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Posted to commits@taverna.apache.org by st...@apache.org on 2015/02/17 21:40:09 UTC
[18/51] [partial] incubator-taverna-language git commit: temporarily
empty repository
http://git-wip-us.apache.org/repos/asf/incubator-taverna-language/blob/316e4a8a/taverna-scufl2-schemas/src/main/resources/org/apache/taverna/scufl2/rdfxml/xsd/scufl2.xsd
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diff --git a/taverna-scufl2-schemas/src/main/resources/org/apache/taverna/scufl2/rdfxml/xsd/scufl2.xsd b/taverna-scufl2-schemas/src/main/resources/org/apache/taverna/scufl2/rdfxml/xsd/scufl2.xsd
deleted file mode 100644
index c21072a..0000000
--- a/taverna-scufl2-schemas/src/main/resources/org/apache/taverna/scufl2/rdfxml/xsd/scufl2.xsd
+++ /dev/null
@@ -1,570 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!--
- Licensed to the Apache Software Foundation (ASF) under one or more
- contributor license agreements. See the NOTICE file distributed with
- this work for additional information regarding copyright ownership.
- The ASF licenses this file to You under the Apache License, Version 2.0
- (the "License"); you may not use this file except in compliance with
- the License. You may obtain a copy of the License at
-
- http://www.apache.org/licenses/LICENSE-2.0
-
- Unless required by applicable law or agreed to in writing, software
- distributed under the License is distributed on an "AS IS" BASIS,
- WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
- See the License for the specific language governing permissions and
- limitations under the License.
--->
-<xs:schema xmlns:xs="http://www.w3.org/2001/XMLSchema" attributeFormDefault="qualified"
- elementFormDefault="qualified" targetNamespace="http://ns.taverna.org.uk/2010/scufl2#"
- xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
- xmlns:scufl2="http://ns.taverna.org.uk/2010/scufl2#"
- xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#" xmlns:jxb="http://java.sun.com/xml/ns/jaxb"
- jxb:version="1.0">
-
- <xs:annotation>
- <xs:appinfo>
- <!-- See http://docs.rakeshv.org/java/jaxb/users-guide/jaxb-custom.html -->
- <jxb:globalBindings />
- <jxb:schemaBindings>
- <jxb:package name="org.apache.taverna.scufl2.rdfxml.jaxb" />
- </jxb:schemaBindings>
- </xs:appinfo>
- </xs:annotation>
-<!--
- <xs:import namespace="http://purl.org/dc/elements/1.1/"
- schemaLocation="http://dublincore.org/schemas/xmls/qdc/dc.xsd" />
-
- <xs:import namespace="http://purl.org/dc/terms/"
- schemaLocation="http://dublincore.org/schemas/xmls/qdc/dcterms.xsd" />
-
- <xs:import namespace="http://www.w3.org/XML/1998/namespace"
- schemaLocation="http://www.w3.org/2001/03/xml.xsd" />
- <xs:import namespace="http://www.w3.org/2002/07/owl#"
- schemaLocation="owl.xsd" />
- -->
-
- <xs:import namespace="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
- schemaLocation="rdf.xsd" />
- <xs:import namespace="http://www.w3.org/2000/01/rdf-schema#"
- schemaLocation="rdfs.xsd" />
-
-
-
- <xs:complexType name="WorkflowBundleDocument">
- <xs:complexContent>
- <xs:restriction base="rdf:RDF">
- <xs:sequence>
- <xs:element ref="scufl2:WorkflowBundle"></xs:element>
- </xs:sequence>
- </xs:restriction>
- </xs:complexContent>
- </xs:complexType>
-
- <xs:complexType name="WorkflowDocument">
- <xs:complexContent>
- <xs:restriction base="rdf:RDF">
- <xs:sequence>
- <xs:element ref="scufl2:Workflow"></xs:element>
- </xs:sequence>
- </xs:restriction>
- </xs:complexContent>
- </xs:complexType>
-
-
- <xs:complexType name="ProfileDocument">
- <xs:complexContent>
- <xs:restriction base="rdf:RDF">
- <xs:sequence>
- <xs:element ref="scufl2:Profile" />
- <xs:element ref="scufl2:Activity" minOccurs="0"
- maxOccurs="unbounded" />
- <xs:element ref="scufl2:ProcessorBinding" minOccurs="0"
- maxOccurs="unbounded" />
- <xs:element ref="scufl2:Configuration" minOccurs="0"
- maxOccurs="unbounded" />
-
- <xs:any namespace="##other" minOccurs="0" maxOccurs="unbounded"
- processContents="lax" />
- </xs:sequence>
- </xs:restriction>
- </xs:complexContent>
- </xs:complexType>
-
-
- <xs:element name="WorkflowBundle">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:name" minOccurs="0" />
- <xs:element name="globalBaseURI" type="rdf:Resource"
- minOccurs="0" />
- <xs:element name="mainWorkflow" type="rdf:Resource"
- minOccurs="0" />
- <xs:element name="workflow" maxOccurs="unbounded">
- <xs:complexType>
- <xs:sequence>
- <xs:element name="Workflow" type="scufl2:SeeAlsoType" />
- </xs:sequence>
- </xs:complexType>
- </xs:element>
- <xs:element name="mainProfile" type="rdf:Resource"
- minOccurs="0" />
- <xs:element name="profile" maxOccurs="unbounded"
- minOccurs="0">
- <xs:complexType>
- <xs:sequence>
- <xs:element name="Profile" type="scufl2:SeeAlsoType" />
- </xs:sequence>
- </xs:complexType>
- </xs:element>
- <xs:element ref="rdfs:seeAlso" minOccurs="0" maxOccurs="unbounded" />
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
- </xs:element>
-
-
- <xs:element name="Configuration">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="rdf:type" />
- <xs:element ref="rdfs:seeAlso" minOccurs="0" />
- <xs:element ref="scufl2:name" minOccurs="0" />
- <xs:element name="configure" type="rdf:Resource" />
- <xs:any namespace="##other" minOccurs="0" maxOccurs="unbounded"
- processContents="lax" />
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
- </xs:element>
-
- <xs:element name="Activity">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="rdf:type" />
- <xs:element ref="scufl2:name" minOccurs="0" />
- <xs:element name="inputActivityPort" minOccurs="0"
- maxOccurs="unbounded">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:InputActivityPort" />
- </xs:sequence>
- </xs:complexType>
- </xs:element>
- <xs:element name="outputActivityPort" minOccurs="0"
- maxOccurs="unbounded">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:OutputActivityPort" />
- </xs:sequence>
- </xs:complexType>
- </xs:element>
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
-
- </xs:complexType>
- </xs:element>
-
- <xs:complexType name="SeeAlsoType">
- <xs:sequence>
- <xs:element ref="rdfs:seeAlso" />
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
-
-
-
- <xs:element name="Profile">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:name" />
- <xs:element name="processorBinding" type="rdf:Resource"
- minOccurs="0" maxOccurs="unbounded" />
- <xs:element name="activateConfiguration" type="rdf:Resource"
- minOccurs="0" maxOccurs="unbounded" />
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
- </xs:element>
-
- <xs:element name="ProcessorBinding">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:name" minOccurs="0" />
- <xs:element name="bindActivity" type="rdf:Resource" />
- <xs:element name="bindProcessor" type="rdf:Resource" />
- <xs:element name="activityPosition" minOccurs="0">
- <xs:complexType>
- <xs:simpleContent>
- <xs:extension base="xs:int">
- <xs:attribute ref="rdf:datatype" use="required"
- fixed="http://www.w3.org/2001/XMLSchema#integer" />
- </xs:extension>
- </xs:simpleContent>
- </xs:complexType>
- </xs:element>
- <xs:element name="inputPortBinding" minOccurs="0"
- maxOccurs="unbounded">
- <xs:complexType>
- <xs:sequence>
- <xs:element name="InputPortBinding" type="scufl2:InputPortBinding" />
- </xs:sequence>
- </xs:complexType>
- </xs:element>
- <xs:element name="outputPortBinding" minOccurs="0"
- maxOccurs="unbounded">
- <xs:complexType>
- <xs:sequence>
- <xs:element name="OutputPortBinding" type="scufl2:OutputPortBinding" />
- </xs:sequence>
- </xs:complexType>
- </xs:element>
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
- </xs:element>
-
- <xs:complexType name="InputPortBinding">
- <xs:sequence>
- <xs:element name="bindInputActivityPort" type="rdf:Resource" />
- <xs:element name="bindInputProcessorPort" type="rdf:Resource" />
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
- <xs:complexType name="OutputPortBinding">
- <xs:sequence>
- <xs:element name="bindOutputActivityPort" type="rdf:Resource" />
- <xs:element name="bindOutputProcessorPort" type="rdf:Resource" />
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
-
-
- <xs:element name="InputActivityPort">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:name" />
- <xs:element ref="scufl2:portDepth" />
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
- </xs:element>
-
- <xs:element name="OutputActivityPort">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:name" />
- <xs:element ref="scufl2:portDepth" />
- <xs:element ref="scufl2:granularPortDepth" />
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
- </xs:element>
- <xs:element name="Workflow">
- <xs:complexType>
- <xs:sequence>
- <xs:sequence>
- <xs:element ref="scufl2:name" />
- <xs:element name="workflowIdentifier" type="rdf:Resource" />
- <xs:element name="inputWorkflowPort" maxOccurs="unbounded"
- minOccurs="0">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:InputWorkflowPort" />
- </xs:sequence>
- </xs:complexType>
- </xs:element>
- <xs:element name="outputWorkflowPort" minOccurs="0"
- maxOccurs="unbounded">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:OutputWorkflowPort" />
- </xs:sequence>
- </xs:complexType>
- </xs:element>
- <xs:element name="processor" minOccurs="0" maxOccurs="unbounded">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:Processor" />
- </xs:sequence>
- </xs:complexType>
- </xs:element>
- <xs:element ref="scufl2:datalink" minOccurs="0"
- maxOccurs="unbounded" />
- <xs:element ref="scufl2:control" minOccurs="0"
- maxOccurs="unbounded" />
- </xs:sequence>
- <xs:element ref="rdfs:seeAlso" />
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
- </xs:element>
-
