Stephanie Dutkiewicz DARWIN Project Dataverse

The Darwin Project is an initiative, based at Massachusetts Institute of Technology, to advance the development and application of novel models of marine microbes and microbial communities, identifying the relationships of individuals and communities to their environment, connecting cellular-scale processes to global microbial community structure. More details of the project can be found at http://darwinproject.mit.edu/

Part of this project includes the development of the DARWIN marine ecosystem model that is part of the MITgcm (http://mitgcm.org). Code can be downloaded from that website.

There are several version of the DARWIN model, and it continues to evolve. The purpose of this dataverse is to provide output and model code and input fields from various version of the DARWIN model.

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21 to 30 of 37 Results

GUD IGSM numerical code and inputs Aug 9, 2021 - GUD IGSM Dutkiewicz, Stephanie; Jahn, Oliver, 2021, "GUD IGSM numerical code and inputs", https://doi.org/10.7910/DVN/UA8VNU, Harvard Dataverse, V1 The model code is available at https://gitlab.com/jahn/gud Here we include: MITgcm_gud_igsm.tar - a tarball of the MITgcm, including the ecosystem, biogeochemical, and optical codes (pkg/gud, pkg/radtrans) and the specific modifications for the 51 plankton setup and the a climate change simulation (see monod5_igsm). runtime_file.tar - a tarball wit...
GUD IGSM(Massachusetts Institute of Technology) Aug 9, 2021 Model output and code from a simulation of global change to 2100 for a marine ecosystem model This version of the model was runs with the gud package (https://gitlab.com/jahn/gud). The model includes the same ecosystem model and parameters as Dutkiewicz et al (2021), but here is used within a coarser physical ocean configuration that simulates a fu...
Redundancy Model Output Dec 15, 2020 - GUD Redundancy Model Dutkiewicz, Stephanie, 2020, "Redundancy Model Output", https://doi.org/10.7910/DVN/HLHQ8L, Harvard Dataverse, V1 Model output for Dutkiewicz et al (GCB, 2021) Each file has output for separate experiment. The naming convention is as described in Dutkiewicz et al (2021), and as listed at the end of this description. Each file contains annual mean depth integrated Primary Production (gC/m2/year) Export Flux through 100m (gC/m2/year), Herbivorous Grazing rate (g...
Redundancy Model Code Dec 15, 2020 - GUD Redundancy Model Dutkiewicz, Stephanie; Jahn, Oliver, 2020, "Redundancy Model Code", https://doi.org/10.7910/DVN/ZG92I6, Harvard Dataverse, V1 MITgcm code (available trhough http://mitgcm.org), with GUD ecosystem code (https://gitlab.com/jahn/gud). Exact version, modifications, and input datafiles are in the tarball available here. Model parameters are listed in the two nml files.
GUD Redundancy Model (Massachusetts Institute of Technology) Dec 15, 2020 This version of the model was runs with the gud package (https://gitlab.com/jahn/gud). The model is based on Dutkiewicz et al (2020) and resolves the cycling of carbon, phosphorus, nitrogen silica, iron, and oxygen through inorganic, living, dissolved and particulate organic phases (including CDOM). The biogeochemical and biological tracers are tra...
3-daily surface (0-10m) phytoplankton biomass for Year 2000 Oct 24, 2019 - GUD CS510/18km resolution interannual simulation Jahn, Oliver; Hill, Christopher, N.; Dutkiewicz, Stephanie; Follows, Michael, J., 2019, "3-daily surface (0-10m) phytoplankton biomass for Year 2000", https://doi.org/10.7910/DVN/1HGIV8, Harvard Dataverse, V1 Year 2000 3-daily averaged phytoplankton biomass (mmol C/m3) for the 35 types in the top 10m of the model. Model output has been interpolated from the natural grid onto 1/5th degree resolution. File numbers are such that 70200 is 1-3 Jan 2000, 70272 is 4-6 Jan 2000, etc Due to size constraints only one year is presented in dataverse. Additional mod...
GUD CS510/18km resolution interannual simulation(Massachusetts Institute of Technology) Oct 24, 2019 This version of the model was runs with the gud package (git://gud.mit.edu/gud1). The model is based on Dutkiewicz et al (2015) and resolves the cycling of carbon, phosphorus, nitrogen silica, iron, and oxygen through inorganic, living, dissolved and particulate organic phases (including CDOM). The biogeochemical and biological tracers are transpor...
Supplemental Text, Table and Figures Aug 9, 2019 - GUD Diversity Model Dutkiewicz, Stephanie, 2019, "Supplemental Text, Table and Figures", https://doi.org/10.7910/DVN/KXABE6, Harvard Dataverse, V2 Supplemental Material for publication: Model description text, Table, and Figures
Diversity Model Output Aug 7, 2019 - GUD Diversity Model Dutkiewicz, Stephanie, 2019, "Diversity Model Output", https://doi.org/10.7910/DVN/JUQCFG, Harvard Dataverse, V1 Model output for Dutkiewicz et al (BGD): nurtient_supply_rates.nc: Nutrient supplies are annual mean for the top 50m and are in units of mmol/m2/s biomass.nc Phytoplankton biomass is annual mean for top 10m and is units of mmolC/m3 Phytoplankton types arranged as follows: 1- 10: pico-phytoplankton, ESD 0.6um 11- 20: pico-phytoplankton, ESD 0.9um 21...
GUD Diversity Model(Massachusetts Institute of Technology) Aug 7, 2019 This version of the model was runs with the gud package (git://gud.mit.edu/gud1). The model is based on Dutkiewicz et al (2015) and resolves the cycling of carbon, phosphorus, nitrogen silica, iron, and oxygen through inorganic, living, dissolved and particulate organic phases (including CDOM). The biogeochemical and biological tracers are transpor...

