public static function patchFile($item, $info, $algorithm, $patch)
{
switch ($algorithm) {
case 'bsdiff':
case 'xdelta':
case 'vcdiff':
break;
case 'xdiff':
if (!function_exists('xdiff_file_patch_binary')) {
throw new Exception("=xdiff not available");
}
break;
default:
throw new Exception("Invalid algorithm '{$algorithm}'", Z_ERROR_INVALID_INPUT);
}
$originalInfo = Zotero_S3::getLocalFileItemInfo($item);
$basePath = "/tmp/zfsupload/";
$path = $basePath . $info->hash . "_" . uniqid() . "/";
mkdir($path, 0777, true);
$cleanup = function () use($basePath, $path) {
unlink("original");
unlink("patch");
unlink("new");
chdir($basePath);
rmdir($path);
};
$e = null;
try {
// Download file from S3 to temp directory
if (!Zotero_S3::downloadFile($originalInfo, $path, "original")) {
throw new Exception("Error downloading original file");
}
chdir($path);
// Save body to temp file
file_put_contents("patch", $patch);
// Patch file
switch ($algorithm) {
case 'bsdiff':
exec('bspatch original new patch 2>&1', $output, $ret);
if ($ret) {
throw new Exception("Error applying patch ({$ret}): " . implode("\n", $output));
}
if (!file_exists("new")) {
throw new Exception("Error applying patch ({$ret})");
}
break;
case 'xdelta':
case 'vcdiff':
exec('xdelta3 -d -s original patch new 2>&1', $output, $ret);
if ($ret) {
if ($ret == 2) {
Z_HTTP::e400("Invalid delta");
}
throw new Exception("Error applying patch ({$ret}): " . implode("\n", $output));
}
if (!file_exists("new")) {
throw new Exception("Error applying patch ({$ret})");
}
break;
case 'xdiff':
$ret = xdiff_file_patch_binary("original", "patch", "new");
if (!$ret) {
throw new Exception("Error applying patch");
}
break;
}
// Check MD5 hash
if (md5_file("new") != $info->hash) {
$cleanup();
Z_HTTP::e409("Patched file does not match hash");
}
// Check file size
if (filesize("new") != $info->size) {
$cleanup();
Z_HTTP::e409("Patched file size does not match (" . filesize("new") . " != {$info->size})");
}
// If ZIP, make sure it's a ZIP
if ($info->zip && file_get_contents("new", false, null, 0, 4) != "PK" . chr(03) . chr(04)) {
$cleanup();
Z_HTTP::e409("Patched file is not a ZIP file");
}
// Upload to S3
$t = $info->contentType . ($info->contentType && $info->charset ? "; charset={$info->charset}" : "");
$storageFileID = Zotero_S3::uploadFile($info, "new", $t);
} catch (Exception $e) {
//$cleanup();
throw $e;
}
return $storageFileID;
}
/**
* Converts a Zotero_Item object to a SimpleXMLElement Atom object
*
* @param object $item Zotero_Item object
* @param string $content
* @return SimpleXMLElement Item data as SimpleXML element
*/
public static function convertItemToAtom(Zotero_Item $item, $queryParams, $apiVersion = null, $permissions = null, $sharedData = null)
{
$content = $queryParams['content'];
$contentIsHTML = sizeOf($content) == 1 && $content[0] == 'html';
$contentParamString = urlencode(implode(',', $content));
$style = $queryParams['style'];
$entry = '<entry xmlns="' . Zotero_Atom::$nsAtom . '" xmlns:zapi="' . Zotero_Atom::$nsZoteroAPI . '"/>';
$xml = new SimpleXMLElement($entry);
$title = $item->getDisplayTitle(true);
$title = $title ? $title : '[Untitled]';
$xml->title = $title;
$author = $xml->addChild('author');
$createdByUserID = null;
switch (Zotero_Libraries::getType($item->libraryID)) {
case 'group':
$createdByUserID = $item->createdByUserID;
break;
}
if ($createdByUserID) {
$author->name = Zotero_Users::getUsername($createdByUserID);
$author->uri = Zotero_URI::getUserURI($createdByUserID);
} else {
$author->name = Zotero_Libraries::getName($item->libraryID);
$author->uri = Zotero_URI::getLibraryURI($item->libraryID);
}
$id = Zotero_URI::getItemURI($item);
/*if (!$contentIsHTML) {
$id .= "?content=$content";
}*/
$xml->id = $id;
$xml->published = Zotero_Date::sqlToISO8601($item->getField('dateAdded'));
$xml->updated = Zotero_Date::sqlToISO8601($item->getField('dateModified'));
$link = $xml->addChild("link");
$link['rel'] = "self";
$link['type'] = "application/atom+xml";
$href = Zotero_Atom::getItemURI($item);
if (!$contentIsHTML) {
$href .= "?content={$contentParamString}";
}
$link['href'] = $href;
$parent = $item->getSource();
if ($parent) {
// TODO: handle group items?
