From: pvtroshin Date: Mon, 27 Jun 2011 17:11:09 +0000 (+0000) Subject: Expose a few methods of Client and WSTester as API for Jim, new distributables. X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=07023d4513407244ccd9655953670473f8b9d730;p=jabaws.git Expose a few methods of Client and WSTester as API for Jim, new distributables. git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@4343 e3abac25-378b-4346-85de-24260fe3988d --- diff --git a/testsrc/compbio/ws/server/RegistryWSTester.java b/testsrc/compbio/ws/server/RegistryWSTester.java index 64c70ab..8608351 100644 --- a/testsrc/compbio/ws/server/RegistryWSTester.java +++ b/testsrc/compbio/ws/server/RegistryWSTester.java @@ -5,8 +5,11 @@ import static org.testng.Assert.assertNotNull; import static org.testng.Assert.assertTrue; import static org.testng.Assert.fail; +import java.net.ConnectException; import java.util.EnumSet; +import javax.xml.ws.WebServiceException; + import org.testng.annotations.Test; import compbio.metadata.AllTestSuit; @@ -18,34 +21,66 @@ public class RegistryWSTester { @Test(groups = {AllTestSuit.test_group_webservices}) public void testGetSupportedServices() { - compbio.data.msa.RegistryWS reg = Jws2Client - .connectToRegistry(WSTesterTester.SERVER); - assertEquals(EnumSet.of(Services.AAConWS, Services.JronnWS, - Services.MuscleWS, Services.ClustalWS), - reg.getSupportedServices()); + try { + compbio.data.msa.RegistryWS reg = Jws2Client + .connectToRegistry(WSTesterTester.SERVER); + assertEquals(EnumSet.of(Services.AAConWS, Services.JronnWS, + Services.MuscleWS, Services.ClustalWS), + reg.getSupportedServices()); + } catch (ConnectException e) { + e.printStackTrace(); + fail(e.getLocalizedMessage()); + } catch (WebServiceException e) { + e.printStackTrace(); + fail(e.getLocalizedMessage()); + } } @Test(groups = {AllTestSuit.test_group_webservices}) public void testTestService() { - compbio.data.msa.RegistryWS reg = Jws2Client - .connectToRegistry(WSTesterTester.SERVER); - assertNotNull(reg.testService(Services.AAConWS)); + compbio.data.msa.RegistryWS reg = null; + try { + reg = Jws2Client.connectToRegistry(WSTesterTester.SERVER); + assertNotNull(reg.testService(Services.AAConWS)); + } catch (ConnectException e) { + e.printStackTrace(); + fail(e.getLocalizedMessage()); + } catch (WebServiceException e) { + e.printStackTrace(); + fail(e.getLocalizedMessage()); + } } - @Test(dependsOnMethods = {"testTestService"},groups = {AllTestSuit.test_group_webservices}) + @Test(dependsOnMethods = {"testTestService"}, groups = {AllTestSuit.test_group_webservices}) public void testIsOperating() { - compbio.data.msa.RegistryWS reg = Jws2Client - .connectToRegistry(WSTesterTester.SERVER); - assertTrue(reg.isOperating(Services.AAConWS)); + try { + compbio.data.msa.RegistryWS reg = Jws2Client + .connectToRegistry(WSTesterTester.SERVER); + assertTrue(reg.isOperating(Services.AAConWS)); + } catch (ConnectException e) { + e.printStackTrace(); + fail(e.getLocalizedMessage()); + } catch (WebServiceException e) { + e.printStackTrace(); + fail(e.getLocalizedMessage()); + } } - @Test(dependsOnMethods = {"testTestService"},groups = {AllTestSuit.test_group_webservices}) + @Test(dependsOnMethods = {"testTestService"}, groups = {AllTestSuit.test_group_webservices}) public void testGetLastTestedOn() { - compbio.data.msa.RegistryWS reg = Jws2Client - .connectToRegistry(WSTesterTester.SERVER); - assertNotNull(reg.getLastTestedOn(Services.AAConWS)); + try { + compbio.data.msa.RegistryWS reg = Jws2Client + .connectToRegistry(WSTesterTester.SERVER); + assertNotNull(reg.getLastTestedOn(Services.AAConWS)); + } catch (ConnectException e) { + e.printStackTrace(); + fail(e.getLocalizedMessage()); + } catch (WebServiceException e) { + e.printStackTrace(); + fail(e.getLocalizedMessage()); + } } - @Test(dependsOnMethods = {"testTestService"},groups = {AllTestSuit.test_group_webservices}) + @Test(dependsOnMethods = {"testTestService"}, groups = {AllTestSuit.test_group_webservices}) public void testGetLastTested() { try { Thread.sleep(1000); @@ -53,16 +88,32 @@ public class RegistryWSTester { e.printStackTrace(); fail(e.getMessage()); } - compbio.data.msa.RegistryWS reg = Jws2Client - .connectToRegistry(WSTesterTester.SERVER); - System.out.println(reg.getLastTested(Services.AAConWS)); - assertTrue(reg.getLastTested(Services.AAConWS) > 0); + try { + compbio.data.msa.RegistryWS reg = Jws2Client + .connectToRegistry(WSTesterTester.SERVER); + System.out.println(reg.getLastTested(Services.AAConWS)); + assertTrue(reg.getLastTested(Services.AAConWS) > 0); + } catch (ConnectException e) { + e.printStackTrace(); + fail(e.getLocalizedMessage()); + } catch (WebServiceException e) { + e.printStackTrace(); + fail(e.getLocalizedMessage()); + } } @Test(groups = {AllTestSuit.test_group_webservices}) public void testTestAllServices() { - compbio.data.msa.RegistryWS reg = Jws2Client - .connectToRegistry(WSTesterTester.SERVER); - System.out.println(reg.testAllServices()); + try { + compbio.data.msa.RegistryWS reg = Jws2Client + .connectToRegistry(WSTesterTester.SERVER); + System.out.println(reg.testAllServices()); + } catch (ConnectException e) { + e.printStackTrace(); + fail(e.getLocalizedMessage()); + } catch (WebServiceException e) { + e.printStackTrace(); + fail(e.getLocalizedMessage()); + } } } diff --git a/webservices/compbio/ws/client/Jws2Client.java b/webservices/compbio/ws/client/Jws2Client.java index e775727..d93e43f 100644 --- a/webservices/compbio/ws/client/Jws2Client.java +++ b/webservices/compbio/ws/client/Jws2Client.java @@ -32,6 +32,7 @@ import java.net.ConnectException; import java.net.MalformedURLException; import java.net.URL; import java.util.Arrays; +import java.util.Collections; import java.util.List; import java.util.Set; import java.util.logging.Level; @@ -56,6 +57,7 @@ import compbio.metadata.Option; import compbio.metadata.Preset; import compbio.metadata.ResultNotAvailableException; import compbio.metadata.WrongParameterException; +import compbio.util.FileUtil; /** * A command line client for JAva Bioinformatics Analysis Web Services @@ -134,7 +136,7 @@ public class Jws2Client { // Test service and quit boolean testService = CmdHelper.testService(cmd); if (testService) { - testService(hostname, service); + testService(hostname, service, new PrintWriter(System.out, true)); System.exit(0); } @@ -194,26 +196,44 @@ public class Jws2Client { log.fine("Disconnected