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project.php
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project.php
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<!DOCTYPE html>
<html>
<head>
<?php
$debug = false;
if ($debug) {
error_reporting(E_ALL);
ini_set('display_errors', 1);
error_log('Project Browser is running in debug mode!');
}
$print_login_state = false;
require_once 'DB_CONFIG.php';
require_once dirname(__FILE__).'/core/core.php';
require_once dirname(__FILE__).'/admin/async_login_handler.php';
$db = new DBHelper($default_database, $default_sql_user, $default_sql_password, $sql_url, $default_table, $db_cols);
$as_include = true;
# The next include includes core, and DB_CONFIG, and sets up $db
# require_once(dirname(__FILE__)."/admin-api.php");
$pid = $db->sanitize($_GET['id']);
$suffix = empty($pid) ? 'Browser' : '#'.$pid;
$validProject = $db->isEntry($pid, 'project_id', true);
$loginStatus = getLoginState();
?>
<title>Project <?php echo $suffix ?></title>
<meta http-equiv="X-UA-Compatible" content="IE=edge" />
<meta charset="UTF-8"/>
<meta name="theme-color" content="#5677fc"/>
<meta name="viewport" content="width=device-width, minimum-scale=1, initial-scale=1, maximum-scale=1.0, user-scalable=0" />
<link rel="stylesheet" type="text/css" media="screen" href="css/main.css"/>
<link rel="stylesheet" type="text/css" href="bower_components/json-human/css/json.human.css" />
<link rel="prerender" href="https://amphibiandisease.org/index.php" />
<link href="https://fonts.googleapis.com/css?family=Droid+Sans:400,700|Droid+Sans+Mono|Roboto:400,100,300,500,700,100italic,300italic,400italic,500italic,700italic" rel='stylesheet' type='text/css'/>
<link rel="icon" type="image/png" sizes="16x16" href="assets/favicon16.png" />
<link rel="icon" type="image/png" sizes="32x32" href="assets/favicon32.png" />
<link rel="icon" type="image/png" sizes="64x64" href="assets/favicon64.png" />
<link rel="icon" type="image/png" sizes="128x128" href="assets/favicon128.png" />
<link rel="icon" type="image/png" sizes="256x254" href="assets/favicon256.png" />
<link rel="icon" type="image/png" sizes="512x512" href="assets/favicon512.png" />
<link rel="icon" type="image/png" sizes="1024x1024" href="assets/favicon1024.png" />
<script src="bower_components/webcomponentsjs/webcomponents-lite.min.js"></script>
<link rel="import" href="bower_components/polymer/polymer.html"/>
<link rel="import" href="bower_components/paper-toggle-button/paper-toggle-button.html"/>
<link rel="import" href="bower_components/paper-checkbox/paper-checkbox.html"/>
<link rel="import" href="bower_components/paper-toast/paper-toast.html"/>
<link rel="import" href="bower_components/paper-input/paper-input.html"/>
<link rel="import" href="bower_components/paper-input/paper-textarea.html"/>
<link rel="import" href="bower_components/paper-spinner/paper-spinner.html"/>
<link rel="import" href="bower_components/paper-slider/paper-slider.html"/>
<link rel="import" href="bower_components/paper-menu/paper-menu.html"/>
<link rel="import" href="bower_components/paper-menu-button/paper-menu-button.html"/>
<link rel="import" href="bower_components/paper-card/paper-card.html"/>
<link rel="import" href="bower_components/paper-dropdown-menu/paper-dropdown-menu.html"/>
<link rel="import" href="bower_components/paper-listbox/paper-listbox.html"/>
<link rel="import" href="bower_components/paper-dialog/paper-dialog.html"/>
<link rel="import" href="bower_components/paper-radio-group/paper-radio-group.html"/>
<link rel="import" href="bower_components/paper-radio-button/paper-radio-button.html"/>
<link rel="import" href="bower_components/paper-dialog-scrollable/paper-dialog-scrollable.html"/>
<link rel="import" href="bower_components/paper-button/paper-button.html"/>
<link rel="import" href="bower_components/paper-icon-button/paper-icon-button.html"/>
<link rel="import" href="bower_components/paper-fab/paper-fab.html"/>
<link rel="import" href="bower_components/paper-item/paper-item.html"/>
<link rel="import" href="bower_components/paper-material/paper-material.html"/>
<link rel="import" href="bower_components/gold-email-input/gold-email-input.html"/>
