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The MIMCS configuration is based off of Wieder et al. 2015. This model uses MM for the DOM uptake, MM for POM decomposition, and DD for MB decay; see dynamics for more details.

Usage

MIMCS_config

Format

An object created from memc_configure, containing the following elements.

name

MIMCS

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

Wieder et al. 2015

Examples

## Use memc_solve to run the simulation using this configuration.
print(MIMCS_config)
#> $name
#> [1] "MIMCS"
#> 
#> $table
#>   model DOMuptake POMdecomp MBdecay
#> 1 MIMCS        MM        MM      DD
#> 
#> $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>   2.000
#> 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 = MIMCS_config, time = 1:10)
#>      time variable       value       units   name
#>     <num>   <fctr>       <num>      <char> <char>
#>  1:     1      POM 10.00000000 mg C/g soil  MIMCS
#>  2:     2      POM 10.95619098 mg C/g soil  MIMCS
#>  3:     3      POM 11.11889197 mg C/g soil  MIMCS
#>  4:     4      POM 11.14272636 mg C/g soil  MIMCS
#>  5:     5      POM 11.11848609 mg C/g soil  MIMCS
#>  6:     6      POM 11.07038243 mg C/g soil  MIMCS
#>  7:     7      POM 11.00786996 mg C/g soil  MIMCS
#>  8:     8      POM 10.93551315 mg C/g soil  MIMCS
#>  9:     9      POM 10.85583358 mg C/g soil  MIMCS
#> 10:    10      POM 10.77036028 mg C/g soil  MIMCS
#> 11:     1      MOM  5.00000000 mg C/g soil  MIMCS
#> 12:     2      MOM  5.01063569 mg C/g soil  MIMCS
#> 13:     3      MOM  5.03438974 mg C/g soil  MIMCS
#> 14:     4      MOM  5.06540822 mg C/g soil  MIMCS
#> 15:     5      MOM  5.10137631 mg C/g soil  MIMCS
#> 16:     6      MOM  5.14109633 mg C/g soil  MIMCS
#> 17:     7      MOM  5.18385016 mg C/g soil  MIMCS
#> 18:     8      MOM  5.22917041 mg C/g soil  MIMCS
#> 19:     9      MOM  5.27673710 mg C/g soil  MIMCS
#> 20:    10      MOM  5.32632365 mg C/g soil  MIMCS
#> 21:     1      QOM  0.10000000 mg C/g soil  MIMCS
#> 22:     2      QOM  0.10178079 mg C/g soil  MIMCS
#> 23:     3      QOM  0.10199580 mg C/g soil  MIMCS
#> 24:     4      QOM  0.10213966 mg C/g soil  MIMCS
#> 25:     5      QOM  0.10226937 mg C/g soil  MIMCS
#> 26:     6      QOM  0.10240270 mg C/g soil  MIMCS
#> 27:     7      QOM  0.10254738 mg C/g soil  MIMCS
#> 28:     8      QOM  0.10270683 mg C/g soil  MIMCS
#> 29:     9      QOM  0.10288220 mg C/g soil  MIMCS
#> 30:    10      QOM  0.10307326 mg C/g soil  MIMCS
#> 31:     1       MB  2.00000000 mg C/g soil  MIMCS
#> 32:     2       MB  0.78594185 mg C/g soil  MIMCS
#> 33:     3       MB  0.45507469 mg C/g soil  MIMCS
#> 34:     4       MB  0.32269533 mg C/g soil  MIMCS
#> 35:     5       MB  0.25374428 mg C/g soil  MIMCS
#> 36:     6       MB  0.21294150 mg C/g soil  MIMCS
#> 37:     7       MB  0.18709516 mg C/g soil  MIMCS
