<?php
declare(strict_types=1);
require_once dirname(__DIR__) . '/src/Exception/UniProtException.php';
require_once dirname(__DIR__) . '/src/Http/HttpClientInterface.php';
require_once dirname(__DIR__) . '/src/Http/CurlClient.php';
require_once dirname(__DIR__) . '/src/Http/StreamClient.php';
require_once dirname(__DIR__) . '/src/Http/HttpClientFactory.php';
require_once dirname(__DIR__) . '/src/UniProt/UniProtEntry.php';
use UniProtPHP\Http\CurlClient;
use UniProtPHP\Http\HttpClientFactory;
use UniProtPHP\UniProt\UniProtEntry;
use UniProtPHP\Exception\UniProtException;
// Disable SSL verification for development
CurlClient::setVerifySSL(false);
$result = null;
$error = null;
$accession = 'P12345';
if ($_SERVER['REQUEST_METHOD'] === 'POST' && isset($_POST['accession'])) {
$accession = trim($_POST['accession']);
if (empty($accession)) {
$error = 'Please enter an accession number';
} else {
try {
$httpClient = HttpClientFactory::create();
$entry = new UniProtEntry($httpClient);
$result = $entry->get($accession);
} catch (UniProtException $e) {
$error = $e->getMessage();
} catch (Exception $e) {
$error = $e->getMessage();
}
}
}
?>
<!DOCTYPE html>
<html lang="en">
<head>
<meta charset="UTF-8">
<meta name="viewport" content="width=device-width, initial-scale=1.0">
<title>Entry Retrieval - UniProt PHP Library</title>
<style>
* {
margin: 0;
padding: 0;
box-sizing: border-box;
}
body {
font-family: -apple-system, BlinkMacSystemFont, 'Segoe UI', Roboto, 'Helvetica Neue', Arial, sans-serif;
background: #f5f7fa;
padding: 20px;
}
.container {
max-width: 1200px;
margin: 0 auto;
}
.header {
background: linear-gradient(135deg, #667eea 0%, #764ba2 100%);
color: white;
padding: 30px;
border-radius: 12px;
margin-bottom: 30px;
box-shadow: 0 10px 30px rgba(0,0,0,0.2);
}
.header h1 {
margin-bottom: 10px;
}
.back-btn {
display: inline-block;
background: white;
color: #667eea;
padding: 8px 15px;
border-radius: 6px;
text-decoration: none;
font-weight: 600;
margin-top: 10px;
}
.search-box {
background: white;
padding: 30px;
border-radius: 12px;
box-shadow: 0 5px 15px rgba(0,0,0,0.1);
margin-bottom: 30px;
}
.search-box h2 {
color: #333;
margin-bottom: 20px;
}
.input-group {
display: flex;
gap: 10px;
margin-bottom: 15px;
}
.input-group input {
flex: 1;
padding: 12px;
border: 2px solid #ddd;
border-radius: 6px;
font-size: 1em;
transition: border-color 0.3s;
}
.input-group input:focus {
outline: none;
border-color: #667eea;
}
.input-group button {
padding: 12px 30px;
background: linear-gradient(135deg, #667eea 0%, #764ba2 100%);
color: white;
border: none;
border-radius: 6px;
cursor: pointer;
font-weight: 600;
transition: opacity 0.3s;
}
.input-group button:hover {
opacity: 0.9;
}
.hint {
color: #888;
font-size: 0.9em;
margin-top: 10px;
}
.accordion {
background: white;
padding: 30px;
border-radius: 12px;
box-shadow: 0 5px 15px rgba(0,0,0,0.1);
margin-bottom: 30px;
}
.accordion h3 {
color: #333;
margin-bottom: 20px;
}
.accordion-item {
border: 1px solid #ddd;
border-radius: 6px;
margin-bottom: 15px;
}
.accordion-btn {
width: 100%;
padding: 15px;
background: #f8f9fa;
border: none;
border-bottom: 1px solid #ddd;
cursor: pointer;
text-align: left;
font-weight: 600;
color: #333;