<link rel="import" href="bower_components/gold-phone-input/gold-phone-input.html"/>
<link rel="import" href="bower_components/iron-form/iron-form.html"/>
<link rel="import" href="bower_components/iron-autogrow-textarea/iron-autogrow-textarea.html"/>
<link rel="import" href="bower_components/font-roboto/roboto.html"/>
<link rel="import" href="bower_components/iron-icons/iron-icons.html"/>
<link rel="import" href="bower_components/iron-icons/image-icons.html"/>
<link rel="import" href="bower_components/iron-icons/social-icons.html"/>
<link rel="import" href="bower_components/iron-icons/communication-icons.html"/>
<link rel="import" href="bower_components/iron-icons/editor-icons.html"/>
<link rel="import" href="bower_components/neon-animation/neon-animation.html"/>
<link rel="import" href="bower_components/marked-element/marked-element.html"/>
<link rel="import" href="bower_components/google-map/google-map.html"/>
<link rel="import" href="bower_components/google-map/google-map-marker.html"/>
<link rel="import" href="bower_components/google-map/google-map-poly.html"/>
<link rel="import" href="polymer-elements/copyright-statement.html"/>
<link rel="import" href="polymer-elements/glyphicon-social-icons.html"/>
<script type="text/javascript">
(function(){var p=[],w=window,d=document,e=f=0;p.push('ua='+encodeURIComponent(navigator.userAgent));e|=w.ActiveXObject?1:0;e|=w.opera?2:0;e|=w.chrome?4:0;
e|='getBoxObjectFor' in d || 'mozInnerScreenX' in w?8:0;e|=('WebKitCSSMatrix' in w||'WebKitPoint' in w||'webkitStorageInfo' in w||'webkitURL' in w)?16:0;
e|=(e&16&&({}.toString).toString().indexOf("\n")===-1)?32:0;p.push('e='+e);f|='sandbox' in d.createElement('iframe')?1:0;f|='WebSocket' in w?2:0;
f|=w.Worker?4:0;f|=w.applicationCache?8:0;f|=w.history && history.pushState?16:0;f|=d.documentElement.webkitRequestFullScreen?32:0;f|='FileReader' in w?64:0;
p.push('f='+f);p.push('r='+Math.random().toString(36).substring(7));p.push('w='+screen.width);p.push('h='+screen.height);var s=d.createElement('script');
s.src='bower_components/whichbrowser/detect.php?' + p.join('&');d.getElementsByTagName('head')[0].appendChild(s);})();
/*window.onerror = function(e) {
console.warn("Error thrown: "+e);
return true;
}*/
</script>
<google-maps-api api-key="AIzaSyCkFBPtFAuZZmfxCgWVLY-8klRR6Dz4aeM"></google-maps-api>
<script type="text/javascript" src="//ajax.googleapis.com/ajax/libs/jquery/2.1.3/jquery.min.js"></script>
<script type="text/javascript" src="bower_components/bootstrap/dist/js/bootstrap.min.js"></script>
<script type="text/javascript" src="js/purl.min.js"></script>
<script type="text/javascript" src="js/xmlToJSON.min.js"></script>
<script type="text/javascript" src="https://cdnjs.cloudflare.com/ajax/libs/underscore.js/1.8.3/underscore-min.js"></script>
<script type="text/javascript" src="js/jquery.cookie.min.js"></script>
<script type="text/javascript" src="bower_components/js-base64/base64.min.js"></script>
<script type="text/javascript" src="bower_components/picturefill/dist/picturefill.min.js"></script>
<script type="text/javascript" src="bower_components/imagelightbox/dist/imagelightbox.min.js"></script>
<script type="text/javascript" src="bower_components/JavaScript-MD5/js/md5.min.js"></script>
<script type="text/javascript" src="bower_components/json-human/src/json.human.js"></script>
<script type="text/javascript" src="bower_components/zeroclipboard/dist/ZeroClipboard.min.js"></script>
<script type="text/javascript" src="js/c.min.js"></script>
<script type="text/javascript" src="js/project.min.js"></script>
<script type="text/javascript">
// Initial script
</script>
<style is="custom-style">
paper-toggle-button.red {
--paper-toggle-button-checked-bar-color: var(--paper-red-500);
--paper-toggle-button-checked-button-color: var(--paper-red-500);
--paper-toggle-button-checked-ink-color: var(--paper-red-500);
}
paper-input[disabled], paper-input[readonly] {
--paper-input-container-focus-color: var(--paper-orange-500);
--paper-input-container-underline: var(--paper-grey-300);
--paper-input-container-underline-disabled: var(--paper-grey-300);
}
</style>
</head>
<body class="container-fluid">
