function DisplayHtmlContent() { global $config; global $db; $this->display_disqus = false; echo html_page_header(true, '', 'name'); echo '<h1>' . $this->GetTitle() . '</h1>'; echo '<h2>' . num_cited_by($this->id) . " citations" . '</h2>'; echo '<p class="explanation">References in BioStor that cite this reference</p>' . "\n"; $sql = 'SELECT DISTINCT(rdmp_reference_cites.reference_id) FROM rdmp_reference_citation_string_joiner INNER JOIN rdmp_reference_cites USING(citation_string_id) WHERE rdmp_reference_citation_string_joiner.reference_id=' . $this->id; $result = $db->Execute($sql); if ($result == false) { die("failed [" . __FILE__ . ":" . __LINE__ . "]: " . $sql); } echo '<ul>' . "\n"; while (!$result->EOF) { $reference = db_retrieve_reference($result->fields['reference_id']); echo '<li style="border-bottom:1px dotted rgb(128,128,128);padding:4px;">'; echo '<a href="' . $config['web_root'] . 'reference/' . $result->fields['reference_id'] . '">' . $reference->title . '</a><br/>'; echo '<span style="color:green;">' . reference_authors_to_text_string($reference); if (isset($reference->year)) { echo ' (' . $reference->year . ')'; } echo ' ' . reference_to_citation_text_string($reference) . '</span>'; echo ' ' . reference_to_coins($reference); echo '</li>'; $result->MoveNext(); } echo '</ul>' . "\n"; }
function DisplayHtmlContent() { global $config; echo html_page_header(true, '', 'name'); echo '<div style="float:right;background-color:rgb(230,242,250);padding:6px">' . "\n"; if ($this->issn != '') { echo '<h2>Identifiers</h2>' . "\n"; echo '<ul class="guid-list">' . "\n"; echo '<li class="permalink"><a href="' . $config['web_root'] . 'issn/' . $this->issn . '" title="Permalink">' . $config['web_root'] . 'issn/' . $this->issn . '</a></li>' . "\n"; echo '<li class="worldcat"><a href="http://www.worldcat.org/issn/' . $this->issn . '" title="ISSN">' . $this->issn . '</a></li>' . "\n"; echo '<h2>Export</h2>' . "\n"; echo '<ul class="export-list">' . "\n"; echo '<li class="xml"><a href="' . $config['web_root'] . 'issn/' . $this->issn . '.xml" title="Endnote XML">Endnote XML</a></li>'; echo '<li class="ris"><a href="' . $config['web_root'] . 'issn/' . $this->issn . '.ris" title="RIS">Reference manager</a></li>'; echo '<li class="bibtex"><a href="' . $config['web_root'] . 'issn/' . $this->issn . '.bib" title="BibTex">BibTex</a></li>'; echo '<li class="text"><a href="' . $config['web_root'] . 'issn/' . $this->issn . '.text" title="text">Text</a></li>'; echo '</ul>' . "\n"; } if ($this->oclc != '') { echo '<h2>Identifiers</h2>' . "\n"; echo '<ul class="guid-list">' . "\n"; echo '<li class="permalink"><a href="' . $config['web_root'] . 'oclc/' . $this->oclc . '" title="Permalink">' . $config['web_root'] . 'oclc/' . $this->oclc . '</a></li>' . "\n"; echo '<li class="worldcat"><a href="http://www.worldcat.org/oclc/' . $this->oclc . '" title="OCLC">' . $this->oclc . '</a></li>' . "\n"; echo '<h2>Export</h2>' . "\n"; echo '<ul class="export-list">' . "\n"; echo '<li class="xml"><a href="' . $config['web_root'] . 'oclc/' . $this->oclc . '.xml" title="Endnote XML">Endnote XML</a></li>'; echo '<li class="ris"><a href="' . $config['web_root'] . 'oclc/' . $this->oclc . '.ris" title="RIS">Reference manager</a></li>'; echo '<li class="bibtex"><a href="' . $config['web_root'] . 'oclc/' . $this->oclc . '.bib" title="BibTex">BibTex</a></li>'; echo '<li class="text"><a href="' . $config['web_root'] . 'oclc/' . $this->oclc . '.text" title="text">Text</a></li>'; echo '</ul>' . "\n"; } echo '</div>' . "\n"; echo '<h1>' . $this->GetTitle() . '</h1>'; // Image if (isset($this->issn)) { echo '<div>'; echo '<img src="http://bioguid.info/issn/image.php?issn=' . $this->issn . '" alt="cover" style="border:1px solid rgb(228,228,228);height:100px;" />'; echo '</div>'; } // Stats /* echo '<div>'; echo '<img src="' . sparkline_articles_added_for_issn($this->issn) . '" alt="sparkline" />'; echo '</div>';*/ echo '<a href="http://twitter.com/share" class="twitter-share-button" data-count="vertical" data-via="rdmpage" data-related="biostor_org">Tweet</a><script type="text/javascript" src="http://platform.twitter.com/widgets.js"></script>'; echo '<h2>Coverage</h2>' . "\n"; echo '<p>'; if ($this->issn != '') { echo bhl_articles_for_issn($this->issn); } if ($this->oclc != '') { echo bhl_articles_for_oclc($this->oclc); } echo ' articles in database.</p>' . "\n"; echo '<h3>Distribution of identified articles over time</h3>' . "\n"; echo '<div>' . "\n"; echo ' <img src="' . sparkline_references($this->issn, $this->oclc, 360, 100) . '" alt="sparkline" />' . "\n"; echo '</div>' . "\n"; $titles = array(); if ($this->issn != '') { $titles = bhl_titles_for_issn($this->issn); } if ($this->oclc != '') { $titles = bhl_titles_for_oclc($this->oclc); } if (count($titles) > 0) { echo '<h3>Distribution of identified articles across BHL items</h3>' . "\n"; echo '<div>'; echo '<div style="display:inline;background-color:rgb(230,242,250);width:20px;height:20px;"> </div>'; echo ' Scanned pages '; echo '<div style="display:inline;background-color:rgb(0,119,204);width:10px;height:10px;"> </div>'; echo ' Articles '; echo '</div>'; echo '<p></p>'; $items = array(); $volumes = array(); items_from_titles($titles, $items, $volumes); $html = '<div style="height:400px;border:1px solid rgb(192,192,192);overflow:auto;">' . "\n"; $html .= '<table>' . "\n"; $html .= '<tbody style="font-size:10px;">' . "\n"; foreach ($volumes as $volume) { $item = $items[$volume]; // How many pages in this item? $num_pages = bhl_num_pages_in_item($item->ItemID); // Coverage $coverage = bhl_item_page_coverage($item->ItemID); $row_height = 10; // Draw as DIV $html .= '<tr>' . "\n"; $html .= '<td>'; $html .= '<a href="http://www.biodiversitylibrary.org/item/' . $item->ItemID . '" target="_new">'; $html .= $item->VolumeInfo; $html .= '</a>'; $html .= '</td>' . "\n"; $html .= '<td>' . "\n"; $html .= '<div style="position:relative">' . "\n"; $html .= ' <div style="background-color:rgb(230,242,250);border-bottom:1px solid rgb(192,192,192);border-right:1px solid rgb(192,192,192);position:absolute;left:0px;top:0px;width:' . $num_pages . 'px;height:' . $row_height . 'px;">' . "\n"; foreach ($coverage as $c) { $html .= ' <div style="background-color:rgb(0,119,204);position:absolute;left:' . $c->start . 'px;top:0px;width:' . ($c->end - $c->start) . 'px;height:' . $row_height . 'px;">' . "\n"; $html .= ' </div>' . "\n"; } $html .= ' </div>' . "\n"; $html .= '</div>' . "\n"; $html .= '</td>' . "\n"; $html .= '</tr>' . "\n"; } $html .= '</tbody>' . "\n"; $html .= '</table>' . "\n"; $html .