
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var uri = \''.$setSessionUri.'\' + state;
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jQuery.get(uri);
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});
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});', "inline");
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drupal_set_title(t('Search results'));
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$out = ''; //l('Advanced Search', '/cdm_dataportal/search');
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//AT RBG KEW - 14/11/2011 - Changed the wording of the Show Thumbnails tick box text
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$out = '<div class="page_options"><form name="pageoptions"><input id="showThumbnails" type="checkbox" name="showThumbnails" '.($showThumbnails == 1? 'checked="checked"': '').'> '.t('Show Image Thumbnails').'</form></div>';
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if(count($pager->records) > 0){
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$out .= '<div id="search_results">';
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$out .= theme('cdm_list_of_taxa', $pager->records);
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$out .= '</div>';
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$out .= theme('cdm_pager', $pager, $path, $parameters);
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} else {
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$out = '<h4 class="error">Sorry, no matching entries found.</h4>';
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}
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return $out;
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}
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//Bibluiography theming function
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function theme_cdm_descriptionElementBibliography($descriptionElementsBibliogragphy) {
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$listOfReferences = array();
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foreach ($descriptionElementsBibliogragphy as $descriptionElementsBiblio) {
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foreach ($descriptionElementsBiblio as $descriptionElementBiblio) {
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if(is_array($descriptionElementBiblio->sources)){
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foreach($descriptionElementBiblio->sources as $source){
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$isAlreadySelected = false;
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if(empty($listOfReferences)) {
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$listOfReferences[] = $source;
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}
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else {
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foreach ($listOfReferences as $selectedReference) {
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if ($selectedReference->citation->uuid == $source->citation->uuid) {
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$isAlreadySelected = true;
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}
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}
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//add the source in the list of reference/ This is to remove duplicates from the Bibliography section.
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if (!$isAlreadySelected) {
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$listOfReferences[] = $source;
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}
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}
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}
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}
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}
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}
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//Call the reference formatting function, it will do the heavy lifting
