function canIngestHere($collection_pid)
{
global $user;
module_load_include('php', 'Fedora_Repository', 'ObjectHelper');
$objectHelper = new ObjectHelper();
//get the childsecurity policy from the collection.
$policyStream = $objectHelper->getStream($collection_pid, SECURITYCLASS::$SECURITYSTREAM, false);
if ($policyStream == null) {
//no child policy stream so collection is wide open to anyone to ingest, that has the permission ingest in Drupal.
//maybe we should return false here?? would be more secure.
return true;
}
$allowedUsersAndRoles = $this->getAllowedUsersAndRoles($policyStream);
if (!$allowedUsersAndRoles) {
//error processing stream so don't let them ingest here.
return false;
}
$allowedUsers = $allowedUsersAndRoles["users"];
$allowedRoles = $allowedUsersAndRoles["roles"];
foreach ($user->roles as $role) {
if (in_array($role, $allowedRoles)) {
return true;
}
}
if (in_array($user->name, $allowedUsers)) {
return true;
}
return false;
}
private function getNid($pid)
{
module_load_include('php', 'Fedora_Repository', 'ObjectHelper');
//get Nid from Pid
$object = new ObjectHelper($pid);
$spec = $object->getStream($pid, 'MAG', 0);
$xml = new SimpleXMLElement($spec);
$nid = implode($xml->xpath('//nid'));
// $urlNid = implode($xml->xpath('//nurl'));
// $strNid = explode('node/', $urlNid);
// $nid = $strNid[1];
return $nid;
}
function createPolicy($collectionPid, &$dom, &$rootElement)
{
module_load_include('php', 'Fedora_Repository', 'ObjectHelper');
$objectHelper = new ObjectHelper();
$dsid = 'CHILD_SECURITY';
$policyStreamDoc = $objectHelper->getStream($collectionPid, $dsid, false);
if (!isset($policyStreamDoc)) {
return null;
//there is no policy stream so object will not have a policy stream
}
try {
$xml = new SimpleXMLElement($policyStreamDoc);
} catch (Exception $e) {
watchdog(t("Fedora_Repository"), t("Problem getting Security Policy!"), NULL, WATCHDOG_ERROR);
drupal_set_message(t('Problem getting Security Policy! ') . $e->getMessage(), 'error');
return false;
}
$policyElement = $dom->createDocumentFragment();
if (!$policyElement) {
drupal_set_message(t('error parsing security policy stream!'));
watchdog(t("Fedora_Repository"), t("Error parsing security policy stream, could not parse policy stream!"), NULL, WATCHDOG_NOTICE);
return false;
}
$dom->importNode($policyElement, true);
$value = $policyElement->appendXML($policyStreamDoc);
if (!$value) {
drupal_set_message(t('error creating security policy stream!'));
watchdog(t("Fedora_Repository"), t("Error creating security policy stream, could not parse collection policy template file!"), NULL, WATCHDOG_NOTICE);
return false;
}
$ds1 = $dom->createElement("foxml:datastream");
$rootElement->appendChild($ds1);
$ds1->setAttribute("ID", "POLICY");
$ds1->setAttribute("STATE", "A");
$ds1->setAttribute("CONTROL_GROUP", "X");
$ds1v = $dom->createElement("foxml:datastreamVersion");
$ds1->appendChild($ds1v);
$ds1v->setAttribute("ID", "POLICY.0");
$ds1v->setAttribute("MIMETYPE", "text/xml");
$ds1v->setAttribute("LABEL", "POLICY");
//$ds1v->setAttribute("FORMAT_URI","info:fedora/fedora-system:format/xml.fedora.audit");
$content = $dom->createElement("foxml:xmlContent");
$ds1v->appendChild($content);
$content->appendChild($policyElement);
return true;
}
function show_compound_details($compound_pid)
{
module_load_include('php', 'fedora_repository', 'ObjectHelper');
$object_helper = new ObjectHelper();
$compound_stream = new SimpleXMLElement($object_helper->getStream($compound_pid, 'COMPOUND'));
