--- /dev/null
+# THE CASTOR PROPERTIES FILE\r
+# This file specifies values for Castor run-time which may be configured\r
+# by the user.\r
+# $Id$\r
+\r
+# This section defines Backwards compatibility switches.\r
+#\r
+# Hashtable/Map default mapping.\r
+# For backward compatibility with 0.9.5.2 and earlier.\r
+#\r
+#org.exolab.castor.xml.saveMapKeys=false\r
+\r
+# Defines the default XML parser to be used by Castor.\r
+# The parser must implement org.xml.sax.Parser.\r
+#\r
+org.exolab.castor.parser=org.apache.xerces.parsers.SAXParser\r
+\r
+# Defines the (default) XML serializer factory to use by Castor, which must\r
+# implement org.exolab.castor.xml.SerializerFactory; default is \r
+# org.exolab.castor.xml.XercesXMLSerializerFactory\r
+# \r
+# When using Castor XML with JDK 5.0, you may switch to the XercesJDK5XMLSerializerFactory\r
+# which will use the Xerces instance as shipped with the JDK itself; this avoids\r
+# having to download another Xerces instance and installing it. \r
+org.exolab.castor.xml.serializer.factory=org.exolab.castor.xml.XercesXMLSerializerFactory\r
+#org.exolab.castor.xml.serializer.factory=org.exolab.castor.xml.XercesJDK5XMLSerializerFactory\r
+\r
+# Defines the NodeType for use with Java primitive types (int, long, boolean,\r
+# etc). This value is only used by the Introspector. Valid values are either\r
+# "attribute" or "element". By default, all primitives are marshaled as\r
+# attributes. Uncomment the following line to change the NodeType to element.\r
+#\r
+#org.exolab.castor.xml.introspector.primitive.nodetype=element\r
+\r
+# Defines the Naming "style" or conventions to use when creating XML names\r
+# from Java class or field names.\r
+# Valid values are as follows:\r
+# -----------------------------------------------------------------\r
+# lower (default) | All names are lowercase with hyphens\r
+# | separating words.\r
+# |\r
+# | Example: personInfo = person-info\r
+# -----------------------------------------------------------------\r
+# mixed | All names are mixed case, with Uppercase\r
+# | character as the first letter of a new word.\r
+# |\r
+# | Example: personInfo = personInfo\r
+# | Example: FooBar = fooBar\r
+# -----------------------------------------------------------------\r
+# {Any ClassName} | Any Class which implements\r
+# | org.exolab.castor.xml.XMLNaming\r
+# -----------------------------------------------------------------\r
+#\r
+# By default, all names are treated as the "lower" option. To preserve the\r
+# Java mixed-case conventions, uncomment the following line.\r
+#\r
+#org.exolab.castor.xml.naming=mixed\r
+\r
+###############################\r
+# REGULAR EXPRESSION EVALUATORS\r
+#\r
+# Defines the Regular Expression Evaluator to be used by Castor.\r
+# The evaluator must implement org.exolab.castor.util.RegExpEvaluator.\r
+#\r
+# Uncomment the following to basically suppress Regular expressions evaluation:\r
+#org.exolab.castor.regexp=org.exolab.castor.xml.util.AlwaysTrueRegExpEvaluator\r
+#\r
+# An implementation which uses the Jakarta RegExp library:\r
+#org.exolab.castor.regexp=org.exolab.castor.util.JakartaRegExpEvaluator\r
+#\r
+# An implementation which uses the Jakarta ORO library:\r
+org.exolab.castor.regexp=org.exolab.castor.util.JakartaOroEvaluator\r
+\r
+# True if all documents should be indented on output by default.\r
+# Defaults to false.\r
+#\r
+#org.exolab.castor.indent=true\r
+\r
+# True if xml documents should be validated by the SAX Parser\r
+# Defaults to false.\r
+#\r
+org.exolab.castor.parser.validation=false\r
+\r
+# True for parser to support Namespaces.\r
+# Defaults to false.\r
+#\r
+org.exolab.castor.parser.namespaces=false\r
+\r
+# True if all documents should be validated by the marshaling framework\r
+# Defaults to true.\r
+#\r
+org.exolab.castor.marshalling.validation=true\r
+\r
+# Comma separated list of SAX 2 features that should be enabled for the\r
+# default parser.\r
+#\r
+#org.exolab.castor.sax.features=\r
+\r
+# Comma separated list of SAX 2 features that should be disabled for the\r
+# default parser.\r
+#\r
+#org.exolab.castor.sax.features-to-disable\r
+\r
+# True if debugging output should be generated.\r
+# Defaults to false.\r
+#\r
+org.exolab.castor.debug=true\r
+\r
+# List of collection handlers for Java 1.1 and Java 1.2 run-times:\r
+#\r
+org.exolab.castor.mapping.collections=\\r
+ org.exolab.castor.mapping.loader.J1CollectionHandlers,\\r
+ org.exolab.castor.mapping.loader.J2CollectionHandlers\r
+\r
+# List of persistence factories for the supported database servers:\r
+#\r
+org.exolab.castor.jdo.engines=\\r
+ org.exolab.castor.jdo.drivers.OracleFactory,\\r
+ org.exolab.castor.jdo.drivers.PostgreSQLFactory,\\r
+ org.exolab.castor.jdo.drivers.SybaseFactory,\\r
+ org.exolab.castor.jdo.drivers.SQLServerFactory,\\r
+ org.exolab.castor.jdo.drivers.DB2Factory,\\r
+ org.exolab.castor.jdo.drivers.InformixFactory,\\r
+ org.exolab.castor.jdo.drivers.HsqlFactory,\\r
+ org.exolab.castor.jdo.drivers.InstantDBFactory,\\r
+ org.exolab.castor.jdo.drivers.InterbaseFactory,\\r
+ org.exolab.castor.jdo.drivers.MySQLFactory,\\r
+ org.exolab.castor.jdo.drivers.SapDbFactory,\\r
+ org.exolab.castor.jdo.drivers.GenericFactory,\\r
+ org.exolab.castor.jdo.drivers.DerbyFactory,\\r
+ org.castor.jdo.drivers.PointbaseFactory,\\r
+ org.castor.jdo.drivers.ProgressFactory\r
+\r
+# List of key generator factories:\r
+#\r
+org.exolab.castor.jdo.keyGeneratorFactories=\\r
+ org.exolab.castor.jdo.keygen.MaxKeyGeneratorFactory,\\r
+ org.exolab.castor.jdo.keygen.HighLowKeyGeneratorFactory,\\r
+ org.exolab.castor.jdo.keygen.IdentityKeyGeneratorFactory,\\r
+ org.exolab.castor.jdo.keygen.SequenceKeyGeneratorFactory,\\r
+ org.exolab.castor.jdo.keygen.UUIDKeyGeneratorFactory\r
+\r
+# Collection handlers for the source code generator:\r
+#\r
+org.exolab.castor.builder.type.j2=\\r
+ org.exolab.castor.builder.FieldInfoFactoryJ2\r
+org.exolab.castor.builder.type.j1=\\r
+ org.exolab.castor.builder.FieldInfoFactory\r
+org.exolab.castor.builder.type.odmg=\\r
+ org.exolab.castor.builder.FieldInfoFactoryODMG30\r
+\r
+# Configures the default time zone to apply to dates/times fetched from\r
+# database fields (if not already part of the data). Specify same format as\r
+# in java.util.TimeZone.getTimeZone, or the empty string to use the computer's\r
+# local time zone. Please see http://de.wikipedia.org/wiki/Zeitzone for\r
+# detailed information about time zones.\r
+#\r
+org.exolab.castor.jdo.defaultTimeZone=\r
+#org.exolab.castor.jdo.defaultTimeZone=GMT-8:00\r
+\r
+# List of TxSynchronizeable implementations:\r
+#\r
+#org.exolab.castor.persist.TxSynchronizable=\r
+\r
+# Sets the buffer size in bytes for fetching LOBs (this is dependent upon\r
+# the JDBC driver implementation). The value below == 5k.\r
+#\r
+org.exolab.castor.jdo.lobBufferSize=5120\r
+\r
+# True if database configuration should be initalization\r
+# when loading it (default: true).\r