= '</div>' . "\n"; echo $html; } $institutions = institutions_from_titles($titles); if (count($institutions) != 0) { echo '<h3>BHL source(s)</h3>' . "\n"; echo '<table>' . "\n"; foreach ($institutions as $k => $v) { echo '<tr>' . "\n"; echo '<td>' . "\n"; switch ($k) { case 'American Museum of Natural History Library': echo '<img src="' . $config['web_root'] . 'images/institutions/' . 'AMNH_logo_--_blue_rectangle.jpg' . '" width="48" />'; break; case 'Harvard University, MCZ, Ernst Mayr Library': echo '<br /><img src="' . $config['web_root'] . 'images/institutions/' . 'Mod_Color_Harvard_Shield_small_bigger.jpg' . '" width="48" />'; break; case 'Missouri Botanical Garden': echo '<br /><img src="' . $config['web_root'] . 'images/institutions/' . 'twitter_icon_MBG.jpg' . '" width="48" />'; break; case 'New York Botanical Garden': echo '<br /><img src="' . $config['web_root'] . 'images/institutions/' . 'NYBGDOMEHEADERWEB.jpg' . '" />'; break; case 'Smithsonian Institution Libraries': echo '<br /><img src="' . $config['web_root'] . 'images/institutions/' . 'SILCatesbyMagnolia.jpg' . '" width="48" />'; break; case 'The Field Museum': echo '<br /><img src="' . $config['web_root'] . 'images/institutions/' . 'field.jpg' . '" width="48" />'; break; case 'BHL-Europe': echo '<br /><div style="background-color:green;width:120px;text-align:center"><img src="' . $config['web_root'] . 'images/institutions/' . 'BHL_logo_wg.png' . '" height="48" /></div>'; break; case 'Boston Public Library': echo '<br /><img src="' . $config['web_root'] . 'images/institutions/' . 'BPLcards.jpg' . '" width="48" />'; break; case 'Harvard University Herbarium': echo '<br /><img src="' . $config['web_root'] . 'images/institutions/' . 'huh_logo_bw_100.png' . '" width="48" />'; break; case 'MBLWHOI Library': echo '<br /><img src="' . $config['web_root'] . 'images/institutions/' . 'library_logo2_bigger.jpg' . '" width="48" />'; break; case 'Natural History Museum, London': echo '<br /><img src="' . $config['web_root'] . 'images/institutions/' . 'natural_history_museum-01.jpg' . '" width="48" />'; break; case 'University of Illinois Urbana Champaign': echo '<br /><img src="' . $config['web_root'] . 'images/institutions/' . 'ilogo_horz_bold.gif' . '" height="48" />'; break; default: break; } echo '</td>' . "\n"; echo '<td>' . "\n"; echo $k . '<br />' . $v . ' items'; echo '</td>' . "\n"; echo '</tr>' . "\n"; } echo '</table>' . "\n"; } // How does journal relate to BHL Titles and Items? $titles = array(); if ($this->issn != '') { $titles = db_retrieve_journal_names_from_issn($this->issn); } if ($this->oclc != '') { $titles = db_retrieve_journal_names_from_oclc($this->oclc); } if (count($titles) > 1) { echo '<h2>Alternative titles</h2>'; echo '<ul>'; foreach ($titles as $title) { echo '<li>' . $title . '</li>'; } echo '</ul>'; } echo '<h2>Articles</h2>'; if ($this->issn == '0374-5481') { // Special treatment for Ann mag Nat Hist echo '<ul>'; for ($series = 1; $series <= 9; $series++) { echo '<li><a href="' . $config['web_root'] . 'issn/' . $this->issn . '#series' . $series . '">Series ' . $series . '</a></li>'; } echo '</ul>'; for ($series = 1; $series <= 9; $series++) { echo '<h3><a name="series' . $series . '"></a>Series ' . $series . '</h3>' . "\n"; $articles = db_retrieve_articles_from_journal_series($this->issn, $series == 1 ? '' : $series); echo '<ul>'; foreach ($articles as $k => $v) { echo '<li style="display:block;border-top:1px solid #EEE; ">' . $k; echo '<ul>'; if (is_array($v)) { foreach ($v as $ref) { echo '<li><a href="' . $config['web_root'] . 'reference/' . $ref->id . '">' . $ref->title . '</a></li>'; } } echo '</ul>'; echo '</li>'; } echo '</ul>'; } } else { $articles = db_retrieve_articles_from_journal($this->issn, $this->oclc); //print_r($articles); echo '<ul>'; foreach ($articles as $k => $v) { echo '<li style="display:block;border-top:1px solid #EEE; ">' . $k; echo '<ul>'; if (is_array($v)) { foreach ($v as $ref) { if (0) { // fast echo '<li><a href="' . $config['web_root'] . 'reference/' . $ref->id . '">' . $ref->title . '</a></li>'; } else { // slower, but useful for debugging $reference = db_retrieve_reference($ref->id); echo '<li style="border-bottom:1px dotted rgb(128,128,128);padding:4px;">'; echo '<a href="' . $config['web_root'] . 'reference/' . $ref->id . '">' . $reference->title . '</a><br/>'; echo '<span style="color:green;">' . reference_authors_to_text_string($reference); if (isset($reference->year)) { echo ' (' . $reference->year . ')'; } echo ' ' . reference_to_citation_text_string($reference) . '</span>'; echo ' ' . reference_to_coins($reference); // Thumbail, useful for debugging if (0) { echo '<div>'; $pages = bhl_retrieve_reference_pages($ref->id); $image = bhl_fetch_page_image($pages[0]->PageID); echo '<a href="' . $config['web_root'] . 'reference/' . $ref->id . '">'; echo '<img style="padding:2px;border:1px solid blue;margin:2px;" id="thumbnail_image_' . $page->PageID . '" src="' . $image->thumbnail->url . '" width="' . $image->thumbnail->width . '" height="' . $image->thumbnail->height . '" alt="thumbnail"/>'; echo '</a>'; echo '</div>'; } echo '</li>'; } } } else { // Article lacks volume if (isset($v->id)) { $reference = db_retrieve_reference($v->id); echo '<li style="border-bottom:1px dotted rgb(128,128,128);padding:4px;">'; echo '<a href="' . $config['web_root'] . 'reference/' . $v->id . '">' . $reference->title . '</a><br/>'; echo '<span style="color:green;">' . reference_authors_to_text_string($reference); if (isset($reference->year)) { echo ' (' . $reference->year . ')'; } echo ' ' . reference_to_citation_text_string($reference) . '</span>'; echo ' ' . reference_to_coins($reference); } } echo '</ul>'; echo '</li>'; } echo '</ul>'; } }
function display_article_metadata($reference) { // Metadata -------------------------------------------------------------------------- if (isset($reference->journal)) { echo $reference->journal->name; if (isset($reference->journal->series)) { echo ' series ' . $reference->journal->series; } if (isset($reference->date)) { switch (count($reference->date)) { case 3: echo ' ' . date('j F Y', strtotime(join('-', $reference->date))); break; case 2: // Set date to first of month, but only show month echo ' ' . date('F Y', strtotime(join('-', $reference->date) . '-01')); break; case 1: echo ' ' . $reference->date[0]; break; default: break; } } else { if (isset($reference->year)) { echo ' ' . $reference->year; } } if (isset($reference->journal->volume)) { echo ' ' . $reference->journal->volume; } if (isset($reference->journal->issue)) { echo '(' . $reference->journal->issue . ')'; } if (isset($reference->journal->pages)) { echo ':' . str_replace('--', '-', $reference->journal->pages); } echo '<br />'; } if (isset($reference->identifier)) { foreach ($reference->identifier as $identifier) { switch ($identifier->type) { case 