if ($tmpfile == null) {
$_SESSION['bgjob']['newModel'] = null;
} else {
$id = addModelOrEnsemble($tmpfile, strtolower("{$code}.pdb"), $_SESSION['bgjob']['isCnsFormat'], $_SESSION['bgjob']['ignoreSegID'], false);
if (isset($_SESSION['bgjob']['xray'])) {
addXraydata(strtolower($code), $id);
}
// Clean up temp files
unlink($tmpfile);
if (preg_match('/^[0-9A-Z]{4}$/i', $code) && ($_SESSION['bgjob']['eds_2fofc'] || $_SESSION['bgjob']['eds_fofc'])) {
getMaps($code);
}
}
} else {
// Remove illegal chars from the upload file name
$origName = censorFileName($_SESSION['bgjob']['origName'], array("pdb", "ent", "xyz", "mtz"));
$fileSource = "local disk";
if (isset($_SESSION['bgjob']['tmpPdb'])) {
$id = addModelOrEnsemble($_SESSION['bgjob']['tmpPdb'], $origName, $_SESSION['bgjob']['isCnsFormat'], $_SESSION['bgjob']['ignoreSegID'], true);
// Clean up temp files
unlink($_SESSION['bgjob']['tmpPdb']);
} elseif (isset($_SESSION['bgjob']['tmpMtz'])) {
addMtz($_SESSION['bgjob']['tmpMtz'], $origName);
// Clean up temp files
unlink($_SESSION['bgjob']['tmpMtz']);
}
}
// Automatic labbook entry
if (isset($id)) {
// this is now the "working model" until overriden (could also be an ensemble)
$_SESSION['lastUsedModelID'] = $id;
mpSessReadOnly();
// could occur while a background job is running...
#{{{ a_function_definition - sumary_statement_goes_here
############################################################################
/**
* Documentation for this function.
*/
//function someFunctionName() {}
#}}}########################################################################
# MAIN - the beginning of execution for this page
############################################################################
if (!isset($_REQUEST['fileName']) || !isset($_REQUEST['fileContents'])) {
die("This page for file uploads only");
}
// First make sure this is a legal file name with no weird chars, ending in .kin
$outname = censorFileName($_REQUEST['fileName'], "kin");
// Now make sure we have a directory to put it in
$outpath = $_SESSION['dataDir'] . '/' . MP_DIR_KINS;
if (!file_exists($outpath)) {
mkdir($outpath, 0777);
}
// Finally, make sure we don't overwrite anything already in existance!
while (file_exists("{$outpath}/{$outname}" . $serial)) {
$serial++;
}
$outpath = "{$outpath}/{$outname}" . $serial;
$h = fopen($outpath, 'wb');
fwrite($h, $_REQUEST['fileContents']);
fclose($h);
$size = strlen($_REQUEST['fileContents']);
echo "OK name={$outpath}; size={$size}\n";
/**
* Documentation for this function.
*/
function onUploadMapFile()
{
if ($_REQUEST['cmd'] == "Cancel") {
pageReturn();
} else {
// List of allowed map extensions taken from KiNG's EDMapPlugin
$mapName = censorFileName($_FILES['uploadFile']['name'], array('map', 'omap', 'xmap', 'dn6', 'dsn6', 'ccp4', 'mbk', 'xplor', 'brix', 'map.gz', 'omap.gz', 'xmap.gz', 'dn6.gz', 'dsn6.gz', 'ccp4.gz', 'mbk.gz', 'xplor.gz', 'brix.gz'));
// make sure no spaces, etc.
$mapPath = "{$_SESSION['dataDir']}/" . MP_DIR_EDMAPS;
if (!file_exists($mapPath)) {
mkdir($mapPath, 0777);
}
$mapPath .= "/{$mapName}";
if (!$_FILES['uploadFile']['error'] && $_FILES['uploadFile']['size'] > 0 && !file_exists($mapPath) && move_uploaded_file($_FILES['uploadFile']['tmp_name'], $mapPath)) {
// Uploaded file probably has restrictive permissions
chmod($mapPath, 0666 & ~MP_UMASK);
$_SESSION['edmaps'][$mapName] = $mapName;
mpLog("edmap-upload:User uploaded an electron density map file");
pageGoto("upload_other_done.php", array('type' => 'map', 'mapName' => $mapName));
} else {
$this->doUploadError('map', $mapPath);
}
}
}