+#\r
+#org.exolab.castor.jdo.DatabaseInitializeAtLoad=true\r
+\r
+# True if proxy classes should be used for JDBC connections and\r
+# prepared statements.\r
+# Defaults to true.\r
+#\r
+org.exolab.castor.persist.useProxies=false\r
+\r
+# MappingLoader implementations:\r
+#\r
+org.castor.mapping.loaderFactories=\\r
+ org.castor.mapping.JDOMappingLoaderFactory,\\r
+ org.castor.mapping.XMLMappingLoaderFactory\r
+\r
+# Cache implementations:\r
+#\r
+org.castor.cache.Factories=\\r
+ org.castor.cache.simple.NoCacheFactory,\\r
+ org.castor.cache.simple.TimeLimitedFactory,\\r
+ org.castor.cache.simple.CountLimitedFactory,\\r
+ org.castor.cache.simple.UnlimitedFactory,\\r
+ org.castor.cache.distributed.FKCacheFactory,\\r
+ org.castor.cache.distributed.JcsCacheFactory,\\r
+ org.castor.cache.distributed.JCacheFactory,\\r
+ org.castor.cache.distributed.CoherenceCacheFactory,\\r
+ org.castor.cache.distributed.OsCacheFactory,\\r
+ org.castor.cache.hashbelt.FIFOHashbeltFactory,\\r
+ org.castor.cache.hashbelt.LRUHashbeltFactory,\\r
+ org.castor.cache.distributed.EHCacheFactory,\\r
+ org.castor.cache.distributed.GigaspacesCacheFactory\r
+\r
+# TransactionManagerFactory implementations:\r
+#\r
+org.castor.transactionmanager.Factories=\\r
+ org.castor.transactionmanager.WebSphereTransactionManagerFactory,\\r
+ org.castor.transactionmanager.WebSphere5TransactionManagerFactory,\\r
+ org.castor.transactionmanager.WebSphere51TransactionManagerFactory,\\r
+ org.castor.transactionmanager.LocalTransactionManagerFactory,\\r
+ org.castor.transactionmanager.JNDIENCTransactionManagerFactory,\\r
+ org.castor.transactionmanager.JOTMTransactionManagerFactory\r
+\r
+# Selects whether the TransactionManager should be initialized at registration,\r
+# or lazily when requested for the first time.\r
+# Defaults to false.\r
+#\r
+org.castor.transactionmanager.InitializeAtRegistration=false\r
+\r
+# Instructs Castor JDO to use the JDBC 3.0-specific features to obtain\r
+# the generated value of an identity column.\r
+# Defaults to false.\r
+#\r
+org.castor.jdo.use.jdbc30=false\r
+\r
+# Specifies whether to use ANSI-compliant SQL for MS SQL Server.\r
+# Defaults to false.\r
+#\r
+org.exolab.castor.jdo.sqlserver.ansi-compliant=false\r
+\r
+# Specifyies whether the ClassDescriptorResolver should (automatically) search\r
+# for and consult with package mapping files (.castor.xml) to retrieve class\r
+# descriptor information; on by default.\r
+# Defaults to true.\r
+#\r
+#org.exolab.castor.xml.loadPackageMappings=false\r
}\r
desc.setValidator(fieldValidator);\r
//-- _id\r
- desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Integer.TYPE, "_id", "id", org.exolab.castor.xml.NodeType.Attribute);\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.String.class, "_id", "id", org.exolab.castor.xml.NodeType.Attribute);\r
+ desc.setImmutable(true);\r
handler = new org.exolab.castor.xml.XMLFieldHandler() {\r
public java.lang.Object getValue( java.lang.Object object ) \r
throws IllegalStateException\r
{\r
JSeq target = (JSeq) object;\r
- if (!target.hasId()) { return null; }\r
- return new java.lang.Integer(target.getId());\r
+ return target.getId();\r
}\r
public void setValue( java.lang.Object object, java.lang.Object value) \r
throws IllegalStateException, IllegalArgumentException\r
{\r
try {\r
JSeq target = (JSeq) object;\r
- // ignore null values for non optional primitives\r
- if (value == null) { return; }\r
- \r
- target.setId( ((java.lang.Integer) value).intValue());\r
+ target.setId( (java.lang.String) value);\r
} catch (java.lang.Exception ex) {\r
throw new IllegalStateException(ex.toString());\r
}\r
fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
fieldValidator.setMinOccurs(1);\r
{ //-- local scope\r
- org.exolab.castor.xml.validators.IntValidator typeValidator;\r
- typeValidator = new org.exolab.castor.xml.validators.IntValidator();\r
+ org.exolab.castor.xml.validators.StringValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.StringValidator();\r
fieldValidator.setValidator(typeValidator);\r
- typeValidator.setMinInclusive(-2147483648);\r
- typeValidator.setMaxInclusive(2147483647);\r
+ typeValidator.setWhiteSpace("preserve");\r
}\r
desc.setValidator(fieldValidator);\r
//-- _hidden\r
}
return ss.toString();
}
+ // main method generates perl representation of residue property hash
+ /// cut here
+ public static void main(String[] args)
+ {
+ Hashtable aa = new Hashtable();
+ System.out.println("my %aa = {");
+ // invert property hashes
+ Enumeration prop = propHash.keys();
+ while (prop.hasMoreElements())
+ {
+ String pname = (String) prop.nextElement();
+ Hashtable phash = (Hashtable) propHash.get(pname);
+ Enumeration res = phash.keys();
+ while (res.hasMoreElements())
+ {
+ String rname = (String) res.nextElement();
+ Vector aprops = (Vector) aa.get(rname);
+ if (aprops==null)
+ {
+ aprops = new Vector();
+ aa.put(rname, aprops);
+ }
+ Integer hasprop = (Integer) phash.get(rname);
+ if (hasprop.intValue()==1)
+ {
+ aprops.addElement(pname);
+ }
+ }
+ }
+ Enumeration res = aa.keys();
+ while (res.hasMoreElements())
+ {
+ String rname = (String) res.nextElement();
+
+ System.out.print("'"+rname+"' => [");
+ Enumeration props = ((Vector) aa.get(rname)).elements();
+ while (props.hasMoreElements())
+ {
+ System.out.print("'"+(String)props.nextElement()+"'");
+ if (props.hasMoreElements())
+ {
+ System.out.println(", ");
+ }
+ }
+ System.out.println("]"+(res.hasMoreElements() ? "," : ""));
+ }
+ System.out.println("};");
+ }
+ // to here
}
--- /dev/null
+/**\r
+ * CrossReference.java\r
+ *\r
+ * This file was auto-generated from WSDL\r
+ * by the Apache Axis 1.2RC2 Nov 16, 2004 (12:19:44 EST) WSDL2Java emitter.\r
+ */\r
+\r
+package uk.ac.ebi.picr.model;\r
+\r
+public class CrossReference implements java.io.Serializable {\r
+ private java.lang.String accession;\r
+ private java.lang.String accessionVersion;\r
+ private java.lang.String databaseDescription;\r
+ private java.lang.String databaseName;\r
+ private java.util.Calendar dateAdded;\r
+ private java.util.Calendar dateDeleted;\r
+ private boolean deleted;\r
+ private java.lang.String gi;\r
+ private java.lang.String taxonId;\r
+\r
+ public CrossReference() {\r
+ }\r
+\r
+ public CrossReference(\r
+ java.lang.String accession,\r
+ java.lang.String accessionVersion,\r
+ java.lang.String databaseDescription,\r
+ java.lang.String databaseName,\r
+ java.util.Calendar dateAdded,\r
+ java.util.Calendar dateDeleted,\r
+ boolean deleted,\r
+ java.lang.String gi,\r
+ java.lang.String taxonId) {\r
+ this.accession = accession;\r
+ this.accessionVersion = accessionVersion;\r
+ this.databaseDescription = databaseDescription;\r
+ this.databaseName = databaseName;\r
+ this.dateAdded = dateAdded;\r
+ this.dateDeleted = dateDeleted;\r
+ this.deleted = deleted;\r
+ this.gi = gi;\r
+ this.taxonId = taxonId;\r
+ }\r
+\r
+\r
+ /**\r
+ * Gets the accession value for this CrossReference.\r