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$out = formatReference_for_Bibliogrpahy($listOfReferences);
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return $out;
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345
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}
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347
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function formatReference_for_Bibliogrpahy($references) {
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348
|
$out = '<a name="bibliography"> </a><H2>Bibliography</H2><div class="content"> <ul class="description">';
|
|
349
|
$outTemp= array();
|
|
350
|
foreach ($references as $reference) {
|
|
351
|
$referenceString = '';
|
|
352
|
//print_r($reference);
|
|
353
|
switch ($reference->citation->type) {
|
|
354
|
case "Journal":
|
|
355
|
$referenceString .= "<li class=\"descriptionText DescriptionElement\">";
|
|
356
|
$numberOfTeamMembers = count($reference->citation->authorTeam->teamMembers);
|
|
357
|
$currentRecord = 1;
|
|
358
|
if (!empty($reference->citation->authorTeam->teamMembers)) {
|
|
359
|
foreach ($reference->citation->authorTeam->teamMembers as $teamMember) {
|
|
360
|
if(!empty($teamMember->lastname)) {
|
|
361
|
if ($currentRecord == 1) {
|
|
362
|
$referenceString .= $teamMember->lastname . ", " . $teamMember->firstname;
|
|
363
|
}
|
|
364
|
else if ($numberOfTeamMembers != $currentRecord) {
|
|
365
|
$referenceString .= " , " . $teamMember->lastname . ", " . $teamMember->firstname;
|
|
366
|
}
|
|
367
|
else {
|
|
368
|
$referenceString .= " & " . $teamMember->lastname . ", " . $teamMember->firstname;
|
|
369
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? ' ' : ". ");
|
|
370
|
}
|
|
371
|
$currentRecord += 1;
|
|
372
|
}
|
|
373
|
else {
|
|
374
|
if ($numberOfTeamMembers != $currentRecord) {
|
|
375
|
$referenceString .= $teamMember->titleCache. " & ";
|
|
376
|
}
|
|
377
|
else {
|
|
378
|
$referenceString .= $teamMember->titleCache;
|
|
379
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? ' ' : ". ");
|
|
380
|
}
|
|
381
|
$currentRecord += 1;
|
|
382
|
}
|
|
383
|
}
|
|
384
|
}
|
|
385
|
else {
|
|
386
|
$referenceString .= $reference->citation->authorTeam->titleCache;
|
|
387
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? " " : ". ");
|
|
388
|
}
|
|
389
|
/*else {
|
|
390
|
$referenceString .= $teamMember->lastname . ", " . $teamMember->firstname . " ";
|
|
391
|
}*/
|
|
392
|
if (!empty($reference->citation->datePublished->start)) {
|
|
393
|
$referenceString .= substr($reference->citation->datePublished->start,0,4);
|
|
394
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? "" : ". ");
|
|
395
|
}
|
|
396
|
$referenceString .= $reference->citation->title . ". " . $reference->citation->publisher;
|
|
397
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? "" : ". ");
|
|
398
|
$referenceString .= "</li>";
|
|
399
|
break;
|
|
400
|
|
|
401
|
|
|
402
|
case "Article":
|
|
403
|
$referenceString .= "<li class=\"descriptionText DescriptionElement\">";
|
|
404
|
$numberOfTeamMembers = count($reference->citation->authorTeam->teamMembers);
|
|
405
|
$currentRecord = 1;
|
|
406
|
if (!empty($reference->citation->authorTeam->teamMembers)) {
|
|
407
|
foreach ($reference->citation->authorTeam->teamMembers as $teamMember) {
|
|
408
|
if(!empty($teamMember->lastname)) {
|
|
409
|
if ($currentRecord == 1) {
|
|
410
|
$referenceString .= $teamMember->lastname . ", " . $teamMember->firstname;
|
|
411
|
}
|
|
412
|
else if ($numberOfTeamMembers != $currentRecord) {
|
|
413
|
$referenceString .= " , " . $teamMember->lastname . ", " . $teamMember->firstname;
|
|
414
|
}
|
|
415
|
else {
|
|
416
|
$referenceString .= " & " . $teamMember->lastname . ", " . $teamMember->firstname;
|
|
417
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? ' ' : ". ");
|
|
418
|
}
|
|
419
|
$currentRecord += 1;
|
|
420
|
}
|
|
421
|
else {