- <xs:element name="InputWorkflowPort">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:name" />
- <xs:element ref="scufl2:portDepth" />
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
- </xs:element>
-
- <xs:element name="OutputWorkflowPort">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:name" />
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
- </xs:element>
-
- <xs:element name="Processor">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:name" />
- <xs:element name="inputProcessorPort" minOccurs="0"
- maxOccurs="unbounded">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:InputProcessorPort" />
- </xs:sequence>
- </xs:complexType>
- </xs:element>
- <xs:element name="outputProcessorPort" minOccurs="0"
- maxOccurs="unbounded">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:OutputProcessorPort" />
- </xs:sequence>
- </xs:complexType>
- </xs:element>
- <xs:element name="dispatchStack" minOccurs="0">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:DispatchStack" />
- </xs:sequence>
- </xs:complexType>
- </xs:element>
- <xs:element name="iterationStrategyStack" minOccurs="0">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:IterationStrategyStack" />
- </xs:sequence>
- </xs:complexType>
- </xs:element>
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
- </xs:element>
-
- <xs:element name="InputProcessorPort">
- <xs:complexType>
- <xs:sequence minOccurs="0">
- <xs:element ref="scufl2:name" />
- <xs:element ref="scufl2:portDepth" />
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
- </xs:element>
-
- <xs:element name="OutputProcessorPort">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:name" />
- <xs:element ref="scufl2:portDepth" />
- <xs:element ref="scufl2:granularPortDepth" />
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
- </xs:element>
-
-
- <xs:element name="DispatchStack">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="rdf:type" minOccurs="0" />
- <xs:element name="dispatchStackLayers" minOccurs="0">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:DispatchStackLayer" minOccurs="0"
- maxOccurs="unbounded" />
- </xs:sequence>
- <xs:attribute ref="rdf:parseType" use="required"
- fixed="Collection" />
- </xs:complexType>
- </xs:element>
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
- </xs:element>
-
- <xs:element name="DispatchStackLayer">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="rdf:type" />
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
- </xs:element>
-
-
- <xs:element name="IterationStrategyStack">
- <xs:complexType>
- <xs:sequence>
- <xs:element name="iterationStrategies">
- <xs:complexType>
- <xs:sequence>
- <xs:choice minOccurs="1" maxOccurs="unbounded">
- <xs:element ref="scufl2:DotProduct" />
- <xs:element ref="scufl2:CrossProduct" />
- </xs:choice>
- </xs:sequence>
- <xs:attribute ref="rdf:parseType" use="required"
- fixed="Collection" />
- </xs:complexType>
- </xs:element>
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
- </xs:element>
-
-
-
- <xs:element name="CrossProduct">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:productOf" />
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
- </xs:element>
-
- <xs:element name="DotProduct">
- <xs:complexType>
- <xs:sequence>
- <xs:element ref="scufl2:productOf" />
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
- </xs:element>
-
- <xs:element name="PortNode">
- <xs:complexType>
- <xs:sequence>
- <xs:element name="iterateOverInputPort" type="rdf:Resource" />
- <xs:element name="desiredDepth" minOccurs="0">
- <xs:complexType>
- <xs:simpleContent>
- <xs:extension base="xs:int">
- <xs:attribute ref="rdf:datatype" use="required"
- fixed="http://www.w3.org/2001/XMLSchema#integer" />
- </xs:extension>
- </xs:simpleContent>
- </xs:complexType>
- </xs:element>
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
- </xs:element>
-
-
- <xs:element name="productOf">
- <xs:complexType>
- <xs:choice maxOccurs="unbounded">
- <xs:element ref="scufl2:CrossProduct" />
- <xs:element ref="scufl2:DotProduct" />
- <xs:element ref="scufl2:PortNode" />
- </xs:choice>
- <xs:attribute ref="rdf:parseType" use="required" fixed="Collection" />
-
- </xs:complexType>
- </xs:element>
- <xs:element name="datalink">
- <xs:complexType>
- <xs:annotation>
- <xs:appinfo>
- <jxb:class name="DataLinkEntry">
- </jxb:class>
- </xs:appinfo>
- </xs:annotation>
- <xs:sequence>
- <xs:element name="DataLink" type="scufl2:DataLink" />
- </xs:sequence>
- </xs:complexType>
- </xs:element>
-
- <xs:complexType name="DataLink">
- <xs:sequence>
- <xs:element name="receiveFrom" type="rdf:Resource" />
- <xs:element name="sendTo" type="rdf:Resource" />
- <xs:element name="mergePosition" minOccurs="0">
- <xs:complexType>
- <xs:simpleContent>
- <xs:extension base="xs:int">
- <xs:attribute ref="rdf:datatype" use="required"
- fixed="http://www.w3.org/2001/XMLSchema#integer" />
- </xs:extension>
- </xs:simpleContent>
- </xs:complexType>
- </xs:element>
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
-
- <xs:element name="control">
- <xs:complexType>
- <xs:sequence>
- <xs:element name="Blocking" type="scufl2:Blocking" />
- </xs:sequence>
- </xs:complexType>
- </xs:element>
-
- <xs:complexType name="Blocking">
- <xs:sequence>
- <xs:element name="block" type="rdf:Resource" />
- <xs:element name="untilFinished" type="rdf:Resource" />
- </xs:sequence>
- <xs:attributeGroup ref="rdf:about" />
- </xs:complexType>
-
-
- <xs:element name="configurationType">
- <xs:complexType>
- <xs:attributeGroup ref="rdf:resource" />
- </xs:complexType>
- </xs:element>
- <xs:element name="required">
- <xs:complexType>
- <xs:simpleContent>
- <xs:extension base="xs:boolean">
- <xs:attribute ref="rdf:datatype" use="required"
- fixed="http://www.w3.org/2001/XMLSchema#boolean" />
- </xs:extension>
- </xs:simpleContent>
- </xs:complexType>
- </xs:element>
- <xs:element name="name" type="xs:NCName" />
- <xs:element name="granularPortDepth">
- <xs:complexType>
- <xs:simpleContent>
- <xs:extension base="xs:int">
- <xs:attribute ref="rdf:datatype" use="required"
- fixed="http://www.w3.org/2001/XMLSchema#integer" />
- </xs:extension>
- </xs:simpleContent>
- </xs:complexType>
- </xs:element>
- <xs:element name="portDepth">
- <xs:complexType>
- <xs:simpleContent>
- <xs:extension base="xs:int">
- <xs:attribute ref="rdf:datatype" use="required"
- fixed="http://www.w3.org/2001/XMLSchema#integer" />
- </xs:extension>
- </xs:simpleContent>
- </xs:complexType>
- </xs:element>
-
-
-</xs:schema>
http://git-wip-us.apache.org/repos/asf/incubator-taverna-language/blob/316e4a8a/taverna-scufl2-schemas/src/main/resources/org/apache/taverna/scufl2/rdfxml/xsd/xml.xsd
----------------------------------------------------------------------
diff --git a/taverna-scufl2-schemas/src/main/resources/org/apache/taverna/scufl2/rdfxml/xsd/xml.xsd b/taverna-scufl2-schemas/src/main/resources/org/apache/taverna/scufl2/rdfxml/xsd/xml.xsd
deleted file mode 100644
index f317513..0000000
--- a/taverna-scufl2-schemas/src/main/resources/org/apache/taverna/scufl2/rdfxml/xsd/xml.xsd
+++ /dev/null
@@ -1,295 +0,0 @@
-<?xml version='1.0'?>
-<!--
- Copyright © 2015 W3C® (MIT, ERCIM, Keio, Beihang). This software or
- document includes material copied from or derived from:
-
- Extensible Markup Language (XML) 1.0 (Fifth Edition)
- W3C Recommendation 26 November 2008
- http://www.w3.org/2001/xml.xsd
- http://www.w3.org/TR/xml/
-
--->
-<xs:schema targetNamespace="http://www.w3.org/XML/1998/namespace"
- xmlns:xs="http://www.w3.org/2001/XMLSchema"
- xmlns ="http://www.w3.org/1999/xhtml"
- xml:lang="en">
-
- <xs:annotation>
- <xs:documentation>
- <div>
- <h1>About the XML namespace</h1>
-
- <div class="bodytext">
- <p>
- This schema document describes the XML namespace, in a form
- suitable for import by other schema documents.
- </p>
- <p>
- See <a href="http://www.w3.org/XML/1998/namespace.html">
- http://www.w3.org/XML/1998/namespace.html</a> and
- <a href="http://www.w3.org/TR/REC-xml">
- http://www.w3.org/TR/REC-xml</a> for information
- about this namespace.
- </p>
- <p>
- Note that local names in this namespace are intended to be
- defined only by the World Wide Web Consortium or its subgroups.
- The names currently defined in this namespace are listed below.
- They should not be used with conflicting semantics by any Working
- Group, specification, or document instance.
- </p>
- <p>
- See further below in this document for more information about <a
- href="#usage">how to refer to this schema document from your own
- XSD schema documents</a> and about <a href="#nsversioning">the
- namespace-versioning policy governing this schema document</a>.
- </p>
- </div>
- </div>
- </xs:documentation>
- </xs:annotation>
-
- <xs:attribute name="lang">
- <xs:annotation>
- <xs:documentation>
- <div>
-
- <h3>lang (as an attribute name)</h3>
- <p>
- denotes an attribute whose value
- is a language code for the natural language of the content of
- any element; its value is inherited. This name is reserved
- by virtue of its definition in the XML specification.</p>
-
- </div>
- <div>
- <h4>Notes</h4>
- <p>
- Attempting to install the relevant ISO 2- and 3-letter
- codes as the enumerated possible values is probably never
- going to be a realistic possibility.
- </p>
- <p>
- See BCP 47 at <a href="http://www.rfc-editor.org/rfc/bcp/bcp47.txt">
- http://www.rfc-editor.org/rfc/bcp/bcp47.txt</a>
- and the IANA language subtag registry at
- <a href="http://www.iana.org/assignments/language-subtag-registry">
- http://www.iana.org/assignments/language-subtag-registry</a>
- for further information.
- </p>
- <p>
- The union allows for the 'un-declaration' of xml:lang with
- the empty string.