<header id="header-bar" class="fixed-bar clearfix row">
<div class="logo-container">
<div class="square-object">
<div class="square tile">
<img src="assets/aw_logo512-trans.png" alt="AmphibiaWeb logo" class="content click" data-href="http://amphibiaweb.org/" data-newtab="true"/>
</div>
</div>
</div>
<p class="col-xs-12 login-status-bar text-right">
<?php
$user = $_COOKIE['amphibiandisease_fullname'];
$test = $loginStatus['status'];
if ($test) {
?>
Logged in as <span class='header-bar-user-name'><?php echo $user; ?></span>
<paper-icon-button icon="icons:dashboard" class="click" data-href="https://amphibiandisease.org/admin-page.html" data-toggle="tooltip" title="Administration Dashboard" data-placement="bottom"> </paper-icon-button>
<paper-icon-button icon='icons:settings-applications' class='click' data-href="https://amphibiandisease.org/admin" data-toggle="tooltip" title="Account Settings" data-placement="bottom"></paper-icon-button>
<?php
} else {
?>
<paper-icon-button icon="icons:exit-to-app" class="click" data-toggle="tooltip" title="Login" data-href="https://amphibiandisease.org/admin" data-placement="bottom"></paper-icon-button>
<?php
}
if (!empty($pid)) {
?>
<paper-icon-button icon="icons:language" class="click" data-toggle="tooltip" title="Project Browser" data-href="https://amphibiandisease.org/project.php" data-placement="bottom"> </paper-icon-button>
<?php
} ?>
<paper-icon-button icon="icons:account-box" class="click" data-toggle="tooltip" title="Profiles" data-href="https://amphibiandisease.org/profile.php" data-placement="bottom"> </paper-icon-button>
<paper-icon-button icon="icons:home" class="click" data-href="https://amphibiandisease.org" data-toggle="tooltip" title="Home" data-placement="bottom"></paper-icon-button>
</p>
</header>
<main>
<?php
if (empty($pid)) {
?>
<h1 id="title">Amphibian Disease Project Browser</h1>
<section id="major-map" class="row">
<?php
$search = array(
'public' => '', # Loose query
);
$cols = array(
'project_id',
'project_title',
'public',
'carto_id',
'bounding_box_n',
'bounding_box_e',
'bounding_box_w',
'bounding_box_s',
'locality',
);
$list = $db->getQueryResults($search, $cols, 'AND', true, true);
$polyOpacity = '0.35';
$superCoords = array();
$averageLat = 0;
$averageLng = 0;
$polys = 0;
$polyHtml = '';
foreach ($list as $project) {
try {
$carto = json_decode(deEscape($project['carto_id']), true);
# Escaped or unescaped
$bpoly = empty($carto['bounding_polygon']) ? $carto['bounding_polygon'] : $carto['bounding_polygon'];
} catch (Exception $e) {
}
if (empty($project['project_id']) || empty($project['locality'])) {
if (empty($bpoly["multibounds"])) {
continue;
}
}
if (boolstr($project['public'])) {
$polyColor = '#ff7800';
# Depending on the type of data stored, it could be
# in paths or not
if (toBool($bpoly['paths']) === false && !empty($bpoly["multibounds"])) {
$bpoly['paths'] = is_array($bpoly["multibounds"]) ? $bpoly["multibounds"][0] : $bpoly["multibounds"];
}
$coords = empty($bpoly['paths']) ? $bpoly : $bpoly['paths'];
} else {
# Private
$polyColor = '#9C27B0'; # See https://github.com/AmphibiaWeb/amphibian-disease-tracker/issues/64
if (!empty($bpoly["multibounds"])) {
# Replace this with an approximation
$boringMultiBounds = array();
foreach ($bpoly["multibounds"] as $polySet) {
# We want to get the four corners of each polySet
$polySetBoundingBox = array();
$north = -90;
$south = 90;
$west = 180;
$east = -180;
foreach ($polySet as $points) {
if ($points["lat"] > $north) {
$north = $points["lat"];
}
if ($points["lng"] > $east) {
$east = $points["lng"];
}
if ($points["lng"] < $west) {
$west = $points["lng"];
}
if ($points["lat"] < $south) {
$south = $points["lat"];
}
}
$polySetBoundingBox[] = array("lat" => $north, "lng" => $west);
$polySetBoundingBox[] = array("lat" => $north, "lng" => $east);
$polySetBoundingBox[] = array("lat" => $south, "lng" => $east);
$polySetBoundingBox[] = array("lat" => $south, "lng" => $west);
$polySetBoundingBox[] = array("lat" => $north, "lng" => $west);
$boringMultiBounds[] = $polySetBoundingBox;
}
$bpoly["multibounds"] = $boringMultiBounds;
} else {
$coords = array();
$coords[] = array('lat' => $project['bounding_box_n'], 'lng' => $project['bounding_box_w']);