|
|
422
|
if ($numberOfTeamMembers != $currentRecord) {
|
|
423
|
$referenceString .= $teamMember->titleCache. " & ";
|
|
424
|
}
|
|
425
|
else {
|
|
426
|
$referenceString .= $teamMember->titleCache;
|
|
427
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? ' ' : ". ");
|
|
428
|
}
|
|
429
|
$currentRecord += 1;
|
|
430
|
}
|
|
431
|
}
|
|
432
|
}
|
|
433
|
else {
|
|
434
|
$referenceString .= $reference->citation->authorTeam->titleCache;
|
|
435
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? " " : ". ");
|
|
436
|
}
|
|
437
|
/*else {
|
|
438
|
$referenceString .= $teamMember->lastname . ", " . $teamMember->firstname . " ";
|
|
439
|
}*/
|
|
440
|
if (!empty($reference->citation->datePublished->start)) {
|
|
441
|
$referenceString .= substr($reference->citation->datePublished->start,0,4);
|
|
442
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? "" : ". ");
|
|
443
|
}
|
|
444
|
$referenceString .= $reference->citation->title . ". " . $reference->citation->publisher;
|
|
445
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? "" : ". ");
|
|
446
|
$referenceString .= "</li>";
|
|
447
|
break;
|
|
448
|
|
|
449
|
|
|
450
|
case "Book":
|
|
451
|
$referenceString .= "<li class=\"descriptionText DescriptionElement\">";
|
|
452
|
$numberOfTeamMembers = count($reference->citation->authorTeam->teamMembers);
|
|
453
|
$currentRecord = 1;
|
|
454
|
if (!empty($reference->citation->authorTeam->teamMembers) || $reference->citation->authorTeam->titleCache != "-empty team-") {
|
|
455
|
foreach ($reference->citation->authorTeam->teamMembers as $teamMember) {
|
|
456
|
if(!empty($teamMember->lastname)) {
|
|
457
|
if ($numberOfTeamMembers != $currentRecord) {
|
|
458
|
$referenceString .= $teamMember->lastname . ", " . $teamMember->firstname. " & ";
|
|
459
|
}
|
|
460
|
else {
|
|
461
|
$referenceString .= $teamMember->lastname . ", " . $teamMember->firstname;
|
|
462
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? "" : ". ");
|
|
463
|
}
|
|
464
|
$currentRecord += 1;
|
|
465
|
}
|
|
466
|
else {
|
|
467
|
if ($numberOfTeamMembers != $currentRecord) {
|
|
468
|
$referenceString .= $teamMember->titleCache. " & ";
|
|
469
|
}
|
|
470
|
else {
|
|
471
|
$referenceString .= $teamMember->titleCache;
|
|
472
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? "" : ". ");
|
|
473
|
}
|
|
474
|
$currentRecord += 1;
|
|
475
|
}
|
|
476
|
}
|
|
477
|
|
|
478
|
|
|
479
|
}
|
|
480
|
else if ($reference->citation->authorTeam->titleCache != "-empty team-"){
|
|
481
|
$referenceString .= $reference->citation->authorTeam->titleCache;
|
|
482
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? "" : ". ");
|
|
483
|
}
|
|
484
|
else {
|
|
485
|
$isCitationTitleCache = true;
|
|
486
|
$referenceString .= $reference->citation->titleCache;
|
|
487
|
}
|
|
488
|
if (!empty($reference->citation->datePublished->start)) {
|
|
489
|
$referenceString .= substr($reference->citation->datePublished->start,0,4);
|
|
490
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? "" : ". ");
|
|
491
|
}
|
|
492
|
if ($isCitationTitleCache == false && !empty($reference->citation->title)) {
|
|
493
|
$referenceString .= $reference->citation->title;
|
|
494
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? "" : ". ");
|
|
495
|
}
|
|
496
|
if (!empty($reference->citation->publisher)) {
|
|
497
|
$referenceString .= $reference->citation->publisher;
|
|
498
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? "" : ". ");
|
|
499
|
}
|
|
500
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? "" : ". ");
|
|
501
|
$referenceString .= "</li>";
|
|
502
|
break;
|
|
503
|
case "BookSection":
|
|
504
|
$referenceString .= "<li class=\"descriptionText DescriptionElement\">";
|
|
505
|
$numberOfTeamMembers = count($reference->citation->authorTeam->teamMembers);
|
|
506
|
$currentRecord = 1;
|
|
507
|
if (!empty($reference->citation->authorTeam->teamMembers)) {
|
|
508
|
foreach ($reference->citation->authorTeam->teamMembers as $teamMember) {