'doi': /* echo 'DOI: '; echo ' <a href="http://dx.doi.org/' . $identifier->id . '" target="_new"></i>' . $identifier->id . ' <span class="glyphicon glyphicon-new-window" aria-hidden="true"></span></a>'; echo '<br />'; */ echo '<span class="doi"><a href="http://dx.doi.org/' . $identifier->id . '" target="_new">' . $identifier->id . '</a></span>'; echo '<br />'; break; case 'jstor': echo ' <span class="jstor"><a href="http://www.jstor.org/stable/' . $identifier->id . '" target="_new">' . $identifier->id . '</a></span>'; echo '<br />'; break; case 'lsid': echo '<span class="lsid"><a href="http://lsid.tdwg.org/' . $identifier->id . '" target="_new">' . $identifier->id . '</a></span>'; echo '<br />'; break; default: break; } } } // Title ----------------------------------------------------------------------------- echo "<h3>" . $reference->title . "</h3>"; // Authors --------------------------------------------------------------------------- if (isset($reference->author)) { if (count($reference->author) > 0) { $authors = array(); foreach ($reference->author as $author) { $string = ''; if (isset($author->firstname)) { $string = $author->firstname . ' ' . $author->lastname; } else { $string = $author->name; } //$authors[] = '<a href="' . '?q=author:"' . $string . '"' . '">' . $string . '</a>'; $authors[] = '<a href="' . 'search/author:"' . $string . '"' . '">' . $string . '</a>'; } echo join(', ', $authors); } } // COinS ----------------------------------------------------------------------------- echo reference_to_coins($reference); /* echo '<pre>'; echo htmlentities(reference_to_google_scholar($reference)); echo '</pre>'; echo '<pre>'; echo htmlentities(reference_to_twitter($reference)); echo '</pre>'; echo '<pre>'; echo htmlentities(reference_to_coins($reference)); echo '</pre>'; echo '<pre>'; echo json_encode(reference_to_citeprocjs($reference), JSON_PRETTY_PRINT); echo '</pre>'; */ }
function DisplayHtmlContent() { global $config; echo html_page_header(true, '', 'name'); echo '<h1>' . $this->GetTitle() . '</h1>'; if (count($this->object->specimens) == 0) { echo '<p>No specimens with this code</p>'; } else { // What articles have this specimen? echo '<h2>References in BioStor with this specimen</h2>'; $refs = specimens_references_with_code($this->code); //print_r($refs); foreach ($refs as $occurrenceID => $ref_list) { if ($occurrenceID != 0) { echo '<p>GBIF occurrence <a class="gbif" href="http://data.gbif.org/occurrences/' . $occurrenceID . '/" target="_new">' . $occurrenceID . '</a>'; $datasetID = specimens_dataset_from_occurrence($occurrenceID); $dataset = specimens_dataset($datasetID); echo ' from dataset <a href="gbif_dataset.php?datasetID=' . $dataset->datasetID . '">' . $dataset->dataResourceName . ' (' . $dataset->providerName . ')' . '</a>'; echo '</p>'; $occurrence = specimens_from_occurrenceID($occurrenceID); echo '<p>' . $occurrence->scientificName . ' (' . join(':', $occurrence->lineage) . ')' . '</p>'; } else { echo '<p>(specimen not known in GBIF)</p>'; } echo '<table cellspacing="0" cellpadding="2" width="100%">'; foreach ($ref_list as $reference_id) { $reference = db_retrieve_reference($reference_id); echo '<tr'; if (in_array($reference_id, $act_refs)) { echo ' style="background-color:#D8F3C9;"'; } echo '>'; if ($reference->PageID != 0) { $image = bhl_fetch_page_image($reference->PageID); $imageURL = $image->thumbnail->url; } else { // if it's an article we could use journal image $imageURL = 'http://bioguid.info/issn/image.php?issn=' . $reference->issn; } echo '<td valign="top"><img style="border:1px solid rgb(192,192,192);" src="' . $imageURL . '" width="40" />'; echo '</td>'; echo '<td valign="top">'; echo '<a href="' . $config['web_root'] . 'reference/' . $reference_id . '">' . $reference->title . '</a><br/>'; echo '<span>' . reference_authors_to_text_string($reference); if (isset($reference->year)) { echo ' (' . $reference->year . ')'; } echo ' ' . reference_to_citation_text_string($reference) . '</span>'; echo ' ' . reference_to_coins($reference); if (0) { echo '<div>'; echo bhl_pages_with_name_thumbnails($reference_id, $this->object->NameBankID); echo '</div>'; } echo '</td>'; echo '</tr>'; } echo '</table>'; } } }
function display_search($text, $bookmark = '') { global $couch; global $config; $rows_per_page = 10; $q = $text; $q = str_replace(':', ',', $q); if ($q == '') { $obj = new stdclass(); $obj->rows = array(); $obj->total_rows = 0; $obj->bookmark = ''; } else { $url = '/_design/citation/_search/all?q=' . urlencode($q) . '&limit=' . $rows_per_page . '&include_docs=true'; if ($bookmark != '') { $url .= '&bookmark=' . $bookmark; } $resp = $couch->send("GET", "/" . $config['couchdb_options']['database'] . "/" . $url); $obj = json_decode($resp); //print_r($config); //echo $config['couchdb_options']['database'] . $url; //exit(); } echo '<!DOCTYPE html> <html> <head> <meta charset="utf-8"/> <!-- Le styles --> <link href="assets/css/bootstrap.css" rel="stylesheet"> <style type="text/css"> body { padding-top: 60px; padding-bottom: 40px; } .sidebar-nav { padding: 9px 0; } .item-links a { margin-right:40px; } </style> <link href="assets/css/bootstrap-responsive.css" rel="stylesheet"> <link href="font-awesome.css" media="screen" rel="stylesheet" type="text/css" /> <!-- Le HTML5 shim, for IE6-8 support of HTML5 elements --> <!--[if lt IE 9]> <script src="http://html5shim.googlecode.com/svn/trunk/html5.js"></script> <![endif]--> </head> <body> <div class="navbar navbar-fixed-top"> <div class="navbar-inner"> <div class="container"> <a class="btn btn-navbar" data-toggle="collapse" data-target=".nav-collapse"> <span class="icon-bar"></span> <span class="icon-bar"></span> <span class="icon-bar"></span> </a> <a class="brand" href=".">Biostor in the cloud</a> <div class="nav-collapse"> <ul class="nav"> <li class="active"><a href=".">Home</a></li> <li><a href="?page=about">About</a></li> </ul> </div><!--/.nav-collapse --> <form class="navbar-search pull-left" method="get" action="."