X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fext%2Fvamsas%2FMuscleWSSoapBindingStub.java;fp=src%2Fext%2Fvamsas%2FMuscleWSSoapBindingStub.java;h=b1f80652ba6e7e4dc8e6faca3b0e864b448647ee;hb=e894eb87d40be6e8452d19032ddffe80dad5f804;hp=c56432d973417bb514897291ed92b13d17297f63;hpb=0f71bfca98457c30f1051f142c31b6aaa3e23ead;p=jalview.git

diff --git a/src/ext/vamsas/MuscleWSSoapBindingStub.java b/src/ext/vamsas/MuscleWSSoapBindingStub.java
index c56432d..b1f8065 100755
--- a/src/ext/vamsas/MuscleWSSoapBindingStub.java
+++ b/src/ext/vamsas/MuscleWSSoapBindingStub.java
@@ -3,11 +3,11 @@
  *
  * This file was auto-generated from WSDL
  * by the Apache Axis 1.2RC2 Nov 16, 2004 (12:19:44 EST) WSDL2Java emitter.
- */
-
+ */
+
 /*
 * Jalview - A Sequence Alignment Editor and Viewer
-* Copyright (C) 2005 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
+* Copyright (C) 2006 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
 *
 * This program is free software; you can redistribute it and/or
 * modify it under the terms of the GNU General Public License
@@ -22,373 +22,373 @@
 * You should have received a copy of the GNU General Public License
 * along with this program; if not, write to the Free Software
 * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA
-*/
-package ext.vamsas;
-
-public class MuscleWSSoapBindingStub extends org.apache.axis.client.Stub
-    implements ext.vamsas.MuscleWS {
-    static org.apache.axis.description.OperationDesc[] _operations;
-
-    static {
-        _operations = new org.apache.axis.description.OperationDesc[4];
-        _initOperationDesc1();
-    }
-
-    private java.util.Vector cachedSerClasses = new java.util.Vector();
-    private java.util.Vector cachedSerQNames = new java.util.Vector();
-    private java.util.Vector cachedSerFactories = new java.util.Vector();
-    private java.util.Vector cachedDeserFactories = new java.util.Vector();
-
-    public MuscleWSSoapBindingStub() throws org.apache.axis.AxisFault {
-        this(null);
-    }
-
-    public MuscleWSSoapBindingStub(java.net.URL endpointURL,
-        javax.xml.rpc.Service service) throws org.apache.axis.AxisFault {
-        this(service);
-        super.cachedEndpoint = endpointURL;
-    }
-
-    public MuscleWSSoapBindingStub(javax.xml.rpc.Service service)
-        throws org.apache.axis.AxisFault {
-        if (service == null) {
-            super.service = new org.apache.axis.client.Service();
-        } else {
-            super.service = service;
-        }
-
-        java.lang.Class cls;
-        javax.xml.namespace.QName qName;
-        java.lang.Class beansf = org.apache.axis.encoding.ser.BeanSerializerFactory.class;
-        java.lang.Class beandf = org.apache.axis.encoding.ser.BeanDeserializerFactory.class;
-        //java.lang.Class enumsf = org.apache.axis.encoding.ser.EnumSerializerFactory.class;
-        //java.lang.Class enumdf = org.apache.axis.encoding.ser.EnumDeserializerFactory.class;
-        java.lang.Class arraysf = org.apache.axis.encoding.ser.ArraySerializerFactory.class;
-        java.lang.Class arraydf = org.apache.axis.encoding.ser.ArrayDeserializerFactory.class;
-        //java.lang.Class simplesf = org.apache.axis.encoding.ser.SimpleSerializerFactory.class;
-        // java.lang.Class simpledf = org.apache.axis.encoding.ser.SimpleDeserializerFactory.class;
-        //java.lang.Class simplelistsf = org.apache.axis.encoding.ser.SimpleListSerializerFactory.class;
-        //java.lang.Class simplelistdf = org.apache.axis.encoding.ser.SimpleListDeserializerFactory.class;
-        qName = new javax.xml.namespace.QName("simple.objects.vamsas",
-                "Sequence");
-        cachedSerQNames.add(qName);
-        cls = vamsas.objects.simple.Sequence.class;
-        cachedSerClasses.add(cls);
-        cachedSerFactories.add(beansf);
-        cachedDeserFactories.add(beandf);
-
-        qName = new javax.xml.namespace.QName("vamsas", "ArrayOf_tns1_Sequence");
-        cachedSerQNames.add(qName);
-        cls = vamsas.objects.simple.Sequence[].class;
-        cachedSerClasses.add(cls);
-        cachedSerFactories.add(arraysf);
-        cachedDeserFactories.add(arraydf);
-
