Supplementary material for the thesis “Modelling carbon isotopes to examine ocean circulation and the marine carbon cycle” Jennifer Dentith, July 2019 School of Earth and Environment, University of Leeds ------------------------------------------------------------------------------------------------------------------------------- ------------------------------------------------------------------------------------------------------------------------------- 1) FILES FOR ADDING CARBON ISOTOPES (13C AND 14C) AND WATER AGE TO THE OCEAN COMPONENT OF THE FAMOUS GCM ------------------------------------------------------------------------------------------------------------------------------- MODIFICATION FILES: FILENAME (USAGE) abioC14.mod (Running with the abiotic 14C tracer) age_water.mod (Adding the water age tracer - written by Paul Valdes, University of Bristol) C13_bC14.mod (Adding 13C and biotic 14C) get_c14_c13.f (Prescribing time-varying atmospheric 13C and 14C values - bomb 14C and the 13C-14C Suess effect) oco2_cap_Ciso.mod (Capping PCO2 and the CO2 flux - written by Robin Smith, University of Reading) vary_gas_params.f (Increasing the number of CO2 turning points in the model when running with transient CO2) ------------------------------------------------------------------------------------------------------------------------------- POST-PROCESSING SCRIPTS: FILENAME (USAGE) hand_edit_abioC13 (Adding the 13C tracer - logical argument and initial atmospheric value) hand_edit_co2 (Prescribing time-varying atmospheric CO2 from the OCMIP2 protocol - Orr et al., 2000) ------------------------------------------------------------------------------------------------------------------------------- PRESTASH FILES: FILENAME (TRACER) Add_13C_Tracer9 (DI13C) Add_Phyto13_Tracer10 (Phytoplankton-13) Add_Zoo13_Tracer11 (Zooplankton-13) Add_Detritus13_Tracer12 (Detritus-13) Add_b14C_Tracer13 (Biotic DI14C) Add_Phyto14_Tracer14 (Phytoplankton-14) Add_Zoo14_Tracer15 (Zooplankton-14) Add_Detritus14_Tracer16 (Detritus-14) Add_14C_Tracer17 (Abiotic DI14C) Add_WA_Tracer18 (Water age) ------------------------------------------------------------------------------------------------------------------------------- ANCIL FILES: FILENAME (TRACER) p13_10.ancil (Phytoplankton-13) z13_11.ancil (Zooplankton-13) d13_12.ancil (Detritus-13) p14_14.ancil (Phytoplankton-14) z14_15.ancil (Zooplankton-14) d14_16.ancil (Detritus-14) n.b. The attached ancil files are for FAMOUS-MOSES1 only. When using a different start dump (e.g. FAMOUS-MOSES2.2), new ancil files for initialising the biotic (PZD) tracer fields must be created by copying the relevant 12C fields from the start dump. For example, copy the existing phytoplankton field to initialise the phytoplankton-13 tracer and copy the existing detritus field to initialise the detritus-14 tracer. ------------------------------------------------------------------------------------------------------------------------------- INPUT FILES: FILENAME (USAGE) ocmip_c14_global (Time-varying atmospheric 14C values from the OCMIP2 protocol - Orr et al., 2000) transient_c13_atm (Time-varying atmospheric 13C values from the Law Dome and South Pole ice core records - Rubino et al., 2013) ------------------------------------------------------------------------------------------------------------------------------- ------------------------------------------------------------------------------------------------------------------------------- 2) MODEL OUTPUT PRESENTED IN CHAPTERS 3 AND 4 OF THE THESIS ------------------------------------------------------------------------------------------------------------------------------- NETCDF FILES: FILENAME (TRACER, SIMULATION) Output from the "std" simulation: xoavb.c12.nc (DIC, spin-up) xoavb.c13.nc (DI13C, spin-up) xoavb.bc14.nc (Biotic DI14C, spin-up) xoavb.c14.nc (Abiotic DI14C, spin-up) std.alphap.nc (Fractionation during photosynthesis, spin-up) xoavi.c12.nc (DIC, transient) xoavi.c13.nc (DI13C, transient) xoavi.bc14.nc (Biotic DI14C, transient) xoavi.c14.nc (Abiotic DI14C, transient) xoavi.p13.nc (13P, transient) xoavi.p12.nc (12P, transient) xoavi.z13.nc (13Z, transient) xoavi.z12.nc (12Z, transient) xoavi.d13.nc (13D, transient) xoavi.d12.nc (12D, transient) xoavi.primprod.nc (Primary productivity, transient) xoavi.nutrients.nc (Nutrients, transient) xoavi.alk.nc (Alkalinity, transient) xoavi.oceantemp.nc (Ocean potential temperature, transient) xognc.c12.nc (DIC, 1765-2000 AD control) xognc.c13.nc (DI13C, 1765-2000 AD control) xognc.bc14.nc (Biotic DI14C, 1765-2000 AD control) xognc.c14.nc (Abiotic DI14C, 1765-2000 AD control) Output from the on-off sensitivity experiment: xoavd.c13.nc (DI13C, "ki-fract-only") xoave.c13.nc (DI13C, "no-bio-fract") xoavf.c13.nc (DI13C, "no-asgx-fract") Output from the biological fractionation sensitivity experiment: xoavk.c13.nc (DI13C, "L95" spin-up) L95.alphap.nc (Fractionation during photosynthesis, "L95" spin-up) xoavu.c13.nc (DI13C, "L95" transient) xoavu.p13.nc (13P, "L95" transient) xoavu.p12.nc (12P, "L95" transient) xoavu.z13.nc (13Z, "L95" transient) xoavu.z12.nc (12Z, "L95" transient) xoavu.d13.nc (13D, "L95" transient) xoavu.d12.nc (12D, "L95" transient) xoavl.c13.nc (DI13C, "L97" spin-up) L97.alphap.nc (Fractionation during photosynthesis, "L97" spin-up) xoavl.c13.nc (DI13C, "L97" transient) xoavw.p13.nc (13P, "L97" transient) xoavw.p12.nc (12P, "L97" transient) xoavw.z13.nc (13Z, "L97" transient) xoavw.z12.nc (12Z, "L97" transient) xoavw.d13.nc (13D, "L97" transient) xoavw.d12.nc (12D, "L97" transient) Water age: spinup.waterage.annual.nc transient.waterage.annual.nc