Alexandre
310 lines
12 KiB
PHP
310 lines
12 KiB
PHP
<?php
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/* Basic input sanitation */
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$_GET = filter_input_array(INPUT_GET, FILTER_SANITIZE_STRING) ?: [];
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$_POST = filter_input_array(INPUT_POST, FILTER_SANITIZE_STRING) ?: [];
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require_once __DIR__ . '/common.php';
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ensure_authenticated();
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$home = get_home();
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$db = new SQLite3(__DIR__ . '/birds.db', SQLITE3_OPEN_READWRITE);
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$db->busyTimeout(1000);
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/* Paths / lists */
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$base_symlink = $home . '/BirdSongs/Extracted/By_Date';
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$base = realpath($base_symlink); // used only for safety checks
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$confirm_file = __DIR__ . '/confirmed_species_list.txt';
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$exclude_file = __DIR__ . '/exclude_species_list.txt';
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$whitelist_file = __DIR__ . '/whitelist_species_list.txt';
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foreach ([$confirm_file, $exclude_file, $whitelist_file] as $file) {
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if (!file_exists($file)) {
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touch($file);
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}
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}
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$confirmed_species = file_exists($confirm_file) ? file($confirm_file, FILE_IGNORE_NEW_LINES | FILE_SKIP_EMPTY_LINES) : [];
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$excluded_species = file_exists($exclude_file) ? file($exclude_file, FILE_IGNORE_NEW_LINES | FILE_SKIP_EMPTY_LINES) : [];
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$whitelisted_species = file_exists($whitelist_file) ? file($whitelist_file, FILE_IGNORE_NEW_LINES | FILE_SKIP_EMPTY_LINES) : [];
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$config = get_config();
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$sf_thresh = isset($config['SF_THRESH']) ? (float)$config['SF_THRESH'] : 0.0;
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/* ---------- helpers (tiny, single-purpose) ---------- */
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function join_path(...$parts): string {
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return preg_replace('#/+#', '/', implode('/', $parts));
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}
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function can_unlink(string $p): bool {
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// unlink-able: symlink (even dangling) or regular file
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return is_link($p) || is_file($p);
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}
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function under_base(string $path, string $base): bool {
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if ($base === false) return false;
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$baseReal = rtrim(realpath($base) ?: $base, DIRECTORY_SEPARATOR);
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$resolved = realpath($path);
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if ($resolved === false) {
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$parent = realpath(dirname($path));
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if ($parent === false) return false;
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$resolved = $parent . DIRECTORY_SEPARATOR . basename($path);
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}
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return $resolved === $baseReal || strpos($resolved, $baseReal . DIRECTORY_SEPARATOR) === 0;
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}
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/**
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* Collect detection count, files to delete (unique), first scientific name,
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* and dirs to try rmdir later — for a given species.
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*/
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function collect_species_targets(SQLite3 $db, string $species, string $home, $base): array {
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$stmt = $db->prepare('SELECT Date, Com_Name, Sci_Name, File_Name FROM detections WHERE Com_Name = :name');
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ensure_db_ok($stmt);
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$stmt->bindValue(':name', $species, SQLITE3_TEXT);
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$res = $stmt->execute();
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$count = 0;
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$files = [];
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$dirs = [];
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$sci = null;
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while ($row = $res->fetchArray(SQLITE3_ASSOC)) {
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$count++;
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if ($sci === null) $sci = $row['Sci_Name'];
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$dir = str_replace([' ', "'"], ['_', ''], $row['Com_Name']);
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$candidates = [
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join_path($home, 'BirdSongs/Extracted/By_Date', $row['Date'], $dir, $row['File_Name']),
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join_path($home, 'BirdSongs/Extracted/By_Date/shifted', $row['Date'], $dir, $row['File_Name']),
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];
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foreach ($candidates as $c) {
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if (can_unlink($c) && under_base($c, $base)) {
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$files[$c] = true; $dirs[] = dirname($c); continue;
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}
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$d = realpath(dirname($c));
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if ($d !== false) {
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$alt = $d . DIRECTORY_SEPARATOR . basename($c);
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if (can_unlink($alt) && under_base($alt, $base)) {
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$files[$alt] = true; $dirs[] = dirname($alt);
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}
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}
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}
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}
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return [
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'count' => $count,
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'files' => array_keys($files),
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'dirs' => array_values(array_unique($dirs)),
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'sci' => $sci,
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];
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}
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/* ---------- toggle exclude/whitelist/confirmed ---------- */
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if (isset($_GET['toggle'], $_GET['species'], $_GET['action'])) {
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$list = $_GET['toggle'];
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$species = htmlspecialchars_decode($_GET['species'], ENT_QUOTES);
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if ($list === 'exclude') {
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$file = $exclude_file;
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} elseif ($list === 'whitelist') {
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$file = $whitelist_file;
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} elseif ($list === 'confirmed') {
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$file = $confirm_file;
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} else {
