regenerated from wsdl.

diff --git a/src/vamsas/objects/simple/JpredResult.java b/src/vamsas/objects/simple/JpredResult.java
new file mode 100755 (executable)
index 0000000..6dc1d11
--- /dev/null
+++ b/src/vamsas/objects/simple/JpredResult.java
@@ -0,0 +1,103 @@
+/**
+ * JpredResult.java
+ *
+ * This file was auto-generated from WSDL
+ * by the Apache Axis 1.2RC2 Nov 16, 2004 (12:19:44 EST) WSDL2Java emitter.
+ */
+
+package vamsas.objects.simple;
+
+public class JpredResult  extends vamsas.objects.simple.Result  implements java.io.Serializable {
+    private java.lang.String aligfile;
+    private java.lang.String predfile;
+
+    public JpredResult() {
+    }
+
+    public JpredResult(
+           java.lang.String aligfile,
+           java.lang.String predfile) {
+           this.aligfile = aligfile;
+           this.predfile = predfile;
+    }
+
+
+    /**
+     * Gets the aligfile value for this JpredResult.
+     * 
+     * @return aligfile
+     */
+    public java.lang.String getAligfile() {
+        return aligfile;
+    }
+
+
+    /**
+     * Sets the aligfile value for this JpredResult.
+     * 
+     * @param aligfile
+     */
+    public void setAligfile(java.lang.String aligfile) {
+        this.aligfile = aligfile;
+    }
+
+
+    /**
+     * Gets the predfile value for this JpredResult.
+     * 
+     * @return predfile
+     */
+    public java.lang.String getPredfile() {
+        return predfile;
+    }
+
+
+    /**
+     * Sets the predfile value for this JpredResult.
+     * 
+     * @param predfile
+     */
+    public void setPredfile(java.lang.String predfile) {
+        this.predfile = predfile;
+    }
+
+    private java.lang.Object __equalsCalc = null;
+    public synchronized boolean equals(java.lang.Object obj) {
+        if (!(obj instanceof JpredResult)) return false;
+        JpredResult other = (JpredResult) obj;
+        if (obj == null) return false;
+        if (this == obj) return true;
+        if (__equalsCalc != null) {
+            return (__equalsCalc == obj);
+        }
+        __equalsCalc = obj;
+        boolean _equals;
+        _equals = super.equals(obj) && 
+            ((this.aligfile==null && other.getAligfile()==null) || 
+             (this.aligfile!=null &&
+              this.aligfile.equals(other.getAligfile()))) &&
+            ((this.predfile==null && other.getPredfile()==null) || 
+             (this.predfile!=null &&
+              this.predfile.equals(other.getPredfile())));
+        __equalsCalc = null;
+        return _equals;
+    }
+
+    private boolean __hashCodeCalc = false;
+    public synchronized int hashCode() {
+        if (__hashCodeCalc) {
+            return 0;
+        }
+        __hashCodeCalc = true;
+        int _hashCode = super.hashCode();
+        if (getAligfile() != null) {
+            _hashCode += getAligfile().hashCode();
+        }
+        if (getPredfile() != null) {
+            _hashCode += getPredfile().hashCode();
+        }
+        __hashCodeCalc = false;
+        return _hashCode;
+    }
+
+}

diff --git a/src/vamsas/objects/simple/JpredResult_Helper.java b/src/vamsas/objects/simple/JpredResult_Helper.java
new file mode 100755 (executable)
index 0000000..34acfa8
--- /dev/null
+++ b/src/vamsas/objects/simple/JpredResult_Helper.java
@@ -0,0 +1,60 @@
+/**
+ * JpredResult_Helper.java
+ *
+ * This file was auto-generated from WSDL
+ * by the Apache Axis 1.2RC2 Nov 16, 2004 (12:19:44 EST) WSDL2Java emitter.
