die("can only run from cli");
}
$options = getopt('fi::');
if (!isset($options['i'])) {
die("Usage: php {$argv[0]} [-f] -i SEQUENCCENAME\n");
}
$data = array();
// set the type argument
if (isset($options['f'])) {
$data['type'] = 'full';
} else {
$data['type'] = 'seed';
}
$data['fmt'] = 'stockholm';
$data['name'] = $options['i'];
$response = doPOST('http://rfam.janelia.org/cgi-bin/getalignment', http_build_query($data));
$lines = split("\n", $response);
$data = array();
$control = array();
foreach ($lines as $line) {
if (strlen($line) > 2 && $line[0] == '#') {
// line is a control line
$count = preg_match("/^#=([A-Z_]{1,5})[ \t]+([A-Za-z_]+)[ \t]+([^\r]*)\$/", $line, $matches);
if ($count > 0) {
if (!isset($control[$matches[1]])) {
$control[$matches[1]] = array();
}
if (!isset($control[$matches[1]][$matches[2]])) {
$control[$matches[1]][$matches[2]] = array();
}
$control[$matches[1]][$matches[2]][] = $matches[3];
function routeRequest($gpio)
{
$method = $_SERVER['REQUEST_METHOD'];
$request_uri = $_SERVER['REQUEST_URI'];
$root = $_SERVER['DOCUMENT_ROOT'];
$script = $_SERVER['SCRIPT_FILENAME'];
$path = pathinfo($script);
$context = substr($path['dirname'], strlen($root));
$uri = substr($request_uri, strlen($context));
$vars = explode('/', $uri);
global $SERVER_VERSION;
header("Server: " + $SERVER_VERSION);
if ($method == "GET") {
doGET($gpio, $vars);
} else {
if ($method == "POST") {
doPOST($gpio, $vars);
} else {
sendError(405, "Not Allowed");
}
}
}
http_response_code(500);
die;
} else {
$id = $stmt->insert_id;
$data = getRecord($conn, $id);
printJsonObject($id, $data);
http_response_code(201);
}
}
function doGET($conn, $id)
{
$data = getRecord($conn, $id);
printJsonObject($id, $data);
}
switch ($method) {
case 'PUT':
doPUT($conn, $req);
break;
case 'POST':
session_start();
doPOST($conn, $req);
saveConfigValue($conn, 'add_from', $req['from']);
saveConfigValue($conn, 'add_to', $req['to']);
saveConfigValue($conn, 'add_from_currency', $req['fromCurrency']);
session_write_close();
break;
case 'GET':
doGET($conn, $_GET["id"]);
break;
}
$conn->close();