$parentItem = Zotero_Items::get($item->libraryID, $parent);
$link = $xml->addChild("link");
$link['rel'] = "up";
$link['type'] = "application/atom+xml";
$href = Zotero_Atom::getItemURI($parentItem);
if (!$contentIsHTML) {
$href .= "?content={$contentParamString}";
}
$link['href'] = $href;
}
$link = $xml->addChild('link');
$link['rel'] = 'alternate';
$link['type'] = 'text/html';
$link['href'] = Zotero_URI::getItemURI($item);
// If appropriate permissions and the file is stored in ZFS, get file request link
if ($permissions && $permissions->canAccess($item->libraryID, 'files')) {
$details = Zotero_S3::getDownloadDetails($item);
if ($details) {
$link = $xml->addChild('link');
$link['rel'] = 'enclosure';
$type = $item->attachmentMIMEType;
if ($type) {
$link['type'] = $type;
}
$link['href'] = $details['url'];
if (!empty($details['filename'])) {
$link['title'] = $details['filename'];
}
if (!empty($details['size'])) {
$link['length'] = $details['size'];
}
}
}
$xml->addChild('zapi:key', $item->key, Zotero_Atom::$nsZoteroAPI);
$xml->addChild('zapi:itemType', Zotero_ItemTypes::getName($item->itemTypeID), Zotero_Atom::$nsZoteroAPI);
if ($item->isRegularItem()) {
$val = $item->creatorSummary;
if ($val !== '') {
$xml->addChild('zapi:creatorSummary', htmlspecialchars($val), Zotero_Atom::$nsZoteroAPI);
}
$val = substr($item->getField('date', true, true, true), 0, 4);
if ($val !== '' && $val !== '0000') {
$xml->addChild('zapi:year', $val, Zotero_Atom::$nsZoteroAPI);
}
}
if (!$parent && $item->isRegularItem()) {
if ($permissions && !$permissions->canAccess($item->libraryID, 'notes')) {
$numChildren = $item->numAttachments();
} else {
$numChildren = $item->numChildren();
}
$xml->addChild('zapi:numChildren', $numChildren, Zotero_Atom::$nsZoteroAPI);
}
$xml->addChild('zapi:numTags', $item->numTags(), Zotero_Atom::$nsZoteroAPI);
$xml->content = '';
//
// DOM XML from here on out
//
$contentNode = dom_import_simplexml($xml->content);
$domDoc = $contentNode->ownerDocument;
$multiFormat = sizeOf($content) > 1;
// Create a root XML document for multi-format responses
if ($multiFormat) {
$contentNode->setAttribute('type', 'application/xml');
/*$multicontent = $domDoc->createElementNS(
Zotero_Atom::$nsZoteroAPI, 'multicontent'
);
$contentNode->appendChild($multicontent);*/
}
foreach ($content as $type) {
// Set the target to either the main <content>
// or a <multicontent> <content>
if (!$multiFormat) {
$target = $contentNode;
} else {
$target = $domDoc->createElementNS(Zotero_Atom::$nsZoteroAPI, 'subcontent');
$contentNode->appendChild($target);
}
$target->setAttributeNS(Zotero_Atom::$nsZoteroAPI, "zapi:type", $type);
if ($type == 'html') {
if (!$multiFormat) {
$target->setAttribute('type', 'xhtml');
}
$div = $domDoc->createElement('div');
$div->setAttribute('xmlns', Zotero_Atom::$nsXHTML);
$target->appendChild($div);
$html = $item->toHTML(true);
$subNode = dom_import_simplexml($html);
$importedNode = $domDoc->importNode($subNode, true);
$div->appendChild($importedNode);
} else {
if ($type == 'citation') {
if (!$multiFormat) {
$target->setAttribute('type', 'xhtml');
}
if (isset($sharedData[$type][$item->libraryID . "/" . $item->key])) {
$html = $sharedData[$type][$item->libraryID . "/" . $item->key];
} else {
if ($sharedData !== null) {
error_log("Citation not found in sharedData -- retrieving individually");
}
$html = Zotero_Cite::getCitationFromCiteServer($item, $style);
}
$html = new SimpleXMLElement($html);
$html['xmlns'] = Zotero_Atom::$nsXHTML;
$subNode = dom_import_simplexml($html);
$importedNode = $domDoc->importNode($subNode, true);