transition: background 0.3s;
display: flex;
justify-content: space-between;
align-items: center;
}
.accordion-btn:hover {
background: #f0f0f0;
}
.accordion-btn.active {
background: #667eea;
color: white;
border-bottom-color: #667eea;
}
.accordion-content {
display: none;
padding: 15px;
background: #f9f9f9;
font-family: 'Courier New', monospace;
font-size: 0.85em;
line-height: 1.6;
overflow-x: auto;
color: #333;
}
.accordion-content.active {
display: block;
}
.error {
background: #fee;
color: #c33;
padding: 15px;
border-radius: 6px;
margin-bottom: 20px;
border-left: 4px solid #c33;
}
.tabs {
display: flex;
gap: 10px;
margin-bottom: 20px;
border-bottom: 2px solid #ddd;
}
.tab-btn {
padding: 12px 20px;
background: none;
border: none;
cursor: pointer;
font-weight: 600;
color: #999;
border-bottom: 3px solid transparent;
transition: all 0.3s;
}
.tab-btn.active {
color: #667eea;
border-bottom-color: #667eea;
}
.tab-content {
display: none;
background: white;
padding: 30px;
border-radius: 12px;
box-shadow: 0 5px 15px rgba(0,0,0,0.1);
}
.tab-content.active {
display: block;
}
.json-viewer {
background: #f8f9fa;
padding: 15px;
border-radius: 6px;
overflow-x: auto;
font-family: 'Courier New', monospace;
font-size: 0.9em;
line-height: 1.6;
color: #333;
}
.table-view {
width: 100%;
border-collapse: collapse;
}
.table-view th {
background: #f0f0f0;
padding: 12px;
text-align: left;
font-weight: 600;
border-bottom: 2px solid #ddd;
}
.table-view td {
padding: 12px;
border-bottom: 1px solid #eee;
}
.table-view tr:hover {
background: #f9f9f9;
}
.field-label {
color: #667eea;
font-weight: 600;
}
.section {
margin-bottom: 25px;
padding-bottom: 20px;
border-bottom: 1px solid #eee;
}
.section h3 {
color: #333;
margin-bottom: 15px;
padding-bottom: 10px;
border-bottom: 2px solid #667eea;
}
.section:last-child {
border-bottom: none;
}
</style>
</head>
<body>
<div class="container">
<div class="header">
<h1>? Entry Retrieval</h1>
<p>Search for UniProtKB entries by accession number</p>
<a href="index.php" class="back-btn">? Back to Home</a>
</div>
<div class="search-box">
<h2>Search Entry</h2>
<form method="POST">
<div class="input-group">
<input type="text" name="accession" value="<?php echo htmlspecialchars($accession); ?>" placeholder="e.g., P12345" required>
<button type="submit">Search</button>
</div>
<div class="hint">? Examples: P12345 (APP), P05067 (Amyloid Beta), P00750 (Tissue plasminogen)</div>
</form>
</div>
<div class="accordion">
<h3>? How It Works</h3>
<div class="accordion-item">
<button class="accordion-btn" onclick="toggleAccordion(this)">
<span>? Entry Retrieval Code</span>
<span>?</span>
</button>
<div class="accordion-content">
<pre><?php
use UniProtPHP\Http\HttpClientFactory;
use UniProtPHP\UniProt\UniProtEntry;
// Create HTTP client (auto-selects cURL or Streams)
$httpClient = HttpClientFactory::create();
// Create entry retrieval instance
$entry = new UniProtEntry($httpClient);
// Get single entry by accession
$protein = $entry->get('P12345');
echo $protein['primaryAccession']; // P12345
echo $protein['sequence']['value']; // Amino acid sequence
// Check if entry exists
if ($entry->exists('P12345')) {
echo "Entry found!";
}
// Get batch of entries
