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Marine Knowledge Meeting, 11-12 Oct 2012, Brussels: All About iMarine
 

Marine Knowledge Meeting, 11-12 Oct 2012, Brussels: All About iMarine

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iMarine is empowering users in the marine community and beyond by providing a highly efficient e-Infrastructure to accelerate data discovery, exchange, and analysis, tools and platforms that ...

iMarine is empowering users in the marine community and beyond by providing a highly efficient e-Infrastructure to accelerate data discovery, exchange, and analysis, tools and platforms that facilitates scientific discovery. Funded by the European Commission's 7th Framework Programme, a number of iMarine services are already available through the iMarine Gateway supplying cross disciplinary data supporting experts in the field.

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    Marine Knowledge Meeting, 11-12 Oct 2012, Brussels: All About iMarine Marine Knowledge Meeting, 11-12 Oct 2012, Brussels: All About iMarine Presentation Transcript

    • iMarineDonatella Castelli (CNR-ISTI) Anton Ellebroek (FAO) Marc Taconet (FAO)Pasquale Pagano (CNR-ISTI)
    • Outline1. Project Info & Objectives (D. Castelli)2. e-Infrastructure seletected capabilities (A.Ellenbroek)3. e-Infrastructure governance (M. Taconet)4. Concluding remarks (M. Taconet) Marine Knowledge All Projects meeting, 11-12 October 2012
    • iMarine project info• Research Infrastructures CP & CSA funded by the European Commission under the FP7 Capacities Programme - eInfrastructure Unit DG INFSO• 1 Nov 2011 - 30 Apr 2014• 13 partners• 660 p/m co-funded by EU + 123 p/m in-kind contribution from externals collaborators Marine Knowledge All Projects meeting, 11-12 October 2012
    • iMarine Community Marine Knowledge All Projects meeting, 11-12 October 2012
    • ObjectiveLaunch an initiative aimed at establishing andoperating an e-infrastructure contributing to theimplementation of the principles of the EcosystemApproach to Fisheries Management andConservation of Marine Living Resources. Marine Knowledge All Projects meeting, 11-12 October 2012
    • Implementing the EA• Analysis and processing of a large amount of heterogeneous, across-domain produced information• Multidisciplinary & multifacets collaboration at the local, national, regional and international levels Marine resource assessment Socio- Habitat types economic aspects Inventories of biological information Physical and Fishery chemical operation, features processingand trade Marine Knowledge All Projects meeting, 11-12 October 2012
    • e-InfrastructureElecronic platform operated by a responsibleentity offering an open set of basic enablingservices (including access to resources) to adistributed Community of Practice. Byexploiting these shared services the members ofthe Community of Practice realise economies ofscale. Marine Knowledge All Projects meeting, 11-12 October 2012
    • iMarine focus … «The creation of the marine knowledge begins with the observation of the sea and oceans. Data fromAssemble these observations are assembled, then analysed to create information and knowledge. Subsequently, the knowledge can be applied to Analyse deliver smart sustainable growth, to assess the health of the marine ecosystem or to protect coastal communities.»Production Marine Knowledge 2020 Communication … Marine Knowledge All Projects meeting, 11-12 October 2012
    • iMarine offer …Assemble AnalyseProduction Functionality Capacity … Marine Knowledge All Projects meeting, 11-12 October 2012
    • Building upon existing e-Infrastructures e-Infrastructure services Genesi- GBIF DEC MyOcean EGI (Grid&Cloud) VENUS-C (cloud) EMODNET Marine Knowledge All Projects meeting, 11-12 October 2012
    • e-Infastructure ecosystem• Interoperability ‒ Each e-Infrastructure can outsource required facilities to other e- Infrastructures – The same e-infrastructure can play both provider and consumer roles• Competition – The most effective and sustainable e-Infrastructures will survive Marine Knowledge All Projects meeting, 11-12 October 2012
    • Data infrastructure components e-Infrastructure software system Physical architecture (computing & storage resouces) Data & sw tool resources Governing procedures and policies Marine Knowledge All Projects meeting, 11-12 October 2012
