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Status of tests with handling marine biological data in SeaDataNet - follow-up of SeaDataNet Deliverable 8.4 TTT 19-20 March 2014.

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Presentation on theme: "Status of tests with handling marine biological data in SeaDataNet - follow-up of SeaDataNet Deliverable 8.4 TTT 19-20 March 2014."— Presentation transcript:

1 Status of tests with handling marine biological data in SeaDataNet - follow-up of SeaDataNet Deliverable 8.4 TTT March 2014

2 – Deliverables D8.4a Analysis report with required adaptions for marine biological data D8.4b Format documentation Example files

3 – D8.4a Analysis report Analysis –Types of data –Data use and applications –Standards and practices in the biological community –Requirements –Required adaptations of SeaDataNet infrastructure Data transport format Towards operational data exchange

4 – D8.4b Format documentation Format: –CDI metadata –ODV biology variant Mandatory fields (8 + 10) Optional fields: P01 & P06 terms Semantic header Version: BioODV_1.0

5 – Example files Types –Grab/core benthos community data with density and biomass values. –Zooplankton community with samples from different depths –Demersal fish population data with densities for different size classes and individual fish measurements (examples of subsamples are included) –Pollutant concentrations in biota specimens

6 – Example files Mqlkdsjmlqkdj Mlqkdmqlkdkfj

7 – Example files Mqlkdsjmlqkdj Mlqkdmqlkdkfj

8 – Example files Mqlkdsjmlqkdj Mlqkdmqlkdkfj

9 – Example files Mqlkdsjmlqkdj Mlqkdmqlkdkfj

10 – Testing and feedback Feedback from ICES –feedback 01/11/2013: 3 comments Core biological information i.e min/max depth only available in the linked CDI might be problematic. ODV files should be self-describing. Main focus on biological community data and to a lesser extent on contaminants data. Contaminant data require separate field for describing compounds Testing on IMARES trawl data good starting point

11 – EMODnet biology Data flow –Web Feature Services (WFS) –Integrated Publishing Toolkit (IPT) –Custom REST services –SDN -> IFREMER will test

12 – Testing and feedback Feedback from IFREMER –feedback 02/12/2013: 3 comments; clarified/resolved Some mandatory fields could be problematic unless the "Unknown" (or something equivalent) value is permitted. Do you confirm this is the case for the "LifeStage" and the "ObservedIndividualCount" fields ? What would be the value of the SamplingEffort field in the case the only information we have is the sampling position? If no subsampling occurred (then the SubSamplingCoefficient=1, right ?) may the "SubsampleID" be the same as the "SampleID" ?

13 – Testing and feedback Feedback from IFREMER –feedback 19/03/2014: Appreciation for most of variants specific of biology files, especially to indicate the taxon without use a P01 code per taxon. Using the scientific name (WoRMs) and the Aphia ID is ok for us. # Mandatory fields that will be empty Testing status: preparing phytoplankton data for delivery

14 – Testing and feedback Feedback from IMARES/NIOZ (WaLTER project) –feedback 18/09/2013: 11 comments; clarified/resolved –feedback 13/11/2013: 4 comments; clarified/resolved –feedback 18/03/2014: 6 comments: Genus sp. -> in WoRMS just Genus Both ScientificName and AphiaID needed? SubsampleID en Subsampling coefficient required? LifeStage list available? Parts of organisms -> 0.1 individual OK? Backward compatibility?

15 – Testing and feedback Testing status: first ODV bio files created –12 CDI files for validation at MARIS (1970) –582 files ready at IMARES/NIOZ for publishing at DM ( )

16 – Developments needed Ocean Data Viewer –Incorporate information from CDI –Aggregate single localCDI data files –Develop appropriate filtering and visualisation tools

17 – Developments needed ODVBio Machine-2-machine interface Data provider Tools to be developed/adapted

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