> <input type="text" id=\'q\' name=\'q\' class="search-query" placeholder="Search" value="' . $q . '"> </form> </div> </div> </div> <div class="container-fluid">'; //print_r($obj); if (isset($obj->error)) { echo '<h3>Error</h3>'; echo '<p>' . $obj->reason . '</p>'; } else { $total_rows = $obj->total_rows; $bookmark = $obj->bookmark; echo '<h3>' . $total_rows . ' hit(s)' . '</h3>'; if ($total_rows > $rows_per_page) { echo '<p><a class="btn" href="?q=' . urlencode($q) . '&bookmark=' . $bookmark . '">More »</a></p>'; } //echo '<p>' . "Bookmark=$bookmark " . '<a href="?q=' . urlencode($q) . '&bookmark=' . $bookmark . '">more</a>' . '</p>'; echo '<table class="table">'; echo '<thead>'; echo '</thead>'; echo '<tbody>'; foreach ($obj->rows as $row) { $hit = $row->fields->default; $reference = $row->doc; $reference->id = $row->id; echo '<tr>'; echo '<td style="text-align:center;width:100px;">'; if (isset($reference->thumbnail)) { echo '<img style="box-shadow:2px 2px 2px #ccc;width:64px;" src="' . $reference->thumbnail . '">'; } echo '</td>'; echo '<td class="item-data">'; //echo $row->order[0]; //echo '<p class="lead">'; echo '<p style="font-size:21px;font-weight:200;line-height:30px;">'; echo '<a href="id/' . $reference->id . '">' . $reference->title . '</a>'; echo '</p>'; echo '<div>'; if (isset($reference->year)) { echo 'Published in <b>' . $reference->year . '</b>'; } if (isset($reference->journal)) { $issn = ''; if (isset($reference->journal->identifier)) { foreach ($reference->journal->identifier as $identifier) { if ($identifier->type == 'issn') { $issn = $identifier->id; } } } if ($issn != '') { echo ' in <b><a href="issn/' . $issn . '">' . $reference->journal->name . '</a></b>'; } else { echo ' in <b>' . $reference->journal->name . '</b>'; } if (isset($reference->journal->volume)) { echo ', volume <b>' . $reference->journal->volume . '</b>'; } if (isset($reference->journal->issue)) { echo ', issue <b>' . $reference->journal->issue . '</b>'; } if (isset($reference->journal->pages)) { echo ', on pages <b>' . str_replace('--', '-', $reference->journal->pages) . '</b>'; } } else { // not a journal... echo ', on pages <b>' . str_replace('--', '-', $reference->pages) . '</b>'; } echo '</div>'; echo '<div>'; if (isset($reference->author)) { $authors = array(); foreach ($reference->author as $author) { if (isset($author->firstname)) { $authors[] = $author->lastname . ' ' . $author->firstname; } else { $authors[] = $author->name; } } echo join(', ', $authors); } echo '</div>'; // COinS echo reference_to_coins($reference); // Links echo '<div class="item-links">'; //echo '<a href="">cite</a>'; if (isset($reference->identifier)) { foreach ($reference->identifier as $identifier) { switch ($identifier->type) { case 'biostor': echo '<a href="http://biostor.org/reference/' . $identifier->id . '" target="_new"><i class="icon-external-link"></i>biostor.org/reference/' . $identifier->id . '</a>'; break; case 'cinii': echo '<a href="http://ci.nii.ac.jp/naid/' . $identifier->id . '" target="_new"><i class="icon-external-link"></i>ci.nii.ac.jp/naid/' . $identifier->id . '</a>'; break; case 'doi': echo '<a href="http://dx.doi.org/' . $identifier->id . '" target="_new"><i class="icon-external-link"></i>doi.dx.org/' . $identifier->id . '</a>'; break; case 'handle': echo '<a href="http://hdl.handle.net/' . $identifier->id . '" target="_new"><i class="icon-external-link"></i>hdl.handle.net/' . $identifier->id . '</a>'; break; case 'jstor': echo '<a href="http://www.jstor.org/stable/' . $identifier->id . '" target="_new"><i class="icon-external-link"></i>www.jstor.org/stable/' . $identifier->id . '</a>'; break; default: break; } } } echo '</div>'; echo '</td>'; echo '</tr>'; } echo '</tbody>'; echo '</table>'; if ($total_rows > $rows_per_page) { echo '<p><a class="btn" href="?q=' . urlencode($q) . '&bookmark=' . $bookmark . '">More »</a></p>'; } } echo '</div> </body> </html>'; }
function DisplayHtmlContent() { global $config; echo html_page_header(true, '', 'name'); echo '<h1>' . $this->GetTitle() . '</h1>'; echo '<h2>Identifiers</h2>'; echo '<ul>'; if ($this->object->NameBankID != 0) { echo '<li>' . 'urn:lsid:ubio.org:namebank:' . $this->object->NameBankID . '</li>'; } echo '</ul>'; // Taxon name (nomenclators) $acts = acts_for_namestring($this->GetTitle()); $act_refs = references_for_acts_for_namestring($this->GetTitle()); if (count($acts) > 0) { echo '<h2>Taxonomic names</h2>'; echo '<ul>'; foreach ($acts as $tn) { echo '<li>' . $tn->global_id . '</li>'; } echo '</ul>'; } $col = col_accepted_name_for($this->GetTitle()); if (isset($col->name)) { echo '<h2>Catalogue of Life accepted name</h2>' . "\n"; echo '<p>'; echo '<span><a href="' . $config['web_root'] . 'name/' . $col->name . '">' . $col->name . '</a>' . ' ' . $col->author . '</span>'; echo '</p>' . "\n"; // Synonyms $col_synonyms = col_synonyms_for_namecode($col->name_code); if (count($col_synonyms) != 0) { echo '<h3>Synonyms</h3>' . "\n"; echo '<ul>' . "\n"; foreach ($col_synonyms as $s) { echo '<li><a href="' . $config['web_root'] . 'name/' . $s->name . '">' . $s->name . '</a> ' . $s->author . '</li>' . "\n"; } echo '</ul>' . "\n"; } } if (1) { /* // What pages have this name? (BHL timeline) $hits = bhl_name_search($this->object->NameBankID); if (count($hits) > 0) { echo '<h2>BHL</h2>' . "\n"; echo '<h3>Distribution of name in BHL</h3>'; echo '<div>' . "\n"; echo ' <img src="' . sparkline_bhl_name($hits, 360,100) . '" alt="sparkline" />' . "\n"; echo '</div>' . "\n"; } else { //echo '<p>Name not found in BHL</p>'; } */ // What articles have this name? echo '<hr />'; echo '<h2>References in BioStor</h2>'; // echo '<p><img src="/images/star.png"> indicates reference that publishes a "nomenclatural act", such as publishing the name.</p>'; echo '<div>'; echo '<div style="display:inline;border:1px solid rgb(192,192,192);background-color:#D8F3C9;width:20px;height:20px;"> </div>'; echo ' Reference contains nomenclatural act, such as publishing the name'; echo '</div>'; echo '<p />'; // Find using BHL bhl_page_name index //$refs = bhl_references_with_name($this->object->NameBankID); $refs = bhl_references_with_namestring($this->GetTitle()); // Merge with references from nomenclators $refs = array_merge($refs, $act_refs); $refs = array_unique($refs); //print_r($refs); if (count($refs) == 0) { echo '<p>[No references]</p>'; } /* echo '<ul class="reference-list">'; foreach($refs as $reference_id) { $reference = db_retrieve_reference ($reference_id); echo '<li '; if (in_array($reference_id, $act_refs)) { echo 'class="act"'; } else { echo 'class="default"'; } echo '>'; echo '<a href="' . $config['web_root'] . 'reference/' . $reference_id . '">' . $reference->title . '</a><br/>'; echo '<span style="color:green;">' . reference_authors_to_text_string($reference); if (isset($reference->year)) { echo ' (' . $reference->year . ')'; } echo ' ' . reference_to_citation_text_string($reference) . '</span>'; echo ' ' . reference_to_coins($reference); if (0) { echo '<div>'; echo bhl_pages_with_name_thumbnails($reference_id,$this->object->NameBankID); echo '</div>'; } echo '</li>'; } echo '</ul>'; */ echo '<table cellspacing="0" cellpadding="2" width="100%">'; foreach ($refs as $reference_id) { $reference = db_retrieve_reference($reference_id); echo '<tr'; if (in_array($reference_id, $act_refs)) { echo ' style="background-color:#D8F3C9;"'; } echo '>'; if ($reference->PageID != 0) { $image = bhl_fetch_page_image($reference->PageID); $imageURL = $image->thumbnail->url; } else { // if it's an article we could use journal image $imageURL = 'http://bioguid.info/issn/image.php?issn=' . $reference->issn; } echo '<td valign="top"><img style="border:1px solid rgb(192,192,192);" src="' . $imageURL . '" width="40" />'; echo '</td>'; echo '<td valign="top">'; echo '<a href="' . $config['web_root'] . 