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header('Content-Type: text/plain'); echo 'Invalid list type'; exit;
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}
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$lines = file_exists($file) ? file($file, FILE_IGNORE_NEW_LINES | FILE_SKIP_EMPTY_LINES) : [];
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if ($_GET['action'] === 'add') {
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if (!in_array($species, $lines, true)) $lines[] = $species;
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} else {
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$lines = array_values(array_filter($lines, fn($l) => $l !== $species));
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}
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file_put_contents($file, implode("\n", $lines) . (empty($lines) ? "" : "\n"));
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header('Content-Type: text/plain'); echo 'OK'; exit;
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}
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/* ---------- count (keeps your old "getcounts=" API) ---------- */
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if (isset($_GET['getcounts'])) {
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header('Content-Type: application/json');
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if ($base === false) { http_response_code(500); exit(json_encode(['error' => 'Base directory not found'])); }
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$species = htmlspecialchars_decode($_GET['getcounts'], ENT_QUOTES);
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$info = collect_species_targets($db, $species, $home, $base);
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echo json_encode(['count' => $info['count'], 'files' => count($info['files'])]); exit;
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}
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/* ---------- delete (keeps your old "delete=" API) ---------- */
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if (isset($_GET['delete'])) {
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header('Content-Type: application/json');
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if ($base === false) { http_response_code(500); exit(json_encode(['error' => 'Base directory not found'])); }
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$species = htmlspecialchars_decode($_GET['delete'], ENT_QUOTES);
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$info = collect_species_targets($db, $species, $home, $base);
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$deleted = 0;
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foreach ($info['files'] as $fp) {
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if (!under_base($fp, $base)) continue;
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if (can_unlink($fp) && @unlink($fp)) {
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$deleted++;
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// thumbnails: "file.wav.png" and "file.png"
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foreach ([$fp . '.png', preg_replace('/\.[^.]+$/', '.png', $fp)] as $png) {
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if (can_unlink($png)) @unlink($png);
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}
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}
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}
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foreach ($info['dirs'] as $dir) {
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if (under_base($dir, $base)) @rmdir($dir); // best effort
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}
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// DB rows
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$del = $db->prepare('DELETE FROM detections WHERE Com_Name = :name');
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ensure_db_ok($del);
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$del->bindValue(':name', $species, SQLITE3_TEXT);
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$del->execute();
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$lines_deleted = $db->changes();
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// Remove from confirmed list
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if ($info['sci'] !== null && file_exists($confirm_file)) {
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$identifier = str_replace("'", '', $info['sci']);
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$lines = array_values(array_filter($confirmed_species, fn($l) => $l !== $identifier));
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file_put_contents($confirm_file, implode("\n", $lines) . (empty($lines) ? "" : "\n"));
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}
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echo json_encode(['lines' => $lines_deleted, 'files' => $deleted]); exit;
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}
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/* ---------- page (unchanged semantics; minor tidy) ---------- */
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$result = fetch_species_array('alphabetical');
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?>
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<style>
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.circle-icon{display:inline-block;width:12px;height:12px;border:1px solid #777;border-radius:50%;cursor:pointer;}
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.centered{max-width:1100px;margin:0 auto}
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#speciesTable th{cursor:pointer}
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</style>
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<div class="centered">
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<table id="speciesTable">
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<thead>
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<tr>
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<th onclick="sortTable(0)">Common Name</th>
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<th onclick="sortTable(1)">Scientific Name</th>
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<th onclick="sortTable(2)">Identifications</th>
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<th onclick="sortTable(3)">Max Confidence</th>
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<th onclick="sortTable(4)">Threshold</th>
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<th onclick="sortTable(5)">Confirmed</th>
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<th onclick="sortTable(6)">Excluded</th>
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<th onclick="sortTable(7)">Whitelisted</th>
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<th>Delete</th>
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</tr>
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</thead>
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<tbody>
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<?php while ($row = $result->fetchArray(SQLITE3_ASSOC)) {
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$common = htmlspecialchars($row['Com_Name'], ENT_QUOTES);
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$scient = htmlspecialchars($row['Sci_Name'], ENT_QUOTES);
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$count = (int)$row['Count'];
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$max_confidence = round((float)$row['MaxConfidence'] * 100, 1);
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$identifier = str_replace("'", '', $row['Sci_Name'].'_'.$row['Com_Name']);
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$identifier_sci = str_replace("'", '', $row['Sci_Name']);
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$common_link = "<a href='views.php?view=Recordings&species="
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. rawurlencode($row['Sci_Name']) . "'>{$common}</a>";
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$is_confirmed = in_array($identifier_sci, $confirmed_species, true);
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$is_excluded = in_array($identifier, $excluded_species, true);
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$is_whitelisted = in_array($identifier, $whitelisted_species, true);
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$confirm_cell = $is_confirmed
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? "<img style='cursor:pointer;max-width:12px;max-height:12px' src='images/check.svg' onclick=\"toggleSpecies('confirmed','".str_replace("'", '', $identifier_sci)."','del')\">"
