Data

Modelling Trichodesmium photophysiology in the Great Barrier Reef using the eReefs models

James Cook University
Ani, Chinenye ; Robson, Barbara ; Lewis, Stephen ; Smithers, Scott
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ctx_ver=Z39.88-2004&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Adc&rfr_id=info%3Asid%2FANDS&rft_id=info:doi10.25903/550s-tj34&rft.title=Modelling Trichodesmium photophysiology in the Great Barrier Reef using the eReefs models&rft.identifier=10.25903/550s-tj34&rft.publisher=James Cook University&rft.description=The research is important for the Great Barrier Reef (GBR) water quality management. The data was collected for the parameterisation of the variation of Trichodesmium phycobilipigments under varying light conditions in the GBR. Linux operating system, C compiler and NETCDF library were used to build the modified EMS applications on AIMS HPC. The EMS version used is 1.2.1. The modified EMS was derived from the eReefs model (https://ereefs.org.au/ereefs) and the model descriptions are found in Baird et al. (2020). Methods for collecting the data include the following: Hydrodynamic model forcing available in https://research.csiro.au/ereefs/models/models-about/models-hydrodynamics/; Biogeochemical (BGC) model forcing (Simulated hydrodynamic model output, regional wave model data, 2019 catchment conditions of nutrient and sediment loads available in https://svnserv.csiro.au/svn/CEM/projects/eReefs/model/gbr4_bgc_hindcast/gbr4_H2p0_B3p2_Cb/); Initialisation file: GBR4 BGC 3p1 initialisation data.               The 4km resolution grid of the EMS was run on AIMS HPC from 1/12/2010 to 30/11/2012 and the data was collected on 26/06/2023. Software-specific information needed to interpret the data are R Software version 3.5.1, GNU Compiler Collection (GCC) version 6.1.0, network Common Data Form (NetCDF-cxx) version 4.2.1, Open Message Passing Interface (OpenMPI-gcc) version 1.10.2 and NetCDF Operators (NCO) version 4.5.5. R scripts and MATLAB scripts for post-processing simulated data are available: https://github.com/Chinenyeani1986/Trichodesmium-buoyancy   &rft.creator=Ani, Chinenye &rft.creator=Robson, Barbara &rft.creator=Lewis, Stephen &rft.creator=Smithers, Scott &rft.date=2023&rft.coverage=Great Barrier Reef&rft_rights=&rft_rights=CC BY 4.0: Attribution 4.0 International http://creativecommons.org/licenses/by/4.0&rft_subject=eReefs&rft_subject=CSIRO-EMS&rft_subject=Trichodesmium&rft_subject=Phycobilipigments&rft_subject=Great Barrier Reef&rft_subject=Ecosystem function&rft_subject=Ecological applications&rft_subject=ENVIRONMENTAL SCIENCES&rft_subject=Environmental assessment and monitoring&rft_subject=Environmental management&rft_subject=Assessment and management of coastal and estuarine ecosystems&rft_subject=Coastal and estuarine systems and management&rft_subject=ENVIRONMENTAL MANAGEMENT&rft_subject=Effects of climate change on Australia (excl. social impacts)&rft_subject=Understanding climate change&rft_subject=ENVIRONMENTAL POLICY, CLIMATE CHANGE AND NATURAL HAZARDS&rft.type=dataset&rft.language=English Access the data
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The research is important for the Great Barrier Reef (GBR) water quality management. The data was collected for the parameterisation of the variation of Trichodesmium phycobilipigments under varying light conditions in the GBR. Linux operating system, C compiler and NETCDF library were used to build the modified EMS applications on AIMS HPC. The EMS version used is 1.2.1. The modified EMS was derived from the eReefs model (https://ereefs.org.au/ereefs) and the model descriptions are found in Baird et al. (2020). Methods for collecting the data include the following:

Hydrodynamic model forcing available in https://research.csiro.au/ereefs/models/models-about/models-hydrodynamics/; Biogeochemical (BGC) model forcing (Simulated hydrodynamic model output, regional wave model data, 2019 catchment conditions of nutrient and sediment loads available in https://svnserv.csiro.au/svn/CEM/projects/eReefs/model/gbr4_bgc_hindcast/gbr4_H2p0_B3p2_Cb/); Initialisation file: GBR4 BGC 3p1 initialisation data.              

The 4km resolution grid of the EMS was run on AIMS HPC from 1/12/2010 to 30/11/2012 and the data was collected on 26/06/2023. Software-specific information needed to interpret the data are R Software version 3.5.1, GNU Compiler Collection (GCC) version 6.1.0, network Common Data Form (NetCDF-cxx) version 4.2.1, Open Message Passing Interface (OpenMPI-gcc) version 1.10.2 and NetCDF Operators (NCO) version 4.5.5.

R scripts and MATLAB scripts for post-processing simulated data are available: https://github.com/Chinenyeani1986/Trichodesmium-buoyancy 

 

Created: 2023-11-29

Data time period: 12 2010 to 30 11 2012

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Spatial Coverage And Location

text: Great Barrier Reef

Subjects
Assessment and Management of Coastal and Estuarine Ecosystems | CSIRO-EMS | Coastal and Estuarine Systems and Management | Environmental Management | Environmental Policy, Climate Change and Natural Hazards | Environmental Sciences | Ecological Applications | Ecosystem Function | Effects of Climate Change on Australia (Excl. Social Impacts) | Environmental Assessment and Monitoring | Environmental Management | Great Barrier Reef | Phycobilipigments | Trichodesmium | Understanding Climate Change | eReefs |

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Identifiers
  • DOI : 10.25903/550S-TJ34
  • Local : researchdata.jcu.edu.au//published/19b32030829d11eeb904f90f09956065