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Taverna, Biocatalogue, and myExperiment:a three-legged foundation for effective collaboration in E-science
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GeoClouds workshop, Indianapolis, IN, Sept. 17, 2009 - P. Missier
A collaborative talk by Paolo Missier Information Management Group School of Computer Science, University of Manchester, UK
with additional material kindly shared by:Prof. Dave DeRoure and David Newman, University of Southampton
Prof. Carole Goble and the e-Labs design group, University of Manchester1
Scientific Workflow Management System
Taverna, Biocatalogue, and myExperiment:a three-‐legged founda;on for effec;ve collabora;onin E-‐science
Sunday, 13 March 2011
ESIP meeting,Santa Barbara, CA, July 2009 - P. Missier
What is the myGrid Project?
UK e-‐Science pilot project since 2001. Centred at Manchester, Southampton and the EMBL-‐EBI Part of Open Middleware Infrastructure InsEtute UK hFp://www.omii.ac.uk.
Mixture of developers, bioinformaEcians and researchers An alliance of contribuEng projects and partners Open source development and content LGPL or BSD Infrastructure We don’t own any resources (apart from catalogues) Or a Grid.
Sunday, 13 March 2011
ESIP meeting,Santa Barbara, CA, July 2009 - P. Missier
Graphical WorkbenchFor Professionals
Plug-‐in architectureNested WorkflowsDrag and DropWiring together
Taverna
Rapidly incorporate new service without coding. Not restricted to predetermined servicesAccess to local and remote resources and analysis tools3500+ service operaEons available when start up
Sunday, 13 March 2011
ESIP meeting,Santa Barbara, CA, July 2009 - P. Missier
What do Scientists use Taverna for?
Systems biology model buildingProteomicsSequence analysisProtein structure predicEonGene/protein annotaEon Microarray data analysisQTL studiesQSAR studiesMedical image analysisPublic Health care epidemiologyHeart model simulaEonsHigh throughput screeningPhenotypical studiesPhylogeny StaEsEcal analysis Text mining
Astronomy, Music, Meteorology
Netherlands BioinformaEcs CentreGenome Canada BioinformaEcs PlaaormBioMOBYUS FLOSS social science programRENCISysMO ConsorEumFrench SIGENAE farm animals projectThaiGridCARMEN Neuroscience projectSPINE consorEumEU Enfin, EMBRACE, BioSapian, CasimirEU SysMO ConsorEumNERC Centre for Ecology and HydrologyBergen Centre for ComputaEonal BiologyMax-‐Planck insEtute for Plant Breeding ResearchGenoa Cancer Research CentreAstroGrid
30 USA academic and research ins;tu;ons
Sunday, 13 March 2011
ESIP meeting,Santa Barbara, CA, July 2009 - P. Missier
Who else is in this space?
5
Kepler
Triana
BPEL
Ptolemy II
Taverna
Trident
BioExtract
Sunday, 13 March 2011
Socially share, discover and reuse workflows and other methods.
Cooperative bazaar.
l Sunday 10th May:1748 registered users, 143 groups, 669 workflows, 197 files, 52 packs56 different countries. Top 4: UK, US, The Netherlands, Germany
www.myexperiment.org
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• To establish quality, relevance, trust
• To track information attribution through complex transformations
• To describe one’s experiment to others, for understanding / reuse
• To provide evidence in support of scientific claims
• To enable post hoc process analysis for improvement, re-design
Linköping, Sweden -- January 2010
Why data provenance matters, if done right
The W3C Incubator on Provenance has been collecting numerous use cases:http://www.w3.org/2005/Incubator/prov/wiki/Use_Cases#
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Goals, expected contributions• Established technology provider - open-source
– traditionally active in the bioinf space– but also involved in the e-Lico EU project (data mining
portal)– large community base, established production
environment
• Main goal:– to offer our workflow and workflow repository technology,
put it to the test on the challenges of data preservation pipelines
• Challenges:– expect new requirements on our current technology
• robust, high-volume data pipelines• workflow provenance -- process evolution• data provenance
10
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