|
|
509
|
if(!empty($teamMember->lastname)) {
|
|
510
|
if ($numberOfTeamMembers != $currentRecord) {
|
|
511
|
$referenceString .= $teamMember->lastname . ", " . $teamMember->firstname. " & ";
|
|
512
|
}
|
|
513
|
else {
|
|
514
|
$referenceString .= $teamMember->lastname . ", " . $teamMember->firstname;
|
|
515
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? "" : ". ");
|
|
516
|
}
|
|
517
|
$currentRecord += 1;
|
|
518
|
}
|
|
519
|
else {
|
|
520
|
if ($numberOfTeamMembers != $currentRecord) {
|
|
521
|
$referenceString .= $teamMember->titleCache. " & ";
|
|
522
|
}
|
|
523
|
else {
|
|
524
|
$referenceString .= $teamMember->titleCache;
|
|
525
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? "" : ". ");
|
|
526
|
}
|
|
527
|
$currentRecord += 1;
|
|
528
|
}
|
|
529
|
}
|
|
530
|
}
|
|
531
|
$referenceString .= substr($reference->citation->inReference->datePublished->start,0,4) . ". " . $reference->citation->title . ". " . "Pages ". $reference->citation->pages . ". In ";
|
|
532
|
$numberOfTeamMembersInReference = count($reference->citation->inReference->authorTeam->teamMembers);
|
|
533
|
$currentRecordinReference = 1;
|
|
534
|
if (!empty($reference->citation->inReference->authorTeam->teamMembers)) {
|
|
535
|
foreach ($reference->citation->inReference->authorTeam->teamMembers as $teamMember) {
|
|
536
|
if(!empty($teamMember->lastname)) {
|
|
537
|
if ($numberOfTeamMembers != $currentRecord) {
|
|
538
|
$referenceString .= $teamMember->lastname . ", " . $teamMember->firstname. " & ";
|
|
539
|
}
|
|
540
|
else {
|
|
541
|
$referenceString .= $teamMember->lastname . ", " . $teamMember->firstname;
|
|
542
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? "" : ". ");
|
|
543
|
}
|
|
544
|
$currentRecord += 1;
|
|
545
|
}
|
|
546
|
else {
|
|
547
|
if ($numberOfTeamMembers != $currentRecord) {
|
|
548
|
$referenceString .= $teamMember->titleCache. " & ";
|
|
549
|
}
|
|
550
|
else {
|
|
551
|
$referenceString .= $teamMember->titleCache;
|
|
552
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? "" : ". ");
|
|
553
|
}
|
|
554
|
$currentRecord += 1;
|
|
555
|
}
|
|
556
|
}
|
|
557
|
}
|
|
558
|
|
|
559
|
$referenceString .= $reference->citation->inReference->title . ". " . $reference->citation->inReference->publisher . ". " . $reference->citation->inReference->placePublished;
|
|
560
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? "" : ". ");
|
|
561
|
|
|
562
|
|
|
563
|
$referenceString .= "</li>";
|
|
564
|
break;
|
|
565
|
|
|
566
|
|
|
567
|
case "WebPage" :
|
|
568
|
$referenceString .= "<li class=\"descriptionText DescriptionElement\">" . $reference->citation->titleCache . "</li>";
|
|
569
|
break;
|
|
570
|
case "Generic" :
|
|
571
|
$referenceString .= "<li class=\"descriptionText DescriptionElement\">";
|
|
572
|
$numberOfTeamMembers = count($reference->citation->authorTeam->teamMembers);
|
|
573
|
$currentRecord = 1;
|
|
574
|
if (!empty($reference->citation->authorTeam->teamMembers)) {
|
|
575
|
foreach ($reference->citation->authorTeam->teamMembers as $teamMember) {
|
|
576
|
if(!empty($teamMember->lastname)) {
|
|
577
|
if ($currentRecord == 1) {
|
|
578
|
$referenceString .= $teamMember->lastname . ", " . $teamMember->firstname;
|
|
579
|
}
|
|
580
|
else if ($numberOfTeamMembers != $currentRecord) {
|
|
581
|
$referenceString .= " , " . $teamMember->lastname . ", " . $teamMember->firstname;
|
|
582
|
}
|
|
583
|
else {
|
|
584
|
$referenceString .= " & " . $teamMember->lastname . ", " . $teamMember->firstname;
|
|
585
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? ' ' : ". ");
|
|
586
|
}
|
|
587
|
$currentRecord += 1;
|
|
588
|
}
|
|
589
|
else {
|
|
590
|
if ($numberOfTeamMembers != $currentRecord) {
|
|
591
|
$referenceString .= $teamMember->titleCache. " & ";
|
|
592
|
}
|
|
593
|
else {
|
|
594
|
$referenceString .= $teamMember->titleCache;
|
|
595
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? ' ' : ". ");
|
|
596
|
}
|
|
597
|
$currentRecord += 1;