+ * \r
+ * @return accession\r
+ */\r
+ public java.lang.String getAccession() {\r
+ return accession;\r
+ }\r
+\r
+\r
+ /**\r
+ * Sets the accession value for this CrossReference.\r
+ * \r
+ * @param accession\r
+ */\r
+ public void setAccession(java.lang.String accession) {\r
+ this.accession = accession;\r
+ }\r
+\r
+\r
+ /**\r
+ * Gets the accessionVersion value for this CrossReference.\r
+ * \r
+ * @return accessionVersion\r
+ */\r
+ public java.lang.String getAccessionVersion() {\r
+ return accessionVersion;\r
+ }\r
+\r
+\r
+ /**\r
+ * Sets the accessionVersion value for this CrossReference.\r
+ * \r
+ * @param accessionVersion\r
+ */\r
+ public void setAccessionVersion(java.lang.String accessionVersion) {\r
+ this.accessionVersion = accessionVersion;\r
+ }\r
+\r
+\r
+ /**\r
+ * Gets the databaseDescription value for this CrossReference.\r
+ * \r
+ * @return databaseDescription\r
+ */\r
+ public java.lang.String getDatabaseDescription() {\r
+ return databaseDescription;\r
+ }\r
+\r
+\r
+ /**\r
+ * Sets the databaseDescription value for this CrossReference.\r
+ * \r
+ * @param databaseDescription\r
+ */\r
+ public void setDatabaseDescription(java.lang.String databaseDescription) {\r
+ this.databaseDescription = databaseDescription;\r
+ }\r
+\r
+\r
+ /**\r
+ * Gets the databaseName value for this CrossReference.\r
+ * \r
+ * @return databaseName\r
+ */\r
+ public java.lang.String getDatabaseName() {\r
+ return databaseName;\r
+ }\r
+\r
+\r
+ /**\r
+ * Sets the databaseName value for this CrossReference.\r
+ * \r
+ * @param databaseName\r
+ */\r
+ public void setDatabaseName(java.lang.String databaseName) {\r
+ this.databaseName = databaseName;\r
+ }\r
+\r
+\r
+ /**\r
+ * Gets the dateAdded value for this CrossReference.\r
+ * \r
+ * @return dateAdded\r
+ */\r
+ public java.util.Calendar getDateAdded() {\r
+ return dateAdded;\r
+ }\r
+\r
+\r
+ /**\r
+ * Sets the dateAdded value for this CrossReference.\r
+ * \r
+ * @param dateAdded\r
+ */\r
+ public void setDateAdded(java.util.Calendar dateAdded) {\r
+ this.dateAdded = dateAdded;\r
+ }\r
+\r
+\r
+ /**\r
+ * Gets the dateDeleted value for this CrossReference.\r
+ * \r
+ * @return dateDeleted\r
+ */\r
+ public java.util.Calendar getDateDeleted() {\r
+ return dateDeleted;\r
+ }\r
+\r
+\r
+ /**\r
+ * Sets the dateDeleted value for this CrossReference.\r
+ * \r
+ * @param dateDeleted\r
+ */\r
+ public void setDateDeleted(java.util.Calendar dateDeleted) {\r
+ this.dateDeleted = dateDeleted;\r
+ }\r
+\r
+\r
+ /**\r
+ * Gets the deleted value for this CrossReference.\r
+ * \r
+ * @return deleted\r
+ */\r
+ public boolean isDeleted() {\r
+ return deleted;\r
+ }\r
+\r
+\r
+ /**\r
+ * Sets the deleted value for this CrossReference.\r
+ * \r
+ * @param deleted\r
+ */\r
+ public void setDeleted(boolean deleted) {\r
+ this.deleted = deleted;\r
+ }\r
+\r
+\r
+ /**\r
+ * Gets the gi value for this CrossReference.\r
+ * \r
+ * @return gi\r
+ */\r
+ public java.lang.String getGi() {\r
+ return gi;\r
+ }\r
+\r
+\r
+ /**\r
+ * Sets the gi value for this CrossReference.\r
+ * \r
+ * @param gi\r
+ */\r
+ public void setGi(java.lang.String gi) {\r
+ this.gi = gi;\r
+ }\r
+\r
+\r
+ /**\r
+ * Gets the taxonId value for this CrossReference.\r
+ * \r
+ * @return taxonId\r
+ */\r
+ public java.lang.String getTaxonId() {\r
+ return taxonId;\r
+ }\r
+\r
+\r
+ /**\r
+ * Sets the taxonId value for this CrossReference.\r
+ * \r
+ * @param taxonId\r
+ */\r
+ public void setTaxonId(java.lang.String taxonId) {\r
+ this.taxonId = taxonId;\r
+ }\r
+\r
+ private java.lang.Object __equalsCalc = null;\r
+ public synchronized boolean equals(java.lang.Object obj) {\r
+ if (!(obj instanceof CrossReference)) return false;\r
+ CrossReference other = (CrossReference) obj;\r
+ if (obj == null) return false;\r
+ if (this == obj) return true;\r
+ if (__equalsCalc != null) {\r
+ return (__equalsCalc == obj);\r
+ }\r
+ __equalsCalc = obj;\r
+ boolean _equals;\r
+ _equals = true && \r
+ ((this.accession==null && other.getAccession()==null) || \r
+ (this.accession!=null &&\r
+ this.accession.equals(other.getAccession()))) &&\r
+ ((this.accessionVersion==null && other.getAccessionVersion()==null) || \r
+ (this.accessionVersion!=null &&\r
+ this.accessionVersion.equals(other.getAccessionVersion()))) &&\r
+ ((this.databaseDescription==null && other.getDatabaseDescription()==null) || \r
+ (this.databaseDescription!=null &&\r
+ this.databaseDescription.equals(other.getDatabaseDescription()))) &&\r
+ ((this.databaseName==null && other.getDatabaseName()==null) || \r
+ (this.databaseName!=null &&\r
+ this.databaseName.equals(other.getDatabaseName()))) &&\r
+ ((this.dateAdded==null && other.getDateAdded()==null) || \r
+ (this.dateAdded!=null &&\r
+ this.dateAdded.equals(other.getDateAdded()))) &&\r
+ ((this.dateDeleted==null && other.getDateDeleted()==null) || \r
+ (this.dateDeleted!=null &&\r
+ this.dateDeleted.equals(other.getDateDeleted()))) &&\r
+ this.deleted == other.isDeleted() &&\r
+ ((this.gi==null && other.getGi()==null) || \r
+ (this.gi!=null &&\r
+ this.gi.equals(other.getGi()))) &&\r
+ ((this.taxonId==null && other.getTaxonId()==null) || \r
+ (this.taxonId!=null &&\r
+ this.taxonId.equals(other.getTaxonId())));\r
+ __equalsCalc = null;\r
+ return _equals;\r
+ }\r
+\r
+ private boolean __hashCodeCalc = false;\r
+ public synchronized int hashCode() {\r
+ if (__hashCodeCalc) {\r
+ return 0;\r
+ }\r
+ __hashCodeCalc = true;\r
+ int _hashCode = 1;\r
+ if (getAccession() != null) {\r
+ _hashCode += getAccession().hashCode();\r
+ }\r
+ if (getAccessionVersion() != null) {\r
+ _hashCode += getAccessionVersion().hashCode();\r
+ }\r
+ if (getDatabaseDescription() != null) {\r
+ _hashCode += getDatabaseDescription().hashCode();\r
+ }\r
+ if (getDatabaseName() != null) {\r
+ _hashCode += getDatabaseName().hashCode();\r
+ }\r
+ if (getDateAdded() != null) {\r
+ _hashCode += getDateAdded().hashCode();\r
+ }\r
+ if (getDateDeleted() != null) {\r
+ _hashCode += getDateDeleted().hashCode();\r
+ }\r
+ _hashCode += (isDeleted() ? Boolean.TRUE : Boolean.FALSE).hashCode();\r
+ if (getGi() != null) {\r
+ _hashCode += getGi().hashCode();\r
+ }\r
+ if (getTaxonId() != null) {\r
+ _hashCode += getTaxonId().hashCode();\r
+ }\r
+ __hashCodeCalc = false;\r
+ return _hashCode;\r
+ }\r
+\r
+}\r
--- /dev/null
+/**\r
+ * CrossReference_Helper.java\r
+ *\r
+ * This file was auto-generated from WSDL\r
+ * by the Apache Axis 1.2RC2 Nov 16, 2004 (12:19:44 EST) WSDL2Java emitter.\r
+ */\r
+\r
+package uk.ac.ebi.picr.model;\r
+\r
+public class CrossReference_Helper {\r
+ // Type metadata\r
+ private static org.apache.axis.description.TypeDesc typeDesc =\r
+ new org.apache.axis.description.TypeDesc(CrossReference.class, true);\r
+\r
+ static {\r
+ typeDesc.setXmlType(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "CrossReference"));\r
+ org.apache.axis.description.ElementDesc elemField = new org.apache.axis.description.ElementDesc();\r
