Project data management/OA-ICC

This page is under construction (2013-10-16)

Seawater carbonate chemistry with R (seacarb)

4D Import data set - Config

Import measured and seacarb calculated sewater carbonate chemistry in one dataset

• PI of original data/measured data = author of paper or the person who provided the original data
• PI of seacarb calculated values = OA-ICC Data Curator
• Method for seacarb calculation = Calculated using seacarb after Nisumaa et al. (2010) (Method ID 6426)
• Refer to the seacarb citation (Reference ID 60864), set relation to Further details

4D Import data set - Details

• Add the date of seacarb calculation as dataset comment. Date must be provided in ISO-format (e.g. 2013-10-16)
• Give the short explanation of seacarb calculation into the dataset comment: In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Lavigne and Gattuso, 2011, http://CRAN.R-project.org/package=seacarb) was used to compute a complete and consistent set of carbonate system variables, as described by Nisumaa et al. (2010, doi:10.5194/essd-2-167-2010). In this dataset the original values were archived in addition with the recalculated parameters (see related PI).

Example: Edmunds, 2012 doi:10.1594/PANGAEA.820070

Examples of data archiving

1) Data not yet archived

• Import all (georeferenced) data, combine measured seawater chemistry with seawater carbonate chemistry calculation (seacarb).
• If more than one dataset is archived, create a Parent.
• Add the (paper's) abstract to the parent/single dataset and set the Reference relation Supplement to.
• Set the project OA-ICC (Project ID 4173) in the Supplement to dataset, childs do not have a project.

Example: Edmunds et al., 2012, doi:10.1594/PANGAEA.820323

2) Data previously published in another database with URI (e.g. BCO-DMO):

4D Reference example URI

• Import measured seawater chemistry combined with seawater carbonate chemistry calculation (seacarb).
• Mirroring also all other (georeferenced) data.
• If more than one dataset is archived, create a Parent.
• Add the (paper's) abstract to the parent/single dataset and set the Reference relation Supplement to.
• Set the project OA-ICC (Project ID 4173) in the Supplement to dataset, childs do not have a project.
• Create a reference for the external database link (URI and title, nothing else), and link this reference to all datasets, relation Other version.

Example: Comeau et al., 2012, doi:10.1594/PANGAEA.820164.

3) Data previously published in another database with DOI (e.g. BODC):

4D Reference example DOI

• Import measured seawater chemistry combined with seawater carbonate chemistry calculation (seacarb).
• Other data, e.g. biological parameters can be archived as mean values.
• Add the (paper's) abstract to the dataset and set the reference relation Supplement to; definition of supplement
• Set the project OA-ICC (Project ID 4173)
• Create a reference for the external published doi (e.g. Hennige et al., 2012 BODC), give full citation information, and link this reference as Original version in the Pangaea dataset.

Example: Hennige et al., 2013, doi:10.1594/PANGAEA.820339.

4) Data previously published in Panagea

4D Import data set - References, new dataset

• Create a table with measured seawater chemistry and the carbonate chemistry calculation (seacarb). Import this table.
• References of this dataset:
  • Article citation, relation Related to
  • Original Pangaea parent dataset or a single dataset which is a supplement to the article, relation Related to
  • Original measured seawater carbonate chemistry dataset, relation Original version
• No abstract is added.
• Set the project OA-ICC (Project ID 4173)

Example: Schalkhausser et al., 2013, doi:10.1594/PANGAEA.820432.

4D Import data set - References, original dataset

• Update original measured seawater carbonate chemistry dataset: link to the new carbonate chemistry calculation version as Further detail and with the comment Carbonate chemistry recalculation by seacarb

see Schalkhausser et al., 2013, doi:10.1594/PANGAEA.789153.

Contact

Data management

• Jean-Pierre Gattuso, Observatoire Océanologique, Laboratoire d'Océanographie, Villefranche-sur-mer, France, mailto:gattuso@obs-vlfr.fr
• Yan Yang, Data Curator, State Key Lab of Marine Environmental Science (Xiamen University), China, mailto:yangyan@xmu.edu.cn

Links

• Ocean Acidification International Coordination Centre (OA-ICC)