|
|
598
|
}
|
|
599
|
}
|
|
600
|
}
|
|
601
|
else {
|
|
602
|
$referenceString .= $reference->citation->authorTeam->titleCache;
|
|
603
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? " " : ". ");
|
|
604
|
}
|
|
605
|
/*else {
|
|
606
|
$referenceString .= $teamMember->lastname . ", " . $teamMember->firstname . " ";
|
|
607
|
}*/
|
|
608
|
if (!empty($reference->citation->datePublished->start)) {
|
|
609
|
$referenceString .= substr($reference->citation->datePublished->start,0,4);
|
|
610
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? "" : ". ");
|
|
611
|
}
|
|
612
|
$referenceString .= $reference->citation->title . ". " . $reference->citation->publisher;
|
|
613
|
$referenceString .= ((str_endsWith($referenceString, ".") || str_endsWith($referenceString, ". ")) ? "" : ". ");
|
|
614
|
$referenceString .= "</li>";
|
|
615
|
break;
|
|
616
|
default:
|
|
617
|
|
|
618
|
//$author_team = cdm_ws_get(CDM_WS_REFERENCE_AUTHORTEAM, $reference->citation->uuid);
|
|
619
|
|
|
620
|
/*if(!empty($author_team->titleCache)) {
|
|
621
|
$referenceString.= print_r($reference->citation);
|
|
622
|
$referenceString .= '<li class="descriptionText DescriptionElement">' . "<b>" . $reference->citation->title . ":" . "</b>" . $author_team->titleCache . '</li>';
|
|
623
|
}
|
|
624
|
else {
|
|
625
|
$referenceString .= '<li class="descriptionText DescriptionElement">' ."<b>" . $reference->citation->titleCache . "</b>" . '</li>';
|
|
626
|
}
|
|
627
|
if ($referenceCitation){
|
|
628
|
$sourceRefs = $referenceCitation;
|
|
629
|
//$referenceString .= "[titleccache] " . $descriptionElementBiblio->feature->titleCache . "[/titlecache]";
|
|
630
|
//$referenceString .= "[Class] " . $descriptionElementBiblio->class . "[/class]";
|
|
631
|
//$referenceString .= "[sourceref]" . $sourceRefs . "[/sourceRef]";
|
|
632
|
}*/
|
|
633
|
break;
|
|
634
|
}
|
|
635
|
$outTemp[] = $referenceString;
|
|
636
|
}
|
|
637
|
sort($outTemp);
|
|
638
|
|
|
639
|
foreach ($outTemp as $refString) {
|
|
640
|
$out .= $refString;
|
|
641
|
}
|
|
642
|
|
|
643
|
$out .= "</ul></div>";
|
|
644
|
return $out;
|
|
645
|
}
|
|
646
|
|
|
647
|
function palmweb_2_cdm_media_caption($media, $elements = array('title', 'description', 'artist', 'location', 'rights'), $fileUri = null){
|
|
648
|
|
|
649
|
$media_metadata = cdm_read_media_metadata($media);
|
|
650
|
|
|
651
|
$doTitle= !$elements || array_search('title', $elements)!== false;
|
|
652
|
$doDescription = !$elements || array_search('description', $elements)!== false;
|
|
653
|
$doArtist = !$elements || array_search('artist', $elements)!== false;
|
|
654
|
$doLocation = !$elements || array_search('location', $elements)!== false;
|
|
655
|
$doRights = !$elements || array_search('rights', $elements)!== false;
|
|
656
|
|
|
657
|
$descriptionPrefix = "";
|
|
658
|
|
|
659
|
$out = '<dl class="media-caption">';
|
|
660
|
//title
|
|
661
|
if($doTitle) {
|
|
662
|
if($media_metadata['title']){
|
|
663
|
$out .= '<dt class = "title">' . t('Title') . '</dt> <dd class = "title">' . $media_metadata['title'] . '</dd>';
|
|
664
|
$descriptionPrefix = "- ";
|
|
665
|
} else if(!($doDescription && $media_metadata['description'])) {
|
|
666
|
// use filename as fallbackoption if no description will be shown
|
|
667
|
$out .= '<dt class = "title">' . t('Title') . '</dt> <dd class = "title">' . $media_metadata['filename'] . '</dd>';
|
|
668
|
$descriptionPrefix = "- ";
|
|
669
|
}
|
|
670
|
}
|
|
671
|
//description
|
|
672
|
if($media_metadata['description'] && $doDescription) {
|
|
673
|
$out .= '<dt class = "description">' . t('Description') . '</dt> <dd class = "description">' . $descriptionPrefix . $media_metadata['description'] . '</dd>';
|
|
674
|
}
|
|
675
|
//artist
|
|
676
|
if($media_metadata['artist'] && $doArtist) {
|
|
677
|
$out .= '<dt class = "artist">' . t('Artist') . '</dt> <dd class = "astist">' . str_replace("'","", $media_metadata['artist']) . '</dd>';
|
|
678
|
}
|
|
679
|
//location
|
|
680
