Document Type

Data

Department/Program

Virginia Institute of Marine Science

Publication Date

10-24-2018

Abstract

This dataset includes model input, code, and output used in the publication Birchler et al. (2018, Journal of Marine Science and Engineering), which used a coupled hydrodynamic-sediment transport-biogeochemical model to investigate the roles of resuspension, deposition, on biodiffusion on the behavior of short-lived radioisotopes in an idealized one-dimensional model setting. Model development for this project focused on incorporating radioisotope tracers into the sediment transport module in the Regional Ocean Modeling System (ROMS). As described in Birchler et al. (2018, Journal of Marine Science and Engineering), the model can account for supply and sorption of radioisotope tracers in the water column; biodiffusion of radioisotope tracers within the seabed; storage of radioisotope activity and inventory in the seabed; radioisotope decay in the seabed; and resuspension and removal of radioisotope tracers.

Description

These files are compressed versions of input files, model code, and output used for an associated publication in Journal of Marine Science and Engineering (Birchler et al., 2018). Compressed files with the .gz file extension can be opened with Gzip GNU software (open source). Compressed files with the .tar file extension can be opened with Gzip Tar software (open source). Many of the input and output files use the NetCDF (Network Common Data Form) file format. These have "nc" as a file extension and can be read using a variety of open source tools: see http://www.unidata.ucar.edu/software/netcdf/docs/. For information about the Regional Ocean Modeling System (ROMS), its model code and input / output, see www.myroms.org.

Description | File Name

Input Files

  • Input File – Model Initialization - roms_sedbiotoy_ini_sed_med.nc.gz
  • Input File - Wave Forcing - frc_sedbiotoy.nc.gz
  • Input File - Sediment Information - sediment_sedbio_lowDb.in.gz
  • Input File – Model Run Information - ocean_sedbiotoy_001.in.gz
  • Input File – List of variables - varinfo.dat.gz
  • Input File – Options for model compilation - sedbiotoy.h.gz
  • Input File/Model Code: Model grid - roms_sedbiotoy_grd.nc.gz
  • Input File/Model Code: Surface wind wave stresses - ana_wwave.h.gz

Model Code

  • Model Code - Script to Compile Model - build.bash.gz
  • Model Code - Model Code - trunk_sbt2.tar

Model Output

  • Model Output - Standard Model Run - his_sedbiotoy_01.nc.gz
  • Model Output – No Biodiffusion Version of the Standard Model Run - his_sedbiotoy_02.nc.gz
  • Model Output – High Biodiffusion Rate Version of the Standard Model Run - his_sedbiotoy_03.nc.gz
  • Model Output – No Bed Stress Version of the Standard Model Run - his_sedbiotoy_04.nc.gz
  • Model Output – High Bed Stress Version of the Standard Model Run - his_sedbiotoy_05.nc.gz
  • Model Output – Thin Flood Layer Version of the Standard Model Run - his_sedbiotoy_06.nc.gz
  • Model Output – Thick Flood Layer Version of the Standard Model Run - his_sedbiotoy_07.nc.gz
  • Model Output – Thick Active Layer Version of the Standard Model Run - his_sedbiotoy_08.nc.gz

DOI

https://doi.org/10.25773/9fb7-0z25

Keywords

Sediment transport model, numerical model; sediment transport; short-lived radioisotopes; Regional Ocean Modeling System (ROMS).

Associated Publications

Birchler, J.J., Harris, C.K., Sherwood, C.R., and Kniskern, T.A., 2018. Sediment Transport Model Including Short-Lived Radioisotopes: Model Description and Idealized Test Cases. Journal of Marine Science and Engineering. 6(4):144. https://doi.org/10.3390/jmse6040144

Funding

Funding was provided by the U.S. Bureau of Ocean Energy Management (BOEM) (Birchler, Harris, Kniskern), VIMS’ Office of Academic Studies (Birchler) , and by sponsors of W&M’s computing facilities, including the National Science Foundation, the Commonwealth of Virginia Equipment Trust Fund and the Office of Naval Research. This work was partially supported by the U.S. Geological Survey, Coastal and Marine Geology Program. Use of firm and product names is for descriptive purposes only and does not imply endorsement by the U.S. Government.

Download

Share Feedback

Included in

Oceanography Commons

Share

COinS