- </p>
- </div>
- </xs:documentation>
- </xs:annotation>
- <xs:simpleType>
- <xs:union memberTypes="xs:language">
- <xs:simpleType>
- <xs:restriction base="xs:string">
- <xs:enumeration value=""/>
- </xs:restriction>
- </xs:simpleType>
- </xs:union>
- </xs:simpleType>
- </xs:attribute>
-
- <xs:attribute name="space">
- <xs:annotation>
- <xs:documentation>
- <div>
-
- <h3>space (as an attribute name)</h3>
- <p>
- denotes an attribute whose
- value is a keyword indicating what whitespace processing
- discipline is intended for the content of the element; its
- value is inherited. This name is reserved by virtue of its
- definition in the XML specification.</p>
-
- </div>
- </xs:documentation>
- </xs:annotation>
- <xs:simpleType>
- <xs:restriction base="xs:NCName">
- <xs:enumeration value="default"/>
- <xs:enumeration value="preserve"/>
- </xs:restriction>
- </xs:simpleType>
- </xs:attribute>
-
- <xs:attribute name="base" type="xs:anyURI"> <xs:annotation>
- <xs:documentation>
- <div>
-
- <h3>base (as an attribute name)</h3>
- <p>
- denotes an attribute whose value
- provides a URI to be used as the base for interpreting any
- relative URIs in the scope of the element on which it
- appears; its value is inherited. This name is reserved
- by virtue of its definition in the XML Base specification.</p>
-
- <p>
- See <a
- href="http://www.w3.org/TR/xmlbase/">http://www.w3.org/TR/xmlbase/</a>
- for information about this attribute.
- </p>
- </div>
- </xs:documentation>
- </xs:annotation>
- </xs:attribute>
-
- <xs:attribute name="id" type="xs:ID">
- <xs:annotation>
- <xs:documentation>
- <div>
-
- <h3>id (as an attribute name)</h3>
- <p>
- denotes an attribute whose value
- should be interpreted as if declared to be of type ID.
- This name is reserved by virtue of its definition in the
- xml:id specification.</p>
-
- <p>
- See <a
- href="http://www.w3.org/TR/xml-id/">http://www.w3.org/TR/xml-id/</a>
- for information about this attribute.
- </p>
- </div>
- </xs:documentation>
- </xs:annotation>
- </xs:attribute>
-
- <xs:attributeGroup name="specialAttrs">
- <xs:attribute ref="xml:base"/>
- <xs:attribute ref="xml:lang"/>
- <xs:attribute ref="xml:space"/>
- <xs:attribute ref="xml:id"/>
- </xs:attributeGroup>
-
- <xs:annotation>
- <xs:documentation>
- <div>
-
- <h3>Father (in any context at all)</h3>
-
- <div class="bodytext">
- <p>
- denotes Jon Bosak, the chair of
- the original XML Working Group. This name is reserved by
- the following decision of the W3C XML Plenary and
- XML Coordination groups:
- </p>
- <blockquote>
- <p>
- In appreciation for his vision, leadership and
- dedication the W3C XML Plenary on this 10th day of
- February, 2000, reserves for Jon Bosak in perpetuity
- the XML name "xml:Father".
- </p>
- </blockquote>
- </div>
- </div>
- </xs:documentation>
- </xs:annotation>
-
- <xs:annotation>
- <xs:documentation>
- <div xml:id="usage" id="usage">
- <h2><a name="usage">About this schema document</a></h2>
-
- <div class="bodytext">
- <p>
- This schema defines attributes and an attribute group suitable
- for use by schemas wishing to allow <code>xml:base</code>,
- <code>xml:lang</code>, <code>xml:space</code> or
- <code>xml:id</code> attributes on elements they define.
- </p>
- <p>
- To enable this, such a schema must import this schema for
- the XML namespace, e.g. as follows:
- </p>
- <pre>
- <schema . . .>
- . . .
- <import namespace="http://www.w3.org/XML/1998/namespace"
- schemaLocation="http://www.w3.org/2001/xml.xsd"/>
- </pre>
- <p>
- or
- </p>
- <pre>
- <import namespace="http://www.w3.org/XML/1998/namespace"
- schemaLocation="http://www.w3.org/2009/01/xml.xsd"/>
- </pre>
- <p>
- Subsequently, qualified reference to any of the attributes or the
- group defined below will have the desired effect, e.g.
- </p>
- <pre>
- <type . . .>
- . . .
- <attributeGroup ref="xml:specialAttrs"/>
- </pre>
- <p>
- will define a type which will schema-validate an instance element
- with any of those attributes.
- </p>
- </div>
- </div>
- </xs:documentation>
- </xs:annotation>
-
- <xs:annotation>
- <xs:documentation>
- <div id="nsversioning" xml:id="nsversioning">
- <h2><a name="nsversioning">Versioning policy for this schema document</a></h2>
- <div class="bodytext">
- <p>
- In keeping with the XML Schema WG's standard versioning
- policy, this schema document will persist at
- <a href="http://www.w3.org/2009/01/xml.xsd">
- http://www.w3.org/2009/01/xml.xsd</a>.
- </p>
- <p>
- At the date of issue it can also be found at
- <a href="http://www.w3.org/2001/xml.xsd">
- http://www.w3.org/2001/xml.xsd</a>.
- </p>
- <p>
- The schema document at that URI may however change in the future,
- in order to remain compatible with the latest version of XML
- Schema itself, or with the XML namespace itself. In other words,
- if the XML Schema or XML namespaces change, the version of this
- document at <a href="http://www.w3.org/2001/xml.xsd">
- http://www.w3.org/2001/xml.xsd
- </a>
- will change accordingly; the version at
- <a href="http://www.w3.org/2009/01/xml.xsd">
- http://www.w3.org/2009/01/xml.xsd
- </a>
- will not change.
- </p>
- <p>
- Previous dated (and unchanging) versions of this schema
- document are at:
- </p>
- <ul>
- <li><a href="http://www.w3.org/2009/01/xml.xsd">
- http://www.w3.org/2009/01/xml.xsd</a></li>
- <li><a href="http://www.w3.org/2007/08/xml.xsd">
- http://www.w3.org/2007/08/xml.xsd</a></li>
- <li><a href="http://www.w3.org/2004/10/xml.xsd">
- http://www.w3.org/2004/10/xml.xsd</a></li>
- <li><a href="http://www.w3.org/2001/03/xml.xsd">
- http://www.w3.org/2001/03/xml.xsd</a></li>
- </ul>
- </div>
- </div>
- </xs:documentation>
- </xs:annotation>
-
-</xs:schema>
http://git-wip-us.apache.org/repos/asf/incubator-taverna-language/blob/316e4a8a/taverna-scufl2-scufl/pom.xml
----------------------------------------------------------------------
diff --git a/taverna-scufl2-scufl/pom.xml b/taverna-scufl2-scufl/pom.xml
deleted file mode 100644
index 1bd9038..0000000
--- a/taverna-scufl2-scufl/pom.xml
+++ /dev/null
@@ -1,104 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!--
- Licensed to the Apache Software Foundation (ASF) under one or more
- contributor license agreements. See the NOTICE file distributed with
- this work for additional information regarding copyright ownership.
- The ASF licenses this file to You under the Apache License, Version 2.0
- (the "License"); you may not use this file except in compliance with
- the License. You may obtain a copy of the License at
-
- http://www.apache.org/licenses/LICENSE-2.0
-
- Unless required by applicable law or agreed to in writing, software
- distributed under the License is distributed on an "AS IS" BASIS,
- WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
- See the License for the specific language governing permissions and
- limitations under the License.
--->
-<project xmlns="http://maven.apache.org/POM/4.0.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd">
- <modelVersion>4.0.0</modelVersion>
- <parent>
- <groupId>org.apache.taverna.language</groupId>
- <artifactId>taverna-language</artifactId>
- <version>0.16.1-incubating-SNAPSHOT</version>
- </parent>
- <artifactId>taverna-scufl2-scufl</artifactId>
- <packaging>bundle</packaging>
- <name>Apache Taverna Scufl 2 SCUFL parser</name>
- <description>Parse Taverna 1.x workflows (Status: Experimental)</description>
- <build>
- <plugins>
- <plugin>
- <groupId>org.apache.felix</groupId>
- <artifactId>maven-bundle-plugin</artifactId>
- <!--
- <configuration>
- <instructions>
- <Export-Package>org.apache.taverna.scufl2.api.io;provide:=true</Export-Package>
- </instructions>
- </configuration>
- -->
- </plugin>
- <plugin>
- <groupId>org.codehaus.mojo</groupId>
- <artifactId>jaxb2-maven-plugin</artifactId>
- <executions>
- <execution>
- <goals>
- <goal>xjc</goal>
- </goals>
- </execution>
- </executions>
- <configuration>
- <packageName>org.apache.taverna.scufl2.xml.scufl.jaxb</packageName>
- <schemaDirectory>src/main/resources/org/apache/taverna/scufl2/translator/scufl/xsd/</schemaDirectory>
- </configuration>
- </plugin>
-
- <plugin>
- <groupId>org.apache.maven.plugins</groupId>
- <artifactId>maven-compiler-plugin</artifactId>
- <configuration>
- <source>1.7</source>
- <target>1.7</target>
- </configuration>
- </plugin>
- <plugin>
- <groupId>org.apache.rat</groupId>
- <artifactId>apache-rat-plugin</artifactId>
- </plugin>
- </plugins>
- </build> <dependencies>
- <dependency>
- <groupId>${project.groupId}</groupId>
- <artifactId>taverna-scufl2-api</artifactId>
- <version>${project.version}</version>
- </dependency>
- <dependency>
- <groupId>com.sun.xml.bind</groupId>
- <artifactId>jaxb-osgi</artifactId>
- <version>${jaxb.version}</version>
- <type>jar</type>
- <optional>true</optional>
- </dependency>
- <dependency>
- <groupId>commons-io</groupId>
- <artifactId>commons-io</artifactId>
- <version>${commons.io.version}</version>
- <type>jar</type>
- <scope>test</scope>
- </dependency>
- <dependency>
- <groupId>org.jdom</groupId>
- <artifactId>com.springsource.org.jdom</artifactId>
- <version>${jdom.version}</version>
- <scope>test</scope>
- </dependency>
- <dependency>
- <groupId>org.jaxen</groupId>
- <artifactId>com.springsource.org.jaxen</artifactId>
- <version>${jaxen.version}</version>
- <scope>test</scope>
- </dependency>
- </dependencies>
-</project>
http://git-wip-us.apache.org/repos/asf/incubator-taverna-language/blob/316e4a8a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/ParserState.java
----------------------------------------------------------------------
diff --git a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/ParserState.java b/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/ParserState.java
deleted file mode 100644
index 7cedf56..0000000
--- a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/ParserState.java
+++ /dev/null
@@ -1,149 +0,0 @@
-/**
- *
- */
-package org.apache.taverna.scufl2.translator.scufl;
-/*
- *
- * Licensed to the Apache Software Foundation (ASF) under one
- * or more contributor license agreements. See the NOTICE file
- * distributed with this work for additional information
- * regarding copyright ownership. The ASF licenses this file
- * to you under the Apache License, Version 2.0 (the
- * "License"); you may not use this file except in compliance
- * with the License. You may obtain a copy of the License at
- *
- * http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing,
- * software distributed under the License is distributed on an
- * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
- * KIND, either express or implied. See the License for the
- * specific language governing permissions and limitations
- * under the License.