|
if($doLocation){
|
|
681
|
$location = '';
|
|
682
|
$location .= $media_metadata['location']['sublocation'];
|
|
683
|
if ($location && $media_metadata['location']['city']){
|
|
684
|
$location .= ', ';
|
|
685
|
}
|
|
686
|
$location .= $media_metadata['location']['city'];
|
|
687
|
if ($location && $media_metadata['location']['province']){
|
|
688
|
$location .= ', ';
|
|
689
|
}
|
|
690
|
$location .= $media_metadata['location']['province'];
|
|
691
|
if ($location && $media_metadata['location']['country']){
|
|
692
|
$location .= ' (' . $media_metadata['location']['country'] . ')';
|
|
693
|
} else {
|
|
694
|
$location .= $media_metadata['location']['country'];
|
|
695
|
}
|
|
696
|
if ($location){
|
|
697
|
$out .= '<dt class = "location">' . t('Location') . '</dt> <dd class = "location">' . $location . '</dd>';
|
|
698
|
}
|
|
699
|
}
|
|
700
|
//rights
|
|
701
|
if($doRights){
|
|
702
|
$rights = '';
|
|
703
|
//copyrights
|
|
704
|
$cnt = count($media_metadata['rights']['copyright']['agentNames']);
|
|
705
|
if($cnt > 0){
|
|
706
|
$rights .= '<dt class="rights">©</dt> <dd class="rights"> ';
|
|
707
|
for($i = 0; $i < $cnt; $i++){
|
|
708
|
$rights .= str_replace("'","", $media_metadata['rights']['copyright']['agentNames'][$i]);
|
|
709
|
if($i+1 < $cnt){
|
|
710
|
$rights .= ' / ';
|
|
711
|
}
|
|
712
|
}
|
|
713
|
$rights .= '</dd>';
|
|
714
|
}
|
|
715
|
//license
|
|
716
|
$cnt = count($media_metadata['rights']['license']['agentNames']);
|
|
717
|
if($cnt > 0){
|
|
718
|
$rights .= '<dt class ="license">' . t('License') . '</dt> <dd class = "license">';
|
|
719
|
for($i = 0; $i < $cnt; $i++){
|
|
720
|
$rights .= $media_metadata['rights']['license']['agentNames'][$i];
|
|
721
|
if ($i+1 < $cnt){
|
|
722
|
$rights .= ' / ';
|
|
723
|
}
|
|
724
|
}
|
|
725
|
$rights .= '</dd>';
|
|
726
|
}
|
|
727
|
if($rights){
|
|
728
|
$out .= $rights . '</dt>';
|
|
729
|
}
|
|
730
|
}
|
|
731
|
//TODO add all other metadata elemenst generically
|
|
732
|
$out .= '</dl>';
|
|
733
|
//return value
|
|
734
|
return $out;
|
|
735
|
}
|
|
736
|
|
|
737
|
|
|
738
|
|
|
739
|
|
|
740
|
|
|
741
|
|
|
742
|
/**
|
|
743
|
*
|
|
744
|
* Enter description here ...
|
|
745
|
* @param unknown_type $reference
|
|
746
|
* @param unknown_type $microReference
|
|
747
|
* @param unknown_type $doLink
|
|
748
|
* @param unknown_type $referenceStyle
|
|
749
|
*/
|
|
750
|
function palmweb_2_cdm_reference($reference, $microReference = null, $doLink = FALSE, $referenceStyle = NULL ){
|
|
751
|
|
|
752
|
$author_team = cdm_ws_get(CDM_WS_REFERENCE_AUTHORTEAM, $reference->uuid);
|
|
753
|
|
|
754
|
$year = partialToYear($reference->datePublished->start);
|
|
755
|
$citation = _short_form_of_author_team ($author_team->titleCache) . ($year ? '. '.$year : '');
|
|
756
|
$citation = str_replace('..', '.', $citation);
|
|
757
|
|
|
758
|
if($doLink){
|
|
759
|
$out = l('<span class="reference">'.$citation.'</span>'
|
|
760
|
, path_to_reference($reference->uuid)
|
|
761
|
//, $_GET['q']
|
|
762
|
, array("class"=>"reference")
|
|
763
|
//, NULL, generalizeString('Bibliography'), FALSE ,TRUE);
|
|
764
|
, NULL, NULL, FALSE ,TRUE);
|
|
765
|
} else {
|
|
766
|
$out = '<span class="reference">'.$citation.'</span>';
|
|
767
|
}
|
|
768
|
//FIXME use microreference webservice instead
|
|
769
|
if(!empty($descriptionElementSource->citationMicroReference)){
|
|
770
|
$out .= ': '. $descriptionElementSource->citationMicroReference;
|
|
771
|
}
|
|
772
|
|
|
773
|
return $out;
|
|
774
|
}
|
|
775
|
|
|
776
|
|
|
777
|
/*function palmweb_2_cdm_reference_page($referenceTO){
|
|
778
|
//print_r($referenceTO);
|
|
779
|
$author_team = cdm_ws_get(CDM_WS_REFERENCE_AUTHORTEAM, $referenceTO->uuid);
|
|
780
|
$nomenclatural = cdm_ws_get('portal/taxon/$0/descriptions', '1d91bd71-7109-4916-872f-a82b710a9cdf');
|
|
781
|
|
|
782
|
print_r($nomenclatural);
|
|
783
|
return "TOTO";
|
|
784
|
}*/
|
|
785
|
|
|
786
|
|
|
787
|
/**
|
|
788
|
* Sets the body-tag class attribute.