$fields = array('weight', 'ptp1b', 'hct116', 'hela', 'pc3', 'are', 'antiproliferative');
foreach ($fields as $field) {
if (implode($compound_stream->xpath("//compounds:{$field}")) == 'Hit') {
$td = '<td bgcolor="red">';
} elseif (implode($compound_stream->xpath("//compounds:{$field}")) == 'Strong') {
$td = '<td bgcolor = "yellow">';
} elseif (implode($compound_stream->xpath("//compounds:{$field}")) == 'Medium') {
$td = '<td bgcolor = "orange">';
} elseif (implode($compound_stream->xpath("//compounds:{$field}")) == 'Low') {
$td = '<td bgcolor = "grey">';
} else {
$td = '<td>';
}
$row_html .= $td . implode($compound_stream->xpath("//compounds:{$field}")) . '</td>';
}
return $row_html;
}
function buildFractionEditForm()
{
module_load_include('php', 'Fedora_Repository', 'ObjectHelper');
$object = new ObjectHelper();
$frac = $object->getStream($this->pid, 'FRACTION', 0);
$doc = new DomDocument();
if (!isset($frac)) {
drupal_set_message(t('Error getting fraction metadata stream'), 'error');
return null;
}
$xml = new SimpleXMLElement($frac);
$radioValues = array();
$radioValues['No_Assay'] = 'No_Assay';
$radioValues['Hit'] = 'Hit';
$radioValues['Strong'] = 'Strong';
$radioValues['Medium'] = 'Medium';
$radioValues['Low'] = 'Low';
$radioValues['Inactive'] = 'Inactive';
$form = array();
$identifier = $xml->xpath('//fractions:identifier');
$form['identifier'] = array('#type' => 'hidden', '#title' => t('<strong>Identifier</strong>'), '#value' => implode($identifier));
$form['ident'] = array('#type' => 'item', '#title' => t('<strong>Identifier</strong>'), '#value' => implode($identifier));
$plate = $xml->xpath('//fractions:plate');
$form['plate'] = array('#type' => 'textfield', '#default_value' => implode($plate), '#title' => t('<strong>Plate</strong>'));
$weight = $xml->xpath('//fractions:weight');
$form['weight'] = array('#type' => 'textfield', '#default_value' => implode($weight), '#title' => t('<strong>Weight</strong>'));
$pt = $xml->xpath('//fractions:ptp1b');
$form['pt'] = array('#type' => 'radios', '#default_value' => implode($pt), '#options' => $radioValues, '#title' => t('<strong>PTP1B</strong>'));
$pt_com = $xml->xpath('//fractions:ptp1b_com');
$form['pt_com'] = array('#type' => 'textfield', '#default_value' => implode($pt_com), '#title' => t('<strong>PTP1B Comments</strong>'));
$hct = $xml->xpath('//fractions:hct116');
$form['hct'] = array('#type' => 'radios', '#default_value' => implode($hct), '#options' => $radioValues, '#title' => t('<strong>HCT116</strong>'));
$hct_com = $xml->xpath('//fractions:hct116_com');
$form['hct_com'] = array('#type' => 'textfield', '#default_value' => implode($hct_com), '#title' => t('<strong>HCT116 Comments</strong>'));
$hela = $xml->xpath('//fractions:hela');
$form['hela'] = array('#type' => 'radios', '#default_value' => implode($hela), '#options' => $radioValues, '#title' => t('<strong>HELA</strong>'));
$hela_com = $xml->xpath('//fractions:hela_com');
$form['hela_com'] = array('#type' => 'textfield', '#default_value' => implode($hela_com), '#title' => t('<strong>HELA Comments</strong>'));
$pc3 = $xml->xpath('//fractions:pc3');
$form['pc3'] = array('#type' => 'radios', '#default_value' => implode($pc3), '#options' => $radioValues, '#title' => t('<strong>PC3</strong>'));
$pc3_com = $xml->xpath('//fractions:pc3_com');
$form['pc3_com'] = array('#type' => 'textfield', '#default_value' => implode($pc3_com), '#title' => t('<strong>PC3 Comments</strong>'));
$are = $xml->xpath('//fractions:are');