+ */
+
+package vamsas.objects.simple;
+
+public class JpredResult_Helper {
+    // Type metadata
+    private static org.apache.axis.description.TypeDesc typeDesc =
+        new org.apache.axis.description.TypeDesc(JpredResult.class, true);
+
+    static {
+        typeDesc.setXmlType(new javax.xml.namespace.QName("http://simple.objects.vamsas", "JpredResult"));
+        org.apache.axis.description.ElementDesc elemField = new org.apache.axis.description.ElementDesc();
+        elemField.setFieldName("aligfile");
+        elemField.setXmlName(new javax.xml.namespace.QName("", "aligfile"));
+        elemField.setXmlType(new javax.xml.namespace.QName("http://schemas.xmlsoap.org/soap/encoding/", "string"));
+        typeDesc.addFieldDesc(elemField);
+        elemField = new org.apache.axis.description.ElementDesc();
+        elemField.setFieldName("predfile");
+        elemField.setXmlName(new javax.xml.namespace.QName("", "predfile"));
+        elemField.setXmlType(new javax.xml.namespace.QName("http://schemas.xmlsoap.org/soap/encoding/", "string"));
+        typeDesc.addFieldDesc(elemField);
+    }
+
+    /**
+     * Return type metadata object
+     */
+    public static org.apache.axis.description.TypeDesc getTypeDesc() {
+        return typeDesc;
+    }
+
+    /**
+     * Get Custom Serializer
+     */
+    public static org.apache.axis.encoding.Serializer getSerializer(
+           java.lang.String mechType, 
+           java.lang.Class _javaType,  
+           javax.xml.namespace.QName _xmlType) {
+        return 
+          new  org.apache.axis.encoding.ser.BeanSerializer(
+            _javaType, _xmlType, typeDesc);
+    }
+
+    /**
+     * Get Custom Deserializer
+     */
+    public static org.apache.axis.encoding.Deserializer getDeserializer(
+           java.lang.String mechType, 
+           java.lang.Class _javaType,  
+           javax.xml.namespace.QName _xmlType) {
+        return 
+          new  org.apache.axis.encoding.ser.BeanDeserializer(
+            _javaType, _xmlType, typeDesc);
+    }
+
+}

diff --git a/src/vamsas/objects/simple/Msfalignment.java b/src/vamsas/objects/simple/Msfalignment.java
new file mode 100755 (executable)
index 0000000..f891957
--- /dev/null
+++ b/src/vamsas/objects/simple/Msfalignment.java
@@ -0,0 +1,103 @@
+/**
+ * Msfalignment.java
+ *
+ * This file was auto-generated from WSDL
+ * by the Apache Axis 1.2RC2 Nov 16, 2004 (12:19:44 EST) WSDL2Java emitter.
+ */
+
+package vamsas.objects.simple;
+
+public class Msfalignment  implements java.io.Serializable {
+    private java.lang.String msf;
+    private java.lang.String notes;
+
+    public Msfalignment() {
+    }
+
+    public Msfalignment(
+           java.lang.String msf,
+           java.lang.String notes) {
+           this.msf = msf;
+           this.notes = notes;
+    }
+
+
+    /**
+     * Gets the msf value for this Msfalignment.
+     * 
+     * @return msf
+     */
+    public java.lang.String getMsf() {
+        return msf;
+    }
+
+
+    /**
+     * Sets the msf value for this Msfalignment.
+     * 
+     * @param msf
+     */
+    public void setMsf(java.lang.String msf) {
+        this.msf = msf;
+    }
+
+
+    /**
+     * Gets the notes value for this Msfalignment.
+     * 
+     * @return notes
+     */
+    public java.lang.String getNotes() {
+        return notes;
+    }
+
+
+    /**
+     * Sets the notes value for this Msfalignment.