    • Software system ApplicationBusiness Ecological Time Series Workspace VesselDocument Niche ActivityWorkflow Modelling Analyser Data Management Data Management Access Mining Search Storage Transformation Enabling Process Resource ResourceSecurity Execution Discovery Management Marine Knowledge All Projects meeting, 11-12 October 2012
    • Functionality classes Data DataData import & harmonization, transformation, sharing validation and publishing and enrichment visualization Collaborative environmentsAdvanced data (Virtual analysis Research Environments) Marine Knowledge All Projects meeting, 11-12 October 2012
    • Data resources• FIGIS (reports)• MyOcean (environmetal data)• GENESI-DEC (earth observation data)• DRIVER (publications)• OBIS (marine species data)• GBIF (occurrence points)• Catalogue of Life (taxonomy)• WoRMS (marine taxonomy) -> GENESI-DEC• ITIS (taxonomy)• FAO SDMX Registry (statistical data)• AquaMaps (species maps)• FLOD (open linked data)• Geonetwork (georefenced data)• ….Everything accessible through – TAPIR, DigiR, OAI-PMH, OpenSearch, OGC W*S ,SDMX,…. Marine Knowledge All Projects meeting, 11-12 October 2012
    • Products The initiative ( CoP, board, policies, sustainability,…..) The e-infrastructure (the operational platform) The system (the enabling sw system)Marine Knowledge All Projects meeting, 11-12 October 2012
    • We are not starting from scratch EA PartnershipsInformation Technology iMarine (2011-2014) D4ScienceII (2010- 2011) D4Science (2008-2009) DILIGENT (2004-2006) Marine Knowledge All Projects meeting, 11-12 October 2012
    • iMarine Opportunities 1. Functionality 2. Technology Anton Ellenbroek, FAO
    • iMarine e-Infrastructure - OptionsSelect from different Applications Marine Knowledge All Projects meeting, 11-12 October 2012
    • iMarine e-Infrastructure – Selected Options • Import TimeSeries • Validation Data • Analysis • Mining • Discovery Biodiversity • Access Data • Analysis • Discovery Geospatial • Access Data • Process Marine Knowledge All Projects meeting, 11-12 October 2012
    • Time Series - ImportImport Formatted and unformatted dataCSV-Import, harmonize, structure, publish as Time Series Marine Knowledge All Projects meeting, 11-12 October 2012
    • Time Series - Validation Harmonize, Format, and Structure dataUse rules for formatting, range check, code-list recognition, etc. Marine Knowledge All Projects meeting, 11-12 October 2012
    • Time Series – Data Analysis Time Series are treated as tabular data The Options include: • Union / Join / Merge / Sum • Graphs • Plot on maps • Analysis with R, weka, RapidMiner • Safely Share • Publish to ‘World‘Marine Knowledge All Projects meeting, 11-12 October 2012
    • Time Series – Code ListsImport Formatted and unformatted Code Lists Create your own, or import from SDMX registry. Useful in validation Marine Knowledge All Projects meeting, 11-12 October 2012
    • Time Series Analysis - Data Mining Outlier detection allows to recognize anomalies in n-dimensional data-sets• Outlier detection• Frequency detection Marine Knowledge All Projects meeting, 11-12 October 2012
    • Time Series Analysis - Vessel Position AnalysisExample: Time Series analysis of Position ObservationsTime Series processing techniques can be exploited for :- Aggregating Vessel Data- Calculating fishing effort- Classifying the fishing activity Marine Knowledge All Projects meeting, 11-12 October 2012
    • Biological datasetsBiological Data Provider StatusCatalogue of Life Released (2.9.0)GBIF Released (2.9.0)ITIS Released (2.9.0)OBIS Released (2.9.0)WoRMS Released (2.9.0)IRMNG Release (2.10.0) – October 16NCBI Release (2.10.0) – October 16 Marine Knowledge All Projects meeting, 11-12 October 2012
    • Biodiversity Products Retrieval Discovery and access across heterogeneous providersSearch by scientific name or common name; retrieval of taxonomy items and occurrence points Marine Knowledge All Projects meeting, 11-12 October 2012
    • Biodiversity – Taxonomic Items• Active links on selected items• Common names matrix• Checklists (DwC-A) production via jobs – Executed in batch – Concurrent jobs – Live monitoring Marine Knowledge All Projects meeting, 11-12 October 2012