-        qName = new javax.xml.namespace.QName("simple.objects.vamsas",
-                "MsaResult");
-        cachedSerQNames.add(qName);
-        cls = vamsas.objects.simple.MsaResult.class;
-        cachedSerClasses.add(cls);
-        cachedSerFactories.add(beansf);
-        cachedDeserFactories.add(beandf);
-
-        qName = new javax.xml.namespace.QName("simple.objects.vamsas",
-                "SequenceSet");
-        cachedSerQNames.add(qName);
-        cls = vamsas.objects.simple.SequenceSet.class;
-        cachedSerClasses.add(cls);
-        cachedSerFactories.add(beansf);
-        cachedDeserFactories.add(beandf);
-
-        qName = new javax.xml.namespace.QName("http://simple.objects.vamsas",
-                "Object");
-        cachedSerQNames.add(qName);
-        cls = vamsas.objects.simple.Object.class;
-        cachedSerClasses.add(cls);
-        cachedSerFactories.add(beansf);
-        cachedDeserFactories.add(beandf);
-
-        qName = new javax.xml.namespace.QName("simple.objects.vamsas",
-                "Alignment");
-        cachedSerQNames.add(qName);
-        cls = vamsas.objects.simple.Alignment.class;
-        cachedSerClasses.add(cls);
-        cachedSerFactories.add(beansf);
-        cachedDeserFactories.add(beandf);
-
-        qName = new javax.xml.namespace.QName("simple.objects.vamsas", "WsJobId");
-        cachedSerQNames.add(qName);
-        cls = vamsas.objects.simple.WsJobId.class;
-        cachedSerClasses.add(cls);
-        cachedSerFactories.add(beansf);
-        cachedDeserFactories.add(beandf);
-
-        qName = new javax.xml.namespace.QName("vamsas", "ArrayOf_xsd_string");
-        cachedSerQNames.add(qName);
-        cls = java.lang.String[].class;
-        cachedSerClasses.add(cls);
-        cachedSerFactories.add(arraysf);
-        cachedDeserFactories.add(arraydf);
-
-        qName = new javax.xml.namespace.QName("simple.objects.vamsas", "Result");
-        cachedSerQNames.add(qName);
-        cls = vamsas.objects.simple.Result.class;
-        cachedSerClasses.add(cls);
-        cachedSerFactories.add(beansf);
-        cachedDeserFactories.add(beandf);
-    }
-
-    private static void _initOperationDesc1() {
-        org.apache.axis.description.OperationDesc oper;
-        oper = new org.apache.axis.description.OperationDesc();
-        oper.setName("align");
-        oper.addParameter(new javax.xml.namespace.QName("", "seqSet"),
-            new javax.xml.namespace.QName("simple.objects.vamsas", "SequenceSet"),
-            vamsas.objects.simple.SequenceSet.class,
-            org.apache.axis.description.ParameterDesc.IN, false, false);
-        oper.setReturnType(new javax.xml.namespace.QName(
-                "simple.objects.vamsas", "WsJobId"));
-        oper.setReturnClass(vamsas.objects.simple.WsJobId.class);
-        oper.setReturnQName(new javax.xml.namespace.QName("", "alignReturn"));
-        oper.setStyle(org.apache.axis.constants.Style.RPC);
-        oper.setUse(org.apache.axis.constants.Use.ENCODED);
-        _operations[0] = oper;
-
-        oper = new org.apache.axis.description.OperationDesc();
-        oper.setName("getalign");
-        oper.addParameter(new javax.xml.namespace.QName("", "job_id"),
-            new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema",
-                "string"), java.lang.String.class,
-            org.apache.axis.description.ParameterDesc.IN, false, false);
-        oper.setReturnType(new javax.xml.namespace.QName(
-                "simple.objects.vamsas", "Alignment"));
-        oper.setReturnClass(vamsas.objects.simple.Alignment.class);
-        oper.setReturnQName(new javax.xml.namespace.QName("", "getalignReturn"));
-        oper.setStyle(org.apache.axis.constants.Style.RPC);
-        oper.setUse(org.apache.axis.constants.Use.ENCODED);
-        _operations[1] = oper;
-
-        oper = new org.apache.axis.description.OperationDesc();
-        oper.setName("getResult");
-        oper.addParameter(new javax.xml.namespace.QName("", "job_id"),
-            new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema",
-                "string"), java.lang.String.class,
-            org.apache.axis.description.ParameterDesc.IN, false, false);
