https://doi.org/10.21220/rb78-k115

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Document Type

Data

Department/Program

Virginia Institute of Marine Science

Publication Date

2018

Abstract

Spatial Information: 27.4-30.3°N, -94.6 - -87.8 °W; Louisiana continental shelf, Northern Gulf of Mexico, USA

Description

These files are compressed versions of input files, model code, and output used for the associated publication in Journal of Geophysical Research: Oceans (see below). 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.

File List:

  • Input File – Model Grid: mch_grd.nc.gz
  • Input File – Forcing at Open Boundary: gom_bry_0016.nc.gz
  • Input File – Atmospheric Forcing, except for winds: mch_atmo_frc.nc.gz
  • Input File – Wind Forcing: NARR-UV-nch_grd3m-200301-200912.nc.gz
  • Input File – River Forcing: gom_river_0017.nc.gz
  • Input File - Wave Forcing: gom_waves_0018.nc.gz
  • Input File – List of variables: varinfo.dat.gz
  • Input File – Model Run Information for the Standard Model Run (2006): ocean_standard_2006.in.gz
  • Input File – Model Run Information for the Standard Model Run (2007): ocean_standard_2007.in.gz
  • Input File – Model Run Information for the No-resuspension Model Run (June 2006): ocean_noresusp_June_2006.in.gz
  • Input File – Model Run Information for the No-resuspension Model Run (July 2006): ocean_noresusp_July_2006.in.gz
  • Input File – Model Run Information for the No-resuspension Model Run (June 2007): ocean_noresusp_June_2007.in.gz
  • Input File – Model Run Information for the No-resuspension Model Run (July 2007): ocean_noresusp_July_2007.in.gz
  • Input File – Model Run Information for the Fast-settling Sensitivity Test: ocean_fastset.in.gz
  • Input File – Model Run Information for the Slow-settling Sensitivity Test: ocean_slowset.in.gz
  • Input File – Model Run Information for the Fast-remineralization Sensitivity Test: ocean_fastrem.in.gz
  • Input File – Model Run Information for the Slow- remineralization Sensitivity Test: ocean_slowrem.in.gz
  • Input File – Sediment Transport Information for the Standard Model Runs (2006 & 2007), as well as the Fast- and Slow-remineralization Sensitivity Tests: sed_standard.in.gz
  • Input File – Sediment Transport Information for the No-resuspension Model Runs (June and July 2006; June and July 2007): sed_noresusp.in.gz
  • Input File – Sediment Transport Information for the Fast-settling Sensitivity Test: sed_fastset.in.gz
  • Input File – Sediment Transport Information for the Slow-settling Sensitivity Test: sed_slowset.in.gz
  • Input File – Water Column Biogeochemistry Information for the Standard Model Runs (2006 & 2007), as well as the No-resuspension Model Runs (June and July 2006; June and July 2007): bio_standard.in.gz
  • Input File – Water Column Biogeochemistry Information for the Fast-settling Sensitivity Test: bio_fastset.in.gz
  • Input File – Water Column Biogeochemistry Information for the Slow-settling Sensitivity Test: bio_slowset.in.gz
  • Input File – Water Column Biogeochemistry Information for the Fast-remineralization Sensitivity Test: bio_fastrem.in.gz
  • Input File – Water Column Biogeochemistry Information for the Slow-remineralization Sensitivity Test: bio_slowrem.in.gz
  • Input File – Model Initialization for the Standard Model Run (2006): gom_init_0099_from0098.gz
  • Input File – Model Initialization for the Standard Model Run (2007): gom_init_0100_from0099.gz
  • Input File – Model Initialization for the No-resuspension Model Run (June 2006), as well as the Fast- and Slow-settling Sensitivity Tests and the Fast- and Slow-remineralization Sensitivity Tests: gom_init_0104_from0099.gz
  • Input File – Model Initialization for the No-resuspension Model Run (July 2006): gom_init_0101_from0099.gz
  • Input File – Model Initialization for the No-resuspension Model Run (June 2007): gom_init_0103_from0099.gz
  • Input File – Model Initialization for the No-resuspension Model Run (July 2007): gom_init_0102_from0099.gz
  • Model Code– Script to Compile Model: build.bash.gz
  • Model Code– Options for Model Compilation: mch_hbs.h.gz
  • Model Code– Model Code: trunk_sbt.tar
  • Model Output– Model Output for Standard Model Run (2006): results_gom_standard_2006.tar
  • Model Output– Model Output for Standard Model Run (2006): results_gom_standard_2007.tar
  • Model Output– Model Output for No-resuspension Model Run (June 2006): results_gom_no_resuspension_June2006.tar
  • Model Output– Model Output for No-resuspension Model Run (July 2006): results_gom_no_resuspension_July2006.tar
  • Model Output– Model Output for No-resuspension Model Run (June 2007): results_gom_no_resuspension_June2007.tar
  • Model Output– Model Output for No-resuspension Model Run (July 2007): results_gom_no_resuspension_July2007.tar
  • Model Output– Model Output for Fast-settling Sensitivity Test: results_gom_fast_settling.tar
  • Model Output– Model Output for Slow-settling Sensitivity Test: results_gom_slow_settling.tar
  • Model Output– Model Output for Fast-settling Remineralization Test: results_gom_fast_remin.tar
  • Model Output– Model Output for Slow-settling Remineralization Test: results_gom_slow_remin.tar

Keywords

Northern Gulf of Mexico, USA; sediment transport; biogeochemistry; numerical modeling; oceanography; Regional Ocean Modeling System (ROMS); hypoxia; oxygen; ammonium; particulate organic carbon remineralization; resuspension; sediment oxygen consumption

Associated Publications

Moriarty, J. M., Harris, C. K., Friedrichs, M.A.M, Fennel, K., and Xu, K. (2018). Impact of seabed resuspension on oxygen and nitrogen dynamics in the northern Gulf of Mexico: A numerical modeling study. Accepted by Journal of Geophysical Research: Oceans.

Publication Statement

Author contributions: 1. Moriarty - Model development. 2. Harris - Oversaw all aspects of model development. 3. Friedrichs - Oversaw all aspects of model development. 4. Fennel - Provided data for hydrodynamic and biogeochemical input files and model forcing (water column currents, oxygen & nutrient concentrations, etc.). 5. Xu - Provided data for hydrodynamic and sediment transport input files and model forcing (waves, water column sediment concentrations, etc.).

Funding

Funding was provided by the U.S. National Oceanic and Atmospheric Administration Center for Sponsored Coastal Ocean Research (NA09NOS4780229, NA09NOS4780231) (Moriarty, Harris, Fennel, Xu), VIMS student fellowships (Moriarty), 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.

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