file was generated on 20220819 by Suzanne M Robinson 1. ABOUT THE DATASET ------------------------------------------------------------------ Title: Code data availability for: 'Optimisation of the Nd isotope scheme in the ocean component of the FAMOUS general circulation model' Creator(s): Suzanne Robinson[1], Ruza Ivanovic[1], Lauren Gregoire[1], Lachlan Astfalck[2], Tina van de Flierdt[3], Yves Plancherel[3], Frerk Pöppelmeier[4], Kazuyo Tachikawa[5] Organisation(s): 1. University of Leeds. 2. The University of Western Australia. 3. Imperial College London. 4. University of Bern. 5. Aix Marseille Université. Publication Year: 2022 Description: Dataset forms the code and data availability for the manuscript 'Optimisation of the Nd isotope scheme in the ocean component of the FAMOUS general circulation model'. Contains all model code, input files and model output for the Nd isotope scheme in the ocean component of the FAMOUS general circulation model, its optimisation, and sensitivity studies exploring the benthic flux under the global marine Nd cycle. Cite as: Robinson el al. (2022) Dataset for 'Optimisation of the Nd isotope scheme in the ocean component of the FAMOUS general circulation model'. University of Leeds. [Dataset] https://doi.org/10.5518/1181. Related publication: Robinson, Ivanovic, Gregoire, Astfalck, van de Flierdt, Plancherel, Pöppelmeier and Tachikawa. (2022). Optimisation of the Nd isotope scheme in the ocean component of the FAMOUS general circulation model. Biogeosciences. (Submitted). Contact: ee14s2r@leeds.ac.uk 2. TERMS OF USE ------------------------------------------------------------------ This dataset is licensed under a Creative Commons Attribution 4.0 International Licence: https://creativecommons.org/licenses/by/4.0/. 3. PROJECT AND FUNDING INFORMATION ------------------------------------------------------------------ Funding organisation: Natural Environment Research Council (NERC) SPHERES Doctoral Training Partnership Grant no.: NE/L002574/1 4. CONTENTS ------------------------------------------------------------------ - CODE AND INPUT FILES (/model_input.zip) FOR THE NEODYMIUM ISOTOPE SCHEME IN THE OCEAN COMPONENT OF THE FAMOUS GCM n.b. This folder contains the files and corresponding information that need to be applied to setup the differences between the simulations. ------------------------------------------------------------------ MODIFICATION FILES: FILENAME (mods/) neodymium_tracer.mod (Modification file for the optimised Nd isotope (143Nd and 144Nd) scheme in the ocean component of FAMOUS) n.b. To complete the setup of each simulation, line 161 in the modification file needs updating with the corresponding [Nd]p/[Nd]d value (Supplementary Table S1), and line 317 and 319 in the modification file needs updating with the corresponding α_river value (Supplementary Table S1) for the scaled 144Nd and 143Nd sourced from rivers respectively. POST-PROCESSING SCRIPTS: FILENAME (pp_scripts/) salinity_update (written by Paul Valdes, University of Bristol, salinity) PRESTASH FILES: FILENAME (prestash/) Add_Nd (prestash to add 143Nd and 144Nd) ANCIL FILES: FILENAME (ancil/) nd143_dust.ancil (dust source 143Nd) nd144_dust.ancil (dust source 144Nd) nd143_river.ancil (river source 143Nd) nd144_river.ancil (river source 144Nd) nd143_sed.ancil (sediment source 143Nd) nd144_sed.ancil (sediment source 144Nd) r_poc.ancil (R POC) r_cal.ancil (R CaCO3) r_opal.ancil (R biogenic opal) r_dust.ancil (R dust) n.b. The attached ancil files for the sediment source vary within the four different sensitivity experiments using the optimised Nd isotope scheme to explore the isotope distribution and spatial extent of a benthic flux. A folder with the sediment ancil files for each simulation as described in the manuscript are within. File names correspond to the simulation name. /sediment/REF/ /sediment/REF-SED2/ /sediment/REF-SED3/ /sediment/REF-SED3-MG/ ------------------------------------------------------------------ - ND ISOTOPE SCHEME OPTIMISATION SCRIPTS (/nd_optimisation_scripts/) ------------------------------------------------------------------ Contains the R scripts (.R files) used to calculate the parameter values for each ensemble wave of simulations in the optimisation of the Nd isotope scheme in FAMOUS GCM _extendedLHC.R (function for k-extended LHC sampling design) 01_wave1_design.R (script to predict parameter values for wave 1 of simulations) 02_wave2_design.R (script to predict parameter values for wave 2 of simulations) 03_choose_ctrl.R (script to predict the parameter values for the optimised Nd scheme in FAMOUS) /data/ (contains .csv files with the accompanying data required to run R scripts) ------------------------------------------------------------------ - MODEL OUTPUT (/model_output.zip) ------------------------------------------------------------------ NETCDF FILES: FILENAME (OUTPUT/TRACER, SIMULATION) Output from the statistically optimised reference simulations (/reference_simulations/): xpiab_concNd.nc ([Nd], REF) xpiab_Nd_decadal_avg.nc (eNd, REF) xpiad_concNd.nc ([Nd], REF_CONC1) xpiad_Nd_decadal_avg.nc (eNd, REF_CONC1) xphjf_concNd.nc ([Nd], REF_CONC2) xphjf_Nd_decadal_avg.nc (eNd, REF_CONC2) xpiac_concNd.nc ([Nd], REF_IC) xpiac_Nd_decadal_avg.nc (eNd, REF_IC) Output from the benthic flux sensitivity simulations (/benthic_flux_simulations/) xpiag_concNd.nc ([Nd], REF-SED2) xpiag_Nd_decadal_avg.nc (eNd, REF-SED2) xpiah_concNd.nc ([Nd], REF-SED3) xpiah_Nd_decadal_avg.nc (eNd, REF-SED3) xpiaq_concNd.nc ([Nd], REF-SED3-MG) xpiaq_Nd_decadal_avg.nc (eNd, REF-SED3-MG)