- *
-*/
-
-
-import java.util.HashMap;
-
-import org.apache.taverna.scufl2.api.activity.Activity;
-import org.apache.taverna.scufl2.api.common.WorkflowBean;
-import org.apache.taverna.scufl2.api.container.WorkflowBundle;
-import org.apache.taverna.scufl2.api.core.Processor;
-import org.apache.taverna.scufl2.api.core.Workflow;
-import org.apache.taverna.scufl2.api.profiles.Profile;
-
-
-/**
- * @author alanrw
- */
-public class ParserState {
- private ScuflParser currentParser;
- private WorkflowBundle currentWorkflowBundle;
- private Profile currentProfile;
- private Workflow currentWorkflow;
- private Processor currentProcessor;
- private ScuflExtensionParser currentExtensionParser;
- private Activity currentActivity;
-
- private HashMap<Object, WorkflowBean> forwardMapping = new HashMap<>();
-
- public void setCurrentWorkflowBundle(WorkflowBundle wfBundle) {
- this.currentWorkflowBundle = wfBundle;
- }
-
- public WorkflowBundle getCurrentWorkflowBundle() {
- return currentWorkflowBundle;
- }
-
- public void setCurrentProfile(Profile profile) {
- this.currentProfile = profile;
- }
-
- /**
- * @return the currentProfile
- */
- public Profile getCurrentProfile() {
- return currentProfile;
- }
-
- /**
- * @return the currentParser
- */
- public ScuflParser getCurrentParser() {
- return currentParser;
- }
-
- /**
- * @param currentParser
- * the currentParser to set
- */
- public void setCurrentParser(ScuflParser currentParser) {
- this.currentParser = currentParser;
- }
-
- /**
- * @param currentWorkflow
- * the currentWorkflow to set
- */
- public void setCurrentWorkflow(Workflow currentWorkflow) {
- this.currentWorkflow = currentWorkflow;
- }
-
- /**
- * @return the currentWorkflow
- */
- public Workflow getCurrentWorkflow() {
- return currentWorkflow;
- }
-
- public void addMapping(Object scuflObject, WorkflowBean scufl2Object) {
- forwardMapping.put(scuflObject, scufl2Object);
- }
-
- /**
- * @return the currentProcessor
- */
- public Processor getCurrentProcessor() {
- return currentProcessor;
- }
-
- /**
- * @param currentProcessor
- * the currentProcessor to set
- */
- public void setCurrentProcessor(Processor currentProcessor) {
- this.currentProcessor = currentProcessor;
- }
-
- /**
- * @return the currentExtensionParser
- */
- public ScuflExtensionParser getCurrentExtensionParser() {
- return currentExtensionParser;
- }
-
- /**
- * @param currentExtensionParser
- * the currentExtensionParser to set
- */
- public void setCurrentExtensionParser(
- ScuflExtensionParser currentExtensionParser) {
- this.currentExtensionParser = currentExtensionParser;
- }
-
- /**
- * @return the currentActivity
- */
- public Activity getCurrentActivity() {
- return currentActivity;
- }
-
- /**
- * @param currentActivity
- * the currentActivity to set
- */
- public void setCurrentActivity(Activity currentActivity) {
- this.currentActivity = currentActivity;
- }
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-language/blob/316e4a8a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/ScuflExtensionParser.java
----------------------------------------------------------------------
diff --git a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/ScuflExtensionParser.java b/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/ScuflExtensionParser.java
deleted file mode 100644
index 6fc235e..0000000
--- a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/ScuflExtensionParser.java
+++ /dev/null
@@ -1,43 +0,0 @@
-/**
- *
- */
-package org.apache.taverna.scufl2.translator.scufl;
-/*
- *
- * Licensed to the Apache Software Foundation (ASF) under one
- * or more contributor license agreements. See the NOTICE file
- * distributed with this work for additional information
- * regarding copyright ownership. The ASF licenses this file
- * to you under the Apache License, Version 2.0 (the
- * "License"); you may not use this file except in compliance
- * with the License. You may obtain a copy of the License at
- *
- * http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing,
- * software distributed under the License is distributed on an
- * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
- * KIND, either express or implied. See the License for the
- * specific language governing permissions and limitations
- * under the License.
- *
-*/
-
-
-import java.net.URI;
-import java.util.List;
-
-/**
- * @author alanrw
- */
-public interface ScuflExtensionParser {
- void setParserState(ParserState state);
-
- ParserState getParserState();
-
- List<URI> getAdditionalSchemas();
-
- void parseScuflObject(Object o);
-
- boolean canHandle(Class<?> c);
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-language/blob/316e4a8a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/ScuflParser.java
----------------------------------------------------------------------
diff --git a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/ScuflParser.java b/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/ScuflParser.java
deleted file mode 100644
index b209537..0000000
--- a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/ScuflParser.java
+++ /dev/null
@@ -1,497 +0,0 @@
-/**
- *
- */
-package org.apache.taverna.scufl2.translator.scufl;
-/*
- *
- * Licensed to the Apache Software Foundation (ASF) under one
- * or more contributor license agreements. See the NOTICE file
- * distributed with this work for additional information
- * regarding copyright ownership. The ASF licenses this file
- * to you under the Apache License, Version 2.0 (the
- * "License"); you may not use this file except in compliance
- * with the License. You may obtain a copy of the License at
- *
- * http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing,
- * software distributed under the License is distributed on an
- * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
- * KIND, either express or implied. See the License for the
- * specific language governing permissions and limitations
- * under the License.
- *
-*/
-
-
-import static java.util.logging.Level.SEVERE;
-import static javax.xml.XMLConstants.W3C_XML_SCHEMA_NS_URI;
-
-import java.io.File;
-import java.io.IOException;
-import java.io.InputStream;
-import java.net.URI;
-import java.net.URISyntaxException;
-import java.net.URL;
-import java.util.ArrayList;
-import java.util.HashSet;
-import java.util.List;
-import java.util.ServiceLoader;
-import java.util.Set;
-import java.util.logging.Logger;
-import java.util.regex.Pattern;
-
-import javax.xml.bind.JAXBContext;
-import javax.xml.bind.JAXBElement;
-import javax.xml.bind.JAXBException;
-import javax.xml.bind.Unmarshaller;
-import javax.xml.transform.Source;
-import javax.xml.transform.stream.StreamSource;
-import javax.xml.validation.Schema;
-import javax.xml.validation.SchemaFactory;
-
-import org.apache.taverna.scufl2.api.activity.Activity;
-import org.apache.taverna.scufl2.api.common.Scufl2Tools;
-import org.apache.taverna.scufl2.api.container.WorkflowBundle;
-import org.apache.taverna.scufl2.api.core.Processor;
-import org.apache.taverna.scufl2.api.core.Workflow;
-import org.apache.taverna.scufl2.api.io.ReaderException;
-import org.apache.taverna.scufl2.api.port.InputActivityPort;
-import org.apache.taverna.scufl2.api.port.InputProcessorPort;
-import org.apache.taverna.scufl2.api.port.InputWorkflowPort;
-import org.apache.taverna.scufl2.api.port.OutputActivityPort;
-import org.apache.taverna.scufl2.api.port.OutputProcessorPort;
-import org.apache.taverna.scufl2.api.port.OutputWorkflowPort;
-import org.apache.taverna.scufl2.api.profiles.ProcessorBinding;
-import org.apache.taverna.scufl2.api.profiles.ProcessorInputPortBinding;
-import org.apache.taverna.scufl2.api.profiles.ProcessorOutputPortBinding;
-import org.apache.taverna.scufl2.api.profiles.Profile;
-import org.xml.sax.SAXException;
-
-import org.apache.taverna.scufl2.xml.scufl.jaxb.CoordinationType;
-import org.apache.taverna.scufl2.xml.scufl.jaxb.DefaultType;
-import org.apache.taverna.scufl2.xml.scufl.jaxb.DefaultsType;
-import org.apache.taverna.scufl2.xml.scufl.jaxb.LinkType;
-import org.apache.taverna.scufl2.xml.scufl.jaxb.ObjectFactory;
-import org.apache.taverna.scufl2.xml.scufl.jaxb.ProcessorType;
-import org.apache.taverna.scufl2.xml.scufl.jaxb.ScuflType;
-import org.apache.taverna.scufl2.xml.scufl.jaxb.SinkType;
-import org.apache.taverna.scufl2.xml.scufl.jaxb.SourceType;
-import org.apache.taverna.scufl2.xml.scufl.jaxb.WorkflowDescriptionType;
-
-/**
- * WARNING! Incomplete class.
- * @author alanrw
- */
-public class ScuflParser {
- private static final Logger logger = Logger.getLogger(ScuflParser.class
- .getCanonicalName());
- private static final String SCUFL_XSD = "xsd/scufl.xsd";
- @SuppressWarnings("unused")
- private static final String LOCAL_XSD = "xsd/scufl-local.xsd";
- private static final String SCUFL = "SCUFL";
-
- protected Set<ScuflExtensionParser> scuflExtensionParsers = null;
- protected final JAXBContext jaxbContext;
- private boolean strict = false;
- private boolean validating = false;
-
- protected ThreadLocal<ParserState> parserState = new ThreadLocalParserState();
-
- /**
- * A static class for the thread-local parser state.