'reference/' . $reference_id . '">' . $reference->title . '</a><br/>'; echo '<span>' . reference_authors_to_text_string($reference); if (isset($reference->year)) { echo ' (' . $reference->year . ')'; } echo ' ' . reference_to_citation_text_string($reference) . '</span>'; echo ' ' . reference_to_coins($reference); if (0) { echo '<div>'; echo bhl_pages_with_name_thumbnails($reference_id, $this->object->NameBankID); echo '</div>'; } echo '</td>'; echo '</tr>'; } echo '</table>'; /* $refs = col_references_for_name($this->GetTitle()); if (count($refs) != 0) { echo '<h2>Catalogue of Life Bibliography</h2>'; echo '<ol>'; foreach($refs as $ref) { echo '<li style="border-bottom:1px dotted rgb(128,128,128);padding:4px;">'; echo '<span>'; echo '[' . $ref->record_id . '] '; if (isset($ref->reference_type)) { echo '[' . $ref->reference_type . '] '; } echo $ref->author; echo ' '; echo $ref->year; echo ' '; echo $ref->title; echo '. '; echo $ref->source; echo '</span>'; echo '</li>'; } echo '</ol>'; } */ } }
function DisplayHtmlContent() { global $config; log_access($this->id, 'html'); echo html_page_header(true, '', 'name'); // Embed first page of OCR text, added 2011-12-07 if ($this->in_bhl) { $pages = bhl_retrieve_reference_pages($this->id); $page_ids = array($pages[0]->PageID); $text = bhl_fetch_text_for_pages($page_ids); $text = str_replace('\\n', '', $text); $text = str_replace('- ', '-', $text); $text = str_replace('- ', '-', $text); echo "\n<!-- First page of OCR text -->\n"; echo '<div style="display:none;">' . "\n"; echo htmlentities($text, ENT_COMPAT, "UTF-8"); echo '</div>' . "\n"; } echo '<div style="float:right;background-color:rgb(230,242,250);padding:6px">' . "\n"; echo '<h2>Identifiers</h2>' . "\n"; echo '<ul class="guid-list">' . "\n"; echo '<li class="permalink">' . '<div itemscope itemtype="http://schema.org/ScholarlyArticle">' . '<a href="' . $config['web_root'] . 'reference/' . $this->id . '" title="Permalink">' . $config['web_root'] . 'reference/' . $this->id . '</a>' . '</div>' . '</li>' . "\n"; if ($this->in_bhl) { echo '<li class="bhl"><a href="http://www.biodiversitylibrary.org/page/' . $this->object->PageID . '" target="_new" title="BHL page" onClick="_gaq.push([\'_trackEvent\', \'Outbound Links\', \'bhl\', \'' . $this->object->PageID . '\', 0]);">' . $this->object->PageID . '</a></li>' . "\n"; } if (isset($this->object->doi)) { echo '<li class="doi"><a href="http://dx.doi.org/' . $this->object->doi . '" target="_new" title="DOI" onClick="_gaq.push([\'_trackEvent\', \'Outbound Links\', \'doi\', \'' . $this->object->doi . '\', 0]);">' . $this->object->doi . '</a></li>' . "\n"; } if (isset($this->object->url)) { echo '<li class="url"><a href="' . $this->object->url . '" target="_new" title="URL">' . trim_string($this->object->url, 30) . '</a></li>' . "\n"; } if (isset($this->object->pdf)) { echo '<li class="pdf"><a href="' . $this->object->pdf . '" target="_new" title="PDF">' . trim_string($this->object->pdf, 30) . '</a></li>' . "\n"; } if (isset($this->object->hdl)) { echo '<li class="handle"><a href="http://hdl.handle.net/' . $this->object->hdl . '" target="_new" title="Handle">' . $this->object->hdl . '</a></li>' . "\n"; } if (isset($this->object->lsid)) { echo '<li class="lsid"><a href="' . $config['web_root'] . $this->object->lsid . '" title="LSID">' . $this->object->lsid . '</a></li>' . "\n"; } if (isset($this->object->pmid)) { echo '<li class="pmid"><a href="http://www.ncbi.nlm.nih.gov/pubmed/' . $this->object->pmid . '" target="_new" title="PMID" >' . $this->object->pmid . '</a></li>' . "\n"; } echo '</ul>' . "\n"; echo '<h2>Export</h2>' . "\n"; echo '<ul class="export-list">' . "\n"; // Mendeley echo '<li class="mendeley"><a href="http://www.mendeley.com/import/?url=' . urlencode($config['web_root'] . 'reference/' . $this->id) . '" title="Add to Mendeley" target="_new" onClick="_gaq.push([\'_trackEvent\', \'Export\', \'Mendeley\', \'' . $this->id . '\', 0]);">Mendeley</a></li>'; if ($this->in_bhl) { echo '<li class="pdf"><a href="' . $config['web_root'] . 'reference/' . $this->id . '.pdf" title="PDF" onClick="_gaq.push([\'_trackEvent\', \'Export\', \'pdf\', \'' . $this->id . '\', 0]);">PDF</a></li>'; } echo '<li class="xml"><a href="' . $config['web_root'] . 'reference/' . $this->id . '.xml" title="Endnote XML" target="_new" onClick="_gaq.push([\'_trackEvent\', \'Export\', \'Endnote\', \'' . $this->id . '\', 0]);">Endnote XML</a></li>'; echo '<li class="ris"><a href="' . $config['web_root'] . 'reference/' . $this->id . '.ris" title="RIS" target="_new" onClick="_gaq.push([\'_trackEvent\', \'Export\', \'RIS\', \'' . $this->id . '\', 0]);">Reference manager</a></li>'; echo '<li class="bibtex"><a href="' . $config['web_root'] . 'reference/' . $this->id . '.bib" title="BibTex" target="_new" onClick="_gaq.push([\'_trackEvent\', \'Export\', \'bibtex\', \'' . $this->id . '\', 0]);">BibTex</a></li>'; echo '<li class="bibjson"><a href="' . $config['web_root'] . 'reference/' . $this->id . '.bibjson" title="BibJSON" target="_new" onClick="_gaq.push([\'_trackEvent\', \'Export\', \'bibjson\', \'' . $this->id . '\', 0]);">BibJSON</a></li>'; echo '<li class="wikipedia"><a href="' . $config['web_root'] . 'reference/' . $this->id . '.wikipedia" title="Wikipedia" target="_new" onClick="_gaq.push([\'_trackEvent\', \'Export\', \'Wikipedia\', \'' . $this->id . '\', 0]);">Wikipedia</a></li>'; if ($this->in_bhl) { echo '<li class="text"><a href="' . $config['web_root'] . 'reference/' . $this->id . '.text" title="Text" onClick="_gaq.push([\'_trackEvent\', \'Export\', \'text\', \'' . $this->id . '\', 0]);">Text</a></li>'; } echo '</ul>' . "\n"; echo '</div>' . "\n"; //------------------------------------------------------------------------------------------ echo '<div itemscope itemtype="http://schema.org/ScholarlyArticle">'; echo '<h1>' . '<div itemprop="name">' . $this->GetTitle() . '</div>' . '</h1>' . "\n"; //------------------------------------------------------------------------------------------ // Authors echo '<div>' . "\n"; $count = 0; $num_authors = count($this->object->authors); if ($num_authors > 0) { foreach ($this->object->authors as $author) { echo '<a href="' . $config['web_root'] . 