    • Biodiversity – Occurrence Points Visualization• Active links on selected items• Geo-visualisation• Export – DarwinCore – CSV – CSV for openModeller Marine Knowledge All Projects meeting, 11-12 October 2012
    • Biodiversity – Occurrence Points AnalysisA set of probabilistic operations on Occurrence Points.Two thresholds: T° for spatial proximity. Ts for a similarity confidence. Merge ( A, B ) T ° ,Ts A B <T° x,y x,y = Event Date Event Date Inters ( A, B ) T ° ,Ts Modif Date Modif Date Author Author LexicalD(Author) Species * Species LexicalD(SciName) NoDuplicat es ( A)T °,Ts Scientific > Ts Scientific Name Name OnEarth ( A ) Take the most Recent InSea ( A ) Marine Knowledge All Projects meeting, 31 11-12 October 2012
    • Biodiversity – Occurrence Points Analysis• Dedicated environment for occurrence points management• Open environment• Export – DarwinCore – CSV – CSV for openModeller Marine Knowledge All Projects meeting, 32 11-12 October 2012
    • Geospatial A Simple ScenarioAfter the Joint Activity with the other participants Marine Knowledge All Projects meeting, 11-12 October 2012
    • Visualization Example; Neural Network inferred suitable range maps DISTRIBUTIONS AQUAMAPS_SUITABLE Aquamaps Suitable Distribution DISTRIBUTIONS AQUAMAPS_SUITABLE_NEURAL_ NETWORK Aquamaps Neural Network Suitable Distribution Marine Knowledge All Projects meeting, 11-12 October 2012
    • A big plus: Integrated Quality Analysis with Biodiversity products EVALUATORS QUALITY_ANALYSIS Quality Analysis on AbsencePresence Points (Res. 0.5 degrees) Aquamaps_suitable ( eq. to native)TRUE POSITIVES 13FALSE POSITIVES 0TRUE NEGATIVES 7FALSE NEGATIVES 21ACCURACY 0.49SENSITIVITY 0.38SPECIFICITY 1OMISSION RATE 0.62ROC BEST THRESHOLD 0.17AUC 0.41 Quality Analysis on AbsencePresence Points (Res. 0.5 degrees) Neural Network_suitable (eq. to native)TRUE POSITIVES 32FALSE POSITIVES 0TRUE NEGATIVES 7FALSE NEGATIVES 2ACCURACY 0.95SENSITIVITY 0.94SPECIFICITY 1OMISSION RATE 0.059ROC BEST THRESHOLD 0AUC 1 Marine Knowledge All Projects meeting, 11-12 October 2012
    • iMarine e-Infrastructure EUPL iMarine Application Business Ecological Time Series Workspace Vessel Document Niche Activity Workflow Modelling Analyser Data Management Data Management Access Mining Search Subsystem Boundary SUBSYSTEM BOUNDARY Storage TransformationExternalinteractions Enabling Process Resource Resource Security Execution Discovery Management Application Platform Marine Knowledge All Projects meeting, 11-12 October 2012
    • Secure, Powerful, and Standard-based application Server Server Server application Server Portal gCube Enabling Technology application• Secure: all data moved over the network and all server to server communications are authorised and encrypted; data can be stored encrypted Marine Knowledge All Projects meeting, 11-12 October 2012
    • Virtual Research EnvironmentsVRE is the hardware, data, and applications allocated for a timeframeto a group of people for effective collaborations • Stored in User Software uploads/selects Repository apps User • Accessible register/selects through data sets Mediators • System deploys, Apps are executed on configures, executes the most suitable HW and monitors • System controls User invites authentication and other users enforces policies Marine Knowledge All Projects meeting, 11-12 October 2012
    • Summary• An advanced data e-Infrastructure • across location and ownership boundaries • across technological boundaries • regulated by governance and policies (EUPL)• Designed for future developments • integrate or develop applications • designed to grow incrementally in size • share, harmonize, transform data Marine Knowledge All Projects meeting, 11-12 October 2012
    • e-Infrastructure Governance Marc Taconet (FAO) Marine Knowledge All Projects meeting, 11-12 October 2012
    • e-Infrastructure governance• Objective 1 of iMarine<<To develop community-driven policies enabling:– governance and operation of a data infrastructure,– sharing of data and other resources, and processing dataIn order to support the Community of Practice in implementing the Ecosystem Approach to fishery management and marine living resource conservation >> role of the iMarine Board Marine Knowledge All Projects meeting, 11-12 October 2012