- */
- private static class ThreadLocalParserState extends ThreadLocal<ParserState> {
- @Override
- protected ParserState initialValue() {
- return new ParserState();
- };
- }
-
- private static Scufl2Tools scufl2Tools = new Scufl2Tools();
- protected ServiceLoader<ScuflExtensionParser> discoveredScuflExtensionParsers;
- protected final ThreadLocal<Unmarshaller> unmarshaller;
-
- public ScuflParser() throws JAXBException {
- jaxbContext = JAXBContext.newInstance(ObjectFactory.class);
- unmarshaller = new ThreadLocalUnmarshaller(jaxbContext);
- }
-
- /**
- * A static class for the thread-local unmarshaller.
- */
- private static class ThreadLocalUnmarshaller extends
- ThreadLocal<Unmarshaller> {
- private final JAXBContext jaxbContext;
-
- ThreadLocalUnmarshaller(JAXBContext jaxbContext) {
- this.jaxbContext = jaxbContext;
- }
-
- @Override
- protected Unmarshaller initialValue() {
- try {
- return jaxbContext.createUnmarshaller();
- } catch (JAXBException e) {
- logger.log(SEVERE, "Could not create unmarshaller", e);
- return null;
- }
- };
- }
-
- @SuppressWarnings("unchecked")
- public WorkflowBundle parseScufl(File scuflFile) throws IOException,
- ReaderException, JAXBException {
- JAXBElement<ScuflType> root = (JAXBElement<ScuflType>) getUnmarshaller()
- .unmarshal(scuflFile);
- return parseScufl(root.getValue());
- }
-
- @SuppressWarnings("unchecked")
- public WorkflowBundle parseScufl(InputStream scuflFile) throws IOException,
- JAXBException, ReaderException {
- JAXBElement<ScuflType> root = (JAXBElement<ScuflType>) getUnmarshaller()
- .unmarshal(scuflFile);
- return parseScufl(root.getValue());
- }
-
- public WorkflowBundle parseScufl(ScuflType wf) throws ReaderException,
- JAXBException {
- try {
- parserState.get().setCurrentParser(this);
- WorkflowBundle wfBundle = new WorkflowBundle();
- parserState.get().setCurrentWorkflowBundle(wfBundle);
- makeProfile(wf);
- Workflow w = parseWorkflow(wf);
- wfBundle.setMainWorkflow(w);
-
- scufl2Tools.setParents(wfBundle);
-
- return wfBundle;
- } finally {
- parserState.remove();
- }
- }
-
- private Workflow parseWorkflow(ScuflType wf) {
- Workflow oldCurrentWorkflow = parserState.get().getCurrentWorkflow();
- Workflow workflow = new Workflow();
- workflow.setParent(parserState.get().getCurrentWorkflowBundle());
- parserState.get().addMapping(wf, workflow);
- parserState.get().setCurrentWorkflow(workflow);
- WorkflowDescriptionType description = wf.getWorkflowdescription();
- workflow.setName(sanitiseName(description.getTitle()));
-
- parseWorkflowInputs(wf);
- parseWorkflowOutputs(wf);
- parseProcessors(wf);
- parseLinks(wf);
- parseCoordinations(wf);
- parseAnnotations(wf);
-
- replaceDefaultsWithStringConstants(wf); // To be done
-
- parserState.get().setCurrentWorkflow(oldCurrentWorkflow);
- return workflow;
- }
-
- private void parseAnnotations(ScuflType wf) {
- // TODO Auto-generated method stub
- }
-
- private void parseCoordinations(ScuflType wf) {
- for (CoordinationType c : wf.getCoordination())
- parseCoordination(c);
- }
-
- private void parseCoordination(CoordinationType c) {
- // TODO Auto-generated method stub
- }
-
- private void parseLinks(ScuflType wf) {
- for (LinkType dl : wf.getLink())
- parseLink(dl);
- }
-
- private void parseLink(LinkType dl) {
- // TODO Auto-generated method stub
- }
-
- private void parseWorkflowInputs(ScuflType wf) {
- for (SourceType st : wf.getSource())
- parseWorkflowInput(st);
- }
-
- private void parseWorkflowInput(SourceType st) {
- Workflow currentWorkflow = parserState.get().getCurrentWorkflow();
- InputWorkflowPort iwp = new InputWorkflowPort(currentWorkflow,
- sanitiseName(st.getName()));
- parserState.get().addMapping(st, iwp);
- // Cannot do anything about the depths
- }
-
- private void parseWorkflowOutputs(ScuflType wf) {
- for (SinkType st : wf.getSink())
- parseWorkflowOutput(st);
- }
-
- private void parseWorkflowOutput(SinkType st) {
- Workflow currentWorkflow = parserState.get().getCurrentWorkflow();
- OutputWorkflowPort owp = new OutputWorkflowPort(currentWorkflow,
- sanitiseName(st.getName()));
- parserState.get().addMapping(st, owp);
- // Cannot do anything about the depths
- }
-
- private void parseProcessors(ScuflType wf) {
- for (ProcessorType pt : wf.getProcessor())
- parseProcessor(pt);
- }
-
- private void parseProcessor(ProcessorType pt) {
- Workflow currentWorkflow = parserState.get().getCurrentWorkflow();
- Processor p = new Processor(currentWorkflow, sanitiseName(pt.getName()));
- parserState.get().setCurrentProcessor(p);
- parseDispatchStack(pt);
- parseProcessorElement(pt.getProcessorElement());
- Activity activity = parserState.get().getCurrentActivity();
- if (activity != null)
- createDefaultProcessorBinding();
- parserState.get().setCurrentActivity(null);
-
- parseAlternates(pt);
- parseIterationStrategy(pt);
- parserState.get().setCurrentProcessor(null);
- parserState.get().addMapping(pt, p);
- // Cannot do anything about the ports
- }
-
- private void createDefaultProcessorBinding() {
- Processor p = parserState.get().getCurrentProcessor();
- Activity a = parserState.get().getCurrentActivity();
-
- ProcessorBinding pb = new ProcessorBinding();
- pb.setParent(parserState.get().getCurrentProfile());
- pb.setActivityPosition(0);
- pb.setBoundProcessor(p);
- pb.setBoundActivity(a);
- for (InputActivityPort iap : a.getInputPorts()) {
- InputProcessorPort ipp = findOrCreateProcessorInputPort(p,
- iap.getName(), iap.getDepth());
- ProcessorInputPortBinding portBinding = new ProcessorInputPortBinding();
- portBinding.setParent(pb);
- portBinding.setBoundActivityPort(iap);
- portBinding.setBoundProcessorPort(ipp);
- }
- for (OutputActivityPort oap : a.getOutputPorts()) {
- OutputProcessorPort opp = findOrCreateProcessorOutputPort(p,
- oap.getName(), oap.getDepth(), oap.getGranularDepth());
- ProcessorOutputPortBinding portBinding = new ProcessorOutputPortBinding();
- portBinding.setParent(pb);
- portBinding.setBoundActivityPort(oap);
- portBinding.setBoundProcessorPort(opp);
- }
- }
-
- private OutputProcessorPort findOrCreateProcessorOutputPort(Processor p,
- String name, Integer depth, Integer granularDepth) {
- OutputProcessorPort port = p.getOutputPorts().getByName(name);
- if (port == null) {
- port = new OutputProcessorPort();
- port.setParent(p);
- port.setName(name);
- port.setDepth(depth);
- port.setGranularDepth(granularDepth);
- }
- return port;
- }
-
- private InputProcessorPort findOrCreateProcessorInputPort(Processor p,
- String name, Integer depth) {
- InputProcessorPort port = p.getInputPorts().getByName(name);
- if (port == null) {
- port = new InputProcessorPort();
- port.setParent(p);
- port.setName(name);
- port.setDepth(depth);
- }
- return port;
- }
-
- private void parseAlternates(ProcessorType pt) {
- // TODO Auto-generated method stub
- }
-
- private void parseProcessorElement(JAXBElement<?> processorElement) {
- Object processorElementValue = processorElement.getValue();
- parseExtensionObject(processorElementValue);
- }
-
- private void parseExtensionObject(Object o) {
- findExtensionParser(o.getClass());
- if (parserState.get().getCurrentExtensionParser() != null) {
- parserState.get().getCurrentExtensionParser()
- .setParserState(parserState.get());
- parserState.get().getCurrentExtensionParser().parseScuflObject(o);
- parserState.get().setCurrentExtensionParser(null);
- } else {
- // FIXME write to log instead!
- System.err.println("Unrecognized extension " + o.getClass());
- }
- }
-
- private void findExtensionParser(Class<?> c) {
- parserState.get().setCurrentExtensionParser(null);
- for (ScuflExtensionParser extensionParser : getScuflExtensionParsers())
- if (extensionParser.canHandle(c)) {
- parserState.get().setCurrentExtensionParser(extensionParser);
- break;
- }
- }
-
- private void parseDispatchStack(ProcessorType pt) {
- // TODO
- }
-
- private void parseIterationStrategy(ProcessorType pt) {
- // TODO
- }
-
- /**
- * Crawls the scuflModel processors and checks their input ports for unbound
- * default values. If one is found then a StringConstantProcessor is
- * inserted upstream.