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: "<span class='circle-icon' onclick=\"toggleSpecies('confirmed','".str_replace("'", '', $identifier_sci)."','add')\"></span>";
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$excl_cell = $is_excluded
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? "<img style='cursor:pointer;max-width:12px;max-height:12px' src='images/check.svg' onclick=\"toggleSpecies('exclude','".str_replace("'", '', $identifier)."','del')\">"
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: "<span class='circle-icon' onclick=\"toggleSpecies('exclude','".str_replace("'", '', $identifier)."','add')\"></span>";
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$white_cell = $is_whitelisted
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? "<img style='cursor:pointer;max-width:12px;max-height:12px' src='images/check.svg' onclick=\"toggleSpecies('whitelist','".str_replace("'", '', $identifier)."','del')\">"
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: "<span class='circle-icon' onclick=\"toggleSpecies('whitelist','".str_replace("'", '', $identifier)."','add')\"></span>";
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echo "<tr data-comname=\"{$common}\"><td>{$common_link}</td><td><i>{$scient}</i></td><td>{$count}</td>"
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. "<td data-sort='{$max_confidence}'>{$max_confidence}%</td>"
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. "<td class='threshold' data-sort='0'>0.0000</td>"
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. "<td data-sort='".($is_confirmed?0:1)."'>".$confirm_cell."</td>"
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. "<td data-sort='".($is_excluded?0:1)."'>".$excl_cell."</td>"
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. "<td data-sort='".($is_whitelisted?0:1)."'>".$white_cell."</td>"
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. "<td><img style='cursor:pointer;max-width:20px' src='images/delete.svg' onclick=\"deleteSpecies('".addslashes($row['Com_Name'])."')\"></td></tr>";
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} ?>
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</tbody>
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</table>
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</div>
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<script>
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const scriptsBase = 'scripts/';
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const sfThresh = <?php echo json_encode($sf_thresh, JSON_UNESCAPED_UNICODE); ?>;
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// tiny fetch helper
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const get = (url) => fetch(url, {cache:'no-store'}).then(r => r.text());
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function loadThresholds() {
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get(scriptsBase + 'config.php?threshold=0').then(text => {
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const lines = (text || '').split(/\r?\n/);
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const map = Object.create(null);
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for (const line of lines) {
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const m = line.match(/^(.*)\s-\s([0-9.]+)\s*$/);
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if (!m) continue;
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const left = m[1].trim();
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const val = parseFloat(m[2]);
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if (Number.isNaN(val)) continue;
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const u = left.lastIndexOf('_');
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const common = u >= 0 ? left.slice(u + 1) : left;
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map[common] = val; map[left] = val;
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}
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const decoder = document.createElement('textarea');
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document.querySelectorAll('#speciesTable tbody tr').forEach(row => {
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decoder.innerHTML = row.getAttribute('data-comname') || '';
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const commonName = decoder.value;
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if (Object.prototype.hasOwnProperty.call(map, commonName)) {
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const v = map[commonName];
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const cell = row.querySelector('td.threshold');
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cell.textContent = v.toFixed(4);
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cell.style.color = v >= sfThresh ? 'green' : 'red';
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cell.dataset.sort = v.toFixed(4);
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}
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});
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});
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}
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document.addEventListener('DOMContentLoaded', loadThresholds);
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function toggleSpecies(list, species, action) {
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get(scriptsBase + 'species_tools.php?toggle=' + list + '&species=' + encodeURIComponent(species) + '&action=' + action)
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.then(t => { if (t.trim() === 'OK') location.reload(); });
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}
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function deleteSpecies(species) {
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get(scriptsBase + 'species_tools.php?getcounts=' + encodeURIComponent(species)).then(t => {
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let info; try { info = JSON.parse(t); } catch { alert('Could not parse count response'); return; }
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if (!confirm('Delete ' + info.count + ' detections and ' + info.files + ' files for ' + species + '?')) return;
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get(scriptsBase + 'species_tools.php?delete=' + encodeURIComponent(species)).then(t2 => {
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try {
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const res = JSON.parse(t2);
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alert('Deleted ' + res.lines + ' detections and ' + res.files + ' files for ' + species);
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} catch { alert('Deletion complete'); }
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location.reload();
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});
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});
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}
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function sortTable(n) {
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const table = document.getElementById('speciesTable');
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const tbody = table.tBodies[0];
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const rows = Array.from(tbody.rows);
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const asc = table.getAttribute('data-sort-' + n) !== 'asc';
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rows.sort((a, b) => {
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let x = a.cells[n].dataset.sort ?? a.cells[n].innerText.toLowerCase();
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let y = b.cells[n].dataset.sort ?? b.cells[n].innerText.toLowerCase();
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const nx = parseFloat(x), ny = parseFloat(y);
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if (!Number.isNaN(nx) && !Number.isNaN(ny)) { x = nx; y = ny; }
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return (x < y ? (asc ? -1 : 1) : (x > y ? (asc ? 1 : -1) : 0));
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});
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rows.forEach(r => tbody.appendChild(r));
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table.setAttribute('data-sort-' + n, asc ? 'asc' : 'desc');
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}
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</script>
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