    • iMarine Boards’ tasks• Mobilize user community• Develop governance model• Address systems’ harmonization Marine Knowledge All Projects meeting, 11-12 October 2012
    • The iMarine Board• Mobilize the user community • FAO • DG MARE – Core set of influential partners • Eurostat Fisheries stimulated to work together on three • NEAFC • MEDDE/DOF main business cases: Support to implementation of the EU Common Fishery Policy • IRD Support to FAO’s deep seas fisheries programme Support to regional tropical LME pelagic EAF community • ICES Bio-diversity – Raise awareness on the offer • IOC/OBIS • FIN – Position/align the offer versus the needs • CRIA • VLIZ Environt • T2/GENESI-DEC Marine Knowledge All Projects meeting, 11-12 October 2012
    • The iMarine Board• Develop Governance model, with sustainability focus » Governance is the combination of processes (including relationships among stakeholders), structures (including formal and informal institutions), and instruments (policies, laws) implemented by the board, » through which stakeholders interests are articulated, right and obligations are established, and differences are mediated Marine Knowledge All Projects meeting, 11-12 October 2012
    • The iMarine Board –develop Governance model • An interface between the CoP and the data infrastructure owners • Designed to allow control of EA Community on Data Infrastructure Developments • Forerunner of a Governance structure Marine CommunityiMarine Project Project Recomm. Advisory iMarine Board Council Boards Explain DGMare Eurostat ICES Decision Recommendations FAO RFBs IUCN UNEP IFSA (GOBI) Ecoscope Cat.of Life Emodnet OBIS FIGIS Marine Knowledge All Projects meeting, 11-12 October 2012
    • The iMarine Board• Develop Governance model, with sustainability focus – Policies as governing instruments • Data access and sharing policies • Software and hardware sharing policies Marine Knowledge All Projects meeting, 11-12 October 2012
    • The iMarine Board• Address the harmonization of systems – Rationalizing solutions among partners (cost efficiency) • 4 technical clusters: Biodiversity, Geo-spatial, Statistical, semantics – Agreeing on “iMarine” standards • OGC, Darwin Core, SDMX, RDF • Includes promotion of new standard (e.g. FLUX) – Mainstreaming requirements and specifications Operationalization of the agreed formats and protocols Marine Knowledge All Projects meeting, 11-12 October 2012
    • The iMarine Board • Result of Systems harmonization Ocean environment Geo-Taxonomy Processing MyOcean WORMS services VLIZ xxx T2 SeaDatanet Emodnet Other sources OBIS IOC Policy fmk Niche FLUX std Aquamaps modelling FIN algorythms Open Source software OpenSSDMX - DG-MARE CRIA CLM National DOF IRD ICES FAO ESTAT Ecoscope RDB FIGIS RDF DC SDMX FLOD SDMX SDMX OGC Biodiversity Fisheries Marine Knowledge All Projects meeting, 11-12 October 2012
    • ConclusionWhat’s peculiar about iMarine ? What are we looking for ? Marine Knowledge All Projects meeting, 11-12 October 2012
    • What’s peculiar about iMarine• The iMarine resources offer is about – Integrating and managing services across systems’ administrative boundaries – End users: • Interactive gateway for collaborative science: VREs – Infrastructure owners: • Platform providing outsourcing services: computing, distribution, scaling, interoperability • Cloud hosting services Marine Knowledge All Projects meeting, 11-12 October 2012
    • What’s peculiar about iMarine• iMarine Positioning in Open data perspective Cross-thematic federatorO F iMarineB II R Thematic SEADATANETS M aggregators Genomics S GEOSEAS Data locked in isolated computers Marine Knowledge All Projects meeting, 11-12 October 2012
    • For major impact, we look for• Strategic alliances with Federators: – Thematic aggregators of data providers – Scientists end-user needs – Governance and policy models Marine Knowledge All Projects meeting, 11-12 October 2012
    • Landscapefor your attention ThanksD4Science e-Infrastructure www.i-marine.orgportal.i-marine.d4science.orggCube FrameworkgCube Apps www.gcube-system.orggcube.wiki.gcube-system.orgDiscussion Marine Knowledge All Projects meeting, 11-12 October 2012