successfully!"); } - // TODO make public? - private void testService(String hostname, Services service) - throws IOException { + /** + * Asks registry to test the service on the host hostname + * + * @param hostname + * @param service + * @param writer + * @throws ConnectException + * @throws WebServiceException + */ + public static void testService(String hostname, Services service, + PrintWriter writer) throws ConnectException, WebServiceException { RegistryWS registry = connectToRegistry(hostname); if (registry != null) { String message = registry.testService(service); - System.out.println("Service " + service + " testing results: "); - System.out.println(message); - ((Closeable) registry).close(); + writer.println("Service " + service + " testing results: "); + writer.println(message); + FileUtil.closeSilently(((Closeable) registry)); } + writer.flush(); } - // TODO make public? - private void listServices(String hostname) throws IOException { + public static Set getServices(String hostname) + throws WebServiceException, ConnectException { RegistryWS registry = connectToRegistry(hostname); + Set services = Collections.EMPTY_SET; if (registry != null) { - Set services = registry.getSupportedServices(); + services = registry.getSupportedServices(); + FileUtil.closeSilently(((Closeable) registry)); + } + return services; + } + + private static void listServices(String hostname) + throws WebServiceException, IOException { + Set services = Jws2Client.getServices(hostname); + if (!services.isEmpty()) { System.out.println("Supported services are: " + Services.toString(services)); - ((Closeable) registry).close(); } else { System.out.println("Failed to connect to the registry! "); } @@ -383,9 +403,10 @@ public class Jws2Client { * @return compbio.data.msa.RegistryWS - instance of a RegistryWS web * service * @throws WebServiceException + * @throws ConnectException */ public static compbio.data.msa.RegistryWS connectToRegistry(String host) - throws WebServiceException { + throws WebServiceException, ConnectException { URL url = null; String service = "RegistryWS"; log.log(Level.FINE, "Attempting to connect..."); @@ -400,7 +421,7 @@ public class Jws2Client { Service serv = Service.create(url, qname); if (serv == null) { - System.err.println("Could not connect to " + url + throw new ConnectException("Could not connect to " + url + " the server is down?"); } diff --git a/website/archive/TO1381.fasta b/website/archive/TO1381.fasta deleted file mode 100644 index 8a51f01..0000000 --- a/website/archive/TO1381.fasta +++ /dev/null @@ -1,8 +0,0 @@ ->Foobar_dundeefriends -MTADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQGVGAVEPFAFLSEDASAAEQLACARTRAQAIAASVRPLAPTRVRSKGPLRVGFVSNGFGAHPTGLLTVALFEALQRRQPDLQMHLFATSGDDGSTLRTRLAQASTLHDVTALGHLATAKHIRHHGIDLLFDLRGWGGGGRPEVFALRPAPVQVNWLAYPGTSGAPWMDYVLGDAFALPPALEPFYSEHVLRLQGAFQPSDTSRVVAEPPSRTQCGLPEQGVVLCCFNNSYKLNPQSMARMLAVLREVPDSVLWLLSGPGEADARLRAFAHAQGVDAQRLVFMPKLPHPQYLARYRHADLFLDTHPYNAHTTASDALWTGCPVLTTPGETFAARVAGSLNHHLGLDEMNVADDAAFVAKAVALASDPAALTALHARVDVLRRESGVFEMDGFADDFGALLQALARRHGWLGI - ->Foobar -MGDTTAGEMAVQRGLALHQQRHAEAAVLLQQASDAAPEHPGIALWLHALEDAGQAEAAAAYTRAHQLLPEEPYITAQLLNAVAQGVGAVEPFAFLSEDASAAESVRPLAPTRVRSKGPLRVGFVSNGFGAHPTGLLTVALFEALQRRQPDLQMHLFATSGDDGSTLRTRLAQASTLHDVTALGHLATAKHIRHHGIDLLFDLRGWGGGGRPEVFALRPAPVQVNWLAYPGTSGAPWMDYVLGDAFALPPALEPFYSEHVLRLQGAFQPSDTSRVVAEPPSRTQCGLPEQGVVLCCFNNSYKLNPQSMARMLAVLREVPDSVLWLLSGPGEADARLRAFAHAQGVDAQRLVFMPKLPHPQYLARYRHADLFLDTHPYNAHTTASDALWTGCPVLTTPGETFAARVAGSLNHHLGLDEMNVADDAAFVAKAVALASDPAALTALHARVDVLRRESGVFEMDGFADDFGALLQALARRHGWLGI - ->dundeefriends -MTADGPRELLQLRAAVRHRPQDVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLLQQASDAAPEHPGIALWLGHALEDHQLLPEEPYITAQLDVLSAQVRAAVAQGVGAVEPFAFLSEDASAAEQLACARTRAQAIAASVRPLAPTRVRSKGPLRVGFVSNGFGAHPTGLLTVALFEALQRRQPDLQMHLFATSGDDGSTLRTRLAQASTLHDVTALGHLATAKHIRHHGIDLLFDLRGWGGGGRPEVFALRPAPVQVNWLAYPGTSGAPWMDYVLGDAFALPPALEPFYSEHVLRLQGAFQPSDTSRVVAEPPSRTQCGLPEQGVVLCCFNNSYKLNPQSMARMLAVLREVPDSVLWLLSGPGEADARLRAFAHAQGVDAQRLVFMPKLPHPQYLARYRHADLFLDTHPYNAHTTASDALWTGCPVLTTPGETFAARVAGSLNHHLGLDEMNVADDAAFVAKAVALASDPAALTALHARVDVLRRESI \ No newline at end of file diff --git a/website/archive/aacon-ws-client.jar b/website/archive/aacon-ws-client.jar deleted file mode 100644 index 1cbd308..0000000 Binary files a/website/archive/aacon-ws-client.jar and /dev/null differ diff --git a/website/archive/datamodel-1.0.jar b/website/archive/datamodel-1.0.jar deleted file mode 100644 index c7d7e8b..0000000 Binary files a/website/archive/datamodel-1.0.jar and /dev/null differ diff --git a/website/archive/datamodel-1.1.jar b/website/archive/datamodel-1.1.jar deleted file mode 100644 index 36dfa7f..0000000 Binary files a/website/archive/datamodel-1.1.jar and /dev/null differ diff --git a/website/archive/datamodel-1.2.jar b/website/archive/datamodel-2.0.jar similarity index 57% rename from website/archive/datamodel-1.2.jar rename to website/archive/datamodel-2.0.jar index ecbf161..0c3c02a 100644 Binary files a/website/archive/datamodel-1.2.jar and b/website/archive/datamodel-2.0.jar differ diff --git a/website/archive/datamodel-src-1.1.jar b/website/archive/datamodel-src-1.1.jar deleted file mode 100644 index c082cd0..0000000 Binary files a/website/archive/datamodel-src-1.1.jar and /dev/null differ diff --git a/website/archive/datamodel-src-1.2.jar b/website/archive/datamodel-src-2.0.jar similarity index 50% rename from website/archive/datamodel-src-1.2.jar rename to website/archive/datamodel-src-2.0.jar index 06610ed..b9ce647 100644 Binary files a/website/archive/datamodel-src-1.2.jar and b/website/archive/datamodel-src-2.0.jar differ diff --git a/website/archive/full-jaba-client.jar b/website/archive/full-jaba-client-2.0.jar similarity index 72% rename from website/archive/full-jaba-client.jar rename to website/archive/full-jaba-client-2.0.jar index 79644c4..b5953c1 100644 Binary files a/website/archive/full-jaba-client.jar and b/website/archive/full-jaba-client-2.0.jar differ diff --git a/website/archive/full-jaba-client-pack.zip b/website/archive/full-jaba-client-pack.zip index ba40d1a..6cf2206 100644 Binary files a/website/archive/full-jaba-client-pack.zip and b/website/archive/full-jaba-client-pack.zip differ diff --git a/website/archive/jaba-no-binaries.war b/website/archive/jaba-no-binaries.war index 8e76378..e7447d5 100644 Binary files a/website/archive/jaba-no-binaries.war and b/website/archive/jaba-no-binaries.war