+ elemField.setFieldName("accession");\r
+ elemField.setXmlName(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "accession"));\r
+ elemField.setXmlType(new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "string"));\r
+ typeDesc.addFieldDesc(elemField);\r
+ elemField = new org.apache.axis.description.ElementDesc();\r
+ elemField.setFieldName("accessionVersion");\r
+ elemField.setXmlName(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "accessionVersion"));\r
+ elemField.setXmlType(new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "string"));\r
+ typeDesc.addFieldDesc(elemField);\r
+ elemField = new org.apache.axis.description.ElementDesc();\r
+ elemField.setFieldName("databaseDescription");\r
+ elemField.setXmlName(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "databaseDescription"));\r
+ elemField.setXmlType(new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "string"));\r
+ typeDesc.addFieldDesc(elemField);\r
+ elemField = new org.apache.axis.description.ElementDesc();\r
+ elemField.setFieldName("databaseName");\r
+ elemField.setXmlName(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "databaseName"));\r
+ elemField.setXmlType(new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "string"));\r
+ typeDesc.addFieldDesc(elemField);\r
+ elemField = new org.apache.axis.description.ElementDesc();\r
+ elemField.setFieldName("dateAdded");\r
+ elemField.setXmlName(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "dateAdded"));\r
+ elemField.setXmlType(new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "dateTime"));\r
+ typeDesc.addFieldDesc(elemField);\r
+ elemField = new org.apache.axis.description.ElementDesc();\r
+ elemField.setFieldName("dateDeleted");\r
+ elemField.setXmlName(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "dateDeleted"));\r
+ elemField.setXmlType(new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "dateTime"));\r
+ typeDesc.addFieldDesc(elemField);\r
+ elemField = new org.apache.axis.description.ElementDesc();\r
+ elemField.setFieldName("deleted");\r
+ elemField.setXmlName(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "deleted"));\r
+ elemField.setXmlType(new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "boolean"));\r
+ typeDesc.addFieldDesc(elemField);\r
+ elemField = new org.apache.axis.description.ElementDesc();\r
+ elemField.setFieldName("gi");\r
+ elemField.setXmlName(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "gi"));\r
+ elemField.setXmlType(new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "string"));\r
+ typeDesc.addFieldDesc(elemField);\r
+ elemField = new org.apache.axis.description.ElementDesc();\r
+ elemField.setFieldName("taxonId");\r
+ elemField.setXmlName(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "taxonId"));\r
+ elemField.setXmlType(new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "string"));\r
+ typeDesc.addFieldDesc(elemField);\r
+ }\r
+\r
+ /**\r
+ * Return type metadata object\r
+ */\r
+ public static org.apache.axis.description.TypeDesc getTypeDesc() {\r
+ return typeDesc;\r
+ }\r
+\r
+ /**\r
+ * Get Custom Serializer\r
+ */\r
+ public static org.apache.axis.encoding.Serializer getSerializer(\r
+ java.lang.String mechType, \r
+ java.lang.Class _javaType, \r
+ javax.xml.namespace.QName _xmlType) {\r
+ return \r
+ new org.apache.axis.encoding.ser.BeanSerializer(\r
+ _javaType, _xmlType, typeDesc);\r
+ }\r
+\r
+ /**\r
+ * Get Custom Deserializer\r
+ */\r
+ public static org.apache.axis.encoding.Deserializer getDeserializer(\r
+ java.lang.String mechType, \r
+ java.lang.Class _javaType, \r
+ javax.xml.namespace.QName _xmlType) {\r
+ return \r
+ new org.apache.axis.encoding.ser.BeanDeserializer(\r
+ _javaType, _xmlType, typeDesc);\r
+ }\r
+\r
+}\r
--- /dev/null
+/**\r
+ * UPEntry.java\r
+ *\r
+ * This file was auto-generated from WSDL\r
+ * by the Apache Axis 1.2RC2 Nov 16, 2004 (12:19:44 EST) WSDL2Java emitter.\r
+ */\r
+\r
+package uk.ac.ebi.picr.model;\r
+\r
+public class UPEntry implements java.io.Serializable {\r
+ private java.lang.String CRC64;\r
+ private java.lang.String UPI;\r
+ private uk.ac.ebi.picr.model.CrossReference[] identicalCrossReferences;\r
+ private uk.ac.ebi.picr.model.CrossReference[] logicalCrossReferences;\r
+ private java.lang.String sequence;\r
+ private java.util.Calendar timestamp;\r
+\r
+ public UPEntry() {\r
+ }\r
+\r
+ public UPEntry(\r
+ java.lang.String CRC64,\r
+ java.lang.String UPI,\r
+ uk.ac.ebi.picr.model.CrossReference[] identicalCrossReferences,\r
+ uk.ac.ebi.picr.model.CrossReference[] logicalCrossReferences,\r
+ java.lang.String sequence,\r
+ java.util.Calendar timestamp) {\r
+ this.CRC64 = CRC64;\r
+ this.UPI = UPI;\r
+ this.identicalCrossReferences = identicalCrossReferences;\r
+ this.logicalCrossReferences = logicalCrossReferences;\r
+ this.sequence = sequence;\r
+ this.timestamp = timestamp;\r
+ }\r
+\r
+\r
+ /**\r
+ * Gets the CRC64 value for this UPEntry.\r
+ * \r
+ * @return CRC64\r
+ */\r
+ public java.lang.String getCRC64() {\r
+ return CRC64;\r
+ }\r
+\r
+\r
+ /**\r
+ * Sets the CRC64 value for this UPEntry.\r
+ * \r
+ * @param CRC64\r
+ */\r
+ public void setCRC64(java.lang.String CRC64) {\r
+ this.CRC64 = CRC64;\r
+ }\r
+\r
+\r
+ /**\r
+ * Gets the UPI value for this UPEntry.\r
+ * \r
+ * @return UPI\r
+ */\r
+ public java.lang.String getUPI() {\r
+ return UPI;\r
+ }\r
+\r
+\r
+ /**\r
+ * Sets the UPI value for this UPEntry.\r
+ * \r
+ * @param UPI\r
+ */\r
+ public void setUPI(java.lang.String UPI) {\r
+ this.UPI = UPI;\r
+ }\r
+\r
+\r
+ /**\r
+ * Gets the identicalCrossReferences value for this UPEntry.\r
+ * \r
+ * @return identicalCrossReferences\r
+ */\r
+ public uk.ac.ebi.picr.model.CrossReference[] getIdenticalCrossReferences() {\r
+ return identicalCrossReferences;\r
+ }\r
+\r
+\r
+ /**\r
+ * Sets the identicalCrossReferences value for this UPEntry.\r
+ * \r
+ * @param identicalCrossReferences\r
+ */\r
+ public void setIdenticalCrossReferences(uk.ac.ebi.picr.model.CrossReference[] identicalCrossReferences) {\r
+ this.identicalCrossReferences = identicalCrossReferences;\r
+ }\r
+\r
+ public uk.ac.ebi.picr.model.CrossReference getIdenticalCrossReferences(int i) {\r
+ return this.identicalCrossReferences[i];\r
+ }\r
+\r
+ public void setIdenticalCrossReferences(int i, uk.ac.ebi.picr.model.CrossReference _value) {\r
+ this.identicalCrossReferences[i] = _value;\r
+ }\r
+\r
+\r
+ /**\r
+ * Gets the logicalCrossReferences value for this UPEntry.\r
+ * \r
+ * @return logicalCrossReferences\r
+ */\r
+ public uk.ac.ebi.picr.model.CrossReference[] getLogicalCrossReferences() {\r
+ return logicalCrossReferences;\r
+ }\r
+\r
+\r
+ /**\r
+ * Sets the logicalCrossReferences value for this UPEntry.\r
+ * \r
+ * @param logicalCrossReferences\r
+ */\r
+ public void setLogicalCrossReferences(uk.ac.ebi.picr.model.CrossReference[] logicalCrossReferences) {\r