-        oper.setReturnType(new javax.xml.namespace.QName(
-                "simple.objects.vamsas", "MsaResult"));
-        oper.setReturnClass(vamsas.objects.simple.MsaResult.class);
-        oper.setReturnQName(new javax.xml.namespace.QName("", "getResultReturn"));
-        oper.setStyle(org.apache.axis.constants.Style.RPC);
-        oper.setUse(org.apache.axis.constants.Use.ENCODED);
-        _operations[2] = oper;
-
-        oper = new org.apache.axis.description.OperationDesc();
-        oper.setName("cancel");
-        oper.addParameter(new javax.xml.namespace.QName("", "jobId"),
-            new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema",
-                "string"), java.lang.String.class,
-            org.apache.axis.description.ParameterDesc.IN, false, false);
-        oper.setReturnType(new javax.xml.namespace.QName(
-                "simple.objects.vamsas", "WsJobId"));
-        oper.setReturnClass(vamsas.objects.simple.WsJobId.class);
-        oper.setReturnQName(new javax.xml.namespace.QName("", "cancelReturn"));
-        oper.setStyle(org.apache.axis.constants.Style.RPC);
-        oper.setUse(org.apache.axis.constants.Use.ENCODED);
-        _operations[3] = oper;
-    }
-
-    protected org.apache.axis.client.Call createCall()
-        throws java.rmi.RemoteException {
-        try {
-            org.apache.axis.client.Call _call = (org.apache.axis.client.Call) super.service.createCall();
-
-            if (super.maintainSessionSet) {
-                _call.setMaintainSession(super.maintainSession);
-            }
-
-            if (super.cachedUsername != null) {
-                _call.setUsername(super.cachedUsername);
-            }
-
-            if (super.cachedPassword != null) {
-                _call.setPassword(super.cachedPassword);
-            }
-
-            if (super.cachedEndpoint != null) {
-                _call.setTargetEndpointAddress(super.cachedEndpoint);
-            }
-
-            if (super.cachedTimeout != null) {
-                _call.setTimeout(super.cachedTimeout);
-            }
-
-            if (super.cachedPortName != null) {
-                _call.setPortName(super.cachedPortName);
-            }
-
-            java.util.Enumeration keys = super.cachedProperties.keys();
-
-            while (keys.hasMoreElements()) {
-                java.lang.String key = (java.lang.String) keys.nextElement();
-                _call.setProperty(key, super.cachedProperties.get(key));
-            }
-
-            // All the type mapping information is registered
-            // when the first call is made.
-            // The type mapping information is actually registered in
-            // the TypeMappingRegistry of the service, which
-            // is the reason why registration is only needed for the first call.
-            synchronized (this) {
-                if (firstCall()) {
-                    // must set encoding style before registering serializers
-                    _call.setSOAPVersion(org.apache.axis.soap.SOAPConstants.SOAP11_CONSTANTS);
-                    _call.setEncodingStyle(org.apache.axis.Constants.URI_SOAP11_ENC);
-
-                    for (int i = 0; i < cachedSerFactories.size(); ++i) {
-                        java.lang.Class cls = (java.lang.Class) cachedSerClasses.get(i);
-                        javax.xml.namespace.QName qName = (javax.xml.namespace.QName) cachedSerQNames.get(i);
-                        java.lang.Class sf = (java.lang.Class) cachedSerFactories.get(i);
-                        java.lang.Class df = (java.lang.Class) cachedDeserFactories.get(i);
-                        _call.registerTypeMapping(cls, qName, sf, df, false);
-                    }
-                }
-            }
-
-            return _call;
-        } catch (java.lang.Throwable _t) {
-            throw new org.apache.axis.AxisFault("Failure trying to get the Call object",
-                _t);
-        }
-    }
-
-    public vamsas.objects.simple.WsJobId align(
-        vamsas.objects.simple.SequenceSet seqSet)
-        throws java.rmi.RemoteException {
-        if (super.cachedEndpoint == null) {
-            throw new org.apache.axis.NoEndPointException();