+     * 
+     * @param notes
+     */
+    public void setNotes(java.lang.String notes) {
+        this.notes = notes;
+    }
+
+    private java.lang.Object __equalsCalc = null;
+    public synchronized boolean equals(java.lang.Object obj) {
+        if (!(obj instanceof Msfalignment)) return false;
+        Msfalignment other = (Msfalignment) obj;
+        if (obj == null) return false;
+        if (this == obj) return true;
+        if (__equalsCalc != null) {
+            return (__equalsCalc == obj);
+        }
+        __equalsCalc = obj;
+        boolean _equals;
+        _equals = true && 
+            ((this.msf==null && other.getMsf()==null) || 
+             (this.msf!=null &&
+              this.msf.equals(other.getMsf()))) &&
+            ((this.notes==null && other.getNotes()==null) || 
+             (this.notes!=null &&
+              this.notes.equals(other.getNotes())));
+        __equalsCalc = null;
+        return _equals;
+    }
+
+    private boolean __hashCodeCalc = false;
+    public synchronized int hashCode() {
+        if (__hashCodeCalc) {
+            return 0;
+        }
+        __hashCodeCalc = true;
+        int _hashCode = 1;
+        if (getMsf() != null) {
+            _hashCode += getMsf().hashCode();
+        }
+        if (getNotes() != null) {
+            _hashCode += getNotes().hashCode();
+        }
+        __hashCodeCalc = false;
+        return _hashCode;
+    }
+
+}

diff --git a/src/vamsas/objects/simple/Msfalignment_Helper.java b/src/vamsas/objects/simple/Msfalignment_Helper.java
new file mode 100755 (executable)
index 0000000..9452a8b
--- /dev/null
+++ b/src/vamsas/objects/simple/Msfalignment_Helper.java
@@ -0,0 +1,60 @@
+/**
+ * Msfalignment_Helper.java
+ *
+ * This file was auto-generated from WSDL
+ * by the Apache Axis 1.2RC2 Nov 16, 2004 (12:19:44 EST) WSDL2Java emitter.
+ */
+
+package vamsas.objects.simple;
+
+public class Msfalignment_Helper {
+    // Type metadata
+    private static org.apache.axis.description.TypeDesc typeDesc =
+        new org.apache.axis.description.TypeDesc(Msfalignment.class, true);
+
+    static {
+        typeDesc.setXmlType(new javax.xml.namespace.QName("http://simple.objects.vamsas", "Msfalignment"));
+        org.apache.axis.description.ElementDesc elemField = new org.apache.axis.description.ElementDesc();
+        elemField.setFieldName("msf");
+        elemField.setXmlName(new javax.xml.namespace.QName("", "msf"));
+        elemField.setXmlType(new javax.xml.namespace.QName("http://schemas.xmlsoap.org/soap/encoding/", "string"));
+        typeDesc.addFieldDesc(elemField);
+        elemField = new org.apache.axis.description.ElementDesc();
+        elemField.setFieldName("notes");
+        elemField.setXmlName(new javax.xml.namespace.QName("", "notes"));
+        elemField.setXmlType(new javax.xml.namespace.QName("http://schemas.xmlsoap.org/soap/encoding/", "string"));
+        typeDesc.addFieldDesc(elemField);
+    }
+
+    /**
+     * Return type metadata object
+     */
+    public static org.apache.axis.description.TypeDesc getTypeDesc() {
+        return typeDesc;
+    }
+
+    /**
+     * Get Custom Serializer
+     */
+    public static org.apache.axis.encoding.Serializer getSerializer(
+           java.lang.String mechType, 
+           java.lang.Class _javaType,  
+           javax.xml.namespace.QName _xmlType) {
+        return 
+          new  org.apache.axis.encoding.ser.BeanSerializer(
+            _javaType, _xmlType, typeDesc);
+    }
+
+    /**
+     * Get Custom Deserializer
+     */
+    public static org.apache.axis.encoding.Deserializer getDeserializer(
+           java.lang.String mechType, 
+           java.lang.Class _javaType,  
+           javax.xml.namespace.QName _xmlType) {
+        return 
+          new  org.apache.axis.encoding.ser.BeanDeserializer(
+            _javaType, _xmlType, typeDesc);
+    }
+
+}

diff --git a/src/vamsas/objects/simple/Secstructpred.java b/src/vamsas/objects/simple/Secstructpred.java
new file mode 100755 (executable)
index 0000000..42c36d2
--- /dev/null
+++ b/src/vamsas/objects/simple/Secstructpred.java
@@ -0,0 +1,74 @@
+/**
+ * Secstructpred.java
+ *
+ * This file was auto-generated from WSDL
+ * by the Apache Axis 1.2RC2 Nov 16, 2004 (12:19:44 EST) WSDL2Java emitter.
