Callimachus Enterprise 1.3 Tutorial
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Slides for a half-day tutorial on Callimachus Enterprise. Originally delivered at the Conference on Semantics in Healthcare and Life Sciences (CSHALS) 2014 in Boston, MA, USA.
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Callimachus Enterprise 1.3 Tutorial
- 2. The Bipolar Enterprise <HTML> Enterprise Data Documents
- 4. Today’s Data on the Web
- 5. Linked Data on the Web Person Michael a Galway Airport first name Hausenblas last name collector collected at collected by my data measurement ... a measurement date 2011-01-01 or value units of measure 0 degrees Centigrade
- 6. Chris Welty “Semantic Technology is not an end in itself, it is a means to an end, a set of tools and techniques for supporting modern data analytics. It goes alongside other essential technologies like machine learning, databases, information retrieval, etc.”
- 8. Callimachus Enterprise A data integration platform Callimachus Enterprise supports distributed, in-browser workflow creation, editing and publication using the Linked Data model.
- 9. Callimachus Enterprise Callimachus Open Source Licensed Community supported Commercial support in-browser development, deployment, backups Linked Data publication User profiles, social sharing Document, app management OpenAnnotation support External datasources Shared deployments, realms Enterprise management
- 10. Structured data on the Web David Wood Marsha Zaidman Luke Ruth WITH Michael Hausenblas oo rP riz es FOREWORD BY Tim Berners-Lee 2 D MANNING
- 11. Callimachus Enterprise Files and Formats Actions:! • SPARQL 1.1 queries • SPARQL 1.1 Update • XProc pipelines • XQuery • PURLs RDF Constructs:! • RDF Turtle • RDF/XML • Folders • SKOS Concepts • RDFS Classes Users & Groups:! • User profiles • Groups & domains Documents:! • DocBook articles and books • HTML (optional theming) • CSS files • JavaScript files • XSLT files • Plain text files • Image files (PNG, JPG, GIF, SVG) • PDF files Data Sources:! • RDF Databases • SQL Databases • HTTP(S) servers returning text or XML • Other Callimachus servers
- 12. Callimachus Enterprise Social features:! • OpenAnnotation tags and categories for all resources. • Timeline of user activities. • Exposed as Linked Data User Profile Document management:! • Documents & folders associated with user profiles. • Folders can contain data, documents and Callimachus applications. • In-browser editing tools are available for many document types.
- 13. Callimachus Callimachus Enterprise or REST API named query endpoint(s) OWL Class Callimachus Template XHTML+RDFa or Generated HTML Page Generated HTML Form AJ AX XProc pipeline
- 14. Data XProc pipeline named query OWL Class Callimachus Template XHTML+RDFa Web pages
- 15. Rendering Instances of OWL Classes Advantages:! • Most simple approach; lots of examples and documentation Considerations:! • • Need to associate OWL classes in your data with Callimachus classes via the class explorer. Limited to data in the default RDF database (Sesame) OWL Class Callimachus Template XHTML+RDFa or Generated HTML Page Generated HTML Form
- 16. SPARQL Named Queries Advantages:! • Like a stored procedure called via a URL • Accepts parameters! • named query Can query multiple SPARQL endpoints Considerations:! • Need to know SPARQL syntax Callimachus Template XHTML+RDFa or Generated HTML Page Generated HTML Form
- 17. XProc Pipelines Advantages:! • Accepts parameters! • Can combine data from various sources in complex ways, including remote HTTP calls • Callimachus Template XHTML+RDFa Can render results into any textual data type Considerations:! • XProc pipeline Need to learn XProc syntax: http://xproc.org/ or Generated HTML Page Generated HTML Form
- 18. Getting Started
- 21. User Invitation
- 22. • Your custom J2EE authentication here!
- 27. You can upload a number of different file types into Callimachus, but start easy by choosing a PDF document or an image.
- 28. You Can Upload: • PDF files (presentations or documents) • Text documents • Image files (.png, .jpg, .gif, .svg) • HTML files, CSS stylesheets, JavaScript files • RDF data! (Turtle, N3, RDF/XML) Developers can also create Linked Data applications!
- 29. Try uploading a PDF file
- 33. You can get back to your profile from anywhere by selecting the “My Documents” option from the main menu.
- 36. Bonobos!
- 37. Bonobos! @prefix dbpedia: <http://dbpedia.org/resource/> . @prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> . @prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> . ! <Mary> a dbpedia:Bonobo ; rdfs:label "Mary" ; rdfs:comment "Mary is a pleasant bonobo.” .
- 38. Bonobos! dbpedia: Bonobo a Mary rdfs:label rdfs:comment Mary Mary is a pleasant bonobo.
- 42. Biomarkerpedia
- 43. Biomarkerpedia @prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> . @prefix bmterms: <http://biomarkerpedia.org/rdf/2013/ schema/1.0/schema.ttl#> . ! <her2> a bmterms:Biomarker, bmterms:Protein ; rdfs:label "HER2" ; bmterms:related <erbb2> ; bmterms:therpeuticArea bmareas:oncology ; bmterms:therpeuticArea bmareas:breast_cancer ; bmterms:drug drug:Ado-Trastuzumab-Emtansine ; bmterms:device device:INFORM-HER2-Dual-ISH-DNA-Probe-cocktail-assay ; bmterms:cro bmo:wuxiapptec .
- 44. Biomarkerpedia bmterms: Protein bmterms: Biomarker ERBB2 a a bmterms: related her2 bmterms: therapeuticArea rdfs:label bmterms: device HER2 bmterms: cro bmterms: therapeuticArea bmterms: oncology bmterms: breast_cancer rdfs:label INFORM HER2 Dual ISH DNA Probe cocktail assay rdfs:label Wuxi AppTec
- 48. Contributing to • Callimachus Open Source Developers • Server • • Some JavaScript, Bash/BAT • • Mostly Java RDF, SPARQL 1.1, PURLs, XProc, XSLT, XQuery Client: • (X)HTML, RDFa, JavaScript/JQuery, Bootstrap 3, Less, CSS3 • Documents in DocBook articles and books
- 49. Contributing to • Callimachus Enterprise Corporate Developers • Feature requests • • • Considered on a case-by-case basis Often associated with a services contract Code contributions • Accepted with appropriate legal releases/ licenses
- 50. Getting Support • Callimachus Open Source users can join community discussions via http://callimachusproject.org • Callimachus Enterprise customers can open a support ticket by sending email to support@3roundstones.com • Urgent requests can be made by calling 3 Round Stones at +1.877.290.2127. Please note that we are located in the U.S. Eastern timezone.