-        }
-
-        org.apache.axis.client.Call _call = createCall();
-        _call.setOperation(_operations[0]);
-        _call.setUseSOAPAction(true);
-        _call.setSOAPActionURI("");
-        _call.setSOAPVersion(org.apache.axis.soap.SOAPConstants.SOAP11_CONSTANTS);
-        _call.setOperationName(new javax.xml.namespace.QName("vamsas", "align"));
-
-        setRequestHeaders(_call);
-        setAttachments(_call);
-
-        java.lang.Object _resp = _call.invoke(new java.lang.Object[] { seqSet });
-
-        if (_resp instanceof java.rmi.RemoteException) {
-            throw (java.rmi.RemoteException) _resp;
-        } else {
-            extractAttachments(_call);
-
-            try {
-                return (vamsas.objects.simple.WsJobId) _resp;
-            } catch (java.lang.Exception _exception) {
-                return (vamsas.objects.simple.WsJobId) org.apache.axis.utils.JavaUtils.convert(_resp,
-                    vamsas.objects.simple.WsJobId.class);
-            }
-        }
-    }
-
-    public vamsas.objects.simple.Alignment getalign(java.lang.String job_id)
-        throws java.rmi.RemoteException {
-        if (super.cachedEndpoint == null) {
-            throw new org.apache.axis.NoEndPointException();
-        }
-
-        org.apache.axis.client.Call _call = createCall();
-        _call.setOperation(_operations[1]);
-        _call.setUseSOAPAction(true);
-        _call.setSOAPActionURI("");
-        _call.setSOAPVersion(org.apache.axis.soap.SOAPConstants.SOAP11_CONSTANTS);
-        _call.setOperationName(new javax.xml.namespace.QName("vamsas",
-                "getalign"));
-
-        setRequestHeaders(_call);
-        setAttachments(_call);
-
-        java.lang.Object _resp = _call.invoke(new java.lang.Object[] { job_id });
-
-        if (_resp instanceof java.rmi.RemoteException) {
-            throw (java.rmi.RemoteException) _resp;
-        } else {
-            extractAttachments(_call);
-
-            try {
-                return (vamsas.objects.simple.Alignment) _resp;
-            } catch (java.lang.Exception _exception) {
-                return (vamsas.objects.simple.Alignment) org.apache.axis.utils.JavaUtils.convert(_resp,
-                    vamsas.objects.simple.Alignment.class);
-            }
-        }
-    }
-
-    public vamsas.objects.simple.MsaResult getResult(java.lang.String job_id)
-        throws java.rmi.RemoteException {
-        if (super.cachedEndpoint == null) {
-            throw new org.apache.axis.NoEndPointException();
-        }
-
-        org.apache.axis.client.Call _call = createCall();
-        _call.setOperation(_operations[2]);
-        _call.setUseSOAPAction(true);
-        _call.setSOAPActionURI("");
-        _call.setSOAPVersion(org.apache.axis.soap.SOAPConstants.SOAP11_CONSTANTS);
-        _call.setOperationName(new javax.xml.namespace.QName("vamsas",
-                "getResult"));
-
-        setRequestHeaders(_call);
-        setAttachments(_call);
-
-        java.lang.Object _resp = _call.invoke(new java.lang.Object[] { job_id });
-
-        if (_resp instanceof java.rmi.RemoteException) {
-            throw (java.rmi.RemoteException) _resp;
-        } else {
-            extractAttachments(_call);
-
-            try {
-                return (vamsas.objects.simple.MsaResult) _resp;
-            } catch (java.lang.Exception _exception) {
-                return (vamsas.objects.simple.MsaResult) org.apache.axis.utils.JavaUtils.convert(_resp,
-                    vamsas.objects.simple.MsaResult.class);
-            }
-        }
-    }
-
-    public vamsas.objects.simple.WsJobId cancel(java.lang.String jobId)
-        throws java.rmi.RemoteException {
-        if (super.cachedEndpoint == null) {
-            throw new org.apache.axis.NoEndPointException();
-        }
-
-        org.apache.axis.client.Call _call = createCall();
-        _call.setOperation(_operations[3]);
-        _call.setUseSOAPAction(true);
-        _call.setSOAPActionURI("");
-        _call.setSOAPVersion(org.apache.axis.soap.SOAPConstants.SOAP11_CONSTANTS);
-        _call.setOperationName(new javax.xml.namespace.QName("vamsas", "cancel"));
-
-        setRequestHeaders(_call);
