25/07/12 Input from Taverna team – slides by Shoaib Sufi Taverna – State of the nation.
2013-05-29 Taverna Provenance
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TAVERNA PROVENANCE Stian Soiland - Reyes, University of Manchester https://github.com/wf4ever/taverna - prov This work is licensed under a Creative Commons Attribution 3.0 Unported License 2013-05-29
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Slide deck presenting the Provenance support of Taverna workflow system, detailing architecture, ontologies and how results are exported as Research Object bundles, including the PROV-O provenance of the workflow run. This upload is the PDF version, for PPTX source, see https://www.slideshare.net/soilandreyes/20130529-taverna-provenance-pptx-source/
Transcript of 2013-05-29 Taverna Provenance
TAVERNAPROVENANCE
Stian Soiland-Reyes, University of Manchester
https://github.com/wf4ever/taverna-prov
This work is licensed under a
Creative Commons Attribution 3.0 Unported
License
2013-05-29
ARCHITECTURE
Provenance
Workflow
Workflow run
Process run (iteration)
Parameter bindings
Data
Lists
Values
References
Errors
Process1
portA B C
D E
Process2
portA B C
D E
Invoke
Retry
Failover
Loop
Error bounce
Provenance
Parallelise
Processor
dispatch stack
layer injected by plugin
P Missier, S Soiland-Reyes, S Owen, W Tan, A Nenadic, I Dunlop, C
Goble: (2010, January). Taverna, reloaded. In Scientific and
Statistical Database Management (pp. 471-481). Springer Berlin
Heidelberg. DOI 10.1007/978-3-642-13818-8_33
captures provenance trace
Workflow execution
ONTOLOGY STACK
tavernaprov
• Lists, errors, byte content, checksums
wfprov + wfdesc
• Workflow execution, parameters, processes
PROV-O
• Activity start/stop, generation of values
http://purl.org/wf4ever/wfprov#
http://www.w3.org/ns/prov-o#
http://ns.taverna.org.uk/2012/tavernaprov/
INTERMEDIATE RESULTS
• Within the Taverna Workbench, the provenance database is
used for showing intermediate results and previous runs
Clicking a processor
Inputs and outputs of individual invocations
WORKFLOW RESULTS (FOLDER)
workflowrun.prov.ttl
(RDF)
outputA.txt
outputC.jpg
outputB/
Folder structure
intermediates/
1.txt2.txt
3.txt
de/def2e58b-50e2-4949-9980-fd310166621a.txt
Workflow outputs, one file per value
Provenance trace
Values from intermediate steps in workflow
WORKFLOW RESULTS (BUNDLE)
workflowrun.prov.ttl
(RDF)
outputA.txt
outputC.jpg
outputB/
https://w3id.org/bundle
intermediates/
1.txt2.txt
3.txt
de/def2e58b-50e2-4949-9980-fd310166621a.txt .ro/manifest.json
inputA.txtworkflow
URI
references
attribution
execution
environment
Aggregating in Research Object
ZIP folder structure (RO Bundle)
mimetype
application/vnd.wf4ever.robundle+zip
ACKNOWLEDGEMENTS
• Paolo Missier – initial provenance engine for Taverna 2
• Ian Dunlop – provenance capture execution layer
• Khalid Belhajjame – ontologies
• Alexandra Nenadic – intermediates, folder structure
• W3C Provenance working group – PROV-O
• Funded by European Commission’s 7th FWP FP7-ICT-2007-6
270192 and ESPRC platform grant EP/G026238/1
QUESTIONS?
Twitter: @soilandreyes
Skype: soiland
Email: [email protected]
http://soiland-reyes.com/stian/work/
http://practicalprovenance.wordpress.com/