'author/' . $author->id . '">'; echo $author->forename . ' ' . $author->lastname; if (isset($author->suffix)) { echo ' ' . $author->suffix; } echo '</a>'; $count++; if ($count < $num_authors - 1) { echo ', '; } else { if ($count < $num_authors) { echo ' and '; } } } } echo "\n" . '</div>' . "\n"; //------------------------------------------------------------------------------------------ // Metadata and COinS echo '<div>' . "\n"; echo '<div itemprop="description">'; echo '<span class="journal">'; // Various options for linking journal. if (isset($this->object->issn)) { echo '<a href="' . $config['web_root'] . 'issn/' . $this->object->issn . '">'; echo $this->object->secondary_title; echo '</a>'; } elseif (isset($this->object->oclc)) { echo '<a href="' . $config['web_root'] . 'oclc/' . $this->object->oclc . '">'; echo $this->object->secondary_title; echo '</a>'; } else { echo $this->object->secondary_title; } echo '</span>'; echo ' '; if (isset($this->object->series)) { echo ' <span class="volume">(' . $this->object->series . ') </span>'; } echo '<span class="volume">' . $this->object->volume . '</span>'; if (isset($this->object->issue)) { echo '<span class="issue">' . '(' . $this->object->issue . ')' . '</span>'; } echo ':'; echo ' '; echo '<span class="pages">' . $this->object->spage . '</span>'; if (isset($this->object->epage)) { echo '<span class="pages">' . '-' . $this->object->epage . '</span>'; } if (isset($this->object->year)) { echo ' '; echo '<span class="year">' . '(' . $this->object->year . ')' . '</span>'; } echo reference_to_coins($this->object); echo '</div>' . "\n"; echo '</div>' . "\n"; echo '</div>'; // schema //------------------------------------------------------------------------------------------ // When record added and updated echo '<p class="explanation">Reference added '; echo distanceOfTimeInWords(strtotime($this->object->created), time(), true); echo ' ago'; echo '</p>' . "\n"; //------------------------------------------------------------------------------------------ // Social bookmarking // echo '<g:plusone size="tall"></g:plusone>'; echo '<a href="http://twitter.com/share" class="twitter-share-button" data-count="vertical" data-via="rdmpage" data-related="biostor_org">Tweet</a><script type="text/javascript" src="http://platform.twitter.com/widgets.js"></script>'; //------------------------------------------------------------------------------------------ // Export options /* echo '<h2>Export</h2>' . "\n"; echo '<div>' . "\n"; echo '<span><a href="' . $config['web_root'] . 'reference/' . $this->id . '.xml" title="Endnote XML">Endnote XML</a></span>'; echo ' | '; echo '<span><a href="' . $config['web_root'] . 'reference/' . $this->id . '.ris" title="RIS">Reference manager</a></span>'; echo ' | '; echo '<span><a href="' . $config['web_root'] . 'reference/' . $this->id . '.bib" title="BibTex">BibTex</a></span>'; if ($this->in_bhl) { echo ' | '; echo '<span><a href="' . $config['web_root'] . 'reference/' . $this->id . '.text" title="Text">Text</a></span>'; } echo '</div>' . "\n"; */ //------------------------------------------------------------------------------------------ // Identifiers /* echo '<h2>Identifiers</h2>' . "\n"; echo '<ul>' . "\n"; if ($this->in_bhl) { // BHL reference echo '<li><a href="http://www.biodiversitylibrary.org/page/' . $this->object->PageID . '" target="_new">BHL PageID:' . $this->object->PageID . '</a></li>' . "\n"; } if (isset($this->object->sici)) { echo '<li><a href="' . $config['web_root'] . 'sici/' . $this->object->sici . '">' . $this->object->sici . '</a></li>' . "\n"; } if (isset($this->object->url)) { echo '<li><a href="' . $this->object->url . '" target="_new">' . $this->object->url . '</a></li>' . "\n"; } if (isset($this->object->pdf)) { echo '<li><a href="' . $this->object->pdf . '" target="_new">' . $this->object->pdf . '</a></li>' . "\n"; } if (isset($this->object->doi)) { echo '<li><a href="http://dx.doi.org/' . $this->object->doi . '" target="_new">' . $this->object->doi . '</a></li>' . "\n"; } if (isset($this->object->hdl)) { echo '<li><a href="http://hdl.handle.net/' . $this->object->hdl . '" target="_new">' . $this->object->hdl . '</a></li>' . "\n"; } if (isset($this->object->lsid)) { echo '<li><a href="' . $config['web_root'] . $this->object->lsid . '">' . $this->object->lsid . '</a></li>' . "\n"; } if (isset($this->object->pmid)) { echo '<li><a href="http://www.ncbi.nlm.nih.gov/pubmed/' . $this->object->pmid . '" target="_new">' . $this->object->pmid . '</a></li>' . "\n"; } echo '</ul>' . "\n";*/ //------------------------------------------------------------------------------------------ // Linking /* echo '<div>' . "\n"; echo '<span><a href="' . $config['web_root'] . 'reference/' . $this->id . '/backlinks" title="References">Cites (' . num_cites($this->id) . ')</a></span>'; echo ' | '; echo '<span><a href="' . $config['web_root'] . 'reference/' . $this->id . '/forwardlinks" title="Forward links">Cited by (' . num_cited_by($this->id) . ')</a></span>'; echo '</div>' . "\n"; */ //------------------------------------------------------------------------------------------ if ($this->in_bhl) { //-------------------------------------------------------------------------------------- echo '<h2>Viewer</h2>'; echo '<p id="viewer_status"></p>' . "\n"; echo '<table width="100%" >'; echo '<tr valign="top"><td>'; echo bhl_reference_viewer($this->id, $this->page); echo '</td>'; echo '<td>'; echo $this->DisplayEditForm(); echo '</td></tr>'; echo '</table>'; if (0) { //-------------------------------------------------------------------------------------- $tag_cloud = name_tag_cloud($this->taxon_names); if ($tag_cloud != '') { echo '<h2>Taxon name tag cloud</h2>'; echo '<p class="explanation">Taxonomic names extracted from OCR text for document using uBio tools.</p>'; echo $tag_cloud; echo '<h2>Taxonomic classification</h2>'; if ($config['use_gbif']) { echo '<p class="explanation">GBIF classification for taxonomic names in document</p>'; } else { echo '<p class="explanation">Catalogue of Life classification for taxonomic names in document</p>'; } echo '<div id="taxon_names"></div>'; echo '<script type="text/javascript">make_tag_tree();</script>'; } } //-------------------------------------------------------------------------------------- if (count($this->localities) != 0) { echo '<h2>Localities</h2>'; echo '<p class="explanation">Localities extracted from OCR text.</p>'; echo '<div id="map_canvas" style="width: 600px; height: 300px"></div>'; } //-------------------------------------------------------------------------------------- if (count($this->specimens) != 0) { echo '<h2>Specimens</h2>'; echo '<p class="explanation">Specimen codes extracted from OCR text.