-        setAttachments(_call);
-
-        java.lang.Object _resp = _call.invoke(new java.lang.Object[] { jobId });
-
-        if (_resp instanceof java.rmi.RemoteException) {
-            throw (java.rmi.RemoteException) _resp;
-        } else {
-            extractAttachments(_call);
-
-            try {
-                return (vamsas.objects.simple.WsJobId) _resp;
-            } catch (java.lang.Exception _exception) {
-                return (vamsas.objects.simple.WsJobId) org.apache.axis.utils.JavaUtils.convert(_resp,
-                    vamsas.objects.simple.WsJobId.class);
-            }
-        }
-    }
-}
+*/
+package ext.vamsas;
+
+public class MuscleWSSoapBindingStub extends org.apache.axis.client.Stub
+    implements ext.vamsas.MuscleWS {
+    static org.apache.axis.description.OperationDesc[] _operations;
+
+    static {
+        _operations = new org.apache.axis.description.OperationDesc[4];
+        _initOperationDesc1();
+    }
+
+    private java.util.Vector cachedSerClasses = new java.util.Vector();
+    private java.util.Vector cachedSerQNames = new java.util.Vector();
+    private java.util.Vector cachedSerFactories = new java.util.Vector();
+    private java.util.Vector cachedDeserFactories = new java.util.Vector();
+
+    public MuscleWSSoapBindingStub() throws org.apache.axis.AxisFault {
+        this(null);
+    }
+
+    public MuscleWSSoapBindingStub(java.net.URL endpointURL,
+        javax.xml.rpc.Service service) throws org.apache.axis.AxisFault {
+        this(service);
+        super.cachedEndpoint = endpointURL;
+    }
+
+    public MuscleWSSoapBindingStub(javax.xml.rpc.Service service)
+        throws org.apache.axis.AxisFault {
+        if (service == null) {
+            super.service = new org.apache.axis.client.Service();
+        } else {
+            super.service = service;
+        }
+
+        java.lang.Class cls;
+        javax.xml.namespace.QName qName;
+        java.lang.Class beansf = org.apache.axis.encoding.ser.BeanSerializerFactory.class;
+        java.lang.Class beandf = org.apache.axis.encoding.ser.BeanDeserializerFactory.class;
+        //java.lang.Class enumsf = org.apache.axis.encoding.ser.EnumSerializerFactory.class;
+        //java.lang.Class enumdf = org.apache.axis.encoding.ser.EnumDeserializerFactory.class;
+        java.lang.Class arraysf = org.apache.axis.encoding.ser.ArraySerializerFactory.class;
+        java.lang.Class arraydf = org.apache.axis.encoding.ser.ArrayDeserializerFactory.class;
+        //java.lang.Class simplesf = org.apache.axis.encoding.ser.SimpleSerializerFactory.class;
+        // java.lang.Class simpledf = org.apache.axis.encoding.ser.SimpleDeserializerFactory.class;
+        //java.lang.Class simplelistsf = org.apache.axis.encoding.ser.SimpleListSerializerFactory.class;
+        //java.lang.Class simplelistdf = org.apache.axis.encoding.ser.SimpleListDeserializerFactory.class;
+        qName = new javax.xml.namespace.QName("simple.objects.vamsas",
+                "Sequence");
+        cachedSerQNames.add(qName);
+        cls = vamsas.objects.simple.Sequence.class;
+        cachedSerClasses.add(cls);
+        cachedSerFactories.add(beansf);
+        cachedDeserFactories.add(beandf);
+
+        qName = new javax.xml.namespace.QName("vamsas", "ArrayOf_tns1_Sequence");
+        cachedSerQNames.add(qName);
+        cls = vamsas.objects.simple.Sequence[].class;
+        cachedSerClasses.add(cls);
+        cachedSerFactories.add(arraysf);
+        cachedDeserFactories.add(arraydf);
+
+        qName = new javax.xml.namespace.QName("simple.objects.vamsas",
+                "MsaResult");
+        cachedSerQNames.add(qName);
+        cls = vamsas.objects.simple.MsaResult.class;
+        cachedSerClasses.add(cls);
+        cachedSerFactories.add(beansf);
+        cachedDeserFactories.add(beandf);
+
+        qName = new javax.xml.namespace.QName("simple.objects.vamsas",
+                "SequenceSet");
+        cachedSerQNames.add(qName);
+        cls = vamsas.objects.simple.SequenceSet.class;
+        cachedSerClasses.add(cls);
+        cachedSerFactories.add(beansf);
+        cachedDeserFactories.add(beandf);
+