$target->appendChild($importedNode);
} else {
if ($type == 'bib') {
if (!$multiFormat) {
$target->setAttribute('type', 'xhtml');
}
if (isset($sharedData[$type][$item->libraryID . "/" . $item->key])) {
$html = $sharedData[$type][$item->libraryID . "/" . $item->key];
} else {
if ($sharedData !== null) {
error_log("Bibliography not found in sharedData -- retrieving individually");
}
$html = Zotero_Cite::getBibliographyFromCitationServer(array($item), $style);
}
$html = new SimpleXMLElement($html);
$html['xmlns'] = Zotero_Atom::$nsXHTML;
$subNode = dom_import_simplexml($html);
$importedNode = $domDoc->importNode($subNode, true);
$target->appendChild($importedNode);
} else {
if ($type == 'json') {
$target->setAttributeNS(Zotero_Atom::$nsZoteroAPI, "zapi:etag", $item->etag);
$textNode = $domDoc->createTextNode($item->toJSON(false, $queryParams['pprint'], true));
$target->appendChild($textNode);
} else {
if ($type == 'csljson') {
$arr = $item->toCSLItem();
$mask = JSON_HEX_TAG | JSON_HEX_AMP;
if ($queryParams['pprint']) {
$json = Zotero_Utilities::json_encode_pretty($arr, $mask);
} else {
$json = json_encode($arr, $mask);
}
// Until JSON_UNESCAPED_SLASHES is available
$json = str_replace('\\/', '/', $json);
$textNode = $domDoc->createTextNode($json);
$target->appendChild($textNode);
} else {
if ($type == 'full') {
if (!$multiFormat) {
$target->setAttribute('type', 'xhtml');
}
$fullXML = Zotero_Items::convertItemToXML($item, array(), $apiVersion);
$fullXML->addAttribute("xmlns", Zotero_Atom::$nsZoteroTransfer);
$subNode = dom_import_simplexml($fullXML);
$importedNode = $domDoc->importNode($subNode, true);
$target->appendChild($importedNode);
} else {
if (in_array($type, Zotero_Translate::$exportFormats)) {
$export = Zotero_Translate::doExport(array($item), $type);
$target->setAttribute('type', $export['mimeType']);
// Insert XML into document
if (preg_match('/\\+xml$/', $export['mimeType'])) {
// Strip prolog
$body = preg_replace('/^<\\?xml.+\\n/', "", $export['body']);
$subNode = $domDoc->createDocumentFragment();
$subNode->appendXML($body);
$target->appendChild($subNode);
} else {
$textNode = $domDoc->createTextNode($export['body']);
$target->appendChild($textNode);
}
}
}
}
}
}
}
}
}
return $xml;
}
public function storagetransferbucket()
{
// DISABLED
$this->e404();
if (!$this->permissions->isSuper()) {
$this->e404();
}
$this->allowMethods(array('POST'));
Zotero_S3::transferBucket('zoterofilestorage', 'zoterofilestoragetest');
exit;
}
/**
* Download ZIP file from S3, extract it, and return a temporary URL
* pointing to the main file
*/
public static function getTemporaryURL(Zotero_Item $item, $localOnly = false)
{
$extURLPrefix = Z_CONFIG::$ATTACHMENT_SERVER_URL;
if ($extURLPrefix[strlen($extURLPrefix) - 1] != "/") {
$extURLPrefix .= "/";
}
$info = Zotero_S3::getLocalFileItemInfo($item);
$storageFileID = $info['storageFileID'];
$filename = $info['filename'];
$mtime = $info['mtime'];
if (!$info['zip']) {
throw new Exception("Not a zip attachment");
}
$realFilename = preg_replace("/^storage:/", "", $item->attachmentPath);
$realFilename = self::decodeRelativeDescriptorString($realFilename);
$realFilename = urlencode($realFilename);
$docroot = Z_CONFIG::$ATTACHMENT_SERVER_DOCROOT;
//Z_Core::$debug = true;
// Check memcached to see if file is already extracted
$key = "attachmentServerString_" . $storageFileID . "_" . $mtime;
if ($randomStr = Z_Core::$MC->get($key)) {
Z_Core::debug("Got attachment path '{$randomStr}/{$realFilename}' from memcached");
return $extURLPrefix . "{$randomStr}/{$realFilename}";
