<?xml version="1.0" encoding="UTF-8" standalone="no"?>
<!--
  FuncNet version 1.0 predictor service template, January 2009
-->
<wsdl:definitions xmlns:soap="http://schemas.xmlsoap.org/wsdl/soap/"
  xmlns:tns="http://cathdb.info/FuncNet_1_0/" xmlns:wsdl="http://schemas.xmlsoap.org/wsdl/"
  xmlns:xsd="http://www.w3.org/2001/XMLSchema" name="FuncNet-1.0"
  targetNamespace="http://cathdb.info/FuncNet_1_0/">
  
  <wsdl:types>
  
    <xsd:schema targetNamespace="http://cathdb.info/FuncNet_1_0/">
    
      <xsd:complexType name="ProteinList">
        <xsd:annotation>
          <xsd:documentation>
            A list of one or more UniProt primary accession numbers.
          </xsd:documentation>
        </xsd:annotation>
        <xsd:sequence>
          <xsd:element name="p" type="xsd:string" minOccurs="1" maxOccurs="unbounded" />
        </xsd:sequence>
      </xsd:complexType>

      <xsd:complexType name="PairwiseScore">
        <xsd:annotation>
          <xsd:documentation>
            A 4-tuple containing the score results for a single pair of proteins.
          </xsd:documentation>
        </xsd:annotation>
        <xsd:sequence>
          <xsd:element name="p1" type="xsd:string">
            <xsd:annotation>
              <xsd:documentation>
                The query protein.
              </xsd:documentation>
            </xsd:annotation>
          </xsd:element>
          <xsd:element name="p2" type="xsd:string">
            <xsd:annotation>
              <xsd:documentation>
                The reference protein. Note: for predictors which produce a
                symmetrical measure of similarity or relatedness between two
                proteins, we would expect to see the same score and p-value
                regardless of which way round the query and reference proteins
                are.
              </xsd:documentation>
            </xsd:annotation>
          </xsd:element>
          <xsd:element name="rs" type="xsd:double">
            <xsd:annotation>
              <xsd:documentation>
                A numeric score produced by the predictor. FuncNet does not
                enforce any constraints on the range or distribution of scores
                produced by its predictors, so these scores are not comparable
                between different predictors.
              </xsd:documentation>
            </xsd:annotation>
          </xsd:element>
          <xsd:element name="pv" type="xsd:double">
            <xsd:annotation>
              <xsd:documentation>
                A p-value representing the probability that any two randomly-
                chosen proteins in this proteome would be given a rawScore
                equal to or higher than the rawScore for this pair, by this
                predictor. These probabilities are used by the integrator to
                calculate an overall score between each protein pair from the
                output of all the predictors.
              </xsd:documentation>
            </xsd:annotation>
          </xsd:element>
        </xsd:sequence>
      </xsd:complexType>
      
      <xsd:element name="ScorePairwiseRelations">
        <xsd:annotation>
          <xsd:documentation>
            Input type for the ScorePairwiseRelations operation.
          </xsd:documentation>
        </xsd:annotation>
        <xsd:complexType>
          <xsd:sequence>
            <xsd:element name="proteins1" type="tns:ProteinList">
              <xsd:annotation>
                <xsd:documentation>
                  A list of query proteins (as UniProt primary accessions)
                  with unknown or partially-known function.
                </xsd:documentation>
              </xsd:annotation>
            </xsd:element>
            <xsd:element name="proteins2" type="tns:ProteinList">
              <xsd:annotation>
                <xsd:documentation>
                  A list of reference proteins (as UniProt primary accessions)
                  which are known to be involved in a particular biological
                  phenomenon, structure, process etc.
                </xsd:documentation>
              </xsd:annotation>
            </xsd:element>
          </xsd:sequence>
        </xsd:complexType>
      </xsd:element>
      
      <xsd:element name="ScorePairwiseRelationsResponse">
        <xsd:annotation>
          <xsd:documentation>
            Output type for the ScorePairwiseRelations operation.
          </xsd:documentation>
        </xsd:annotation>
        <xsd:complexType>
          <xsd:sequence>
            <xsd:element name="s" type="tns:PairwiseScore" minOccurs="0" maxOccurs="unbounded">
              <xsd:annotation>
                <xsd:documentation>
                  A list of score profiles for pairs of proteins which have
                  been assigned a score by the predictor. The maximum number of
                  elements in this list is QxR where Q is the number of query
                  proteins and R is the number of reference proteins. The list
                  may be shorter as the predictor is not guaranteed to return
                  a score for every possible pair. 
                </xsd:documentation>
              </xsd:annotation>
            </xsd:element>
          </xsd:sequence>
        </xsd:complexType>
      </xsd:element>
      
    </xsd:schema>
    
  </wsdl:types>
  
  <wsdl:message name="ScorePairwiseRelationsRequest">
    <wsdl:part element="tns:ScorePairwiseRelations" name="parameters" />
  </wsdl:message>
  
  <wsdl:message name="ScorePairwiseRelationsResponse">
    <wsdl:part element="tns:ScorePairwiseRelationsResponse" name="parameters" />
  </wsdl:message>

  <!--
    Everything above this comment is the same for every FuncNet service.
    Below this comment, the string "DummyPredictor" will be replaced by the real service name.
    Also, the URLs will reflect the real location of the service.
  -->

  <wsdl:portType name="DummyPredictorPortType">
    <wsdl:operation name="ScorePairwiseRelations">
      <wsdl:documentation>
        This method runs the prediction algorithm on two sets of proteins (identified
        by UniProt primary accessions), one query set and one reference set. The
        predictor performs a pairwise comparison between each query-reference pair. 
      </wsdl:documentation>
      <wsdl:input message="tns:ScorePairwiseRelationsRequest" />
      <wsdl:output message="tns:ScorePairwiseRelationsResponse" />
    </wsdl:operation>
  </wsdl:portType>
  
  <wsdl:binding name="DummyPredictorBinding" type="tns:DummyPredictorPortType">
    <soap:binding style="document"
      transport="http://schemas.xmlsoap.org/soap/http" />
    <wsdl:operation name="ScorePairwiseRelations">
      <soap:operation soapAction="http://cathdb.info/DummyPredictor/ScorePairwiseRelations" />
      <wsdl:input>
        <soap:body use="literal" />
      </wsdl:input>
      <wsdl:output>
        <soap:body use="literal" />
      </wsdl:output>
    </wsdl:operation>
  </wsdl:binding>
  
  <wsdl:service name="DummyPredictorService">
    <wsdl:port binding="tns:DummyPredictorBinding" name="DummyPredictorPort">
      <soap:address location="http://cathdb.info/" />
    </wsdl:port>
  </wsdl:service>
  
</wsdl:definitions>