$coords[] = array('lat' => $project['bounding_box_n'], 'lng' => $project['bounding_box_e']);
$coords[] = array('lat' => $project['bounding_box_s'], 'lng' => $project['bounding_box_e']);
$coords[] = array('lat' => $project['bounding_box_s'], 'lng' => $project['bounding_box_w']);
$coords[] = array('lat' => $project['bounding_box_n'], 'lng' => $project['bounding_box_w']);
}
}
$superCoords[] = $coords;
# If we don't do this by project first, the center is
# weighted by boundry complication rather than number of
# projects
++$polys;
$points = 0;
$projAverageLat = 0;
$projAverageLng = 0;
# Need to enable both click-events and clickable
if (empty($bpoly["multibounds"])) {
$html = "\n<google-map-poly closed fill-color='$polyColor' fill-opacity='$polyOpacity' stroke-weight='1' click-events clickable geodesic data-project='".$project['project_id']."'>";
foreach ($coords as $point) {
++$points;
$lat = $point['lat'];
$lng = $point['lng'];
$projAverageLat = $projAverageLat + $lat;
$projAverageLng = $projAverageLng + $lng;
$html .= "\n\t<google-map-point latitude='$lat' longitude='$lng'></google-map-point>";
}
$html .= "</google-map-poly>\n";
$polyHtml .= $html;
} else {
# We have a multibounds-type display
foreach ($bpoly["multibounds"] as $boundSet) {
# We'll repeat this for each set of points in the multibounds object
$html = "\n<google-map-poly closed fill-color='$polyColor' fill-opacity='$polyOpacity' stroke-weight='1' click-events clickable geodesic data-project='".$project['project_id']."'>\n <!-- Points: ".print_r($boundSet, true)."\n -->\n";
foreach ($boundSet as $point) {
++$points;
$lat = $point['lat'];
$lng = $point['lng'];
$projAverageLat = $projAverageLat + $lat;
$projAverageLng = $projAverageLng + $lng;
$html .= "\n\t<google-map-point latitude='$lat' longitude='$lng'></google-map-point>";
}
$html .= "</google-map-poly>\n";
$polyHtml .= $html;
}
}
$projAverageLat = $projAverageLat / $points;
$projAverageLng = $projAverageLng / $points;
$averageLat = $averageLat + $projAverageLat;
$averageLng = $averageLng + $projAverageLng;
}
$averageLat = $averageLat / $polys;
$averageLng = $averageLng / $polys; ?>
<google-map class="col-xs-11 col-md-9 center-block" id="community-map" latitude="<?php echo $averageLat; ?>" longitude="<?php echo $averageLng; ?>" zoom="2" map-type="hybrid" api-key="AIzaSyCkFBPtFAuZZmfxCgWVLY-8klRR6Dz4aeM">
<?php echo $polyHtml; ?>
</google-map>
<p class="text-center text-muted col-xs-12">Community Project Map</p>
<div class="col-xs-12">
<div class="row">
<!-- Controls for the map view -->
<div class="col-xs-12 col-md-4">
<paper-toggle-button id="projects-by-map-view" class="map-view-control map-view-master">
Only show projects in map view
</paper-toggle-button>
</div>
<div class="col-xs-12 col-md-4">
<paper-toggle-button id="show-dataless-projects" class="map-view-control" disabled>
Show projects without data and locales
</paper-toggle-button>
</div>
</div>
</div>
<script type="text/javascript">
_adp.aggregateHulls = <?php echo json_encode($superCoords); ?>;
</script>
</section>
<?php
} elseif (!$validProject) {
?>
<h1 id="title">Invalid Project</h1>
<?php
} else {
$search = array('project_id' => $pid);
$result = $db->getQueryResults($search, '*', 'AND', false, true);
$project = $result[0];
foreach ($project as $attr=>$data) {
$decoded = htmlspecialchars_decode(html_entity_decode($data));
if (!empty($decoded)) {
$project[$attr] = $decoded;
}
} ?>
<h1 id="title">
<?php echo $project['project_title']; ?>
</h1>
<?php
} ?>
<section id="main-body" class="row">
<?php if (empty($pid)) {
$search = array(
'public' => '', # Loose query
);
$cols = array(
'project_id',
'project_title',
'public',
'author_data',
'locality',
"sampled_collection_end"
);
# See
# https://github.com/AmphibiaWeb/amphibian-disease-tracker/issues/178
#
# This block should also have a corresponding list updated in ./coffee/project.coffee
$orderBy = array(
"date" => "sampled_collection_end",
"affliation" => "author_data", # in author_data
"lab" => "pi_lab",
"contact" => "author_data", # in author_data
);
$authorDataOrderBy = array(
"affiliation" => "affiliation",
"contact" => "name",
);
if (isset($_REQUEST["sort"])) {