- *
- * @param scuflModel
- * @throws WorkflowTranslationException
- */
- @SuppressWarnings("unused")
- private void replaceDefaultsWithStringConstants(ScuflType scuflModel) {
- for (ProcessorType t1Processor : scuflModel.getProcessor()) {
- DefaultsType defaults = t1Processor.getDefaults();
- if (defaults != null)
- for (DefaultType d : defaults.getDefault()) {
- String portName = d.getName();
- String constantValue = d.getValue();
- // TODO: To be done
- }
- }
- }
-
- public Unmarshaller getUnmarshaller() {
- Unmarshaller u = unmarshaller.get();
-
- if (!isValidating() && u.getSchema() != null) {
- u.setSchema(null);
- } else if (isValidating() && u.getSchema() == null) {
- // Load and set schema to validate against
- Schema schema;
- try {
- SchemaFactory schemaFactory = SchemaFactory
- .newInstance(W3C_XML_SCHEMA_NS_URI);
- List<URI> schemas = getAdditionalSchemas();
-
- URL scuflXSD = getClass().getResource(SCUFL_XSD);
- schemas.add(scuflXSD.toURI());
-
- List<Source> schemaSources = new ArrayList<>();
- for (URI schemaUri : schemas)
- schemaSources.add(new StreamSource(schemaUri
- .toASCIIString()));
- Source[] sources = schemaSources
- .toArray(new Source[schemaSources.size()]);
- schema = schemaFactory.newSchema(sources);
- } catch (SAXException e) {
- throw new RuntimeException("Can't load schema " + SCUFL_XSD, e);
- } catch (URISyntaxException | NullPointerException e) {
- throw new RuntimeException("Can't find schema " + SCUFL_XSD, e);
- }
- u.setSchema(schema);
- }
- return u;
- }
-
- private void makeProfile(ScuflType wf) {
- Profile profile = new Profile(SCUFL + "-" + wf.getVersion());
- profile.setParent(parserState.get().getCurrentWorkflowBundle());
- parserState.get().getCurrentWorkflowBundle().setMainProfile(profile);
- parserState.get().setCurrentProfile(profile);
- }
-
- protected List<URI> getAdditionalSchemas() {
- List<URI> uris = new ArrayList<>();
- for (ScuflExtensionParser parser : getScuflExtensionParsers()) {
- List<URI> schemas = parser.getAdditionalSchemas();
- if (schemas != null)
- uris.addAll(schemas);
- }
- return uris;
- }
-
- public synchronized Set<ScuflExtensionParser> getScuflExtensionParsers() {
- Set<ScuflExtensionParser> parsers = scuflExtensionParsers;
- if (parsers != null)
- return parsers;
- parsers = new HashSet<>();
- /*
- * TODO: Do we need to cache this, or is the cache in ServiceLoader fast
- * enough?
- */
- if (discoveredScuflExtensionParsers == null)
- discoveredScuflExtensionParsers = ServiceLoader
- .load(ScuflExtensionParser.class);
- for (ScuflExtensionParser parser : discoveredScuflExtensionParsers)
- parsers.add(parser);
- return parsers;
- }
-
- /**
- * @return the strict
- */
- public boolean isStrict() {
- return strict;
- }
-
- /**
- * @param strict
- * the strict to set
- */
- public void setStrict(boolean strict) {
- this.strict = strict;
- }
-
- /**
- * @return the validating
- */
- public boolean isValidating() {
- return validating;
- }
-
- /**
- * @param validating
- * the validating to set
- */
- public void setValidating(boolean validating) {
- this.validating = validating;
- }
-
- /**
- * Checks that the name does not have any characters that are invalid for a
- * processor name.
- *
- * The name must contain only the chars[A-Za-z_0-9].
- *
- * @param name
- * the original name
- * @return the sanitised name
- */
- private static String sanitiseName(String name) {
- if (Pattern.matches("\\w++", name))
- return name;
- StringBuilder result = new StringBuilder();
- for (char c : name.toCharArray())
- if (Character.isLetterOrDigit(c) || c == '_')
- result.append(c);
- return result.toString();
- }
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-language/blob/316e4a8a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/ScuflReader.java
----------------------------------------------------------------------
diff --git a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/ScuflReader.java b/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/ScuflReader.java
deleted file mode 100644
index 379e6bd..0000000
--- a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/ScuflReader.java
+++ /dev/null
@@ -1,115 +0,0 @@
-/**
- *
- */
-package org.apache.taverna.scufl2.translator.scufl;
-/*
- *
- * Licensed to the Apache Software Foundation (ASF) under one
- * or more contributor license agreements. See the NOTICE file
- * distributed with this work for additional information
- * regarding copyright ownership. The ASF licenses this file
- * to you under the Apache License, Version 2.0 (the
- * "License"); you may not use this file except in compliance
- * with the License. You may obtain a copy of the License at
- *
- * http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing,
- * software distributed under the License is distributed on an
- * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
- * KIND, either express or implied. See the License for the
- * specific language governing permissions and limitations
- * under the License.
- *
-*/
-
-
-import java.io.File;
-import java.io.IOException;
-import java.io.InputStream;
-import java.nio.charset.Charset;
-import java.util.Arrays;
-import java.util.HashSet;
-import java.util.Set;
-
-import javax.xml.bind.JAXBException;
-
-import org.apache.taverna.scufl2.api.common.Scufl2Tools;
-import org.apache.taverna.scufl2.api.container.WorkflowBundle;
-import org.apache.taverna.scufl2.api.io.ReaderException;
-import org.apache.taverna.scufl2.api.io.WorkflowBundleReader;
-
-
-/**
- * @author alanrw
- */
-public class ScuflReader implements WorkflowBundleReader {
- public static final String APPLICATION_VND_TAVERNA_SCUFL_XML = "application/vnd.taverna.scufl+xml";
- private static final Set<String> SCUFL_TYPES = new HashSet<String>(
- Arrays.asList(new String[] { APPLICATION_VND_TAVERNA_SCUFL_XML }));
-
- private Scufl2Tools scufl2Tools = new Scufl2Tools();
- private ScuflParser parser;
-
- @Override
- public Set<String> getMediaTypes() {
- return SCUFL_TYPES;
- }
-
- @Override
- public WorkflowBundle readBundle(File bundleFile, String mediaType)
- throws ReaderException, IOException {
- try {
- WorkflowBundle bundle = getParser().parseScufl(bundleFile);
- scufl2Tools.setParents(bundle);
- return bundle;
- } catch (JAXBException e) {
- if (e.getCause() instanceof IOException) {
- IOException ioException = (IOException) e.getCause();
- throw ioException;
- }
- throw new ReaderException("Can't parse SCUFL " + bundleFile, e);
- }
- }
-
- @Override
- public WorkflowBundle readBundle(InputStream inputStream, String mediaType)
- throws ReaderException, IOException {
- try {
- WorkflowBundle bundle = getParser().parseScufl(inputStream);
- scufl2Tools.setParents(bundle);
- return bundle;
- } catch (JAXBException e) {
- if (e.getCause() instanceof IOException) {
- IOException ioException = (IOException) e.getCause();
- throw ioException;
- }
- throw new ReaderException("Can't parse SCUFL", e);
- }
- }
-
- public void setParser(ScuflParser parser) {
- this.parser = parser;
- }
-
- public ScuflParser getParser() throws JAXBException {
- if (parser == null)
- parser = new ScuflParser();
- return parser;
- }
-
- @Override
- public String guessMediaTypeForSignature(byte[] firstBytes) {
- if (firstBytes.length < 100)
- return null;
- // FIXME: Does not deal with potential UTF-16 encoding
-
- // Latin 1 can deal with nasty bytes in binaries
- Charset latin1 = Charset.forName("ISO-8859-1");
- String asLatin1 = new String(firstBytes, latin1);
- if (!asLatin1.contains("http://org.embl.ebi.escience/xscufl/0.1alpha"))
- return null;
- // Good enough - XML is hard to check on so few bytes
- return APPLICATION_VND_TAVERNA_SCUFL_XML;
- }
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-language/blob/316e4a8a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/AbstractExtensionParser.java
----------------------------------------------------------------------
diff --git a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/AbstractExtensionParser.java b/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/AbstractExtensionParser.java
deleted file mode 100644
index c31e71a..0000000
--- a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/AbstractExtensionParser.java
+++ /dev/null
@@ -1,51 +0,0 @@
-/**
- *
- */
-package org.apache.taverna.scufl2.translator.scufl.processorelement;
-/*
- *
- * Licensed to the Apache Software Foundation (ASF) under one
- * or more contributor license agreements. See the NOTICE file
- * distributed with this work for additional information
- * regarding copyright ownership. The ASF licenses this file
- * to you under the Apache License, Version 2.0 (the
- * "License"); you may not use this file except in compliance
- * with the License. You may obtain a copy of the License at
- *
- * http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing,
- * software distributed under the License is distributed on an
- * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
- * KIND, either express or implied. See the License for the
- * specific language governing permissions and limitations
- * under the License.
- *
-*/
-
-
-import org.apache.taverna.scufl2.translator.scufl.ParserState;
-import org.apache.taverna.scufl2.translator.scufl.ScuflExtensionParser;
-
-/**
- * @author alanrw
- */
-public abstract class AbstractExtensionParser implements ScuflExtensionParser {
- private ParserState parserState;
-
- /**
- * @return the parserState
- */
- @Override
- public ParserState getParserState() {
- return parserState;
- }
-
- /**
- * @param parserState the parserState to set
- */
- @Override
- public void setParserState(ParserState parserState) {
- this.parserState = parserState;
- }
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-language/blob/316e4a8a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/AbstractProcessorExtensionParser.java
----------------------------------------------------------------------
diff --git a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/AbstractProcessorExtensionParser.java b/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/AbstractProcessorExtensionParser.java
deleted file mode 100644
index 326a44d..0000000
--- a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/AbstractProcessorExtensionParser.java
+++ /dev/null
@@ -1,49 +0,0 @@
-/**
- *
- */
-package org.apache.taverna.scufl2.translator.scufl.processorelement;
-/*
- *
- * Licensed to the Apache Software Foundation (ASF) under one
- * or more contributor license agreements. See the NOTICE file
- * distributed with this work for additional information
- * regarding copyright ownership. The ASF licenses this file
- * to you under the Apache License, Version 2.0 (the
- * "License"); you may not use this file except in compliance
- * with the License. You may obtain a copy of the License at
- *
- * http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing,
- * software distributed under the License is distributed on an
- * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
- * KIND, either express or implied. See the License for the
- * specific language governing permissions and limitations
- * under the License.
