ODV format templates for nutrients dissolved gases and

ODV format templates for nutrients, dissolved gases and contaminants in different matrixes (water, sediment, biota) OGS – Marina Lipizer EMODnet Chemistry 3 Kick-Off meeting, 17 -19 May 2017

EMODnet Chemistry uses Sea. Data. Net infrastructure for the technical set-up. It adopts: q Sea. Data. Net Standards (SDN) for data and metadata, and for product data and metadata q Common Data Index mechanism (CDI) to access data with data policy q Ocean Data View format (ODV) for data exchange https: //www. seadatanet. org/ EMODnet Chemistry 3 Kick-Off meeting, 17 -19 May 2017

Data Templates Information and examples of Data transport formats: https: //www. seadatanet. org/Standards/Data-Transport-Formats EMODnet Chemistry 3 Kick-Off meeting, 17 -19 May 2017

Current information available: Templates for dataset on: v Vertical profiles v Time series § Water § Sediment (? ) § Biota (? ) http: //www. seadatanet. org/Standards-Software/Data. Transport-Formats EMODnet Chemistry 3 Kick-Off meeting, 17 -19 May 2017

Data Templates of datasets for water column data (eg. Nutrients, dissolved oxygen, contaminants: ODV_timeseries_chemical_data. txt ODV_vertical_profiles_CTD_with_instruments. txt Bio. ODV_1. 0 d. xls EMODnet Chemistry 3 Kick-Off meeting, 17 -19 May 2017

Data Templates Distinction between VERTICAL PROFILES and TIME-SERIES: v Vertical profiles: Profile data have row_groups made up of measurements at different depths. The primary variable (which is indicated in column 10) is the ‘z co-ordinate’, which is either depth in metres or pressure in decibars. • Used for stations usually not repeated regularly over time, for which several depths are sampled. Typical examples: § CTD profiles, bottle stations (chemical data, chlorophyll, plankton, …) 1 2 3 4 5 6 7 8 9 10 11 12 EMODnet Chemistry 3 Kick-Off meeting, 17 -19 May 2017 ….

Data Templates v Time series: Point time series have row_groups made up of measurements from a given instrument at different times. The primary variable (column 10) is time. • Used for the same station repeated regularly over time, for which usually a single depth is sampled. Typical examples: § biota composition (contaminants in biota), sediment composition, mooring data (eg. oceanographic buoy) Example: Time series of bottle data 1 2 3 4 5 6 7 8 9 10 11 EMODnet Chemistry 3 Kick-Off meeting, 17 -19 May 2017 12 ….

Guidelines for sediment data Examples of sampling devices The «depth» variable represents a depth INSIDE the seabed. b c d a: Grab; b: box core; c: core (single); d: multicore EMODnet Chemistry 3 Kick-Off meeting, 17 -19 May 2017 COREDIST a P 01: COREDIST: The distance of a sensor or sampling point below the floor of a water body

Guidelines for sediment data Sampling device: Which depth? MINCDIST Minimum depth below surface of the bed COREDIST Depth below surface of the bed MAXCDIST Maximum depth below surface of the bed core Min. Dep. Below. Bed The minimum distance between part of a sample and the seabed such as the distance between the top of a core segment and the top of a core. Dep. Below. Bed The distance of a sensor or sampling point below the floor of a water body Max. Dep. Below. Bed The maximum distance between part of a sample and the seabed such as the distance between the base of a core segment and the top of a core. EMODnet Chemistry 3 Kick-Off meeting, 17 -19 May 2017

Guidelines for sediment data Additional depth information. Particular cases: Core cut into sections: MINCDIST: http: //vocab. nerc. ac. uk/collection/P 01/current/MINCDIST/ - The distance between the top of a core sample and the seabed. MAXCDIST: http: //vocab. nerc. ac. uk/collection/P 01/current/MAXCDIST/ - The distance between the base of a core sample and the seabed. For an unsegmented core with its top coincident with the bed this is equivalent to the core length (MAXCDIST*) COREDIST: http: //vocab. nerc. ac. uk/collection/P 01/current/COREDIST/ - The distance of a sensor or sampling point below the floor of a water body SEGMLENG: http: //vocab. nerc. ac. uk/collection/P 01/current/SEGMLENG/ - The physical length of a sample upon which measurements have been made As a general rule: COREDIST = MINCDIST + (MAXCDIST-MINCDIST)/2 and SEGMLENG = MAXCDIST - MINCDIST. EMODnet Chemistry 3 Kick-Off meeting, 17 -19 May 2017

Guidelines for sediment data Samples from an entire, unsegmented core: MINCDIST COREDIST MAXCDIST Seabed SEGMLENG sediment MINCDIST: http: //vocab. nerc. ac. uk/collection/P 01/current/MINCDIST/ - The distance between the top of a core sample and the seabed. * For an unsegmented core with its top coincident with the bed this is 0. MAXCDIST: http: //vocab. nerc. ac. uk/collection/P 01/current/MAXCDIST/ - The distance between the base of a core sample and the seabed. *For an unsegmented core with its top coincident with the bed this is equivalent to the core length COREDIST: http: //vocab. nerc. ac. uk/collection/P 01/current/COREDIST/ - The distance of a sensor or sampling point below the floor of a water body SEGMLENG: http: //vocab. nerc. ac. uk/collection/P 01/current/SEGMLENG/ - The physical length of a sample upon which measurements have been made EMODnet Chemistry 3 Kick-Off meeting, 17 -19 May 2017

Guidelines for sediment data Depth information: Mandatory: COREDIST Optional (strongly recommended): MAXCIDST, MINCDIST Optional: SEGMLENG Vertical profiles: • Primary variable is COREDIST Time series: • Primary variable is TIME EMODnet Chemistry 3 Kick-Off meeting, 17 -19 May 2017

Examples of P 01 Concentration of contaminants in the sediment: When information on size class is indicated: When information on size class is indicated or not: EMODnet Chemistry 3 Kick-Off meeting, 17 -19 May 2017

Examples of P 01 Reach the correct P 01 from P 02: Discovery vocabulary: Scroll the list to find the correct P 01 (other examples at the end) EMODnet Chemistry 3 Kick-Off meeting, 17 -19 May 2017

Templates for sediment data Vertical profiles: Time series: Templates from Geo Seas Project and SDN http: //www. geoseas. eu/ EMODnet Chemistry 3 Kick-Off meeting, 17 -19 May 2017

Biota Templates Guidelines for biota composition (eg. contaminants in biota) data: Time series (mostly): Point time series have row_groups made up of measurements at different times. The primary variable is time. EMODnet Chemistry 3 Kick-Off meeting, 17 -19 May 2017

Open issues: • Selection of Time – series vs Vertical Profile is sometimes tricky and subjective in case of repeated profiles over time or time-series at several depths EMODnet Chemistry 3 Kick-Off meeting, 17 -19 May 2017

Examples of P 01 Scroll the list to find the correct P 01 (other examples at the end) EMODnet Chemistry 3 Kick-Off meeting, 17 -19 May 2017

Examples of P 01 Scroll the list to find the correct P 01 (other examples at the end) EMODnet Chemistry 3 Kick-Off meeting, 17 -19 May 2017