+        qName = new javax.xml.namespace.QName("http://simple.objects.vamsas",
+                "Object");
+        cachedSerQNames.add(qName);
+        cls = vamsas.objects.simple.Object.class;
+        cachedSerClasses.add(cls);
+        cachedSerFactories.add(beansf);
+        cachedDeserFactories.add(beandf);
+
+        qName = new javax.xml.namespace.QName("simple.objects.vamsas",
+                "Alignment");
+        cachedSerQNames.add(qName);
+        cls = vamsas.objects.simple.Alignment.class;
+        cachedSerClasses.add(cls);
+        cachedSerFactories.add(beansf);
+        cachedDeserFactories.add(beandf);
+
+        qName = new javax.xml.namespace.QName("simple.objects.vamsas", "WsJobId");
+        cachedSerQNames.add(qName);
+        cls = vamsas.objects.simple.WsJobId.class;
+        cachedSerClasses.add(cls);
+        cachedSerFactories.add(beansf);
+        cachedDeserFactories.add(beandf);
+
+        qName = new javax.xml.namespace.QName("vamsas", "ArrayOf_xsd_string");
+        cachedSerQNames.add(qName);
+        cls = java.lang.String[].class;
+        cachedSerClasses.add(cls);
+        cachedSerFactories.add(arraysf);
+        cachedDeserFactories.add(arraydf);
+
+        qName = new javax.xml.namespace.QName("simple.objects.vamsas", "Result");
+        cachedSerQNames.add(qName);
+        cls = vamsas.objects.simple.Result.class;
+        cachedSerClasses.add(cls);
+        cachedSerFactories.add(beansf);
+        cachedDeserFactories.add(beandf);
+    }
+
+    private static void _initOperationDesc1() {
+        org.apache.axis.description.OperationDesc oper;
+        oper = new org.apache.axis.description.OperationDesc();
+        oper.setName("align");
+        oper.addParameter(new javax.xml.namespace.QName("", "seqSet"),
+            new javax.xml.namespace.QName("simple.objects.vamsas", "SequenceSet"),
+            vamsas.objects.simple.SequenceSet.class,
+            org.apache.axis.description.ParameterDesc.IN, false, false);
+        oper.setReturnType(new javax.xml.namespace.QName(
+                "simple.objects.vamsas", "WsJobId"));
+        oper.setReturnClass(vamsas.objects.simple.WsJobId.class);
+        oper.setReturnQName(new javax.xml.namespace.QName("", "alignReturn"));
+        oper.setStyle(org.apache.axis.constants.Style.RPC);
+        oper.setUse(org.apache.axis.constants.Use.ENCODED);
+        _operations[0] = oper;
+
+        oper = new org.apache.axis.description.OperationDesc();
+        oper.setName("getalign");
+        oper.addParameter(new javax.xml.namespace.QName("", "job_id"),
+            new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema",
+                "string"), java.lang.String.class,
+            org.apache.axis.description.ParameterDesc.IN, false, false);
+        oper.setReturnType(new javax.xml.namespace.QName(
+                "simple.objects.vamsas", "Alignment"));
+        oper.setReturnClass(vamsas.objects.simple.Alignment.class);
+        oper.setReturnQName(new javax.xml.namespace.QName("", "getalignReturn"));
+        oper.setStyle(org.apache.axis.constants.Style.RPC);
+        oper.setUse(org.apache.axis.constants.Use.ENCODED);
+        _operations[1] = oper;
+
+        oper = new org.apache.axis.description.OperationDesc();
+        oper.setName("getResult");
+        oper.addParameter(new javax.xml.namespace.QName("", "job_id"),
+            new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema",
+                "string"), java.lang.String.class,
+            org.apache.axis.description.ParameterDesc.IN, false, false);
+        oper.setReturnType(new javax.xml.namespace.QName(
+                "simple.objects.vamsas", "MsaResult"));
+        oper.setReturnClass(vamsas.objects.simple.MsaResult.class);
+        oper.setReturnQName(new javax.xml.namespace.QName("", "getResultReturn"));
+        oper.setStyle(org.apache.axis.constants.Style.RPC);
+        oper.setUse(org.apache.axis.constants.Use.ENCODED);
+        _operations[2] = oper;
+
+        oper = new org.apache.axis.description.OperationDesc();
+        oper.setName("cancel");
+        oper.addParameter(new javax.xml.namespace.QName("", "jobId"),