- *
-*/
-
-
-import java.net.URI;
-import java.util.Collections;
-import java.util.List;
-
-/**
- * @author alanrw
- */
-public class AbstractProcessorExtensionParser extends AbstractExtensionParser {
- @Override
- public boolean canHandle(Class<?> c) {
- return c.equals(org.apache.taverna.scufl2.xml.scufl.jaxb.AbstractprocessorType.class);
- }
-
- @Override
- public List<URI> getAdditionalSchemas() {
- return Collections.emptyList();
- }
-
- @Override
- public void parseScuflObject(Object o) {
- System.err.println(this.getClass() + " is not yet implemented");
- }
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-language/blob/316e4a8a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/ApiConsumerExtensionParser.java
----------------------------------------------------------------------
diff --git a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/ApiConsumerExtensionParser.java b/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/ApiConsumerExtensionParser.java
deleted file mode 100644
index b880bc3..0000000
--- a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/ApiConsumerExtensionParser.java
+++ /dev/null
@@ -1,60 +0,0 @@
-/**
- *
- */
-package org.apache.taverna.scufl2.translator.scufl.processorelement;
-/*
- *
- * Licensed to the Apache Software Foundation (ASF) under one
- * or more contributor license agreements. See the NOTICE file
- * distributed with this work for additional information
- * regarding copyright ownership. The ASF licenses this file
- * to you under the Apache License, Version 2.0 (the
- * "License"); you may not use this file except in compliance
- * with the License. You may obtain a copy of the License at
- *
- * http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing,
- * software distributed under the License is distributed on an
- * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
- * KIND, either express or implied. See the License for the
- * specific language governing permissions and limitations
- * under the License.
- *
-*/
-
-
-import java.net.URI;
-import java.net.URISyntaxException;
-import java.net.URL;
-import java.util.Arrays;
-import java.util.List;
-
-/**
- * @author alanrw
- */
-public class ApiConsumerExtensionParser extends AbstractExtensionParser {
- private static final String APICONSUMER_XSD = "/uk/org/taverna/scufl2/translator/scufl/xsd/scufl-apiconsumer.xsd";
-
- @Override
- public boolean canHandle(Class<?> c) {
- return c.equals(org.apache.taverna.scufl2.xml.scufl.jaxb.ApiconsumerType.class);
- }
-
- @Override
- public List<URI> getAdditionalSchemas() {
- URL apiConsumerXsd = getClass().getResource(APICONSUMER_XSD);
- try {
- return Arrays.asList(apiConsumerXsd.toURI());
- } catch (URISyntaxException e) {
- throw new IllegalStateException("Can't find APIConsumer schema "
- + apiConsumerXsd);
- }
- }
-
- @Override
- public void parseScuflObject(Object o) {
- // TODO write to log?
- System.err.println(this.getClass() + " is not yet implemented");
- }
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-language/blob/316e4a8a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/BeanshellExtensionParser.java
----------------------------------------------------------------------
diff --git a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/BeanshellExtensionParser.java b/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/BeanshellExtensionParser.java
deleted file mode 100644
index 1b7f83c..0000000
--- a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/BeanshellExtensionParser.java
+++ /dev/null
@@ -1,60 +0,0 @@
-/**
- *
- */
-package org.apache.taverna.scufl2.translator.scufl.processorelement;
-/*
- *
- * Licensed to the Apache Software Foundation (ASF) under one
- * or more contributor license agreements. See the NOTICE file
- * distributed with this work for additional information
- * regarding copyright ownership. The ASF licenses this file
- * to you under the Apache License, Version 2.0 (the
- * "License"); you may not use this file except in compliance
- * with the License. You may obtain a copy of the License at
- *
- * http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing,
- * software distributed under the License is distributed on an
- * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
- * KIND, either express or implied. See the License for the
- * specific language governing permissions and limitations
- * under the License.
- *
-*/
-
-
-import java.net.URI;
-import java.net.URISyntaxException;
-import java.net.URL;
-import java.util.Arrays;
-import java.util.List;
-
-/**
- * @author alanrw
- */
-public class BeanshellExtensionParser extends AbstractExtensionParser {
- private static final String BEANSHELL_XSD = "/uk/org/taverna/scufl2/translator/scufl/xsd/scufl-beanshell.xsd";
-
- @Override
- public boolean canHandle(Class<?> c) {
- return c.equals(org.apache.taverna.scufl2.xml.scufl.jaxb.BeanshellType.class);
- }
-
- @Override
- public List<URI> getAdditionalSchemas() {
- URL beanshellXsd = getClass().getResource(BEANSHELL_XSD);
- try {
- return Arrays.asList(beanshellXsd.toURI());
- } catch (URISyntaxException e) {
- throw new IllegalStateException("Can't find Beanshell schema "
- + beanshellXsd);
- }
- }
-
- @Override
- public void parseScuflObject(Object o) {
- // TODO write to log?
- System.err.println(this.getClass() + " is not yet implemented");
- }
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-language/blob/316e4a8a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/BiomartExtensionParser.java
----------------------------------------------------------------------
diff --git a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/BiomartExtensionParser.java b/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/BiomartExtensionParser.java
deleted file mode 100644
index 6862d9c..0000000
--- a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/BiomartExtensionParser.java
+++ /dev/null
@@ -1,60 +0,0 @@
-/**
- *
- */
-package org.apache.taverna.scufl2.translator.scufl.processorelement;
-/*
- *
- * Licensed to the Apache Software Foundation (ASF) under one
- * or more contributor license agreements. See the NOTICE file
- * distributed with this work for additional information
- * regarding copyright ownership. The ASF licenses this file
- * to you under the Apache License, Version 2.0 (the
- * "License"); you may not use this file except in compliance
- * with the License. You may obtain a copy of the License at
- *
- * http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing,
- * software distributed under the License is distributed on an
- * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
- * KIND, either express or implied. See the License for the
- * specific language governing permissions and limitations
- * under the License.
- *
-*/
-
-
-import java.net.URI;
-import java.net.URISyntaxException;
-import java.net.URL;
-import java.util.Arrays;
-import java.util.List;
-
-/**
- * @author alanrw
- */
-public class BiomartExtensionParser extends AbstractExtensionParser {
- private static final String BIOMART_XSD = "/uk/org/taverna/scufl2/translator/scufl/xsd/scufl-biomart.xsd";
-
- @Override
- public boolean canHandle(Class<?> c) {
- return c.equals(org.apache.taverna.scufl2.xml.scufl.jaxb.BiomartType.class);
- }
-
- @Override
- public List<URI> getAdditionalSchemas() {
- URL biomartXsd = getClass().getResource(BIOMART_XSD);
- try {
- return Arrays.asList(biomartXsd.toURI());
- } catch (URISyntaxException e) {
- throw new IllegalStateException("Can't find Biomart schema "
- + biomartXsd);
- }
- }
-
- @Override
- public void parseScuflObject(Object o) {
- // TODO write to log?
- System.err.println(this.getClass() + " is not yet implemented");
- }
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-language/blob/316e4a8a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/BiomobyExtensionParser.java
----------------------------------------------------------------------
diff --git a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/BiomobyExtensionParser.java b/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/BiomobyExtensionParser.java
deleted file mode 100644
index 96a8516..0000000
--- a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/BiomobyExtensionParser.java
+++ /dev/null
@@ -1,63 +0,0 @@
-/**
- *
- */
-package org.apache.taverna.scufl2.translator.scufl.processorelement;
-/*
- *
- * Licensed to the Apache Software Foundation (ASF) under one
- * or more contributor license agreements. See the NOTICE file
- * distributed with this work for additional information
- * regarding copyright ownership. The ASF licenses this file
- * to you under the Apache License, Version 2.0 (the
- * "License"); you may not use this file except in compliance
- * with the License. You may obtain a copy of the License at
- *
- * http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing,
- * software distributed under the License is distributed on an
- * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
- * KIND, either express or implied. See the License for the
- * specific language governing permissions and limitations
- * under the License.
- *
-*/
-
-
-import java.net.URI;
-import java.net.URISyntaxException;
-import java.net.URL;
-import java.util.Arrays;
-import java.util.List;
-
-/**
- * @author alanrw
- */
-public class BiomobyExtensionParser extends AbstractExtensionParser {
-
- private static final String BIOMOBY_XSD = "/uk/org/taverna/scufl2/translator/scufl/xsd/scufl-biomoby.xsd";
-
- @Override
- public boolean canHandle(Class<?> c) {
- return c.equals(org.apache.taverna.scufl2.xml.scufl.jaxb.BiomobyobjectType.class)
- || c.equals(org.apache.taverna.scufl2.xml.scufl.jaxb.BiomobyparserType.class)
- || c.equals(org.apache.taverna.scufl2.xml.scufl.jaxb.BiomobywsdlType.class);
- }
-
- @Override
- public List<URI> getAdditionalSchemas() {
- URL apiConsumerXsd = getClass().getResource(BIOMOBY_XSD);
- try {
- return Arrays.asList(apiConsumerXsd.toURI());
- } catch (URISyntaxException e) {
- throw new IllegalStateException("Can't find APIConsumer schema "
- + apiConsumerXsd);
- }
- }
-
- @Override
- public void parseScuflObject(Object o) {
- // TODO write to log?
- System.err.println(this.getClass() + " is not yet implemented");
- }
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-language/blob/316e4a8a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/LocalExtensionParser.java
----------------------------------------------------------------------
diff --git a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/LocalExtensionParser.java b/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/LocalExtensionParser.java
deleted file mode 100644
index cf2ec42..0000000
--- a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/LocalExtensionParser.java
+++ /dev/null
@@ -1,60 +0,0 @@
-/**
- *
- */
-package org.apache.taverna.scufl2.translator.scufl.processorelement;
-/*
- *
- * Licensed to the Apache Software Foundation (ASF) under one
- * or more contributor license agreements. See the NOTICE file
- * distributed with this work for additional information
- * regarding copyright ownership. The ASF licenses this file
- * to you under the Apache License, Version 2.0 (the
- * "License"); you may not use this file except in compliance
- * with the License. You may obtain a copy of the License at
- *
- * http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing,
- * software distributed under the License is distributed on an
- * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
- * KIND, either express or implied. See the License for the
- * specific language governing permissions and limitations
- * under the License.
- *
-*/
-
-
-import java.net.URI;
-import java.net.URISyntaxException;
-import java.net.URL;
-import java.util.Arrays;
-import java.util.List;
-
-/**
- * @author alanrw
- */
-public class LocalExtensionParser extends AbstractExtensionParser {
- private static final String LOCAL_XSD = "/uk/org/taverna/scufl2/translator/scufl/xsd/scufl-local.xsd";
-
- @Override
- public boolean canHandle(Class<?> c) {
- return c.equals(org.apache.taverna.scufl2.xml.scufl.jaxb.LocalType.class);
- }
-
- @Override
- public List<URI> getAdditionalSchemas() {
- URL localXsd = getClass().getResource(LOCAL_XSD);
- try {
- return Arrays.asList(localXsd.toURI());
- } catch (URISyntaxException e) {
- throw new IllegalStateException("Can't find Local Service schema "
- + localXsd);
- }
- }
-
- @Override
- public void parseScuflObject(Object o) {
- // TODO write to log?