+ this.logicalCrossReferences = logicalCrossReferences;\r
+ }\r
+\r
+ public uk.ac.ebi.picr.model.CrossReference getLogicalCrossReferences(int i) {\r
+ return this.logicalCrossReferences[i];\r
+ }\r
+\r
+ public void setLogicalCrossReferences(int i, uk.ac.ebi.picr.model.CrossReference _value) {\r
+ this.logicalCrossReferences[i] = _value;\r
+ }\r
+\r
+\r
+ /**\r
+ * Gets the sequence value for this UPEntry.\r
+ * \r
+ * @return sequence\r
+ */\r
+ public java.lang.String getSequence() {\r
+ return sequence;\r
+ }\r
+\r
+\r
+ /**\r
+ * Sets the sequence value for this UPEntry.\r
+ * \r
+ * @param sequence\r
+ */\r
+ public void setSequence(java.lang.String sequence) {\r
+ this.sequence = sequence;\r
+ }\r
+\r
+\r
+ /**\r
+ * Gets the timestamp value for this UPEntry.\r
+ * \r
+ * @return timestamp\r
+ */\r
+ public java.util.Calendar getTimestamp() {\r
+ return timestamp;\r
+ }\r
+\r
+\r
+ /**\r
+ * Sets the timestamp value for this UPEntry.\r
+ * \r
+ * @param timestamp\r
+ */\r
+ public void setTimestamp(java.util.Calendar timestamp) {\r
+ this.timestamp = timestamp;\r
+ }\r
+\r
+ private java.lang.Object __equalsCalc = null;\r
+ public synchronized boolean equals(java.lang.Object obj) {\r
+ if (!(obj instanceof UPEntry)) return false;\r
+ UPEntry other = (UPEntry) obj;\r
+ if (obj == null) return false;\r
+ if (this == obj) return true;\r
+ if (__equalsCalc != null) {\r
+ return (__equalsCalc == obj);\r
+ }\r
+ __equalsCalc = obj;\r
+ boolean _equals;\r
+ _equals = true && \r
+ ((this.CRC64==null && other.getCRC64()==null) || \r
+ (this.CRC64!=null &&\r
+ this.CRC64.equals(other.getCRC64()))) &&\r
+ ((this.UPI==null && other.getUPI()==null) || \r
+ (this.UPI!=null &&\r
+ this.UPI.equals(other.getUPI()))) &&\r
+ ((this.identicalCrossReferences==null && other.getIdenticalCrossReferences()==null) || \r
+ (this.identicalCrossReferences!=null &&\r
+ java.util.Arrays.equals(this.identicalCrossReferences, other.getIdenticalCrossReferences()))) &&\r
+ ((this.logicalCrossReferences==null && other.getLogicalCrossReferences()==null) || \r
+ (this.logicalCrossReferences!=null &&\r
+ java.util.Arrays.equals(this.logicalCrossReferences, other.getLogicalCrossReferences()))) &&\r
+ ((this.sequence==null && other.getSequence()==null) || \r
+ (this.sequence!=null &&\r
+ this.sequence.equals(other.getSequence()))) &&\r
+ ((this.timestamp==null && other.getTimestamp()==null) || \r
+ (this.timestamp!=null &&\r
+ this.timestamp.equals(other.getTimestamp())));\r
+ __equalsCalc = null;\r
+ return _equals;\r
+ }\r
+\r
+ private boolean __hashCodeCalc = false;\r
+ public synchronized int hashCode() {\r
+ if (__hashCodeCalc) {\r
+ return 0;\r
+ }\r
+ __hashCodeCalc = true;\r
+ int _hashCode = 1;\r
+ if (getCRC64() != null) {\r
+ _hashCode += getCRC64().hashCode();\r
+ }\r
+ if (getUPI() != null) {\r
+ _hashCode += getUPI().hashCode();\r
+ }\r
+ if (getIdenticalCrossReferences() != null) {\r
+ for (int i=0;\r
+ i<java.lang.reflect.Array.getLength(getIdenticalCrossReferences());\r
+ i++) {\r
+ java.lang.Object obj = java.lang.reflect.Array.get(getIdenticalCrossReferences(), i);\r
+ if (obj != null &&\r
+ !obj.getClass().isArray()) {\r
+ _hashCode += obj.hashCode();\r
+ }\r
+ }\r
+ }\r
+ if (getLogicalCrossReferences() != null) {\r
+ for (int i=0;\r
+ i<java.lang.reflect.Array.getLength(getLogicalCrossReferences());\r
+ i++) {\r
+ java.lang.Object obj = java.lang.reflect.Array.get(getLogicalCrossReferences(), i);\r
+ if (obj != null &&\r
+ !obj.getClass().isArray()) {\r
+ _hashCode += obj.hashCode();\r
+ }\r
+ }\r
+ }\r
+ if (getSequence() != null) {\r
+ _hashCode += getSequence().hashCode();\r
+ }\r
+ if (getTimestamp() != null) {\r
+ _hashCode += getTimestamp().hashCode();\r
+ }\r
+ __hashCodeCalc = false;\r
+ return _hashCode;\r
+ }\r
+\r
+}\r
--- /dev/null
+/**\r
+ * UPEntry_Helper.java\r
+ *\r
+ * This file was auto-generated from WSDL\r
+ * by the Apache Axis 1.2RC2 Nov 16, 2004 (12:19:44 EST) WSDL2Java emitter.\r
+ */\r
+\r
+package uk.ac.ebi.picr.model;\r
+\r
+public class UPEntry_Helper {\r
+ // Type metadata\r
+ private static org.apache.axis.description.TypeDesc typeDesc =\r
+ new org.apache.axis.description.TypeDesc(UPEntry.class, true);\r
+\r
+ static {\r
+ typeDesc.setXmlType(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "UPEntry"));\r
+ org.apache.axis.description.ElementDesc elemField = new org.apache.axis.description.ElementDesc();\r
+ elemField.setFieldName("CRC64");\r
+ elemField.setXmlName(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "CRC64"));\r
+ elemField.setXmlType(new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "string"));\r
+ typeDesc.addFieldDesc(elemField);\r
+ elemField = new org.apache.axis.description.ElementDesc();\r
+ elemField.setFieldName("UPI");\r
+ elemField.setXmlName(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "UPI"));\r
+ elemField.setXmlType(new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "string"));\r
+ typeDesc.addFieldDesc(elemField);\r
+ elemField = new org.apache.axis.description.ElementDesc();\r
+ elemField.setFieldName("identicalCrossReferences");\r
+ elemField.setXmlName(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "identicalCrossReferences"));\r
+ elemField.setXmlType(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "CrossReference"));\r
+ elemField.setMinOccurs(0);\r
+ typeDesc.addFieldDesc(elemField);\r
+ elemField = new org.apache.axis.description.ElementDesc();\r
+ elemField.setFieldName("logicalCrossReferences");\r
+ elemField.setXmlName(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "logicalCrossReferences"));\r
+ elemField.setXmlType(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "CrossReference"));\r
+ elemField.setMinOccurs(0);\r
+ typeDesc.addFieldDesc(elemField);\r
+ elemField = new org.apache.axis.description.ElementDesc();\r
+ elemField.setFieldName("sequence");\r
+ elemField.setXmlName(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "sequence"));\r
+ elemField.setXmlType(new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "string"));\r
+ typeDesc.addFieldDesc(elemField);\r
+ elemField = new org.apache.axis.description.ElementDesc();\r
+ elemField.setFieldName("timestamp");\r
+ elemField.setXmlName(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "timestamp"));\r
+ elemField.setXmlType(new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "dateTime"));\r
+ typeDesc.addFieldDesc(elemField);\r
+ }\r
+\r
+ /**\r
+ * Return type metadata object\r
+ */\r
+ public static org.apache.axis.description.TypeDesc getTypeDesc() {\r
+ return typeDesc;\r
+ }\r
+\r
+ /**\r
+ * Get Custom Serializer\r
+ */\r
+ public static org.apache.axis.encoding.Serializer getSerializer(\r
+ java.lang.String mechType, \r
+ java.lang.Class _javaType, \r
+ javax.xml.namespace.QName _xmlType) {\r
+ return \r
+ new org.apache.axis.encoding.ser.BeanSerializer(\r
+ _javaType, _xmlType, typeDesc);\r
+ }\r
+\r
+ /**\r
+ * Get Custom Deserializer\r
