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The CORPSE configuration is based off of Sulman et al. 2018. This model uses RMM for DOM uptake, LM for POM decomposition, and LM for MB decay; see dynamics for more details.

Usage

CORPSE_config

Format

An object created from memc_configure, containing the following elements.

name

CORPSE

table

table of the dynamics used by this model configuration; see dynamics for more details.

params

data table of the model parameters; see memc_params for more details.

state

vector of the initial state values; see memc_initial_state for more details.

References

Sulman et al. 2018

See also

Examples

## Use memc_solve to run the simulation using this configuration.
print(CORPSE_config)
#> $name
#> [1] "CORPSE"
#> 
#> $table
#>    model DOMuptake POMdecomp MBdecay
#> 1 CORPSE       RMM        LM      LM
#> 
#> $params
#>    parameter                                              description
#> 1        V_p        maximum specific decomposition rate for POM by EP
#> 2        K_p        half-saturation constant for decomposition of POM
#> 3        V_m        maximum specific decomposition rate for MOM by EM
#> 4        K_m        half-saturation constant for decomposition of MOM
#> 5        V_d       maximum specific uptake rate of D for growth of MB
#> 6        K_d half-saturation constant of uptake of D for growth of MB
#> 7        f_d                fraction of decomposed P allocated to DOM
#> 8        g_d                      fraction of dead B allocated to DOM
#> 9       p_ep                      fraction of mR for production of EP
#> 10      p_em                      fraction of mR for production of EM
#> 11      r_ep                                      turnover rate of EP
#> 12      r_em                                      turnover rate of EM
#> 13     Q_max                            maximum DOC sorption capacity
#> 14     K_ads                                 specific adsorption rate
#> 15     K_des                                          desorption rate
#> 16   dd_beta            strength of density dependent microbial decay
#> 17 Input_POM                                               POM input 
#> 18 Input_DOM                                                DOM input
#> 19       CUE                                    carbon use efficiency
#>              units   value
#> 1  mgC mgC^-1 d^-1  14.000
#> 2     mgC / g soil  50.000
#> 3  mgC mgC^-1 d^-1   0.250
#> 4      mg C/g soil 250.000
#> 5  mgC mgC^-1 d^-1   3.000
#> 6      mg C/g soil   0.250
#> 7             <NA>   0.500
#> 8             <NA>   0.500
#> 9             <NA>   0.010
#> 10            <NA>   0.010
#> 11 mgC mgC^-1 d^-1   0.001
#> 12 mgC mgC^-1 d^-1   0.001
#> 13    mgC / g soil   3.400
#> 14 mgC mgC^-1 d^-1   0.006
#> 15 mgC mgC^-1 d^-1   0.001
#> 16            <NA>   1.000
#> 17            mg C   0.000
#> 18            mg C   0.000
#> 19                   0.400
#> 
#> $state
#>      POM      MOM      QOM       MB      DOM       EP       EM       IC 
#> 10.00000  5.00000  0.10000  2.00000  1.00000  0.00001  0.00001  0.00000 
#>      Tot 
#> 18.10002 
#> 
memc_solve(mod = CORPSE_config, time = 1:10)
#>      time variable        value       units   name
#>     <num>   <fctr>        <num>      <char> <char>
#>  1:     1      POM 1.000000e+01 mg C/g soil CORPSE
#>  2:     2      POM 8.702262e-02 mg C/g soil CORPSE
#>  3:     3      POM 4.495537e-02 mg C/g soil CORPSE
#>  4:     4      POM 2.186990e-02 mg C/g soil CORPSE
#>  5:     5      POM 1.058152e-02 mg C/g soil CORPSE
#>  6:     6      POM 5.117130e-03 mg C/g soil CORPSE
#>  7:     7      POM 2.474830e-03 mg C/g soil CORPSE
#>  8:     8      POM 1.197683e-03 mg C/g soil CORPSE
#>  9:     9      POM 5.800361e-04 mg C/g soil CORPSE
#> 10:    10      POM 2.810992e-04 mg C/g soil CORPSE
#> 11:     1      MOM 5.000000e+00 mg C/g soil CORPSE
#> 12:     2      MOM 1.062332e+01 mg C/g soil CORPSE
#> 13:     3      MOM 1.107449e+01 mg C/g soil CORPSE
#> 14:     4      MOM 1.129847e+01 mg C/g soil CORPSE
#> 15:     5      MOM 1.140671e+01 mg C/g soil CORPSE