GUD IGSM numerical code and inputs

Aug 9, 2021 - GUD IGSM

Dutkiewicz, Stephanie; Jahn, Oliver, 2021, "GUD IGSM numerical code and inputs", https://doi.org/10.7910/DVN/UA8VNU, Harvard Dataverse, V1

The model code is available at https://gitlab.com/jahn/gud Here we include: MITgcm_gud_igsm.tar - a tarball of the MITgcm, including the ecosystem, biogeochemical, and optical codes (pkg/gud, pkg/radtrans) and the specific modifications for the 51 plankton setup and the a climate change simulation (see monod5_igsm). runtime_file.tar - a tarball wit...

GUD IGSM(Massachusetts Institute of Technology)

Aug 9, 2021

Model output and code from a simulation of global change to 2100 for a marine ecosystem model This version of the model was runs with the gud package (https://gitlab.com/jahn/gud). The model includes the same ecosystem model and parameters as Dutkiewicz et al (2021), but here is used within a coarser physical ocean configuration that simulates a fu...

Redundancy Model Output

Dec 15, 2020 - GUD Redundancy Model

Dutkiewicz, Stephanie, 2020, "Redundancy Model Output", https://doi.org/10.7910/DVN/HLHQ8L, Harvard Dataverse, V1

Model output for Dutkiewicz et al (GCB, 2021) Each file has output for separate experiment. The naming convention is as described in Dutkiewicz et al (2021), and as listed at the end of this description. Each file contains annual mean depth integrated Primary Production (gC/m2/year) Export Flux through 100m (gC/m2/year), Herbivorous Grazing rate (g...

Redundancy Model Code

Dec 15, 2020 - GUD Redundancy Model

Dutkiewicz, Stephanie; Jahn, Oliver, 2020, "Redundancy Model Code", https://doi.org/10.7910/DVN/ZG92I6, Harvard Dataverse, V1

MITgcm code (available trhough http://mitgcm.org), with GUD ecosystem code (https://gitlab.com/jahn/gud). Exact version, modifications, and input datafiles are in the tarball available here. Model parameters are listed in the two nml files.

GUD Redundancy Model (Massachusetts Institute of Technology)

Dec 15, 2020

This version of the model was runs with the gud package (https://gitlab.com/jahn/gud). The model is based on Dutkiewicz et al (2020) and resolves the cycling of carbon, phosphorus, nitrogen silica, iron, and oxygen through inorganic, living, dissolved and particulate organic phases (including CDOM). The biogeochemical and biological tracers are tra...

3-daily surface (0-10m) phytoplankton biomass for Year 2000

Oct 24, 2019 - GUD CS510/18km resolution interannual simulation

Jahn, Oliver; Hill, Christopher, N.; Dutkiewicz, Stephanie; Follows, Michael, J., 2019, "3-daily surface (0-10m) phytoplankton biomass for Year 2000", https://doi.org/10.7910/DVN/1HGIV8, Harvard Dataverse, V1

Year 2000 3-daily averaged phytoplankton biomass (mmol C/m3) for the 35 types in the top 10m of the model. Model output has been interpolated from the natural grid onto 1/5th degree resolution. File numbers are such that 70200 is 1-3 Jan 2000, 70272 is 4-6 Jan 2000, etc Due to size constraints only one year is presented in dataverse. Additional mod...

GUD CS510/18km resolution interannual simulation(Massachusetts Institute of Technology)

Oct 24, 2019

This version of the model was runs with the gud package (git://gud.mit.edu/gud1). The model is based on Dutkiewicz et al (2015) and resolves the cycling of carbon, phosphorus, nitrogen silica, iron, and oxygen through inorganic, living, dissolved and particulate organic phases (including CDOM). The biogeochemical and biological tracers are transpor...

Supplemental Text, Table and Figures

Aug 9, 2019 - GUD Diversity Model

Dutkiewicz, Stephanie, 2019, "Supplemental Text, Table and Figures", https://doi.org/10.7910/DVN/KXABE6, Harvard Dataverse, V2

Supplemental Material for publication: Model description text, Table, and Figures

Diversity Model Output

Aug 7, 2019 - GUD Diversity Model

Dutkiewicz, Stephanie, 2019, "Diversity Model Output", https://doi.org/10.7910/DVN/JUQCFG, Harvard Dataverse, V1

Model output for Dutkiewicz et al (BGD): nurtient_supply_rates.nc: Nutrient supplies are annual mean for the top 50m and are in units of mmol/m2/s biomass.nc Phytoplankton biomass is annual mean for top 10m and is units of mmolC/m3 Phytoplankton types arranged as follows: 1- 10: pico-phytoplankton, ESD 0.6um 11- 20: pico-phytoplankton, ESD 0.9um 21...

GUD Diversity Model(Massachusetts Institute of Technology)

Aug 7, 2019

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