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Tools Recommended for Semantic Infrastructure Work
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Supported CBIIT application structures, such as the Java platform, Tomcat, JBOSS, Ant, and Maven, are discussed in the architecture sections of this roadmap and the caGrid 2.0 Roadmap, 6 - caGrid 2.0 Architecture and 6 - Semantic Infrastructure 2.0 Architecture. Additional standards are discussed in section 10.4 - CBIIT Project Recommendations of the caGrid 2.0 Roadmap and on the VCDE WS Standards Efforts page. |
The tools and libraries listed here have been identified as being of possible help in certain aspects of the Semantic Infrastructure 2.0 Roadmap project and development of the architecture. The tools listed below have not been formally described as supported by CBIIT at this time. However, they suggest the type of components and architecture expected to best satisfy project requirements.
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ARQ (openjena.org) - Supports the W3C standard for RDF queries. This is packaged with Jena and can be used against Jena models.
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These systems can be used in combinations. For example, OWL files created with OwlAPI can be read by Jena. However, Jena TDB is specific to Jena, and you must use Jena to access it. See below for persistence methods. |
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db2rq (wiwiss.fu-berline.de) - Not technically a general purpose store, db2rq provides a semantic reference layer to an existing RDBMS environment, allowing for SPARQL and other interactions within a given environment.
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These systems can also interact. Specifically Jena can access Sesame through a model factory component and Sesame can access Jena through a SAIL. This does not indicate compatibility, but rather an abstraction. This means that the database tables created by Jena SDB do not match the RDBMS tables generated by Sesame. However, as an example, code written using Jena as an interface, if written correctly, can be independent of the persistence method. |
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These are defined as a way to provide methods of representing and executing decision support, orchestration, analysis and many other aspects of application functionality. They share a way to represent certain behaviors for which a more concise language has been created than traditional programming languages. Some inference and rule systems support standards such as OWL DL (Description Logics), or RuleML (Markup Language), or RIF (Rule Interchange Format). In addition, there may be extensions or additional functionality which make them suitable.
SILK (silk.semwebcentral.org) - SILK extends the expressive power of SPARQL, OWL-RL, RIF-BLD, and is designed with biomedical projects in mind.
SQI-Prolog (swi-prolog.org) - SQI-Prolog provides implementation of the Prolog language with support for RDF, OWL and SPARQL. Scalable to available memory and can be embedded in Java applications.
DLVHEX (kr.tuwien.ac.at/research/systems/dlvhex/) - DLVHEX is a prototype application for providing reasoning with OWL ontologies, with SPARQL plugin support.
RDF and OWL Tools
Pellet (clarkparsia.com) - Pellet is an OWL 2 (partial) reasoner providing the core classification functionality. Pellet is broadly used and integrated into various platforms including Protege 4 and TopBraid Composer. Pellet is written directly in Java and so can easily be integrated into other java applications directly without external configurations or implementations.
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Drools Expert (jboss.org) - Drools is a component of the JBoss community. Drools is described as a business logic integration platform. It has a number of components which may be integrated to provide different support including a managed rule repository. Drools is an implementation of the rete algorithm. Drools supports a proprietary language as well as an XML representation of its own language. Transformations of RuleML to Drools may be available.
Ontobroker (ontoprise.de) - Ontobroker is a commercial package which provides support for high performance reasoning for W3C standards such as OWL, RIF, RDF(S), and SPARQL. Ontobroker integrates to multiple database systems and supports web service interfaces. Ontostudio provides a visual modeling tool for work with Ontobroker.
FLORA-2 (flora.sourceforge.net) - Flora is an object-oriented rule language and implementation of the RIF standard. It does not appear to be currently developed, but may have application here.
Flow Management for Services, Processes and web Applications
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TopBraid Composer (topquadrant.com) - TopBraid Composer is available in both a community edition and a commercial license version. TopBraid Composer Community Edition provides an Eclipse plugin-based approach to ontology editing. This allows for the integration of other tools via the OSGI standard, and provides a basis for using other Eclipse-based tools. TopBraid Composer uses the Jena tool to access ontologies and shares its limitations. In addition, the community edition is limited to the editing of OWL or RDF files and does not support access of database stores. It does support SPARQL as part of its functionality, and utilizes the Eclipse approach of projects.
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Since there is no open source or community tool for accessing stores other than text files, many developers use Protege 4 or TopBraid Composer, and then create scripted or programmed solutions to upload models into those stores. However, there are other significant additions to functionality in the commercial versions of TopBraid Composer that are not addressed here. |
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