- System.err.println(this.getClass() + " is not yet implemented");
- }
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-language/blob/316e4a8a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/RshellExtensionParser.java
----------------------------------------------------------------------
diff --git a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/RshellExtensionParser.java b/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/RshellExtensionParser.java
deleted file mode 100644
index a884b18..0000000
--- a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/RshellExtensionParser.java
+++ /dev/null
@@ -1,60 +0,0 @@
-/**
- *
- */
-package org.apache.taverna.scufl2.translator.scufl.processorelement;
-/*
- *
- * Licensed to the Apache Software Foundation (ASF) under one
- * or more contributor license agreements. See the NOTICE file
- * distributed with this work for additional information
- * regarding copyright ownership. The ASF licenses this file
- * to you under the Apache License, Version 2.0 (the
- * "License"); you may not use this file except in compliance
- * with the License. You may obtain a copy of the License at
- *
- * http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing,
- * software distributed under the License is distributed on an
- * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
- * KIND, either express or implied. See the License for the
- * specific language governing permissions and limitations
- * under the License.
- *
-*/
-
-
-import java.net.URI;
-import java.net.URISyntaxException;
-import java.net.URL;
-import java.util.Arrays;
-import java.util.List;
-
-/**
- * @author alanrw
- */
-public class RshellExtensionParser extends AbstractExtensionParser {
- private static final String RSHELL_XSD = "/uk/org/taverna/scufl2/translator/scufl/xsd/scufl-rshell.xsd";
-
- @Override
- public boolean canHandle(Class<?> c) {
- return c.equals(org.apache.taverna.scufl2.xml.scufl.jaxb.RshellType.class);
- }
-
- @Override
- public List<URI> getAdditionalSchemas() {
- URL rshellXsd = getClass().getResource(RSHELL_XSD);
- try {
- return Arrays.asList(rshellXsd.toURI());
- } catch (URISyntaxException e) {
- throw new IllegalStateException("Can't find RShell schema "
- + rshellXsd);
- }
- }
-
- @Override
- public void parseScuflObject(Object o) {
- // TODO write to log?
- System.err.println(this.getClass() + " is not yet implemented");
- }
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-language/blob/316e4a8a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/SoaplabExtensionParser.java
----------------------------------------------------------------------
diff --git a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/SoaplabExtensionParser.java b/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/SoaplabExtensionParser.java
deleted file mode 100644
index 573d446..0000000
--- a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/SoaplabExtensionParser.java
+++ /dev/null
@@ -1,60 +0,0 @@
-/**
- *
- */
-package org.apache.taverna.scufl2.translator.scufl.processorelement;
-/*
- *
- * Licensed to the Apache Software Foundation (ASF) under one
- * or more contributor license agreements. See the NOTICE file
- * distributed with this work for additional information
- * regarding copyright ownership. The ASF licenses this file
- * to you under the Apache License, Version 2.0 (the
- * "License"); you may not use this file except in compliance
- * with the License. You may obtain a copy of the License at
- *
- * http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing,
- * software distributed under the License is distributed on an
- * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
- * KIND, either express or implied. See the License for the
- * specific language governing permissions and limitations
- * under the License.
- *
-*/
-
-
-import java.net.URI;
-import java.net.URISyntaxException;
-import java.net.URL;
-import java.util.Arrays;
-import java.util.List;
-
-/**
- * @author alanrw
- */
-public class SoaplabExtensionParser extends AbstractExtensionParser {
- private static final String SOAPLAB_XSD = "/uk/org/taverna/scufl2/translator/scufl/xsd/scufl-soaplab.xsd";
-
- @Override
- public boolean canHandle(Class<?> c) {
- return c.equals(org.apache.taverna.scufl2.xml.scufl.jaxb.SoaplabwsdlType.class);
- }
-
- @Override
- public List<URI> getAdditionalSchemas() {
- URL soaplabXsd = getClass().getResource(SOAPLAB_XSD);
- try {
- return Arrays.asList(soaplabXsd.toURI());
- } catch (URISyntaxException e) {
- throw new IllegalStateException("Can't find Soaplab schema "
- + soaplabXsd);
- }
- }
-
- @Override
- public void parseScuflObject(Object o) {
- // TODO write to log?
- System.err.println(this.getClass() + " is not yet implemented");
- }
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-language/blob/316e4a8a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/StringConstantExtensionParser.java
----------------------------------------------------------------------
diff --git a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/StringConstantExtensionParser.java b/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/StringConstantExtensionParser.java
deleted file mode 100644
index d692dd2..0000000
--- a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/StringConstantExtensionParser.java
+++ /dev/null
@@ -1,91 +0,0 @@
-/**
- *
- */
-package org.apache.taverna.scufl2.translator.scufl.processorelement;
-/*
- *
- * Licensed to the Apache Software Foundation (ASF) under one
- * or more contributor license agreements. See the NOTICE file
- * distributed with this work for additional information
- * regarding copyright ownership. The ASF licenses this file
- * to you under the Apache License, Version 2.0 (the
- * "License"); you may not use this file except in compliance
- * with the License. You may obtain a copy of the License at
- *
- * http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing,
- * software distributed under the License is distributed on an
- * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
- * KIND, either express or implied. See the License for the
- * specific language governing permissions and limitations
- * under the License.
- *
-*/
-
-
-import java.net.URI;
-import java.net.URISyntaxException;
-import java.net.URL;
-import java.util.Arrays;
-import java.util.List;
-
-import org.apache.taverna.scufl2.api.activity.Activity;
-import org.apache.taverna.scufl2.api.configurations.Configuration;
-import org.apache.taverna.scufl2.api.port.OutputActivityPort;
-import org.apache.taverna.scufl2.api.profiles.ProcessorBinding;
-
-import org.apache.taverna.scufl2.xml.scufl.jaxb.StringconstantType;
-
-import com.fasterxml.jackson.databind.node.ObjectNode;
-
-/**
- * @author alanrw
- */
-public class StringConstantExtensionParser extends AbstractExtensionParser {
- private static final String STRINGCONSTANT_XSD = "/uk/org/taverna/scufl2/translator/scufl/xsd/scufl-stringconstant.xsd";
-
- private static final String VALUE = "value";
-
- public static URI CONSTANT = URI
- .create("http://ns.taverna.org.uk/2010/activity/constant");
-
- @Override
- public boolean canHandle(Class<?> c) {
- return c.equals(org.apache.taverna.scufl2.xml.scufl.jaxb.StringconstantType.class);
- }
-
- @Override
- public List<URI> getAdditionalSchemas() {
- URL stringConstantXsd = getClass().getResource(STRINGCONSTANT_XSD);
- try {
- return Arrays.asList(stringConstantXsd.toURI());
- } catch (URISyntaxException e) {
- throw new IllegalStateException(
- "Can't find String Constant schema " + stringConstantXsd);
- }
- }
-
- @Override
- public void parseScuflObject(Object o) {
- StringconstantType sc = (StringconstantType) o;
- Configuration configuration = new Configuration();
- configuration.setParent(getParserState().getCurrentProfile());
- configuration.setType(CONSTANT.resolve("#Config"));
- ((ObjectNode) configuration.getJson()).put("string", sc.getValue());
-
- Activity activity = new Activity();
- getParserState().setCurrentActivity(activity);
- activity.setParent(getParserState().getCurrentProfile());
- activity.setType(CONSTANT);
- OutputActivityPort valuePort = new OutputActivityPort(activity, VALUE);
- valuePort.setDepth(0);
- valuePort.setGranularDepth(0);
- configuration.setConfigures(activity);
-
- ProcessorBinding pb = new ProcessorBinding();
- pb.setParent(getParserState().getCurrentProfile());
- pb.setBoundProcessor(getParserState().getCurrentProcessor());
- pb.setBoundActivity(activity);
- }
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-language/blob/316e4a8a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/WsdlExtensionParser.java
----------------------------------------------------------------------
diff --git a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/WsdlExtensionParser.java b/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/WsdlExtensionParser.java
deleted file mode 100644
index 9537445..0000000
--- a/taverna-scufl2-scufl/src/main/java/org/apache/taverna/scufl2/translator/scufl/processorelement/WsdlExtensionParser.java
+++ /dev/null
@@ -1,59 +0,0 @@
-/**
- *
- */
-package org.apache.taverna.scufl2.translator.scufl.processorelement;
-/*
- *
- * Licensed to the Apache Software Foundation (ASF) under one
- * or more contributor license agreements. See the NOTICE file
- * distributed with this work for additional information
- * regarding copyright ownership. The ASF licenses this file
- * to you under the Apache License, Version 2.0 (the
- * "License"); you may not use this file except in compliance
- * with the License. You may obtain a copy of the License at
- *
- * http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing,
- * software distributed under the License is distributed on an
- * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
- * KIND, either express or implied. See the License for the
- * specific language governing permissions and limitations
- * under the License.
- *
-*/
-
-
-import java.net.URI;
-import java.net.URISyntaxException;
-import java.net.URL;
-import java.util.Arrays;
-import java.util.List;
-
-/**
- * @author alanrw
- */
-public class WsdlExtensionParser extends AbstractExtensionParser {
- private static final String WSDL_XSD = "/uk/org/taverna/scufl2/translator/scufl/xsd/scufl-wsdl.xsd";
-
- @Override
- public boolean canHandle(Class<?> c) {
- return c.equals(org.apache.taverna.scufl2.xml.scufl.jaxb.WsdlType.class);
- }
-
- @Override
- public List<URI> getAdditionalSchemas() {
- URL wsdlXsd = getClass().getResource(WSDL_XSD);
- try {
- return Arrays.asList(wsdlXsd.toURI());
- } catch (URISyntaxException e) {
- throw new IllegalStateException("Can't find WSDL schema " + wsdlXsd);
- }
- }
-
- @Override
- public void parseScuflObject(Object o) {
- // TODO write to log?
- System.err.println(this.getClass() + " is not yet implemented");
- }
-}