$orderKey = $_REQUEST["sort"];
if (!array_key_exists($orderKey, $orderBy)) {
# Invalid order key
$orderKey = null;
}
}
if (empty($orderKey)) {
$orderKey = "date";
}
$orderColumn = $orderBy[$orderKey];
if (!array_find($orderColumn, $cols, false, true)) {
$cols[] = $orderColumn;
}
$list = $db->getQueryResults($search, $cols, 'AND', true, true, $orderColumn);
$html = '';
$i = 0;
$count = sizeof($list);
$userMax = intval($_REQUEST["pagination"]);
if ($userMax < 10) {
$userMax = 10;
}
$max = $userMax;
$page = isset($_REQUEST['page']) ? intval($_REQUEST['page']) : 1;
if ($page > 1) {
$multiplier = $page - 1;
$skip = $multiplier * $max;
#echo "<!-- Skipping $skip on page $page with multiplier $multiplier for max $max for total results $count -->";
} else {
$skip = 0;
}
$originalMax = $max;
$announcedStartSpot = false;
if ($skip > $count) {
$html = "<h4>Whoops! <small class='text-muted'>These aren't the droids you're looking for</small></h4><p>You requested a project count that doesn't exit yet. Check back in a few weeks ;-)</p>";
} else {
$htmlList = array();
foreach ($list as $k => $project) {
# This check also used to check for empty localities:
# || empty($project['locality'])
#
# but removed to address #163
if (empty($project['project_id'])) {
#echo "<!-- Skipping item $i for empty project -->";
$count--;
continue;
}
++$i;
if ($i < $skip + 1) {
continue;
}
if (!$announcedStartSpot) {
#echo "<!-- Starting list from item $i after skipping $skip (total: $count) -->";
$announcedStartSpot = true;
}
if ($i > $max + $skip) {
break;
}
$authorData = json_decode($project['author_data'], true);
$icon = boolstr($project['public']) ? '<iron-icon icon="social:public"></iron-icon>' : '<iron-icon icon="icons:lock"></iron-icon>';
$shortProjectTitle = htmlspecialchars_decode(html_entity_decode($project['project_title']));
$tooltipTitle = "Project #".substr($project['project_id'], 0, 8)."...";
if (strlen($shortProjectTitle) > 43) {
$shortProjectTitle = substr($shortProjectTitle, 0, 40) . "...";
$tooltipTitle = DBHelper::staticSanitize($project['project_title']);
}
$affilEncode = htmlspecialchars($authorData["affiliation"]);
$affiliationIcon = "<iron-icon icon='social:school' data-toggle='tooltip' title='".$affilEncode."'></iron-icon>";
$orderData = $project[$orderColumn];
$projectCreatedOn = floatval($authorData["entry_date"]);
if ($orderKey == "date") {
if (empty($orderData)) {
# No data for the project -- sort by project creation
$orderData = $projectCreatedOn;
} else {
$orderData = floatval($orderData);
}
$arrayKey = $orderData;
} else {
# If we were searching by author_data, we were looking
# inside a key
if ($orderColumn == "author_data") {
$authorDataKey = $authorDataOrderBy[$orderKey];
$orderData = $authorData[$authorDataKey];
}
# All the other keys may be redundant -- add project
# creation
$arrayKey = $orderData . $projectCreatedOn;
}
$hasData = strbool(intval($project["sampled_collection_end"]) > 0);
$hasLocale = strbool($project["lat"] != 0 && $project["lng"] != 0);
$projectHtml = "<button class='btn btn-primary' data-href='https://amphibiandisease.org/project.php?id=".$project['project_id']."' data-project='".$project['project_id']."' data-toggle='tooltip' title='".$tooltipTitle."' data-order-ref='$orderData' data-order-canonical='$arrayKey' data-has-datafile='$hasData' data-has-locale='$hasLocale'>".$icon.' '.$shortProjectTitle.'</button> by <span class="is-user" data-email="'.$authorData['contact_email'].'">'.$authorData['name'] . '</span>' . $affiliationIcon;
$htmlList[$arrayKey] = '<li data-has-datafile="'.$hasData.'" data-has-locale="'.$hasLocale.'">'.$projectHtml."</li>\n";
}
if ($i < $max) {
$count = $i;
$max = $i;
}
if ($skip > 0) {
$upperBound = $max + $skip > $count ? $count : $max + $skip;
$lowerBound = $skip + 1;
$max = $lowerBound.' — '.$upperBound;
}
ksort($htmlList);
$html = '<ul id="project-list" class="col-xs-12 col-md-8 col-lg-6 hidden-xs project-list project-list-page">'.implode("\n", $htmlList).' </ul>';
}
# Build the paginator
$pages = intval($count / $originalMax);
#echo "<!-- pages breakdown: iv = $pages with $count items and orig $originalMax -->";
if (($count % $originalMax) > 0) {