+ */\r
+ public static org.apache.axis.encoding.Deserializer getDeserializer(\r
+ java.lang.String mechType, \r
+ java.lang.Class _javaType, \r
+ javax.xml.namespace.QName _xmlType) {\r
+ return \r
+ new org.apache.axis.encoding.ser.BeanDeserializer(\r
+ _javaType, _xmlType, typeDesc);\r
+ }\r
+\r
+}\r
--- /dev/null
+/**\r
+ * AccessionMapperBindingStub.java\r
+ *\r
+ * This file was auto-generated from WSDL\r
+ * by the Apache Axis 1.2RC2 Nov 16, 2004 (12:19:44 EST) WSDL2Java emitter.\r
+ */\r
+\r
+package uk.ac.ebi.www.picr.AccessionMappingService;\r
+\r
+public class AccessionMapperBindingStub extends org.apache.axis.client.Stub implements uk.ac.ebi.www.picr.AccessionMappingService.AccessionMapperInterface {\r
+ private java.util.Vector cachedSerClasses = new java.util.Vector();\r
+ private java.util.Vector cachedSerQNames = new java.util.Vector();\r
+ private java.util.Vector cachedSerFactories = new java.util.Vector();\r
+ private java.util.Vector cachedDeserFactories = new java.util.Vector();\r
+\r
+ static org.apache.axis.description.OperationDesc [] _operations;\r
+\r
+ static {\r
+ _operations = new org.apache.axis.description.OperationDesc[3];\r
+ _initOperationDesc1();\r
+ }
+\r
+ private static void _initOperationDesc1(){\r
+ org.apache.axis.description.OperationDesc oper;\r
+ oper = new org.apache.axis.description.OperationDesc();\r
+ oper.setName("getUPIForSequence");\r
+ oper.addParameter(new javax.xml.namespace.QName("http://www.ebi.ac.uk/picr/AccessionMappingService", "sequence"), new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "string"), java.lang.String.class, org.apache.axis.description.ParameterDesc.IN, false, false);\r
+ oper.addParameter(new javax.xml.namespace.QName("http://www.ebi.ac.uk/picr/AccessionMappingService", "searchDatabases"), new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "string"), java.lang.String[].class, org.apache.axis.description.ParameterDesc.IN, false, false);\r
+ oper.addParameter(new javax.xml.namespace.QName("http://www.ebi.ac.uk/picr/AccessionMappingService", "taxonId"), new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "string"), java.lang.String.class, org.apache.axis.description.ParameterDesc.IN, false, false);\r
+ oper.addParameter(new javax.xml.namespace.QName("http://www.ebi.ac.uk/picr/AccessionMappingService", "onlyActive"), new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "boolean"), boolean.class, org.apache.axis.description.ParameterDesc.IN, false, false);\r
+ oper.setReturnType(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "UPEntry"));\r
+ oper.setReturnClass(uk.ac.ebi.picr.model.UPEntry.class);\r
+ oper.setReturnQName(new javax.xml.namespace.QName("http://www.ebi.ac.uk/picr/AccessionMappingService", "getUPIForSequenceReturn"));\r
+ oper.setStyle(org.apache.axis.constants.Style.WRAPPED);\r
+ oper.setUse(org.apache.axis.constants.Use.LITERAL);\r
+ _operations[0] = oper;\r
+\r
+ oper = new org.apache.axis.description.OperationDesc();\r
+ oper.setName("getUPIForAccession");\r
+ oper.addParameter(new javax.xml.namespace.QName("http://www.ebi.ac.uk/picr/AccessionMappingService", "accession"), new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "string"), java.lang.String.class, org.apache.axis.description.ParameterDesc.IN, false, false);\r
+ oper.addParameter(new javax.xml.namespace.QName("http://www.ebi.ac.uk/picr/AccessionMappingService", "ac_version"), new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "string"), java.lang.String.class, org.apache.axis.description.ParameterDesc.IN, false, false);\r
+ oper.addParameter(new javax.xml.namespace.QName("http://www.ebi.ac.uk/picr/AccessionMappingService", "searchDatabases"), new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "string"), java.lang.String[].class, org.apache.axis.description.ParameterDesc.IN, false, false);\r
+ oper.addParameter(new javax.xml.namespace.QName("http://www.ebi.ac.uk/picr/AccessionMappingService", "taxonId"), new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "string"), java.lang.String.class, org.apache.axis.description.ParameterDesc.IN, false, false);\r
+ oper.addParameter(new javax.xml.namespace.QName("http://www.ebi.ac.uk/picr/AccessionMappingService", "onlyActive"), new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "boolean"), boolean.class, org.apache.axis.description.ParameterDesc.IN, false, false);\r
+ oper.setReturnType(new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "UPEntry"));\r
+ oper.setReturnClass(uk.ac.ebi.picr.model.UPEntry[].class);\r
+ oper.setReturnQName(new javax.xml.namespace.QName("http://www.ebi.ac.uk/picr/AccessionMappingService", "getUPIForAccessionReturn"));\r
+ oper.setStyle(org.apache.axis.constants.Style.WRAPPED);\r
+ oper.setUse(org.apache.axis.constants.Use.LITERAL);\r
+ _operations[1] = oper;\r
+\r
+ oper = new org.apache.axis.description.OperationDesc();\r
+ oper.setName("getMappedDatabaseNames");\r
+ oper.setReturnType(new javax.xml.namespace.QName("http://www.w3.org/2001/XMLSchema", "string"));\r
+ oper.setReturnClass(java.lang.String[].class);\r
+ oper.setReturnQName(new javax.xml.namespace.QName("http://www.ebi.ac.uk/picr/AccessionMappingService", "mappedDatabases"));\r
+ oper.setStyle(org.apache.axis.constants.Style.WRAPPED);\r
+ oper.setUse(org.apache.axis.constants.Use.LITERAL);\r
+ _operations[2] = oper;\r
+\r
+ }\r
+\r
+ public AccessionMapperBindingStub() throws org.apache.axis.AxisFault {\r
+ this(null);\r
+ }\r
+\r
+ public AccessionMapperBindingStub(java.net.URL endpointURL, javax.xml.rpc.Service service) throws org.apache.axis.AxisFault {\r
+ this(service);\r
+ super.cachedEndpoint = endpointURL;\r
+ }\r
+\r
+ public AccessionMapperBindingStub(javax.xml.rpc.Service service) throws org.apache.axis.AxisFault {\r
+ if (service == null) {\r
+ super.service = new org.apache.axis.client.Service();\r
+ } else {\r
+ super.service = service;\r
+ }\r
+ java.lang.Class cls;\r
+ javax.xml.namespace.QName qName;\r
+ java.lang.Class beansf = org.apache.axis.encoding.ser.BeanSerializerFactory.class;\r
+ java.lang.Class beandf = org.apache.axis.encoding.ser.BeanDeserializerFactory.class;\r
+ java.lang.Class enumsf = org.apache.axis.encoding.ser.EnumSerializerFactory.class;\r
+ java.lang.Class enumdf = org.apache.axis.encoding.ser.EnumDeserializerFactory.class;\r
+ java.lang.Class arraysf = org.apache.axis.encoding.ser.ArraySerializerFactory.class;\r
+ java.lang.Class arraydf = org.apache.axis.encoding.ser.ArrayDeserializerFactory.class;\r
+ java.lang.Class simplesf = org.apache.axis.encoding.ser.SimpleSerializerFactory.class;\r
+ java.lang.Class simpledf = org.apache.axis.encoding.ser.SimpleDeserializerFactory.class;\r
+ java.lang.Class simplelistsf = org.apache.axis.encoding.ser.SimpleListSerializerFactory.class;\r
+ java.lang.Class simplelistdf = org.apache.axis.encoding.ser.SimpleListDeserializerFactory.class;\r