+            new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema",
+                "string"), java.lang.String.class,
+            org.apache.axis.description.ParameterDesc.IN, false, false);
+        oper.setReturnType(new javax.xml.namespace.QName(
+                "simple.objects.vamsas", "WsJobId"));
+        oper.setReturnClass(vamsas.objects.simple.WsJobId.class);
+        oper.setReturnQName(new javax.xml.namespace.QName("", "cancelReturn"));
+        oper.setStyle(org.apache.axis.constants.Style.RPC);
+        oper.setUse(org.apache.axis.constants.Use.ENCODED);
+        _operations[3] = oper;
+    }
+
+    protected org.apache.axis.client.Call createCall()
+        throws java.rmi.RemoteException {
+        try {
+            org.apache.axis.client.Call _call = (org.apache.axis.client.Call) super.service.createCall();
+
+            if (super.maintainSessionSet) {
+                _call.setMaintainSession(super.maintainSession);
+            }
+
+            if (super.cachedUsername != null) {
+                _call.setUsername(super.cachedUsername);
+            }
+
+            if (super.cachedPassword != null) {
+                _call.setPassword(super.cachedPassword);
+            }
+
+            if (super.cachedEndpoint != null) {
+                _call.setTargetEndpointAddress(super.cachedEndpoint);
+            }
+
+            if (super.cachedTimeout != null) {
+                _call.setTimeout(super.cachedTimeout);
+            }
+
+            if (super.cachedPortName != null) {
+                _call.setPortName(super.cachedPortName);
+            }
+
+            java.util.Enumeration keys = super.cachedProperties.keys();
+
+            while (keys.hasMoreElements()) {
+                java.lang.String key = (java.lang.String) keys.nextElement();
+                _call.setProperty(key, super.cachedProperties.get(key));
+            }
+
+            // All the type mapping information is registered
+            // when the first call is made.
+            // The type mapping information is actually registered in
+            // the TypeMappingRegistry of the service, which
+            // is the reason why registration is only needed for the first call.
+            synchronized (this) {
+                if (firstCall()) {
+                    // must set encoding style before registering serializers
+                    _call.setSOAPVersion(org.apache.axis.soap.SOAPConstants.SOAP11_CONSTANTS);
+                    _call.setEncodingStyle(org.apache.axis.Constants.URI_SOAP11_ENC);
+
+                    for (int i = 0; i < cachedSerFactories.size(); ++i) {
+                        java.lang.Class cls = (java.lang.Class) cachedSerClasses.get(i);
+                        javax.xml.namespace.QName qName = (javax.xml.namespace.QName) cachedSerQNames.get(i);
+                        java.lang.Class sf = (java.lang.Class) cachedSerFactories.get(i);
+                        java.lang.Class df = (java.lang.Class) cachedDeserFactories.get(i);
+                        _call.registerTypeMapping(cls, qName, sf, df, false);
+                    }
+                }
+            }
+
+            return _call;
+        } catch (java.lang.Throwable _t) {
+            throw new org.apache.axis.AxisFault("Failure trying to get the Call object",
+                _t);
+        }
+    }
+
+    public vamsas.objects.simple.WsJobId align(
+        vamsas.objects.simple.SequenceSet seqSet)
+        throws java.rmi.RemoteException {
+        if (super.cachedEndpoint == null) {
+            throw new org.apache.axis.NoEndPointException();
+        }
+
+        org.apache.axis.client.Call _call = createCall();
+        _call.setOperation(_operations[0]);
+        _call.setUseSOAPAction(true);
+        _call.setSOAPActionURI("");
+        _call.setSOAPVersion(org.apache.axis.soap.SOAPConstants.SOAP11_CONSTANTS);
+        _call.setOperationName(new javax.xml.namespace.QName("vamsas", "align"));
+
+        setRequestHeaders(_call);
+        setAttachments(_call);
+
+        java.lang.Object _resp = _call.invoke(new java.lang.Object[] { seqSet });
+
+        if (_resp instanceof java.rmi.RemoteException) {
+            throw (java.rmi.RemoteException) _resp;