</p>'; echo '<ul style="-moz-column-width: 13em; -webkit-column-width: 13em; -moz-column-gap: 1em; -webkit-column-gap: 1em;">'; foreach ($this->specimens as $occurrence) { echo '<li'; if (isset($occurrence->occurrenceID)) { //echo $occurrence->occurrenceID; echo ' class="gbif"'; } else { echo ' class="blank"'; } echo '>'; echo '<a href="specimen/' . rawurlencode($occurrence->code) . '">' . $occurrence->code . '</a>'; echo '</li>'; } echo '</ul>'; } } else { echo '<table width="100%" >'; echo '<tr><td valign="top" width="600">'; $have_content = false; // PDF displayed using Google Docs if (!$have_content) { // If we have a PDF display it using Google Docs Viewer http://docs.google.com/viewer if ($this->object->url) { if (preg_match('/\\.pdf$/', $this->object->url)) { echo '<iframe src="http://docs.google.com/viewer?url='; echo urlencode($this->object->url) . '&embedded=true" width="600" height="700" style="border: none;">' . "\n"; echo '</iframe>' . "\n"; $have_content = true; } } } if (!$have_content) { if (isset($this->object->abstract)) { echo '<h3>Abstract</h3>' . "\n"; echo '<div>' . $this->object->abstract . '</div>' . "\n"; $have_content = true; } } if (!$have_content) { echo '<span>[No text or abstract to display]</span>'; } echo '</td>'; echo '<td>'; echo $this->DisplayEditForm(); echo '</td></tr>'; echo '</table>'; } /* //------------------------------------------------------------------------------------------ // Nomenclature (experimental) $acts = acts_in_publication($this->id); if (count($acts) > 0) { echo '<h2>Names published</h2>' . "\n"; echo '<p class="explanation">New names or combinations published in this reference.</p>' . "\n"; echo '<table cellspacing="0" cellpadding="2">' . "\n"; echo '<tr><th>Name</th><th>Identifier</th></tr>' . "\n"; foreach ($acts as $tn) { echo '<tr>'; echo '<td style="border-bottom:1px solid rgb(228,228,228);"><a href="' . $config['web_root'] . 'name/' . urlencode($tn->ToHTML()) . '">' . $tn->ToHTML() . '</td>'; echo '<td style="border-bottom:1px solid rgb(228,228,228);">' . $tn->global_id . '</td>'; echo '</tr>' . "\n"; } echo '</table>' . "\n"; } */ }
function display_publication($publication) { global $couch; global $config; echo html_html_open(); echo html_head_open(); echo html_title($publication->title . ' - ' . $config['site_name']); echo html_include_css('css/main.css'); echo html_include_css('css/viewer.css'); echo html_include_script('js/jquery-1.4.4.min.js'); echo html_include_script('js/viewer.js'); echo html_head_close(); echo html_body_open(); if (1) { echo '<div style="position:relative;">'; // Metadata echo '<div style="position:absolute;top:0px;left:620px;padding:10px;">'; echo '<div><span><a href="' . $config['web_root'] . '">' . $config['site_name'] . '</a></span></div>'; echo '<p></p>'; echo '<span style="font-weight:bold;font-size:18px;">' . $publication->title . '</span>'; echo '<div>' . 'by ' . reference_authors_to_text_string($publication->authors, false, true) . '</div>'; $outlet = $publication->publication_outlet; // This ensures we double urlencode "&" $outlet = str_replace("&", urlencode("&"), $outlet); echo '<div>' . '<a href="' . $config['web_root'] . 'publication_outlet/' . urlencode($outlet) . '">' . '<i>' . $publication->publication_outlet . '</i>' . '</a>' . ' ' . $publication->volume . ':' . $publication->pages . ' (' . $publication->year . ')' . '</div>'; // External links --------------------------------------------------------------------------------------- echo '<div>'; echo '<ul>'; if ($publication->_id) { echo '<li><a href="http://lsid.tdwg.org/summary/urn:lsid:biodiversity.org.au:afd.publication:' . $publication->_id . '" target="_new">urn:lsid:biodiversity.org.au:afd.publication:' . $publication->_id . '</li>'; } if (isset($publication->identifiers)) { if (isset($publication->identifiers->doi)) { echo '<li>' . '<a href="http://dx.doi.org/' . $publication->identifiers->doi . '" target="_new">doi:' . $publication->identifiers->doi . '</a></li>'; } if (isset($publication->identifiers->hdl)) { echo '<li>' . '<a href="http://hdl.handle.net/' . $publication->identifiers->hdl . '" target="_new">hdl:' . $publication->identifiers->hdl . '</a></li>'; } if (isset($publication->identifiers->biostor)) { echo '<li>' . '<a href="http://biostor.org/reference/' . $publication->identifiers->biostor . '" target="_new">BioStor</a></li>'; } if (isset($publication->pageIdentifiers)) { echo '<li>' . '<a href="http://biodiversitylibrary.org/page/' . $publication->pageIdentifiers[0] . '" target="_new">BHL</a></li>'; } } if (isset($publication->urls)) { foreach ($publication->urls as $url) { if (preg_match('/http:\\/\\/ci.nii.ac.jp\\/naid\\//', $url)) { echo '<li>' . '<a href="' . $url . '" target="_new">' . $url . '</a></li>'; } if (preg_match('/http:\\/\\/gallica.bnf.fr\\//', $url)) { echo '<li>' . '<a href="' . $url . '" target="_new">' . $url . '</a></li>'; } if (preg_match('/http:\\/\\/www.jstor.org\\//', $url)) { echo '<li>' . '<a href="' . $url . '" target="_new">' . $url . '</a></li>'; } } } echo '</div>'; echo reference_to_coins($publication); echo '<div><a href="http://biostor.org/openurlhook.php?' . reference_to_openurl($publication) . '&webhook=' . urlencode($config['web_server'] . $config['web_root'] . 'webhook.php') . '" target="_new">OpenURL Hook</a></div>'; //------------------------------------------------------------------------------------------ // Names $resp = $couch->send("GET", "/" . $config['couchdb'] . "/_design/publication/_view/taxonNames?key=" . urlencode('"' . $publication->_id . '"')); $names = json_decode($resp); if (count($names->rows) > 0) { echo '<h3>Names published</h3>'; echo '<ul>'; foreach ($names->rows as $row) { echo '<li>' . '<a href="id/' . $row->value->_id . '">' . $row->value->taxonName . '</a></li>'; } echo '</ul>'; } echo '</div>'; // --- end metadata // Viewer echo '<div style="position:absolute;top:0px;left:0px;width:600px;">'; $has_fulltext = isset($publication->identifiers->biostor) || isset($publication->pdf); if (!