Author: Zuoshuang Xiang
The University Of Michigan
He Group
Date: June 2008 - March 2013
Purpose: Remote call back of Sparql section.
-->
<?php
//Use curl to do a post request
function curl_post_contents($url, $fields)
{
//open connection
$ch = curl_init();
$fields_string = http_build_query($fields);
//set the url, number of POST vars, POST data
curl_setopt($ch, CURLOPT_URL, $url);
curl_setopt($ch, CURLOPT_POST, count($fields));
curl_setopt($ch, CURLOPT_POSTFIELDS, $fields_string);
curl_setopt($ch, CURLOPT_RETURNTRANSFER, true);
//execute post
$result = curl_exec($ch);
//close connection
curl_close($ch);
return $result;
}
$fields = array();
foreach ($_REQUEST as $key => $value) {
$fields[$key] = stripslashes($value);
}
print curl_post_contents('http://sparql.hegroup.org/sparql', $fields);
function json_query($querystring, $endpoint = NULL)
{
global $settings;
$fields = array();
$fields['default-graph-uri'] = '';
$fields['format'] = 'application/sparql-results+json';
$fields['debug'] = 'on';
$fields['query'] = $querystring;
if ($endpoint == NULL) {
$endpoint = $settings['remote_store_endpoint'];
}
//error_log($querystring, 3, '/tmp/error.log');
$json = curl_post_contents($endpoint, $fields);
$json = json_decode($json);
$results = array();
if (isset($json->results->bindings)) {
foreach ($json->results->bindings as $binding) {
$binding = get_object_vars($binding);
$result = array();
foreach ($binding as $key => $value) {
$result[$key] = $value->value;
}
$results[] = $result;
}
}
return $results;
}
if (!empty($related_terms)) {
foreach ($related_terms as $tmp_iri => $tmp_label) {
$querystring = "\r\nCONSTRUCT {\r\n<{$tmp_iri}> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> ?o.\r\n<{$tmp_iri}> <http://www.w3.org/2000/01/rdf-schema#label> ?o1\r\n}\r\n\r\nFROM <{$ontology_uri}>";
if (isset($array_imports[$ontology_uri])) {
foreach ($array_imports[$ontology_uri] as $import_graph_uri) {
$querystring .= "\r\nFROM <{$import_graph_uri}>\r\n";
}
}
$querystring .= "\r\nWHERE { \r\n{<{$tmp_iri}> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> ?o}\r\nUNION {<{$tmp_iri}> <http://www.w3.org/2000/01/rdf-schema#label> ?o1}\r\n}";
$fields = array();
$fields['default-graph-uri'] = $ontology_uri;
$fields['format'] = 'application/rdf+xml';
$fields['debug'] = 'on';
$fields['query'] = $querystring;
// print("<!--$querystring-->\n");
$rdf = curl_post_contents($server_import, $fields);
// print("<!--$rdf-->\n");
if (preg_match_all('/<rdf:Description.*?rdf:Description>/', $rdf, $matches)) {
foreach ($matches[0] as $line) {
$strOutput .= "\n{$line}";
}
}
}
}
if (empty($fileNames) && sizeof($str_inputs2) == 1) {
$fileName = $finalFile;
} else {
$fileName = createRandomPassword();
}
$tmpOutputURI = "http://ontofox.hegroup.org/{$fileName}.owl";
if (empty($fileNames) && $outputURI != '' && sizeof($str_inputs2) == 1) {
<rdf:RDF';
foreach ($outputNSs as $NSTmp => $prefixTmp) {
$rdf_header .= "\n xmlns:{$prefixTmp}=\"{$NSTmp}\"";
}
$strOutput = "{$rdf_header} >\n<owl:Ontology rdf:about=\"" . preg_replace('/\\/obo\\//', "/obo/{$o}/about/", $iri) . "\">\n</owl:Ontology>\n{$strOutput}\n</rdf:RDF>";
if (strpos($_SERVER['HTTP_ACCEPT'], 'application/rdf+xml') !== false) {
header("Content-type: application/rdf+xml");
} elseif (strpos($_SERVER['HTTP_ACCEPT'], 'application/xml') !== false) {
header("Content-type: application/xml");
} else {
header("Content-type: text/xml");
}
$filename = createRandomPassword();
// file_put_contents("/tmp/$filename.in", $strOutput);
$strOutput = curl_post_contents("http://141.211.109.48:8080/Ontobee/Reformat.jsp", array("ifile" => $strOutput));
// $strOutput = file_get_contents("http://141.211.109.48:8080/Ontobee/Reformat.jsp?ifile=/tmp/$filename.in");
// $strOutput = file_get_contents("/tmp/$filename.out");
$strOutput = str_replace('<rdf:RDF', '<?xml-stylesheet type="text/xsl" href="/browser/xslt.php?o=' . $o . '&iri=' . myUrlEncode($iri) . '"?>
<rdf:RDF', $strOutput);
$strOutput = str_replace('</owl:Ontology>', ' <owl:imports rdf:resource="' . $settings['ns_main_original'] . '"/>
</owl:Ontology>', $strOutput);
print $strOutput;
//<owl:imports rdf:resource=\"".$settings['ns_main_original']."\"/>
} else {
// can not find this term
header($_SERVER["SERVER_PROTOCOL"] . " 404 Not Found");
include '404.php';
}
} else {
header("Content-type: text/xml");
function json_query($querystring, $endpoint = NULL)
{
global $settings;
$fields = array();
$fields['default-graph-uri'] = '';
$fields['format'] = 'application/sparql-results+json';
$fields['debug'] = 'on';
$fields['query'] = $querystring;
if ($endpoint == NULL) {
$endpoint = $settings['remote_store_endpoint'];
}
// print($querystring);
//error_log($querystring, 3, '/tmp/error.log');
$json = curl_post_contents($endpoint, $fields);
// print($json);
return parse_json_query($json);
}
$num_queries = 0;
$settings = getSettings($o);
$ontology_full_name = $settings['ontology_fullname'];
$all_graphs = array($settings['ns_main'] => 1);
$strQueryPrint = '';
$iri = myUrlDecode($iri);
$querystring = "\nDEFINE sql:describe-mode \"CBD\" \ndescribe <{$iri}>\nFROM <{$settings['ns_main']}>\n";
$strQueryPrint .= $querystring . '
===================================================================
';
$fields = array();
$fields['default-graph-uri'] = '';
$fields['format'] = 'application/rdf+json';
$fields['debug'] = 'on';
$fields['query'] = $querystring;
$query_results = curl_post_contents($settings['remote_store_endpoint'], $fields);
//virtuoso bug??
$query_results = preg_replace('/\'\\);\\ndocument.writeln\\(\'/', '', $query_results);
$term_cbd = json_decode($query_results, true);
if (isset($term_cbd[$iri])) {
$main_label = getRDFjsonDetail($term_cbd, $iri, $settings['ns_rdfs'] . 'label', array(), false);
$a_term_type = preg_split('/, /', getRDFjsonDetail($term_cbd, $iri, $settings['ns_rdf'] . 'type', array(), false));
$term_type = 'Instance';
for ($i = 0; $i < sizeof($a_term_type); $i++) {
if (in_array($a_term_type[$i], array('Class', 'ObjectProperty', 'DatatypeProperty', 'AnnotationProperty'))) {
$term_type = $a_term_type[$i];
unset($a_term_type[$i]);
break;
}
}
if ($term_type == '') {