$form['are'] = array('#type' => 'radios', '#default_value' => implode($are), '#options' => $radioValues, '#title' => t('<strong>ARE</strong>'));
$are_com = $xml->xpath('//fractions:are_com');
$form['are_com'] = array('#type' => 'textfield', '#default_value' => implode($are_com), '#title' => t('<strong>ARE Comments</strong>'));
$antiproliferative = $xml->xpath('//fractions:antiproliferative');
$form['antiproliferative'] = array('#type' => 'radios', '#default_value' => implode($antiproliferative), '#options' => $radioValues, '#title' => t('<strong>Antiproliferative</strong>'));
$antiproliferative_com = $xml->xpath('//fractions:antiproliferative_com');
$form['antiproliferative_com'] = array('#type' => 'textfield', '#default_value' => implode($antiproliferative_com), '#title' => t('<strong>Antiproliferative Comments</strong>'));
$location = $xml->xpath('//fractions:location');
$form['location'] = array('#type' => 'textfield', '#default_value' => implode($location), '#title' => t('<strong>Location</strong>'));
$notes = $xml->xpath('//fractions:notes');
$form['notes'] = array('#type' => 'textarea', '#default_value' => implode($notes), '#title' => t('<strong>Notes</strong>'));
$form['#redirect'] = 'fedora/repository/' . $this->pid;
$form['pid'] = array('#type' => 'hidden', '#value' => $this->pid);
$form['dsid'] = array('#type' => 'hidden', '#value' => 'FRACTION');
$form['submit'] = array('#type' => 'submit', '#value' => 'Update');
return $form;
}
function getStream($pid, $dsid, $showError = 1)
{
module_load_include('php', 'Fedora_Repository', 'ObjectHelper');
$objectHelper = new ObjectHelper();
return $objectHelper->getStream($pid, $dsid, $showError);
}
function handleVideoEditForm($form_id, $form_values, $soap_client)
{
//echo "FORM_ID: ".$form_id;
$pid = $form_values['pid'];
module_load_include('php', 'Fedora_Repository', 'ObjectHelper');
$object = new ObjectHelper($pid);
$spec = $object->getStream($pid, 'MAG', TRUE);
$xml = new SimpleXMLElement($spec);
$dom = new DomDocument("1.0", "UTF-8");
$dom->formatOutput = true;
$mag = $dom->createElement("mag");
// $dom->appendChild($mag);
$vid = $dom->createElement("video");
$proxies = $dom->createElement("proxies");
$metrics = $dom->createElement("video_metrics");
$dimensions = $dom->createElement("video_dimensions");
$format = $dom->createElement("format");
$dis = $dom->createElement("dis");
$gen = $dom->createElement("gen");
$bib = $dom->createElement("bib");
$drup = $dom->createElement("dru");
$vid->appendChild($dom->createElement('sequence_number', implode($xml->xpath('//sequence_number'))));
$proxies->appendChild($dom->createElement('size', implode($xml->xpath('//size'))));
$proxies->appendChild($dom->createElement('md5', implode($xml->xpath('//md5'))));
$proxies->appendChild($dom->createElement('file', implode($xml->xpath('//file'))));
$metrics->appendChild($dom->createElement('framerate', implode($xml->xpath('//framerate'))));
$dimensions->appendChild($dom->createElement('framewidth', implode($xml->xpath('//framewidth'))));
$dimensions->appendChild($dom->createElement('frameheight', implode($xml->xpath('//frameheight'))));
$metrics->appendChild($dom->createElement('bitrate', implode($xml->xpath('//bitrate'))));
$format->appendChild($dom->createElement('mime', implode($xml->xpath('//mime'))));
// $vid->appendChild($dom->createElement('samplingfrequencyunit', implode($xml->xpath('//samplingfrequencyunit'))));
// $vid->appendChild($dom->createElement('samplingfrequencyplane', implode($xml->xpath('//samplingfrequencyplane'))));
