1 package compbio.ws.client;
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3 import static org.testng.Assert.assertNotNull;
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4 import static org.testng.Assert.fail;
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7 import java.io.FileInputStream;
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8 import java.io.FileNotFoundException;
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9 import java.io.IOException;
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10 import java.net.URL;
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11 import java.util.List;
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13 import javax.xml.namespace.QName;
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14 import javax.xml.ws.Service;
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16 import org.testng.annotations.Test;
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18 import compbio.data.msa.MsaWS;
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19 import compbio.data.sequence.Alignment;
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20 import compbio.data.sequence.FastaSequence;
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21 import compbio.data.sequence.SequenceUtil;
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22 import compbio.metadata.JobSubmissionException;
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23 import compbio.metadata.LimitExceededException;
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24 import compbio.metadata.ResultNotAvailableException;
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25 import compbio.metadata.UnsupportedRuntimeException;
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26 import compbio.util.SysPrefs;
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27 import compbio.ws.server.ClustalWS;
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29 public class TestWSClient {
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32 public void test() throws FileNotFoundException, IOException {
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34 URL url = new URL("http://localhost:8080/jaba/ClustalWS?wsdl");
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35 String namespace = "http://msa.data.compbio/01/01/2010/";
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36 QName qname = new QName(namespace, "ClustalWS");
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37 Service serv = Service.create(url, qname);
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39 * MsaWS msaws = serv.getPort(new QName(
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40 * "http://msa.data.compbio/01/01/2010/", "ClustalWSPort"),
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43 // Annotation<AACon> msaws = serv.getPort(new QName(namespace,
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44 // "ClustalWSPort"), Annotation.class);
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46 MsaWS<ClustalWS> msaws = serv.getPort(new QName(namespace,
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47 "ClustalWSPort"), MsaWS.class);
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49 // List<FastaSequence> fsl = SequenceUtil.readFasta(new FileInputStream(
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50 // AAConTester.test_alignment_input));
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52 String CURRENT_DIRECTORY = SysPrefs.getCurrentDirectory()
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55 List<FastaSequence> fsl = SequenceUtil.readFasta(new FileInputStream(
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56 CURRENT_DIRECTORY + "testsrc" + File.separator + "testdata"
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57 + File.separator + "testlimit.in"));
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60 String jobId = msaws.align(fsl);
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61 Alignment result = msaws.getResult(jobId);
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62 assertNotNull(result);
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63 System.out.println(result);
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64 } catch (UnsupportedRuntimeException e) {
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65 e.printStackTrace();
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66 fail(e.getMessage());
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67 } catch (LimitExceededException e) {
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68 e.printStackTrace();
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69 fail(e.getMessage());
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70 } catch (JobSubmissionException e) {
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71 e.printStackTrace();
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72 fail(e.getMessage());
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73 } catch (ResultNotAvailableException e) {
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74 e.printStackTrace();
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75 fail(e.getMessage());
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77 System.out.println("Pres: " + msaws.getPresets());
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