}
$localAddr = gethostbyname(gethostname());
// See if this is an attachment host
$index = false;
$skipHost = false;
for ($i = 0, $len = sizeOf(Z_CONFIG::$ATTACHMENT_SERVER_HOSTS); $i < $len; $i++) {
$hostAddr = gethostbyname(Z_CONFIG::$ATTACHMENT_SERVER_HOSTS[$i]);
if ($hostAddr == $localAddr) {
// Make a HEAD request on the local static port to make sure
// this host is actually functional
$url = "http://" . Z_CONFIG::$ATTACHMENT_SERVER_HOSTS[$i] . ":" . Z_CONFIG::$ATTACHMENT_SERVER_STATIC_PORT . "/";
Z_Core::debug("Making HEAD request to {$url}");
$ch = curl_init($url);
curl_setopt($ch, CURLOPT_NOBODY, 1);
curl_setopt($ch, CURLOPT_HTTPHEADER, array("Expect:"));
curl_setopt($ch, CURLOPT_CONNECTTIMEOUT, 1);
curl_setopt($ch, CURLOPT_TIMEOUT, 2);
curl_setopt($ch, CURLOPT_HEADER, 0);
// do not return HTTP headers
curl_setopt($ch, CURLOPT_RETURNTRANSFER, 1);
$response = curl_exec($ch);
$code = curl_getinfo($ch, CURLINFO_HTTP_CODE);
if ($code != 200) {
$skipHost = Z_CONFIG::$ATTACHMENT_SERVER_HOSTS[$i];
if ($code == 0) {
Z_Core::logError("Error connecting to local attachments server");
} else {
Z_Core::logError("Local attachments server returned {$code}");
}
break;
}
$index = $i + 1;
break;
}
}
// If not, make an internal root request to trigger the extraction on
// one of them and retrieve the temporary URL
if ($index === false) {
// Prevent redirect madness if target server doesn't think it's an
// attachment server
if ($localOnly) {
throw new Exception("Internal attachments request hit a non-attachment server");
}
$prefix = 'http://' . Z_CONFIG::$API_SUPER_USERNAME . ":" . Z_CONFIG::$API_SUPER_PASSWORD . "@";
$path = Zotero_API::getItemURI($item) . "/file/view?int=1";
$path = preg_replace('/^[^:]+:\\/\\/[^\\/]+/', '', $path);
$context = stream_context_create(array('http' => array('follow_location' => 0)));
$url = false;
$hosts = Z_CONFIG::$ATTACHMENT_SERVER_HOSTS;
// Try in random order
shuffle($hosts);
foreach ($hosts as $host) {
// Don't try the local host again if we know it's not working
if ($host == $skipHost) {
continue;
}
$intURL = $prefix . $host . ":" . Z_CONFIG::$ATTACHMENT_SERVER_DYNAMIC_PORT . $path;
Z_Core::debug("Making GET request to {$host}");
if (file_get_contents($intURL, false, $context) !== false) {
foreach ($http_response_header as $header) {
if (preg_match('/^Location:\\s*(.+)$/', $header, $matches)) {
if (strpos($matches[1], $extURLPrefix) !== 0) {
throw new Exception("Redirect location '" . $matches[1] . "'" . " does not begin with {$extURLPrefix}");
}
return $matches[1];
}
}
}
}
return false;
}
// If this is an attachment host, do the extraction inline
// and generate a random number with an embedded host id.
//
// The reverse proxy routes incoming file requests to the proper hosts
// using the embedded id.
//
// A cron job deletes old attachment directories
$randomStr = rand(1000000, 2147483647);
// Seventh number is the host id
$randomStr = substr($randomStr, 0, 6) . $index . substr($randomStr, 6);
// Download and extract file
$dir = $docroot . $randomStr . "/";
$tmpDir = $dir . "ztmp/";
if (!mkdir($tmpDir, 0777, true)) {
throw new Exception("Unable to create directory '{$tmpDir}'");
}
Z_Core::debug("Downloading attachment to {$dir}");
$response = Zotero_S3::downloadFile($info, $tmpDir);
$success = self::extractZip($tmpDir . $info['filename'], $dir);
unlink($tmpDir . $info['filename']);
rmdir($tmpDir);
if (!$success) {
return false;
}
Z_Core::$MC->set($key, $randomStr, self::$cacheTime);
return $extURLPrefix . "{$randomStr}/" . $realFilename;
}