$pages++;
}
#echo "<!-- revised pages = $pages / " . $count % $originalMax . " -->";
# https://getbootstrap.com/components/#pagination
$olderDisabled = $page > 1 ? '' : 'disabled';
$nextPage = $page + 1;
$previousPage = $page - 1;
$newerDisabled = $page * $originalMax <= $count ? '' : 'disabled';
$oByText = $orderKey == "date" ? "sampling date" : $orderKey;
$sortText = "$count, ordered by <span class='sort-by-placeholder-text' data-order-key='$orderKey'>".$oByText."</span>";
if ($upperBound != $count) {
$sortText = "about ".$sortText;
} ?>
<div class="col-xs-12 visible-xs-block text-right">
<button id="toggle-project-viewport" class="btn btn-primary">Show Project List</button>
</div>
<h2 class="col-xs-12 status-notice hidden-xs project-list project-list-page">Showing <?php echo $max; ?> newest projects <small class="text-muted">of <?php echo $sortText; ?></small></h2>
<div class="col-xs-12 pagination-selection-container">
<!-- <div class="row"> -->
<h3 class="small display-inline">
Showing
</h3>
<paper-dropdown-menu label="Results per page" class="pagination" id="pagination-selector-dropdown" disabled>
<paper-listbox class="dropdown-content" selected="0">
<paper-item>10</paper-item>
<paper-item>15</paper-item>
<paper-item>25</paper-item>
<paper-item>50</paper-item>
<paper-item>100</paper-item>
</paper-listbox>
</paper-dropdown-menu>
<h3 class="small display-inline">
projects per page
</h3>
<!-- </div> -->
</div>
<?php
echo $html; ?>
<div class="col-xs-12 col-md-4 col-lg-6 project-search project-list-page">
<paper-card heading="Search Projects" elevation="2">
<div class="card-content form-horizontal">
<div class="search-project form-group">
<label for="project-search" class="col-xs-12 col-md-4 col-lg-3 control-label">Search Projects</label>
<div class="col-xs-12 col-md-7 col-lg-9">
<input type="text" class="form-control" placeholder="Project ID or name..." name="project-search" id="project-search"/>
</div>
</div>
</div>
<paper-radio-group selected="names" id="search-filter">
<paper-radio-button name="names" data-cols="project_id,project_title,project_obj_id" data-cue="Project ID or name...">
Project Names & IDs
</paper-radio-button>
<paper-radio-button name="users" data-cols="author_data,pi_lab" data-cue="Name or email...">
PIs, Labs, Creators, Affiliation
</paper-radio-button>
<paper-radio-button name="taxa" data-cols="sampled_species,sampled_clades" data-cue="Scientific name...">
Project Taxa
</paper-radio-button>
</paper-radio-group>
<ul id="project-result-container">
</ul>
</paper-card>
</div>
<nav class="col-xs-12 project-pagination center-block text-center" id="project-pagination">
<ul class="pagination">
<li class="<?php echo $olderDisabled; ?>">
<a href="?page=<?php echo $previousPage; ?>"><span aria-hidden="true">←</span> Previous</a>
</li>
<?php
$k = 1;
while ($k <= $pages) {
echo "<li><a href='?page=".$k."&pagination=".$originalMax."'>".$k."</a></li>\n";
++$k;
} ?>
<li class="<?php echo $newerDisabled; ?>">
<a href="?page=<?php echo $nextPage; ?>">Next <span aria-hidden="true">→</span></a>
</li>
</ul>
</nav>
<?php
} elseif (!$validProject) {
?>
<h2 class="col-xs-12">Project <code><?php echo $pid ?></code> doesn't exist.</h2>
<p>Did you want to <a href="project.php">browse our projects instead?</a></p>
<?php
} else {
$projectCitation = ""; ?>
<?php
$authorData = json_decode($project['author_data'], true);
$authorName = preg_replace('!\s+!', ' ', $authorData["name"]);
$authorParts = explode(" ", $authorName);
$authorNameFormal = $authorParts[1] . ", " . substr($authorParts[0], 0, 1);
$creationTime = $authorData["entry_date"];
$today = date("d M Y");
$phpTime = intval($creationTime) / 1000;
$creationYear = date("Y", $phpTime); ?>
<div class="citation-block col-xs-12">
<p class="text-muted">
Recommended citation:
</p>
<cite class="self-citation" data-project="Project #<?php echo $pid; ?>">
<span class="author-name"><?php echo $authorNameFormal; ?></span>. <span class="creation-year"><?php echo $creationYear; ?> "<?php echo $project['project_title']; ?>" AmphibiaWeb: Amphibian Disease Portal. <https://n2t.net/<?php echo $project['project_obj_id']; ?>> Accessed <?php echo $today; ?>.
