Triplify search results from KEGG bfind SOAP service [myexperiments:kegg_search2rdf]

Wsdl

Wsdl Operation

Script

search_query = kegg_namespace + " " + search;

Script

List split = new ArrayList();
if (!string.equals("")) {
	String regexString = ",";
	if (regex != void) {
		regexString = regex;
	}
	String[] result = string.split(regexString);
	for (int i = 0; i < result.length; i++) {
		split.add(result[i]);
	}
}

Value

Script

import java.util.regex.*;

String query = search;
search = search.replace(" ","_");

bmuris = new ArrayList();
ntriples = new ArrayList();
String bmuri;
Integer count = 0;

Pattern thePat = Pattern.compile("^(.*?) ");

for (Iterator i = stringlist.iterator(); i.hasNext();) {
	String item = (String) i.next();
	Matcher matcher = thePat.matcher(item);

	if (matcher.find()) {
		bmuri = "http://bio2rdf.org/"+matcher.group(1);
		count ++;
		bmuris.add(bmuri);
	}
}

String bmuri = "http://bio2rdf.org/searchns/kegg_" + namespace + "/" + search;
count_ntriple =                 "<" + bmuri + ">   .\n";
count_ntriple = count_ntriple + "<" + bmuri + ">  \"" + query + "\" .\n";
count_ntriple = count_ntriple + "<" + bmuri + ">  \"" + count + "\" .\n";
count_ntriple = count_ntriple + "<" + bmuri + ">   .\n";
count_ntriple = count_ntriple + "<" + bmuri + ">   .\n";

Script

String seperatorString = "\n";
if (seperator != void) {
	seperatorString = seperator;
}
StringBuffer sb = new StringBuffer();
for (Iterator i = stringlist.iterator(); i.hasNext();) {
	String item = (String) i.next();
	sb.append(item);
	if (i.hasNext()) {
		sb.append(seperatorString);
	}
}
concatenated = sb.toString();

Script

search = search.replace(" ","_");

search_ntriple = "  <" + bmuri + "> .";