$has_fulltext) { if (isset($publication->identifiers->doi)) { $url = 'http://dx.doi.org/' . $publication->identifiers->doi; echo '<div style="width:600px;height:800px;border:1px solid rgb(192,192,192);">'; echo '<iframe src="' . $url . '" width="600" height="800" style="border: none;">'; echo '</iframe>'; echo '</div>'; } else { if (count($publication->urls) > 0) { $display_url = ''; foreach ($publication->urls as $url) { if (preg_match('/http:\\/\\/ci.nii.ac.jp\\/naid\\//', $url)) { $display_url = $url; break; } if (preg_match('/http:\\/\\/gallica.bnf.fr\\//', $url)) { $display_url = $url; break; } if (preg_match('/http:\\/\\/www.jstor.org\\//', $url)) { $display_url = $url; break; } } if ($display_url != '') { echo '<div style="width:600px;height:800px;border:1px solid rgb(192,192,192);">'; echo '<iframe src="' . $display_url . '" width="600" height="800" style="border: none;">'; echo '</iframe>'; echo '</div>'; } } else { echo '<div style="width:600px;height:800px;border:1px solid rgb(192,192,192);"> <div style="position:absolute;top:300px;left:0px;width:600px;color:rgb(192,192,192);text-align:center;font-size:72px;">No content</div> </div>'; } } } else { // PDF if (isset($publication->pdf)) { echo '<div>'; echo '<iframe src="http://docs.google.com/viewer?url='; echo str_replace(' ', '%20', $publication->pdf) . '&embedded=true" width="600" height="800" style="border: none;">'; echo '</iframe>'; echo '</div>'; } else { // BioStor if (isset($publication->identifiers->biostor)) { echo '<script> pages=[' . join(",", $publication->pageIdentifiers) . ']; </script>'; echo ' <div style="position:relative;width:600px;height:800px;"> <div id="header" > <div style="float:right;padding:8px;margin-right:10px;"> <span id="page_counter">1/?</span> <span> </span> <span> </span> <img id="previous_page" src="images/previous.png" border="0" onclick="previous();" title="Show previous page"> <span> </span> <img id="next_page" src="images/next.png" border="0" onclick="next();" title="Show next page"> <span> </span> <span> </span> <span> </span> <img src="images/fourpages.png" border="0" onclick="show_all_pages();" title="Show all pages"> <span> </span> <img src="images/onepage.png" border="0" onclick="show_page(-1);" title="Fit page to viewer"> </div> </div> <div id="page_container"> <img id="page_image" /> <div id="all_pages" ></div> </div> </div> <script> show_page(0); </script>'; } } } echo '</div> </div>'; } else { //---------------------------------------------------------------------------------------------- // Home echo '<span><a href="' . $config['web_root'] . '">' . $config['site_name'] . '</a></span>'; echo html_search_box(); //---------------------------------------------------------------------------------------------- // Object echo '<div>'; echo '<h1>' . $publication->title . '</h1>'; echo '<div>' . 'by ' . reference_authors_to_text_string($publication->authors, false, true) . '</div>'; echo '<div>' . '<i>' . $publication->publication_outlet . '</i>' . ' ' . $publication->volume . ':' . $publication->pages . ' (' . $publication->year . ')' . '</div>'; //echo '<div>' . $publication->_id . '</div>'; /* if (isset($publication->abstract)) { echo '<div>' . $publication->abstract . '</div>'; } */ // External links echo '<ul>'; if (isset($publication->identifiers)) { if (isset($publication->identifiers->doi)) { echo '<li>' . '<a href="http://dx.doi.org/' . $publication->identifiers->doi . '" target="_new">doi:' . $publication->identifiers->doi . '</a></li>'; } if (isset($publication->identifiers->hdl)) { echo '<li>' . '<a href="http://hdl.handle.net/' . $publication->identifiers->hdl . '" target="_new">hdl:' . $publication->identifiers->hdl . '</a></li>'; } if (isset($publication->identifiers->biostor)) { echo '<li>' . '<a href="http://biostor.org/reference/' . $publication->identifiers->biostor . '" target="_new">BioStor</a></li>'; } if (isset($publication->pageIdentifiers)) { echo '<li>' . '<a href="http://biodiversitylibrary.org/page/' . $publication->pageIdentifiers[0] . '" target="_new">BHL</a></li>'; } } if (isset($publication->urls)) { foreach ($publication->urls as $url) { if (preg_match('/http:\\/\\/ci.nii.ac.jp\\/naid\\//', $url)) { echo '<li>' . '<a href="' . $url . '" target="_new">' . $url . '</a></li>'; } } } echo '</ul>'; echo '</div>'; //---------------------------------------------------------------------------------------------- // Names $resp = $couch->send("GET", "/" . $config['couchdb'] . "/_design/publication/_view/taxonNames?key=" . urlencode('"' . $publication->_id . '"')); $names = json_decode($resp); if (count($names->rows) > 0) { echo '<h2>Names published</h2>'; echo '<ul>'; foreach ($names->rows as $row) { echo '<li>' . '<a href="id/' . $row->value->_id . '">' . $row->value->taxonName . '</a></li>'; } echo '</ul>'; } //---------------------------------------------------------------------------------------------- // Content echo '<h2>Content</h2>'; $has_fulltext = isset($publication->identifiers->biostor) || isset($publication->pdf); if (!$has_fulltext) { if (isset($publication->identifiers->doi)) { $url = 'http://dx.doi.org/' . $publication->identifiers->doi; echo '<div>'; echo '<iframe src="' . $url . '" width="100%" height="700" style="border: none;">'; echo '</iframe>'; echo '</div>'; } } else { // PDF if (isset($publication->pdf)) { echo '<div>'; echo '<iframe src="http://docs.google.com/viewer?url='; echo urlencode($publication->pdf) . '&embedded=true" width="700" height="700" style="border: none;">'; echo '</iframe>'; echo '</div>'; } else { // BioStor if (isset($publication->identifiers->biostor)) { echo '<script> pages=[' . join(",", $publication->pageIdentifiers) . ']; </script>'; echo ' <div style="position:relative;width:700px;height:700px;"> <div id="header" > <div style="float:right;padding:8px;margin-right:10px;"> <span id="page_counter">1/?</span> <span> </span> <span> </span> <img id="previous_page" src="images/previous.png" border="0" onclick="previous();" title="Show previous page"> <span> </span> <img id="next_page" src="images/next.png" border="0" onclick="next();" title="Show next page"> <span> </span> <span> </span> <span> </span> <img src="images/fourpages.png" border="0" onclick="show_all_pages();" title="Show all pages"> <span> </span> <img src="images/onepage.png" border="0" onclick="show_page(-1);" title="Fit page to viewer"> </div> </div> <div id="page_container"> <img id="page_image" /> <div id="all_pages" ></div> </div> </div> <script> show_page(0); </script>'; } } } } echo html_body_close(); echo html_html_close(); }
$image = bhl_fetch_page_image($reference->PageID); $imageURL = $image->thumbnail->url; } else { // if it's an article we could use journal image $imageURL = 'http://bioguid.info/issn/image.php?issn=' . $reference->issn; } echo '<td valign="top"><img style="border:1px solid rgb(192,192,192);" src="' . $imageURL . '" width="40" />'; echo '</td>'; echo '<td valign="top">'; echo '<a href="' . $config['web_root'] . 'reference/' . $reference_id . '">' . $reference->title . '</a><br/>'; echo '<span>' . reference_authors_to_text_string($reference); if (isset($reference->year)) { echo ' (' . $reference->year . ')'; } echo ' ' . reference_to_citation_text_string($reference) . '</span>'; echo ' ' . reference_to_coins($reference); if (0) { echo '<div>'; echo bhl_pages_with_name_thumbnails($reference_id, $this->object->NameBankID); echo '</div>'; } echo '</td>'; echo '</tr>'; } echo '</table>'; echo html_body_close(true); // true to show Disqus comments echo html_html_close(); ?>