$dis->appendChild($dom->createElement('item', implode($xml->xpath('//item'))));
$drup->appendChild($dom->createElement('nid', implode($xml->xpath('//nid'))));
$drup->appendChild($dom->createElement('nurl', implode($xml->xpath('//nurl'))));
$previousElement = null;
//used in case we have to nest elements for qualified dublin core
foreach ($form_values as $key => $value) {
$index = strrpos($key, '-');
if ($index > 01) {
$key = substr($key, 0, $index);
}
$value = trim($value);
$test = substr($key, 0, 3);
$element = substr($key, 4);
if ($test == 'vid') {
//don't try to process other form values
try {
$previousElement = $dom->createElement($element, $value);
if (in_array($element, array('file', 'md5', 'size', 'note'))) {
$proxies->appendChild($previousElement);
} elseif (in_array($element, array('bitrate', 'framerate'))) {
$metrics->appendChild($previousElement);
} elseif (in_array($element, array('framewidth', 'frameheight'))) {
$dimensions->appendChild($previousElement);
} elseif (in_array($element, array('mime'))) {
$format->appendChild($previousElement);
} else {
$vid->appendChild($previousElement);
}
} catch (exception $e) {
drupal_set_message(t($e->getMessage()), 'error');
continue;
}
}
if ($test == 'dis') {
//don't try to process other form values
try {
$previousElement = $dom->createElement(substr($key, 4), $value);
$dis->appendChild($previousElement);
} catch (exception $e) {
drupal_set_message(t($e->getMessage()), 'error');
continue;
}
}
if ($test == 'gen') {
//don't try to process other form values
try {
$previousElement = $dom->createElement(substr($key, 4), $value);
$gen->appendChild($previousElement);
} catch (exception $e) {
drupal_set_message(t($e->getMessage()), 'error');
continue;
}
}
if ($test == 'bib') {
//don't try to process other form values
try {
$previousElement = $dom->createElement(substr($key, 4), $value);
$bib->appendChild($previousElement);
} catch (exception $e) {
drupal_set_message(t($e->getMessage()), 'error');
continue;
}
}
if ($test == 'dru') {
//don't try to process other form values
try {
$previousElement = $dom->createElement(substr($key, 4), $value);
$drup->appendChild($previousElement);
} catch (exception $e) {
drupal_set_message(t($e->getMessage()), 'error');
continue;
}
}
//$rootElement->appendChild($datastream);
}
$proxies->appendChild($metrics);
$proxies->appendChild($dimensions);
$proxies->appendChild($format);
$vid->appendChild($proxies);
$mag->appendChild($vid);
$mag->appendChild($gen);
$mag->appendChild($bib);
$mag->appendChild($dis);
$mag->appendChild($drup);
$dom->appendChild($mag);
$params = array("pid" => "{$pid}", "dsID" => "MAG", "altIDs" => "", "dsLabel" => "Mag Metadata", "MIMEType" => "text/xml", "formatURI" => "", "dsContent" => $dom->saveXML(), "checksumType" => "DISABLED", "checksum" => "none", "logMessage" => "datastream_modified", "force" => "true");
//drupal_set_message($mag);
$ccks = array();
module_load_include('php', 'Fedora_Repository', 'epistemetec/plugins/Node');
$node = new EpistemetecNode();
$ccks = $node->hashCCK($form_values);
try {
//$soapHelper = new ConnectionHelper();
//$client = $soapHelper->getSoapClient(variable_get('fedora_soap_manage_url', 'http://localhost:8080/fedora/services/management?wsdl'));
$object = $soap_client->__soapCall('ModifyDatastreamByValue', array($params));
$node->editNode($ccks);
return $form_id;
} catch (exception $e) {
drupal_set_message(t("Error updating MAG metadata ") . $e->getMessage(), 'error');
}
}