$results = $entry->getBatch(['P12345', 'P00750']);
foreach ($results as $p) {
echo $p['primaryAccession'];
}
// Get specific fields only
$protein = $entry->get('P12345', 'json');
?></pre>
</div>
</div>
</div>
<?php if ($error): ?>
<div class="error">? Error: <?php echo htmlspecialchars($error); ?></div>
<?php endif; ?>
<?php if ($result): ?>
<div class="tabs">
<button class="tab-btn active" onclick="switchTab('parsed')">? Parsed Data</button>
<button class="tab-btn" onclick="switchTab('raw')">? Raw JSON</button>
</div>
<div id="parsed" class="tab-content active">
<?php
// Display key fields
$primaryAccession = $result['primaryAccession'] ?? 'N/A';
$proteinName = '';
if (isset($result['proteinDescription']['recommendedName'])) {
$proteinName = $result['proteinDescription']['recommendedName']['fullName']['value'] ?? 'N/A';
}
$organism = $result['organism']['scientificName'] ?? 'N/A';
$sequence = $result['sequence']['value'] ?? '';
$sequenceLength = $result['sequence']['length'] ?? 0;
$mass = $result['sequence']['molWeight'] ?? 'N/A';
?>
<div class="section">
<h3>? Basic Information</h3>
<table class="table-view">
<tr>
<td><span class="field-label">Primary Accession:</span></td>
<td><strong><?php echo htmlspecialchars($primaryAccession); ?></strong></td>
</tr>
<tr>
<td><span class="field-label">Protein Name:</span></td>
<td><?php echo htmlspecialchars($proteinName); ?></td>
</tr>
<tr>
<td><span class="field-label">Organism:</span></td>
<td><?php echo htmlspecialchars($organism); ?></td>
</tr>
</table>
</div>
<div class="section">
<h3>? Sequence Information</h3>
<table class="table-view">
<tr>
<td><span class="field-label">Length:</span></td>
<td><?php echo $sequenceLength; ?> amino acids</td>
</tr>
<tr>
<td><span class="field-label">Molecular Weight:</span></td>
<td><?php echo number_format($mass, 2); ?> Da</td>
</tr>
<tr>
<td><span class="field-label">First 100 amino acids:</span></td>
<td><code><?php echo htmlspecialchars(substr($sequence, 0, 100)); ?>...</code></td>
</tr>
</table>
</div>
<?php if (isset($result['comments'])): ?>
<div class="section">
<h3>? Comments</h3>
<table class="table-view">
<thead>
<tr>
<th>Type</th>
<th>Text</th>
</tr>
</thead>
<tbody>
<?php foreach (array_slice($result['comments'], 0, 5) as $comment): ?>
<tr>
<td><?php echo htmlspecialchars($comment['commentType'] ?? 'N/A'); ?></td>
<td><?php echo htmlspecialchars(substr($comment['text'] ?? '', 0, 100)); ?></td>
</tr>
<?php endforeach; ?>
</tbody>
</table>
</div>
<?php endif; ?>
</div>
<div id="raw" class="tab-content">
<div class="json-viewer">
<pre><?php echo htmlspecialchars(json_encode($result, JSON_PRETTY_PRINT | JSON_UNESCAPED_SLASHES)); ?></pre>
</div>
</div>
<?php endif; ?>
</div>
<script>
function switchTab(tabName) {
// Hide all tabs
document.querySelectorAll('.tab-content').forEach(el => el.classList.remove('active'));
document.querySelectorAll('.tab-btn').forEach(el => el.classList.remove('active'));
// Show selected tab
document.getElementById(tabName).classList.add('active');
event.target.classList.add('active');
}
function toggleAccordion(btn) {
btn.classList.toggle('active');
btn.nextElementSibling.classList.toggle('active');
}
</script>
</body>
</html>
|
Download