+ qName = new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "UPEntry");\r
+ cachedSerQNames.add(qName);\r
+ cls = uk.ac.ebi.picr.model.UPEntry.class;\r
+ cachedSerClasses.add(cls);\r
+ cachedSerFactories.add(beansf);\r
+ cachedDeserFactories.add(beandf);\r
+\r
+ qName = new javax.xml.namespace.QName("http://model.picr.ebi.ac.uk", "CrossReference");\r
+ cachedSerQNames.add(qName);\r
+ cls = uk.ac.ebi.picr.model.CrossReference.class;\r
+ cachedSerClasses.add(cls);\r
+ cachedSerFactories.add(beansf);\r
+ cachedDeserFactories.add(beandf);\r
+\r
+ }\r
+\r
+ protected org.apache.axis.client.Call createCall() throws java.rmi.RemoteException {\r
+ try {\r
+ org.apache.axis.client.Call _call =\r
+ (org.apache.axis.client.Call) super.service.createCall();\r
+ if (super.maintainSessionSet) {\r
+ _call.setMaintainSession(super.maintainSession);\r
+ }\r
+ if (super.cachedUsername != null) {\r
+ _call.setUsername(super.cachedUsername);\r
+ }\r
+ if (super.cachedPassword != null) {\r
+ _call.setPassword(super.cachedPassword);\r
+ }\r
+ if (super.cachedEndpoint != null) {\r
+ _call.setTargetEndpointAddress(super.cachedEndpoint);\r
+ }\r
+ if (super.cachedTimeout != null) {\r
+ _call.setTimeout(super.cachedTimeout);\r
+ }\r
+ if (super.cachedPortName != null) {\r
+ _call.setPortName(super.cachedPortName);\r
+ }\r
+ java.util.Enumeration keys = super.cachedProperties.keys();\r
+ while (keys.hasMoreElements()) {\r
+ java.lang.String key = (java.lang.String) keys.nextElement();\r
+ _call.setProperty(key, super.cachedProperties.get(key));\r
+ }\r
+ // All the type mapping information is registered\r
+ // when the first call is made.\r
+ // The type mapping information is actually registered in\r
+ // the TypeMappingRegistry of the service, which\r
+ // is the reason why registration is only needed for the first call.\r
+ synchronized (this) {\r
+ if (firstCall()) {\r
+ // must set encoding style before registering serializers\r
+ _call.setEncodingStyle(null);\r
+ for (int i = 0; i < cachedSerFactories.size(); ++i) {\r
+ java.lang.Class cls = (java.lang.Class) cachedSerClasses.get(i);\r
+ javax.xml.namespace.QName qName =\r
+ (javax.xml.namespace.QName) cachedSerQNames.get(i);\r
+ java.lang.Class sf = (java.lang.Class)\r
+ cachedSerFactories.get(i);\r
+ java.lang.Class df = (java.lang.Class)\r
+ cachedDeserFactories.get(i);\r
+ _call.registerTypeMapping(cls, qName, sf, df, false);\r
+ }\r
+ }\r
+ }\r
+ return _call;\r
+ }\r
+ catch (java.lang.Throwable _t) {\r
+ throw new org.apache.axis.AxisFault("Failure trying to get the Call object", _t);\r
+ }\r
+ }\r
+\r
+ public uk.ac.ebi.picr.model.UPEntry getUPIForSequence(java.lang.String sequence, java.lang.String[] searchDatabases, java.lang.String taxonId, boolean onlyActive) throws java.rmi.RemoteException {\r
+ if (super.cachedEndpoint == null) {\r
+ throw new org.apache.axis.NoEndPointException();\r
+ }\r
+ org.apache.axis.client.Call _call = createCall();\r
+ _call.setOperation(_operations[0]);\r
+ _call.setUseSOAPAction(true);\r
+ _call.setSOAPActionURI("getUPIForSequence");\r
+ _call.setEncodingStyle(null);\r
+ _call.setProperty(org.apache.axis.client.Call.SEND_TYPE_ATTR, Boolean.FALSE);\r
+ _call.setProperty(org.apache.axis.AxisEngine.PROP_DOMULTIREFS, Boolean.FALSE);\r
+ _call.setSOAPVersion(org.apache.axis.soap.SOAPConstants.SOAP11_CONSTANTS);\r
+ _call.setOperationName(new javax.xml.namespace.QName("http://www.ebi.ac.uk/picr/AccessionMappingService", "getUPIForSequence"));\r
+\r
+ setRequestHeaders(_call);\r
+ setAttachments(_call);\r
+ java.lang.Object _resp = _call.invoke(new java.lang.Object[] {sequence, searchDatabases, taxonId, new java.lang.Boolean(onlyActive)});\r
+\r
+ if (_resp instanceof java.rmi.RemoteException) {\r
+ throw (java.rmi.RemoteException)_resp;\r
+ }\r
+ else {\r
+ extractAttachments(_call);\r
+ try {\r
+ return (uk.ac.ebi.picr.model.UPEntry) _resp;\r
+ } catch (java.lang.Exception _exception) {\r
+ return (uk.ac.ebi.picr.model.UPEntry) org.apache.axis.utils.JavaUtils.convert(_resp, uk.ac.ebi.picr.model.UPEntry.class);\r
+ }\r
+ }\r
+ }\r
+\r
+ public uk.ac.ebi.picr.model.UPEntry[] getUPIForAccession(java.lang.String accession, java.lang.String ac_version, java.lang.String[] searchDatabases, java.lang.String taxonId, boolean onlyActive) throws java.rmi.RemoteException {\r
+ if (super.cachedEndpoint == null) {\r
+ throw new org.apache.axis.NoEndPointException();\r
+ }\r
+ org.apache.axis.client.Call _call = createCall();\r
+ _call.setOperation(_operations[1]);\r
+ _call.setUseSOAPAction(true);\r
+ _call.setSOAPActionURI("getUPIForAccession");\r
+ _call.setEncodingStyle(null);\r
+ _call.setProperty(org.apache.axis.client.Call.SEND_TYPE_ATTR, Boolean.FALSE);\r
+ _call.setProperty(org.apache.axis.AxisEngine.PROP_DOMULTIREFS, Boolean.FALSE);\r
+ _call.setSOAPVersion(org.apache.axis.soap.SOAPConstants.SOAP11_CONSTANTS);\r
+ _call.setOperationName(new javax.xml.namespace.QName("http://www.ebi.ac.uk/picr/AccessionMappingService", "getUPIForAccession"));\r
+\r
+ setRequestHeaders(_call);\r
+ setAttachments(_call);\r
+ java.lang.Object _resp = _call.invoke(new java.lang.Object[] {accession, ac_version, searchDatabases, taxonId, new java.lang.Boolean(onlyActive)});\r
+\r
+ if (_resp instanceof java.rmi.RemoteException) {\r
+ throw (java.rmi.RemoteException)_resp;\r
+ }\r
+ else {\r
+ extractAttachments(_call);\r
+ try {\r
+ return (uk.ac.ebi.picr.model.UPEntry[]) _resp;\r
+ } catch (java.lang.Exception _exception) {\r
+ return (uk.ac.ebi.picr.model.UPEntry[]) org.apache.axis.utils.JavaUtils.convert(_resp, uk.ac.ebi.picr.model.UPEntry[].class);\r
+ }\r
+ }\r
+ }\r
+\r
+ public java.lang.String[] getMappedDatabaseNames() throws java.rmi.RemoteException {\r
+ if (super.cachedEndpoint == null) {\r
+ throw new org.apache.axis.NoEndPointException();\r
+ }\r
+ org.apache.axis.client.Call _call = createCall();\r
+ _call.setOperation(_operations[2]);\r
+ _call.setUseSOAPAction(true);\r
+ _call.setSOAPActionURI("getMappedDatabaseNames");\r
+ _call.setEncodingStyle(null);\r
+ _call.setProperty(org.apache.axis.client.Call.SEND_TYPE_ATTR, Boolean.FALSE);\r
+ _call.setProperty(org.apache.axis.AxisEngine.PROP_DOMULTIREFS, Boolean.FALSE);\r
+ _call.setSOAPVersion(org.apache.axis.soap.SOAPConstants.SOAP11_CONSTANTS);\r
+ _call.setOperationName(new javax.xml.namespace.QName("http://www.ebi.ac.uk/picr/AccessionMappingService", "getMappedDatabaseNames"));\r
+\r
+ setRequestHeaders(_call);\r
+ setAttachments(_call);\r
+ java.lang.Object _resp = _call.invoke(new java.lang.Object[] {});\r
+\r
+ if (_resp instanceof java.rmi.RemoteException) {\r
+ throw (java.rmi.RemoteException)_resp;\r
+ }\r
+ else {\r
+ extractAttachments(_call);\r
+ try {\r
+ return (java.lang.String[]) _resp;\r
+ } catch (java.lang.Exception _exception) {\r
+ return (java.lang.String[]) org.apache.axis.utils.JavaUtils.convert(_resp, java.lang.String[].class);\r
+ }\r
+ }\r
+ }\r
+\r
+}\r
--- /dev/null
+/**\r
+ * AccessionMapperInterface.java\r