</cite>
</div>
<h2 class="col-xs-12">
Project Abstract
</h2>
<marked-element class="project-abstract col-xs-12 indent">
<div class="markdown-html"></div>
<script type="text/markdown"><?php echo deEscape($project['sample_notes']); ?></script>
</marked-element>
<div class="col-xs-12 basics-list">
<h2>Project Basics</h2>
<div class="row">
<paper-input readonly label="ARK identifier" value="<?php echo $project['project_obj_id']; ?>" class="col-xs-9 col-md-11 ark-identifier"></paper-input>
<paper-fab icon="icons:content-copy" class="materialblue" id="copy-ark" data-ark="<?php echo $project['project_obj_id']; ?>" data-clipboard-text="https://n2t.net/<?php echo $project['project_obj_id']; ?>" data-toggle="tooltip" title="Copy Link"></paper-fab>
</div>
<paper-input readonly label="Project pathogen" value="<?php echo $project['disease']; ?>"></paper-input>
<div class="row">
<paper-input readonly label="Project PI" class="col-xs-9 col-md-11" value="<?php echo $project['pi_lab']; ?>"></paper-input>
<paper-fab icon="social:person" class="materialblue is-user" data-name="<?php echo $project['pi_lab']; ?>"></paper-fab>
</div>
<div class="row">
<?php
$class = empty($project['publication']) ? "col-xs-12" : "col-xs-9 col-md-11";
$hidden = empty($project['publication']) ? "hidden" : "";
$pub = preg_replace('%^(doi|ark|(https?://)?(dx\.)?doi\.org(/|:)|(https?://)?(www\.)?biscicol\.org/id(/|:)|(https?://)?(www\.)?n2t.net(/|:)):? *%im', '', $project['publication']); ?>
<paper-input readonly label="DOI" class="<?php echo $class; ?>" value="<?php echo $pub; ?>" id="doi-input"></paper-input>
<paper-fab icon="icons:description" class="materialblue click" data-function="showCitation" data-toggle="tooltip" title="Show Citation" <?php echo $hidden; ?>></paper-fab>
</div>
<div class="row">
<paper-input readonly label="Project Contact" value="<?php echo $authorData['name']; ?>" class="col-xs-9 col-md-11"></paper-input>
<paper-fab icon="social:person" class="materialblue is-user" data-name="<?php echo $authorData['name']; ?>"></paper-fab>
</div>
<paper-input readonly label="Diagnostic Lab" value="<?php echo $authorData['diagnostic_lab']; ?>"></paper-input>
<paper-input readonly label="Affiliation" value="<?php echo $authorData['affiliation']; ?>"></paper-input>
<div class="row" id="email-fill">
<?php
require_once 'admin/CONFIG.php'; ?>
<script src="https://www.google.com/recaptcha/api.js" async defer></script>
<p class="col-xs-12 col-md-3 col-lg-2 col-xl-1">
Contact email:
<br/>
<span class="text-muted small">Please solve the CAPTCHA to see the contact email</span>
</p>
<div class="g-recaptcha col-xs-12 col-md-9 col-lg-10 col-xl-11" data-sitekey="<?php echo $recaptcha_public_key; ?>" data-callback="renderEmail"></div>
</div>
</div>
<div class="needs-auth col-xs-12" id="auth-block">
<?php
$limitedProject = array();
$cleanCarto = deEscape($project['carto_id']);
$carto = json_decode($cleanCarto, true);
# TODO RECONSTRUCT LIMITED MULTIBOUNDS HERE
$multiBounds = $carto["bounding_polygon"]["multibounds"];
$north = -90;
$south = 90;
$west = 180;
$east = -180;
foreach ($multiBounds as $polygon) {
foreach ($polygon as $point) {
if ($point["lat"] > $north) {
$north = $point["lat"];
}
if ($point["lng"] > $east) {