+        } else {
+            extractAttachments(_call);
+
+            try {
+                return (vamsas.objects.simple.WsJobId) _resp;
+            } catch (java.lang.Exception _exception) {
+                return (vamsas.objects.simple.WsJobId) org.apache.axis.utils.JavaUtils.convert(_resp,
+                    vamsas.objects.simple.WsJobId.class);
+            }
+        }
+    }
+
+    public vamsas.objects.simple.Alignment getalign(java.lang.String job_id)
+        throws java.rmi.RemoteException {
+        if (super.cachedEndpoint == null) {
+            throw new org.apache.axis.NoEndPointException();
+        }
+
+        org.apache.axis.client.Call _call = createCall();
+        _call.setOperation(_operations[1]);
+        _call.setUseSOAPAction(true);
+        _call.setSOAPActionURI("");
+        _call.setSOAPVersion(org.apache.axis.soap.SOAPConstants.SOAP11_CONSTANTS);
+        _call.setOperationName(new javax.xml.namespace.QName("vamsas",
+                "getalign"));
+
+        setRequestHeaders(_call);
+        setAttachments(_call);
+
+        java.lang.Object _resp = _call.invoke(new java.lang.Object[] { job_id });
+
+        if (_resp instanceof java.rmi.RemoteException) {
+            throw (java.rmi.RemoteException) _resp;
+        } else {
+            extractAttachments(_call);
+
+            try {
+                return (vamsas.objects.simple.Alignment) _resp;
+            } catch (java.lang.Exception _exception) {
+                return (vamsas.objects.simple.Alignment) org.apache.axis.utils.JavaUtils.convert(_resp,
+                    vamsas.objects.simple.Alignment.class);
+            }
+        }
+    }
+
+    public vamsas.objects.simple.MsaResult getResult(java.lang.String job_id)
+        throws java.rmi.RemoteException {
+        if (super.cachedEndpoint == null) {
+            throw new org.apache.axis.NoEndPointException();
+        }
+
+        org.apache.axis.client.Call _call = createCall();
+        _call.setOperation(_operations[2]);
+        _call.setUseSOAPAction(true);
+        _call.setSOAPActionURI("");
+        _call.setSOAPVersion(org.apache.axis.soap.SOAPConstants.SOAP11_CONSTANTS);
+        _call.setOperationName(new javax.xml.namespace.QName("vamsas",
+                "getResult"));
+
+        setRequestHeaders(_call);
+        setAttachments(_call);
+
+        java.lang.Object _resp = _call.invoke(new java.lang.Object[] { job_id });
+
+        if (_resp instanceof java.rmi.RemoteException) {
+            throw (java.rmi.RemoteException) _resp;
+        } else {
+            extractAttachments(_call);
+
+            try {
+                return (vamsas.objects.simple.MsaResult) _resp;
+            } catch (java.lang.Exception _exception) {
+                return (vamsas.objects.simple.MsaResult) org.apache.axis.utils.JavaUtils.convert(_resp,
+                    vamsas.objects.simple.MsaResult.class);
+            }
+        }
+    }
+
+    public vamsas.objects.simple.WsJobId cancel(java.lang.String jobId)
+        throws java.rmi.RemoteException {
+        if (super.cachedEndpoint == null) {
+            throw new org.apache.axis.NoEndPointException();
+        }
+
+        org.apache.axis.client.Call _call = createCall();
+        _call.setOperation(_operations[3]);
+        _call.setUseSOAPAction(true);
+        _call.setSOAPActionURI("");
+        _call.setSOAPVersion(org.apache.axis.soap.SOAPConstants.SOAP11_CONSTANTS);
+        _call.setOperationName(new javax.xml.namespace.QName("vamsas", "cancel"));
+
+        setRequestHeaders(_call);
+        setAttachments(_call);
+
+        java.lang.Object _resp = _call.invoke(new java.lang.Object[] { jobId });
+
+        if (_resp instanceof java.rmi.RemoteException) {
+            throw (java.rmi.RemoteException) _resp;
+        } else {
+            extractAttachments(_call);
+
+            try {
+                return (vamsas.objects.simple.WsJobId) _resp;
+            } catch (java.lang.Exception _exception) {
+                return (vamsas.objects.simple.WsJobId) org.apache.axis.utils.JavaUtils.convert(_resp,
+                    vamsas.objects.simple.WsJobId.class);
+            }
+        }
+    }
+}