|
|
789
|
*
|
|
790
|
* Adds 'sidebar-left', 'sidebar-right' or 'sidebars' classes as needed.
|
|
791
|
*/
|
|
792
|
function phptemplate_body_class($sidebar_left, $sidebar_right) {
|
|
793
|
if ($sidebar_left != '' && $sidebar_right != '') {
|
|
794
|
$class = 'sidebars';
|
|
795
|
}
|
|
796
|
else {
|
|
797
|
if ($sidebar_left != '') {
|
|
798
|
$class = 'sidebar-left';
|
|
799
|
}
|
|
800
|
if ($sidebar_right != '') {
|
|
801
|
$class = 'sidebar-right';
|
|
802
|
}
|
|
803
|
}
|
|
804
|
|
|
805
|
if (isset($class)) {
|
|
806
|
print ' class="'. $class .'"';
|
|
807
|
}
|
|
808
|
}
|
|
809
|
|
|
810
|
/**
|
|
811
|
* Return a themed breadcrumb trail.
|
|
812
|
*
|
|
813
|
* @param $breadcrumb
|
|
814
|
* An array containing the breadcrumb links.
|
|
815
|
* @return a string containing the breadcrumb output.
|
|
816
|
*/
|
|
817
|
function phptemplate_breadcrumb($breadcrumb) {
|
|
818
|
if (!empty($breadcrumb)) {
|
|
819
|
return '<div class="breadcrumb">'. implode(' › ', $breadcrumb) .'</div>';
|
|
820
|
}
|
|
821
|
}
|
|
822
|
|
|
823
|
/**
|
|
824
|
* Allow themable wrapping of all comments.
|
|
825
|
*/
|
|
826
|
function phptemplate_comment_wrapper($content, $type = null) {
|
|
827
|
static $node_type;
|
|
828
|
if (isset($type)) $node_type = $type;
|
|
829
|
|
|
830
|
if (!$content || $node_type == 'forum') {
|
|
831
|
return '<div id="comments">'. $content . '</div>';
|
|
832
|
}
|
|
833
|
else {
|
|
834
|
return '<div id="comments"><h2 class="comments">'. t('Comments') .'</h2>'. $content .'</div>';
|
|
835
|
}
|
|
836
|
}
|
|
837
|
|
|
838
|
/**
|
|
839
|
* Override or insert PHPTemplate variables into the templates.
|
|
840
|
*/
|
|
841
|
function _phptemplate_variables($hook, $vars) {
|
|
842
|
if ($hook == 'page') {
|
|
843
|
|
|
844
|
if ($secondary = menu_secondary_local_tasks()) {
|
|
845
|
$output = '<span class="clear"></span>';
|
|
846
|
$output .= "<ul class=\"tabs secondary\">\n". $secondary ."</ul>\n";
|
|
847
|
$vars['tabs2'] = $output;
|
|
848
|
}
|
|
849
|
|
|
850
|
// Hook into color.module
|
|
851
|
if (module_exists('color')) {
|
|
852
|
_color_page_alter($vars);
|
|
853
|
}
|
|
854
|
return $vars;
|
|
855
|
}
|
|
856
|
return array();
|
|
857
|
}
|
|
858
|
|
|
859
|
/**
|
|
860
|
* Returns the rendered local tasks. The default implementation renders
|
|
861
|
* them as tabs.