$east = $point["lng"];
}
if ($point["lng"] < $west) {
$west = $point["lng"];
}
if ($point["lat"] < $south) {
$south = $point["lat"];
}
}
}
$corners = array(
array(
"lat" => $north,
"lng" => $west,
),
array(
"lat" => $north,
"lng" => $east,
),
array(
"lat" => $south,
"lng" => $east,
),
array(
"lat" => $south,
"lng" => $west,
),
array(
"lat" => $north,
"lng" => $west,
),
);
$cartoLimited = array(
'bounding_polygon' => array(
'fillColor' => $carto['bounding_polygon']['fillColor'],
'fillOpacity' => $carto['bounding_polygon']['fillOpacity'],
"multibounds" => array($corners), # $carto["bounding_polygon"]["multibounds"], # TEMPORARY
),
);
$limitedProjectCols = array(
'public',
'bounding_box_n',
'bounding_box_e',
'bounding_box_w',
'bounding_box_s',
'lat',
'lng',
);
foreach ($limitedProjectCols as $col) {
$limitedProject[$col] = $project[$col];
}
$limitedProject['carto_id'] = $cartoLimited;
$jsonDataLimited = json_encode($limitedProject);
$jsonData = json_encode($project);
if (boolstr($project['public']) === true) {
# Public project, base renders
?>
<script type="text/javascript">
renderMapWithData(<?php echo $jsonData; ?>);
</script>
<?php
} else {
# Set the most limited public data possible. After correct user
# validation, it'll render a simple map
?>
<script type="text/javascript">
setPublicData(<?php echo $jsonDataLimited; ?>);
</script>
<?php
} ?>
</div>
<div class="col-xs-12">
<h2>Species List</h2>
<h3>Click on a species below to see the AmphibiaWeb entry</h3>
<ul class="species-list">
<?php
$aWebUri = 'http://amphibiaweb.org/cgi/amphib_query?rel-genus=equals&rel-species=equals&';
$args = array('where-genus' => '', 'where-species' => '');
$speciesList = explode(',', $project['sampled_species']);
sort($speciesList);
$i = 0;
$realSpecies = array();
foreach ($speciesList as $species) {
if (empty($species)) {
continue;
}
++$i;
$realSpecies[] = $species;
$speciesParts = explode(' ', $species);
$args['where-genus'] = $speciesParts[0];
$args['where-species'] = $speciesParts[1];
$badSpecies = preg_match('/^(nov[.]{0,1} ){0,1}(sp[.]{0,1}([ ]{0,1}[\w ]+){0,1})$/m', $speciesParts[1]) || empty($speciesParts[1]);
if ($badSpecies) {
$linkUri = $aWebUri.'where-genus='.$speciesParts[0];
} else {
$linkUri = $aWebUri.'where-genus='.$speciesParts[0].'&where-species='.$speciesParts[1];
}
$html = '<li class="aweb-link-species" data-species="'.$species.'" data-positive="false" data-negative="false" data-inconclusive="false"> <span class="sciname no-underline" data-href="'.$linkUri.'"data-newtab="true"><span class="genus">'.$speciesParts[0].'</span> <span class="species">'.$speciesParts[1].'</span></span> <paper-icon-button icon="editor:insert-chart" class="click" data-href="dashboard.php?taxon='.$species.'"></paper-icon-button></li>';
echo $html;
}
if ($i === 0) {
echo '<h3>Sorry, there are no species associated with this project.</h3>';
$speciesJson = '{}';
} else {
$speciesJson = json_encode($realSpecies);
} ?>
</ul>
<script type="text/javascript">
_adp.pageSpeciesList = <?php echo $speciesJson; ?>;
</script>
</div>
<h2 class="col-xs-12 project-identifier">
<span class="text-muted small">
Project
#<?php echo $pid; ?>
</span>
</h2>
<?php
} ?>
</section>
</main>
<?php
require_once("./footer.php");
?>
</body>
</html>