function get_top_papers($category = false, $timeframe = false, $filters = array())
{
$filters["limit"] = 8;
if ($category) {
$filters["category"] = $category;
}
if ($timeframe) {
$filters["added_after"] = $timeframe;
}
return get_papers("cited", $filters);
}
.draw();
} );
column.data().unique().sort().each( function ( d, j ) {
select.append( '<option value="'+d+'">'+d+'</option>' )
} );
} );
}
});
});
</script>
<?php
//$db = connect();
include 'view_papers.php';
$papers = get_papers();
?>
<div>
<table class="table table-striped table-row table1"
id="data">
<thead>
<tr>
<th>Course</th>
<th>Branch</th>
<th>Semester</th>
<th>Name</th>
<th>Download</th>
</tr>
<tr>
<td></td>
?>
</h1>
<table width='100%' cellspacing='10' cellpadding='0'>
<tr>
<td valign='top' width='*'>
<?php
print "<h3>All time most popular books & papers</h3>";
$papers = get_papers("cited", array("journal" => $safe_journal_id, "limit" => 5));
foreach ($papers as $paper) {
print_paper($paper, array("display" => "minimal"));
}
?>
</td>
<?php
$papers = get_papers("cited", array("journal" => $safe_journal_id, "limit" => 5, "published_after" => $last_month));
if ($papers) {
?>
<td valign='top' width='50%'>
<?php
print "<h3>Recently published hot books & papers</h3>";
foreach ($papers as $paper) {
print_paper($paper, array("display" => "minimal"));
}
?>
</td>
<?php
}
?>
</tr>
tinyMCE.init({
mode : "textareas",
theme : "simple"
});
</script>
<div class='content fullwidth'>
<?php
$paper_id = false;
$safe_doi = mysql_escape_string($_GET["doi"]);
$safe_paper_id = mysql_escape_string($_GET["paper_id"]);
if ($safe_doi) {
$safe_paper_id = get_paper_id_from_doi($safe_doi);
}
if ($safe_paper_id && is_numeric($safe_paper_id)) {
$paper_id = $safe_paper_id;
}
if ($paper_id >= 1) {
$papers = get_papers("added_on", array("paper_id" => $paper_id));
if (sizeof($papers) == 1) {
$paper = $papers[0];
print_paper($paper, array("magnify" => true, "link_through" => true));
} else {
print_error("Couldn't find paper", "Sorry, we couldn't find the paper that you're looking for.");
}
} else {
print_error("Couldn't find paper", "Sorry, we couldn't find the paper that you're looking for.");
}
?>
</div>
<?php
include "footer.php";
<td width='50%' valign='top'>
<?php
$journals = get_journals(false, 10, "num_papers DESC", array("return_full" => true, "skip" => 10));
if (sizeof($journals)) {
tabulate_journals($journals, "num_papers");
}
?>
</td>
</tr>
</table>
<h3>All Time Most Popular Books & Papers</h3>
<p>These are the ten most cited books or papers in the database. Note that only blog posts are counted as citations - comments and external links (like F1000 reviews or Nature Highlights) are ignored.
<p>You can see a breakdown of popular books or papers by publisher by clicking on a publisher name.
<p><br/>
<?php
$papers = get_papers("cited", array("limit" => 10));
foreach ($papers as $paper) {
print_paper($paper, array("display" => "minimal"));
}
} else {
if ($safe_area == "trends") {
?>
<h1>Trends</h1>
<?php
} else {
?>
<h1>Overview</h1>
<p>Please note that these statistics refer to the entire Postgenomic database, not just the currently selected category.
<?php
# generate input XML for graphing component.
$xml = post_freq_xml($safe_category);
$cached = get_cache($PAGE_URL);
if ($cached) {
print $cached;
exit;
}
ob_start();