+ */
+
+package vamsas.objects.simple;
+
+public class Secstructpred  implements java.io.Serializable {
+    private java.lang.String output;
+
+    public Secstructpred() {
+    }
+
+    public Secstructpred(
+           java.lang.String output) {
+           this.output = output;
+    }
+
+
+    /**
+     * Gets the output value for this Secstructpred.
+     * 
+     * @return output
+     */
+    public java.lang.String getOutput() {
+        return output;
+    }
+
+
+    /**
+     * Sets the output value for this Secstructpred.
+     * 
+     * @param output
+     */
+    public void setOutput(java.lang.String output) {
+        this.output = output;
+    }
+
+    private java.lang.Object __equalsCalc = null;
+    public synchronized boolean equals(java.lang.Object obj) {
+        if (!(obj instanceof Secstructpred)) return false;
+        Secstructpred other = (Secstructpred) obj;
+        if (obj == null) return false;
+        if (this == obj) return true;
+        if (__equalsCalc != null) {
+            return (__equalsCalc == obj);
+        }
+        __equalsCalc = obj;
+        boolean _equals;
+        _equals = true && 
+            ((this.output==null && other.getOutput()==null) || 
+             (this.output!=null &&
+              this.output.equals(other.getOutput())));
+        __equalsCalc = null;
+        return _equals;
+    }
+
+    private boolean __hashCodeCalc = false;
+    public synchronized int hashCode() {
+        if (__hashCodeCalc) {
+            return 0;
+        }
+        __hashCodeCalc = true;
+        int _hashCode = 1;
+        if (getOutput() != null) {
+            _hashCode += getOutput().hashCode();
+        }
+        __hashCodeCalc = false;
+        return _hashCode;
+    }
+
+}

diff --git a/src/vamsas/objects/simple/Secstructpred_Helper.java b/src/vamsas/objects/simple/Secstructpred_Helper.java
new file mode 100755 (executable)
index 0000000..80991ce
--- /dev/null
+++ b/src/vamsas/objects/simple/Secstructpred_Helper.java
@@ -0,0 +1,55 @@
+/**
+ * Secstructpred_Helper.java
+ *
+ * This file was auto-generated from WSDL
+ * by the Apache Axis 1.2RC2 Nov 16, 2004 (12:19:44 EST) WSDL2Java emitter.
+ */
+
+package vamsas.objects.simple;
+
+public class Secstructpred_Helper {
+    // Type metadata
+    private static org.apache.axis.description.TypeDesc typeDesc =
+        new org.apache.axis.description.TypeDesc(Secstructpred.class, true);
+
+    static {
+        typeDesc.setXmlType(new javax.xml.namespace.QName("http://simple.objects.vamsas", "Secstructpred"));
+        org.apache.axis.description.ElementDesc elemField = new org.apache.axis.description.ElementDesc();
+        elemField.setFieldName("output");
+        elemField.setXmlName(new javax.xml.namespace.QName("", "output"));
+        elemField.setXmlType(new javax.xml.namespace.QName("http://schemas.xmlsoap.org/soap/encoding/", "string"));
+        typeDesc.addFieldDesc(elemField);
+    }
+
+    /**
+     * Return type metadata object
+     */
+    public static org.apache.axis.description.TypeDesc getTypeDesc() {
+        return typeDesc;
+    }
+
+    /**
+     * Get Custom Serializer
+     */
+    public static org.apache.axis.encoding.Serializer getSerializer(
+           java.lang.String mechType, 
+           java.lang.Class _javaType,  
+           javax.xml.namespace.QName _xmlType) {
+        return 
+          new  org.apache.axis.encoding.ser.BeanSerializer(
+            _javaType, _xmlType, typeDesc);
+    }
+
+    /**
+     * Get Custom Deserializer
+     */
+    public static org.apache.axis.encoding.Deserializer getDeserializer(
+           java.lang.String mechType, 
+           java.lang.Class _javaType,  
+           javax.xml.namespace.QName _xmlType) {
+        return 
+          new  org.apache.axis.encoding.ser.BeanDeserializer(
+            _javaType, _xmlType, typeDesc);
+    }
+
+}