differ diff --git a/website/archive/jaba-no-jaxws-no-binaries.war b/website/archive/jaba-no-jaxws-no-binaries.war deleted file mode 100644 index 426285d..0000000 Binary files a/website/archive/jaba-no-jaxws-no-binaries.war and /dev/null differ diff --git a/website/archive/jaba-no-jaxws-windows.war b/website/archive/jaba-no-jaxws-windows.war deleted file mode 100644 index 11de750..0000000 Binary files a/website/archive/jaba-no-jaxws-windows.war and /dev/null differ diff --git a/website/archive/jaba-no-jaxws.war b/website/archive/jaba-no-jaxws.war deleted file mode 100644 index 7b1078e..0000000 Binary files a/website/archive/jaba-no-jaxws.war and /dev/null differ diff --git a/website/archive/jaba-source.jar b/website/archive/jaba-source.jar deleted file mode 100644 index 9328cc2..0000000 Binary files a/website/archive/jaba-source.jar and /dev/null differ diff --git a/website/archive/jaba-windows.war b/website/archive/jaba-windows.war deleted file mode 100644 index 76876ba..0000000 Binary files a/website/archive/jaba-windows.war and /dev/null differ diff --git a/website/archive/jaba.war b/website/archive/jaba.war index 91a3bdc..4f289e2 100644 Binary files a/website/archive/jaba.war and b/website/archive/jaba.war differ diff --git a/website/archive/jabaws-src-2.0.jar b/website/archive/jabaws-src-2.0.jar new file mode 100644 index 0000000..8cf38fc Binary files /dev/null and b/website/archive/jabaws-src-2.0.jar differ diff --git a/website/archive/jaxws-lib.zip b/website/archive/jaxws-lib.zip deleted file mode 100644 index 084df15..0000000 Binary files a/website/archive/jaxws-lib.zip and /dev/null differ diff --git a/website/archive/min-jaba-client-2.0.jar b/website/archive/min-jaba-client-2.0.jar new file mode 100644 index 0000000..7773157 Binary files /dev/null and b/website/archive/min-jaba-client-2.0.jar differ diff --git a/website/archive/min-jaba-client.jar b/website/archive/min-jaba-client.jar deleted file mode 100644 index 28403e3..0000000 Binary files a/website/archive/min-jaba-client.jar and /dev/null differ diff --git a/website/archive/out.txt b/website/archive/out.txt deleted file mode 100644 index 6398644..0000000 --- a/website/archive/out.txt +++ /dev/null @@ -1,19 +0,0 @@ -Conecting to JABAWS version 2 service - - -calling analise......... -#RawScore -0.226 -0.217 -0.479 -0.251 0.182 0.735 0.558 0.353 0.015 -0.322 -0.526 -0.755 -0.976 -1.206 -1.426 -1.609 -1.725 -1.826 -1.908 -1.993 -2.116 -2.229 -2.353 -2.472 -2.645 -2.818 -3.048 -3.296 -3.528 -3.753 -3.892 -4.033 -4.09 -4.096 -4.071 -4.013 -3.948 -3.894 -3.885 -3.878 -3.891 -3.888 -3.932 -4.051 -4.239 -4.397 -4.6 -4.737 -4.814 -4.844 -4.841 -4.841 -4.782 -4.755 -4.716 -4.664 -4.641 -4.64 -4.684 -4.71 -4.773 -4.88 -5.057 -5.267 -5.468 -5.648 -5.831 -5.958 -6.082 -6.213 -6.376 -6.567 -6.776 -7.042 -7.294 -7.526 -7.759 -8.028 -8.274 -8.492 -8.72 -8.931 -9.063 -9.123 -9.131 -9.102 -9.043 -9.009 -8.977 -8.937 -8.901 -8.881 -8.912 -8.968 -9.068 -9.147 -9.241 -9.368 -9.464 -9.583 -9.715 -9.814 -9.871 -9.948 -10.055 -10.185 -10.335 -10.535 -10.708 -10.866 -11.033 -11.274 -11.519 -11.733 -11.993 -12.176 -12.307 -12.428 -12.519 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