+ *\r
+ * This file was auto-generated from WSDL\r
+ * by the Apache Axis 1.2RC2 Nov 16, 2004 (12:19:44 EST) WSDL2Java emitter.\r
+ */\r
+\r
+package uk.ac.ebi.www.picr.AccessionMappingService;\r
+\r
+public interface AccessionMapperInterface extends java.rmi.Remote {\r
+ public uk.ac.ebi.picr.model.UPEntry getUPIForSequence(java.lang.String sequence, java.lang.String[] searchDatabases, java.lang.String taxonId, boolean onlyActive) throws java.rmi.RemoteException;\r
+ public uk.ac.ebi.picr.model.UPEntry[] getUPIForAccession(java.lang.String accession, java.lang.String ac_version, java.lang.String[] searchDatabases, java.lang.String taxonId, boolean onlyActive) throws java.rmi.RemoteException;\r
+ public java.lang.String[] getMappedDatabaseNames() throws java.rmi.RemoteException;\r
+}\r
--- /dev/null
+/**\r
+ * AccessionMapperService.java\r
+ *\r
+ * This file was auto-generated from WSDL\r
+ * by the Apache Axis 1.2RC2 Nov 16, 2004 (12:19:44 EST) WSDL2Java emitter.\r
+ */\r
+\r
+package uk.ac.ebi.www.picr.AccessionMappingService;\r
+\r
+public interface AccessionMapperService extends javax.xml.rpc.Service {\r
+ public java.lang.String getAccessionMapperPortAddress();\r
+\r
+ public uk.ac.ebi.www.picr.AccessionMappingService.AccessionMapperInterface getAccessionMapperPort() throws javax.xml.rpc.ServiceException;\r
+\r
+ public uk.ac.ebi.www.picr.AccessionMappingService.AccessionMapperInterface getAccessionMapperPort(java.net.URL portAddress) throws javax.xml.rpc.ServiceException;\r
+}\r
--- /dev/null
+/**\r
+ * AccessionMapperServiceLocator.java\r
+ *\r
+ * This file was auto-generated from WSDL\r
+ * by the Apache Axis 1.2RC2 Nov 16, 2004 (12:19:44 EST) WSDL2Java emitter.\r
+ */\r
+\r
+package uk.ac.ebi.www.picr.AccessionMappingService;\r
+\r
+public class AccessionMapperServiceLocator extends org.apache.axis.client.Service implements uk.ac.ebi.www.picr.AccessionMappingService.AccessionMapperService {\r
+\r
+ public AccessionMapperServiceLocator() {\r
+ }\r
+\r
+\r
+ public AccessionMapperServiceLocator(org.apache.axis.EngineConfiguration config) {\r
+ super(config);\r
+ }\r
+\r
+ // Use to get a proxy class for AccessionMapperPort\r
+ private java.lang.String AccessionMapperPort_address = "http://www.ebi.ac.uk:80/Tools/picr/service";\r
+\r
+ public java.lang.String getAccessionMapperPortAddress() {\r
+ return AccessionMapperPort_address;\r
+ }\r
+\r
+ // The WSDD service name defaults to the port name.\r
+ private java.lang.String AccessionMapperPortWSDDServiceName = "AccessionMapperPort";\r
+\r
+ public java.lang.String getAccessionMapperPortWSDDServiceName() {\r
+ return AccessionMapperPortWSDDServiceName;\r
+ }\r
+\r
+ public void setAccessionMapperPortWSDDServiceName(java.lang.String name) {\r
+ AccessionMapperPortWSDDServiceName = name;\r
+ }\r
+\r
+ public uk.ac.ebi.www.picr.AccessionMappingService.AccessionMapperInterface getAccessionMapperPort() throws javax.xml.rpc.ServiceException {\r
+ java.net.URL endpoint;\r
+ try {\r
+ endpoint = new java.net.URL(AccessionMapperPort_address);\r
+ }\r
+ catch (java.net.MalformedURLException e) {\r
+ throw new javax.xml.rpc.ServiceException(e);\r
+ }\r
+ return getAccessionMapperPort(endpoint);\r
+ }\r
+\r
+ public uk.ac.ebi.www.picr.AccessionMappingService.AccessionMapperInterface getAccessionMapperPort(java.net.URL portAddress) throws javax.xml.rpc.ServiceException {\r
+ try {\r
+ uk.ac.ebi.www.picr.AccessionMappingService.AccessionMapperBindingStub _stub = new uk.ac.ebi.www.picr.AccessionMappingService.AccessionMapperBindingStub(portAddress, this);\r
+ _stub.setPortName(getAccessionMapperPortWSDDServiceName());\r
+ return _stub;\r
+ }\r
+ catch (org.apache.axis.AxisFault e) {\r
+ return null;\r
+ }\r
+ }\r
+\r
+ public void setAccessionMapperPortEndpointAddress(java.lang.String address) {\r
+ AccessionMapperPort_address = address;\r
+ }\r
+\r
+ /**\r
+ * For the given interface, get the stub implementation.\r
+ * If this service has no port for the given interface,\r
+ * then ServiceException is thrown.\r
+ */\r
+ public java.rmi.Remote getPort(Class serviceEndpointInterface) throws javax.xml.rpc.ServiceException {\r
+ try {\r
+ if (uk.ac.ebi.www.picr.AccessionMappingService.AccessionMapperInterface.class.isAssignableFrom(serviceEndpointInterface)) {\r
+ uk.ac.ebi.www.picr.AccessionMappingService.AccessionMapperBindingStub _stub = new uk.ac.ebi.www.picr.AccessionMappingService.AccessionMapperBindingStub(new java.net.URL(AccessionMapperPort_address), this);\r
+ _stub.setPortName(getAccessionMapperPortWSDDServiceName());\r
+ return _stub;\r
+ }\r
+ }\r
+ catch (java.lang.Throwable t) {\r
+ throw new javax.xml.rpc.ServiceException(t);\r
+ }\r
+ throw new javax.xml.rpc.ServiceException("There is no stub implementation for the interface: " + (serviceEndpointInterface == null ? "null" : serviceEndpointInterface.getName()));\r
+ }\r
+\r
+ /**\r
+ * For the given interface, get the stub implementation.\r
+ * If this service has no port for the given interface,\r
+ * then ServiceException is thrown.\r
+ */\r
+ public java.rmi.Remote getPort(javax.xml.namespace.QName portName, Class serviceEndpointInterface) throws javax.xml.rpc.ServiceException {\r
+ if (portName == null) {\r
+ return getPort(serviceEndpointInterface);\r
+ }\r
+ java.lang.String inputPortName = portName.getLocalPart();\r
+ if ("AccessionMapperPort".equals(inputPortName)) {\r
+ return getAccessionMapperPort();\r
+ }\r
+ else {\r
+ java.rmi.Remote _stub = getPort(serviceEndpointInterface);\r
+ ((org.apache.axis.client.Stub) _stub).setPortName(portName);\r
+ return _stub;\r
+ }\r
+ }\r
+\r
+ public javax.xml.namespace.QName getServiceName() {\r
+ return new javax.xml.namespace.QName("http://www.ebi.ac.uk/picr/AccessionMappingService", "AccessionMapperService");\r
+ }\r
+\r
+ private java.util.HashSet ports = null;\r
+\r
+ public java.util.Iterator getPorts() {\r
+ if (ports == null) {\r
+ ports = new java.util.HashSet();\r
+ ports.add(new javax.xml.namespace.QName("http://www.ebi.ac.uk/picr/AccessionMappingService", "AccessionMapperPort"));\r
+ }\r
+ return ports.iterator();\r
+ }\r
+\r
+ /**\r
+ * Set the endpoint address for the specified port name.\r
+ */\r
+ public void setEndpointAddress(java.lang.String portName, java.lang.String address) throws javax.xml.rpc.ServiceException {\r
+ if ("AccessionMapperPort".equals(portName)) {\r
+ setAccessionMapperPortEndpointAddress(address);\r
+ }\r
+ else { // Unknown Port Name\r
+ throw new javax.xml.rpc.ServiceException(" Cannot set Endpoint Address for Unknown Port" + portName);\r
+ }\r
+ }\r
+\r
+ /**\r
+ * Set the endpoint address for the specified port name.\r
+ */\r
+ public void setEndpointAddress(javax.xml.namespace.QName portName, java.lang.String address) throws javax.xml.rpc.ServiceException {\r
+ setEndpointAddress(portName.getLocalPart(), address);\r
+ }\r
+\r
+}\r
git://source.jalview.org / jalview.git / commitdiff