|
|
862
|
*
|
|
863
|
* @ingroup themeable
|
|
864
|
*/
|
|
865
|
function phptemplate_menu_local_tasks() {
|
|
866
|
$output = '';
|
|
867
|
|
|
868
|
if ($primary = menu_primary_local_tasks()) {
|
|
869
|
$output .= "<ul class=\"tabs primary\">\n". $primary ."</ul>\n";
|
|
870
|
}
|
|
871
|
|
|
872
|
return $output;
|
|
873
|
}
|
|
874
|
|
|
875
|
function palmweb_2_get_partDefinition($nameType){
|
|
876
|
if($nameType == 'BotanicalName'){
|
|
877
|
return array(
|
|
878
|
'namePart' => array(
|
|
879
|
'name' => true,
|
|
880
|
'authors' => true,
|
|
881
|
),
|
|
882
|
'authorshipPart' => array(
|
|
883
|
),
|
|
884
|
'referencePart' => array(
|
|
885
|
'reference' => true,
|
|
886
|
'microreference' => true
|
|
887
|
),
|
|
888
|
'statusPart' => array(
|
|
889
|
'status' => true,
|
|
890
|
),
|
|
891
|
'descriptionPart' => array(
|
|
892
|
'description' => true,
|
|
893
|
),
|
|
894
|
);
|
|
895
|
}
|
|
896
|
return false;
|
|
897
|
}
|
|
898
|
|
|
899
|
function palmweb_2_get_nameRenderTemplate($renderPath){
|
|
900
|
|
|
901
|
switch($renderPath) {
|
|
902
|
case 'acceptedFor':
|
|
903
|
$template = array(
|
|
904
|
'namePart' => array('#uri'=>true),
|
|
905
|
);
|
|
906
|
break;
|
|
907
|
case 'typedesignations':
|
|
908
|
$template = array(
|
|
909
|
'namePart' => array('#uri'=>true),
|
|
910
|
'referencePart' => true
|
|
911
|
);
|
|
912
|
case 'taxon_page_title':
|
|
913
|
case 'list_of_taxa':
|
|
914
|
case 'taxon_page_synonymy':
|
|
915
|
case 'related_taxon':
|
|
916
|
case 'polytomousKey':
|
|
917
|
case '#DEFAULT':
|
|
918
|
$template = array(
|
|
919
|
'namePart' => array('#uri'=>true),
|
|
920
|
'referencePart' => true,
|
|
921
|
'descriptionPart' => true,
|
|
922
|
'statusPart' => true
|
|
923
|
);
|
|
924
|
}
|
|
925
|
return $template;
|
|
926
|
}
|
|
927
|
|
|
928
|
function palmweb_2_cdm_feature_name($feature_name){
|
|
929
|
switch($feature_name){
|
|
930
|
case "Protologue": return t("Original Publication");
|
|
931
|
default: return t(ucfirst($feature_name));
|
|
932
|
}
|
|
933
|
}
|
|
934
|
|
|
935
|
function palmweb_2_cdm_taxon_page_title($taxon, $uuid, $synonym_uuid){
|
|
936
|
RenderHints::pushToRenderStack('taxon_page_title');
|
|
937
|
$synonym = cdm_ws_get(CDM_WS_PORTAL_TAXON, $synonym_uuid);
|
|
938
|
if(isset($taxon->name->nomenclaturalReference)){
|
|
939
|
$referenceUri = url(path_to_reference($taxon->name->nomenclaturalReference->uuid));
|
|
940
|
}
|
|
941
|
$out = theme('cdm_taxonName', $taxon->name, null, $referenceUri, false);
|
|
942
|
|
|
943
|
RenderHints::popFromRenderStack();
|
|
944
|
if ($synonym->name->titleCache){
|
|
945
|
$result = '<span class = "synonym_title">' .$synonym->name->titleCache . ' is synonym of ' .'</span>'.
|
|
946
|
'<span class="'.$taxon->class.'">'.$out.'</span>';
|
|
947
|
}else{
|
|
948
|
$result = '<span class="'.$taxon->class.'">'.$out.'</span>';
|
|
949
|
}
|
|
950
|
return $result;
|
|
951
|
|
|
952
|
}
|
|
953
|
|
|
954
|
function palmweb_2_cdm_uri_to_synonym($synonymUuid, $acceptedUuid, $pagePart = null) {
|
|
955
|
$acceptedPath = path_to_taxon($acceptedUuid, true);
|
|
956
|
return url($acceptedPath . ($pagePart ? '/'.$pagePart : '') . '/'.$synonymUuid, 'highlite='.$synonymUuid);
|
|
957
|
//return url($acceptedPath.($pagePart ? '/'.$pagePart : ''), 'highlite='.$synonymUuid, $synonymUuid."/$synonymUuid");
|
|
958
|
//return url("$acceptedPath/$synonymUuid".($pagePart ? '/'.$pagePart : ''), 'highlite='.$synonymUuid);
|
|
959
|
}
|
