getAlleleSequence

Description: Returns allele sequence based on locus and allele number.

Arguments

• database (string)
• locus (string)
• allele (int)

Sample Perl code

#!/usr/bin/perl
#Written by Keith Jolley

use SOAP::Lite;
use strict;
use warnings;

#####Sample arguments#########
my $database = 'neisseria';
my $locus = 'abcZ';
my $allele = 50;
##############################

my $soap = SOAP::Lite
    -> uri('http://pubmlst.org/MLST')
    -> proxy('http://pubmlst.org/cgi-bin/mlstdbnet/mlstFetch.pl');
my $soapResponse = $soap->getAlleleSequence($database,$locus,$allele);
unless ($soapResponse->fault){
    print $soapResponse->result()."\n";
} else {
    print join ', ',$soapResponse->faultcode,$soapResponse->faultstring;
}

Sample Java code

package org.pubmlst.mlstSOAP;

import org.apache.axis.client.Call;
import org.apache.axis.client.Service;
import javax.xml.namespace.QName;

public class GetAlleleSequence {
    public static void main(String[] args) {
	//Sample arguments////////////////
	String database = "neisseria";
	String locus = "abcZ";
	int allele = 50;
	//////////////////////////////////
	try {
	    String endpoint = "http://pubmlst.org/cgi-bin/mlstdbnet/mlstFetch.pl";
	    Service service = new Service();
	    Call call = (Call) service.createCall();
	    call.setTargetEndpointAddress(new java.net.URL(endpoint));
	    call.setOperationName(new QName("http://pubmlst.org/MLST/",
					    "getAlleleSequence"));
	    Object ret = call.invoke(new Object[] { database,locus,allele });
	    System.out.println(ret);
	} catch (Exception e) {
	    System.err.println(e.toString());
	}
    }
}

Output

TTTGATACCGTTGCCGAAGGTTTGGGTGAAATTCGCGATTTATTGCGCCGTTACCACCGC
GTCGGCCATGAGTTGGAAAACGGTTCGGGTGAGGCTTTGTTGAAAGAACTCAACGAATTA
CAACTTGAAATCGAAGCGAAGGACGGCTGGAAGCTGGATGCGGCAGTCAAGCAGACTTTG
GGGGAACTCGGTTTGCCGGAAAACGAAAAAATCGGCAACCTTTCCGGCGGTCAGAAAAAG
CGTGTCGCCTTGGCGCAGGCTTGGGTGCAGAAGCCCGACGTATTGCTGCTGGACGAGCCG
ACCAACCATTTGGATATCGACGCGATTATTTGGCTGGAAAATCTGCTCAAAGCGTTTGAA
GGCAGCTTGGTTGTGATTACCCACGACCGCCGTTTTTTGGACAATATCGCCACGCGGATT
GTCGAACTCGATC