#> 16:     6      MOM 1.145872e+01 mg C/g soil CORPSE
#> 17:     7      MOM 1.148352e+01 mg C/g soil CORPSE
#> 18:     8      MOM 1.149517e+01 mg C/g soil CORPSE
#> 19:     9      MOM 1.150047e+01 mg C/g soil CORPSE
#> 20:    10      MOM 1.150268e+01 mg C/g soil CORPSE
#> 21:     1      QOM 1.000000e-01 mg C/g soil CORPSE
#> 22:     2      QOM 1.145557e-01 mg C/g soil CORPSE
#> 23:     3      QOM 1.189325e-01 mg C/g soil CORPSE
#> 24:     4      QOM 1.211477e-01 mg C/g soil CORPSE
#> 25:     5      QOM 1.224851e-01 mg C/g soil CORPSE
#> 26:     6      QOM 1.234069e-01 mg C/g soil CORPSE
#> 27:     7      QOM 1.241285e-01 mg C/g soil CORPSE
#> 28:     8      QOM 1.247537e-01 mg C/g soil CORPSE
#> 29:     9      QOM 1.253326e-01 mg C/g soil CORPSE
#> 30:    10      QOM 1.258897e-01 mg C/g soil CORPSE
#> 31:     1       MB 2.000000e+00 mg C/g soil CORPSE
#> 32:     2       MB 1.991354e+00 mg C/g soil CORPSE
#> 33:     3       MB 1.015993e+00 mg C/g soil CORPSE
#> 34:     4       MB 4.937394e-01 mg C/g soil CORPSE
#> 35:     5       MB 2.388665e-01 mg C/g soil CORPSE
#> 36:     6       MB 1.155142e-01 mg C/g soil CORPSE
#> 37:     7       MB 5.587535e-02 mg C/g soil CORPSE
#> 38:     8       MB 2.704091e-02 mg C/g soil CORPSE
#> 39:     9       MB 1.309532e-02 mg C/g soil CORPSE
#> 40:    10       MB 6.346966e-03 mg C/g soil CORPSE
#> 41:     1      DOM 1.000000e+00 mg C/g soil CORPSE
#> 42:     2      DOM 1.158808e+00 mg C/g soil CORPSE
#> 43:     3      DOM 5.128399e-01 mg C/g soil CORPSE
#> 44:     4      DOM 2.942097e-01 mg C/g soil CORPSE
#> 45:     5      DOM 1.929027e-01 mg C/g soil CORPSE
#> 46:     6      DOM 1.442428e-01 mg C/g soil CORPSE
#> 47:     7      DOM 1.208025e-01 mg C/g soil CORPSE
#> 48:     8      DOM 1.095501e-01 mg C/g soil CORPSE
#> 49:     9      DOM 1.042048e-01 mg C/g soil CORPSE
#> 50:    10      DOM 1.017287e-01 mg C/g soil CORPSE
#> 51:     1       EP 1.000000e-05 mg C/g soil CORPSE
#> 52:     2       EP 2.721961e-02 mg C/g soil CORPSE
#> 53:     3       EP 4.475479e-02 mg C/g soil CORPSE
#> 54:     4       EP 5.339768e-02 mg C/g soil CORPSE
#> 55:     5       EP 5.755449e-02 mg C/g soil CORPSE
#> 56:     6       EP 5.953327e-02 mg C/g soil CORPSE
#> 57:     7       EP 6.045858e-02 mg C/g soil CORPSE
#> 58:     8       EP 6.087460e-02 mg C/g soil CORPSE
#> 59:     9       EP 6.104440e-02 mg C/g soil CORPSE
#> 60:    10       EP 6.109512e-02 mg C/g soil CORPSE
#> 61:     1       EM 1.000000e-05 mg C/g soil CORPSE
#> 62:     2       EM 2.721961e-02 mg C/g soil CORPSE
#> 63:     3       EM 4.475479e-02 mg C/g soil CORPSE
#> 64:     4       EM 5.339768e-02 mg C/g soil CORPSE
#> 65:     5       EM 5.755449e-02 mg C/g soil CORPSE
#> 66:     6       EM 5.953327e-02 mg C/g soil CORPSE
#> 67:     7       EM 6.045858e-02 mg C/g soil CORPSE
#> 68:     8       EM 6.087460e-02 mg C/g soil CORPSE
#> 69:     9       EM 6.104440e-02 mg C/g soil CORPSE
#> 70:    10       EM 6.109512e-02 mg C/g soil CORPSE
#> 71:     1       IC 0.000000e+00 mg C/g soil CORPSE
#> 72:     2       IC 4.070518e+00 mg C/g soil CORPSE
#> 73:     3       IC 5.243301e+00 mg C/g soil CORPSE
#> 74:     4       IC 5.763793e+00 mg C/g soil CORPSE
#> 75:     5       IC 6.013364e+00 mg C/g soil CORPSE
#> 76:     6       IC 6.133953e+00 mg C/g soil CORPSE
#> 77:     7       IC 6.192299e+00 mg C/g soil CORPSE
#> 78:     8       IC 6.220554e+00 mg C/g soil CORPSE
#> 79:     9       IC 6.234252e+00 mg C/g soil CORPSE
#> 80:    10       IC 6.240900e+00 mg C/g soil CORPSE
#> 81:     1      Tot 1.810002e+01 mg C/g soil CORPSE
#> 82:     2      Tot 1.402950e+01 mg C/g soil CORPSE
#> 83:     3      Tot 1.285672e+01 mg C/g soil CORPSE
#> 84:     4      Tot 1.233623e+01 mg C/g soil CORPSE
#> 85:     5      Tot 1.208666e+01 mg C/g soil CORPSE
#> 86:     6      Tot 1.196607e+01 mg C/g soil CORPSE
#> 87:     7      Tot 1.190772e+01 mg C/g soil CORPSE
#> 88:     8      Tot 1.187947e+01 mg C/g soil CORPSE
#> 89:     9      Tot 1.186577e+01 mg C/g soil CORPSE
#> 90:    10      Tot 1.185912e+01 mg C/g soil CORPSE
#>      time variable        value       units   name