#> 38:     8       MB  0.17014106 mg C/g soil  MIMCS
#> 39:     9       MB  0.15888931 mg C/g soil  MIMCS
#> 40:    10       MB  0.15148798 mg C/g soil  MIMCS
#> 41:     1      DOM  1.00000000 mg C/g soil  MIMCS
#> 42:     2      DOM  0.05919225 mg C/g soil  MIMCS
#> 43:     3      DOM  0.03309850 mg C/g soil  MIMCS
#> 44:     4      DOM  0.02791116 mg C/g soil  MIMCS
#> 45:     5      DOM  0.02745580 mg C/g soil  MIMCS
#> 46:     6      DOM  0.02891942 mg C/g soil  MIMCS
#> 47:     7      DOM  0.03125726 mg C/g soil  MIMCS
#> 48:     8      DOM  0.03395304 mg C/g soil  MIMCS
#> 49:     9      DOM  0.03670977 mg C/g soil  MIMCS
#> 50:    10      DOM  0.03934787 mg C/g soil  MIMCS
#> 51:     1       EP  0.00001000 mg C/g soil  MIMCS
#> 52:     2       EP  0.01494581 mg C/g soil  MIMCS
#> 53:     3       EP  0.02201630 mg C/g soil  MIMCS
#> 54:     4       EP  0.02656158 mg C/g soil  MIMCS
#> 55:     5       EP  0.02995278 mg C/g soil  MIMCS
#> 56:     6       EP  0.03270196 mg C/g soil  MIMCS
#> 57:     7       EP  0.03505710 mg C/g soil  MIMCS
#> 58:     8       EP  0.03715743 mg C/g soil  MIMCS
#> 59:     9       EP  0.03908886 mg C/g soil  MIMCS
#> 60:    10       EP  0.04090793 mg C/g soil  MIMCS
#> 61:     1       EM  0.00001000 mg C/g soil  MIMCS
#> 62:     2       EM  0.01494581 mg C/g soil  MIMCS
#> 63:     3       EM  0.02201630 mg C/g soil  MIMCS
#> 64:     4       EM  0.02656158 mg C/g soil  MIMCS
#> 65:     5       EM  0.02995278 mg C/g soil  MIMCS
#> 66:     6       EM  0.03270196 mg C/g soil  MIMCS
#> 67:     7       EM  0.03505710 mg C/g soil  MIMCS
#> 68:     8       EM  0.03715743 mg C/g soil  MIMCS
#> 69:     9       EM  0.03908886 mg C/g soil  MIMCS
#> 70:    10       EM  0.04090793 mg C/g soil  MIMCS
#> 71:     1       IC  0.00000000 mg C/g soil  MIMCS
#> 72:     2       IC  1.15638683 mg C/g soil  MIMCS
#> 73:     3       IC  1.31253671 mg C/g soil  MIMCS
#> 74:     4       IC  1.38601611 mg C/g soil  MIMCS
#> 75:     5       IC  1.43678258 mg C/g soil  MIMCS
#> 76:     6       IC  1.47887370 mg C/g soil  MIMCS
#> 77:     7       IC  1.51728588 mg C/g soil  MIMCS
#> 78:     8       IC  1.55422064 mg C/g soil  MIMCS
#> 79:     9       IC  1.59079031 mg C/g soil  MIMCS
#> 80:    10       IC  1.62761110 mg C/g soil  MIMCS
#> 81:     1      Tot 18.10002000 mg C/g soil  MIMCS
#> 82:     2      Tot 16.94363317 mg C/g soil  MIMCS
#> 83:     3      Tot 16.78748329 mg C/g soil  MIMCS
#> 84:     4      Tot 16.71400389 mg C/g soil  MIMCS
#> 85:     5      Tot 16.66323742 mg C/g soil  MIMCS
#> 86:     6      Tot 16.62114630 mg C/g soil  MIMCS
#> 87:     7      Tot 16.58273412 mg C/g soil  MIMCS
#> 88:     8      Tot 16.54579936 mg C/g soil  MIMCS
#> 89:     9      Tot 16.50922969 mg C/g soil  MIMCS
#> 90:    10      Tot 16.47240890 mg C/g soil  MIMCS
#>      time variable       value       units   name