}
if ($type == "paper" || $type == "papers") {
# list papers
# the ids_only part of the API is a bit hacky because it needs to be backwards compatible
# with the original "API" that allowed Pedro to do the Greasemonkey hack.
if ($ids_only) {
# list all papers in the database (just their IDs, though)
$filters['limit'] = 1000000;
# absurdly high limit so that everything is returned
$papers = get_papers("added_on", $filters);
if ($papers) {
$doi_ids = array();
$pubmed_ids = array();
$arxiv_ids = array();
$pii_ids = array();
foreach ($papers as $paper) {
if ($paper['doi_id']) {
$doi_ids[$paper["doi_id"]] = $paper["paper_id"];
}
if ($paper['pubmed_id']) {
$pubmed_ids[$paper["pubmed_id"]] = $paper["paper_id"];
}
if ($paper['arxiv_id']) {
$arxiv_ids[$paper["arxiv_id"]] = $paper["paper_id"];
}
?>
'><img border='0' src='images/cell_comment.png'/></a></div>
<div class='basic_thumbnail'><a href='<?php
plinkto("papers.php", $page_vars, array("comment_source" => "Science"));
?>
'><img border='0' src='images/science_comment.png'/></a></div>
-->
<div class='postbox_footer'> </div>
</div>
</div>
<?php
print_searchbox("Papers");
?>
</div>
<div class='content'>
<?php
$papers = get_papers($safe_order_by, $filters);
# pagination control
if ($papers) {
print_pagination($papers, $safe_skip, "papers.php", $GLOBALS["config"]['papers_per_page']);
foreach ($papers as $paper) {
print_paper($paper, array("display" => "minimal"));
}
print_pagination($papers, $safe_skip, "papers.php", $GLOBALS["config"]['papers_per_page']);
} else {
print "No papers found.";
}
?>
</div>
<?php
include "footer.php";
function parse_search_results($results)
{
$num_results = 0;
$total_results = 0;
$limit = 0;
$return;
if ($results) {
$lines = explode("\n", $results);
# filter out blank lines
$filenames = array();
foreach ($lines as $line) {
if (strlen($line) >= 3) {
array_push($filenames, $line);
}
$matches = array();
preg_match("/===META=TYPE===(\\d+)===/", $line, $matches);
if ($matches[1]) {
$num_results = $matches[1];
}
$matches = array();
preg_match("/===META=TOTAL===(\\d+)===/", $line, $matches);
if ($matches[1]) {
$total_results = $matches[1];
}
$matches = array();
preg_match("/===META=LIMIT===(\\d+)===/", $line, $matches);
if ($matches[1]) {
$limit = $matches[1];
}
}
# first get any posts
$posts = array();
if (sizeof($filenames)) {
$posts_files = get_posts_by_filenames($filenames);
if (sizeof($posts_files)) {
$post_ids = array_values($posts_files);
$post_filenames = array_keys($posts_files);
$posts = get_posts("published_on", array("post_id" => $post_ids, "order_by_filenames_array" => $filenames));
# add rows_returned field to first post (used by pagination algorithm)
$posts[0]["rows_returned"] = $num_results;
}
}
# then any blogs
$blogs = array();
if (sizeof($filenames)) {
$blogs_files = get_blogs_by_filenames($filenames);
if (sizeof($blogs_files)) {
$blogs = get_blogs($blogs_files);
$blogs[0]["rows_returned"] = $num_results;
}
}
# and any papers...
$papers = array();
if (sizeof($filenames)) {
$paper_ids = array();
foreach ($filenames as $filename) {
$matches = array();
preg_match("/paper_(\\d+)\\.xml/i", $filename, $matches);
if ($matches) {
array_push($paper_ids, $matches[1]);
}
}
if (sizeof($paper_ids)) {
$papers = get_papers("cited", array("paper_id" => $paper_ids));
$papers[0]["rows_returned"] = $num_results;
}
}
$return["posts"] = $posts;
$return["blogs"] = $blogs;
$return["papers"] = $papers;
$return["limit"] = $limit;
$return["total_results"] = $total_results;
$return["num_results"] = $num_results;
}
return $return;
}
print "<p class='description'>Blogs containing posts tagged \"{$safe_tag}\" include...</p>";
foreach ($blogs as $key => $value) {
print "<p><a href='" . linkto("blog_search.php", $GLOBALS['page_vars'], array("blog_id" => $key)) . "'>{$value}</a>";
}
print "</div>";
print "</div>";
}
print "</div>";
print "<div class='content'>";
if ($safe_tag) {
print "<h1>Items tagged with \"{$safe_tag}\"</h1>";
$paper_ids = array();
$paper_ids = get_papers_with_tag($safe_tag, true);
if ($paper_ids) {
print "<h3>Papers</h3>";
$papers = get_papers("cited", array("paper_id" => $paper_ids));
foreach ($papers as $paper) {
print_paper($paper, array("display" => "minimal"));
}
}
$post_ids = get_posts_with_tag($safe_tag);
if ($post_ids) {
print "<h3>Posts</h3>";
$posts = get_posts("cited", array("post_id" => $post_ids));
foreach ($posts as $post) {
print_post($post);
}
}
print "</div>";
} else {
print_error("No tag specified", "You must specify a tag to search for.");
$filters = array();
$title = "Postgenomic - recent hot papers";
if ($category) {
$title = "Postgenomic - recent hot " . strtolower($category) . " papers";
$filters['category'] = $category;
}
if ($journal) {
$filters['journal'] = $journal;
$title .= " (from {$journal})";
}
# get papers
$filters['limit'] = 10;
$filters['min_links'] = 1;
$last_month = date("Y-m-d", mktime(0, 0, 0, date(m) - 1, date(d), date(Y)));
$filters['published_after'] = $last_month;
$papers = get_papers("cited", $filters);
# return posts
$buffer .= atom_header($title);
if ($papers) {
foreach ($papers as $paper) {
$buffer .= paper_atom_entry($paper);
}
}
$buffer .= atom_footer();
print $buffer;
}
if ($type == "popular_posts") {
$filters = array();
$title = "Postgenomic - recently popular posts";
if ($category) {
$title = "Postgenomic - recently popular " . strtolower($category) . " posts";
