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fabm-su-mixo.yaml
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fabm-su-mixo.yaml
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instances:
ammonium:
model: su/pools
parameters:
has_nitrogen: true # whether this pool contains nitrogen, default = false
initialization:
N: 14.0 # nitrogen (ugN L-1)
nitrate:
model: su/pools
parameters:
has_nitrogen: true # whether this pool contains nitrogen, default = false
initialization:
N: 140.0 # nitrogen (ugN L-1)
phosphate:
model: su/pools
parameters:
has_phosphorus: true # whether this pool contains phosphorus, default = false
initialization:
P: 3.1 # phosphorus (ugP L-1)
DIC:
model: su/pools
parameters:
has_carbon: true # whether this pool contains carbon, default = false
initialization:
C: 240.0 # carbon (ugC L-1)
DOC:
model: su/pools
parameters:
has_carbon: true # whether this pool contains carbon, default = false
initialization:
C: 240.0 # carbon (ugC L-1)
sDOM:
model: su/pools
parameters:
has_nitrogen: true # whether this pool contains nitrogen, default = false
has_phosphorus: true # whether this pool contains phosphorus, default = false
has_carbon: true # whether this pool contains carbon, default = false
initialization:
C: 12.0 # carbon (ugC L-1)
N: 1.4 # nitrogen (ugN L-1)
P: 0.31 # phosphorus (ugP L-1)
cDOM:
model: su/pools
parameters:
has_nitrogen: true # whether this pool contains nitrogen, default = false
has_phosphorus: true # whether this pool contains phosphorus, default = false
has_carbon: true # whether this pool contains carbon, default = false
initialization:
C: 0.0 # carbon (ugC L-1)
N: 0.0 # nitrogen (ugN L-1)
P: 0.0 # phosphorus (ugP L-1)
POM:
model: su/pools
parameters:
has_silicate: true # whether this pool contains silicate, default = false
initialization:
S: 10.0 # silicate (ugSi L-1)
algae:
model: su/algae
initialization:
aC: 1.0 # core algae C-biomass (ugC L-1)
aN: 0.25 # core algae N-biomass (ugN L-1)
aP: 0.02 # core algae P-biomass (ugP L-1)
aChl: 0.06 # core algae Chl-biomass (ugChl L-1)
coupling:
NH4: ammonium/N # ammonium (ugN L-1)
NO3: nitrate/N # nitrate (ugN L-1)
DIP: phosphate/P # dissolved inorganic phosphorus (ugP L-1)
DIC: DIC/C # dissolved inorganic carbon (ugC L-1)
sDOMC: sDOM/C # semi-labile dissolved organic material-carbon (ugC L-1)
sDOMN: sDOM/N # semi-labile dissolved organic material-nitrogen (ugN L-1)
sDOMP: sDOM/P # semi-labile dissolved organic material-phosphorus (ugP L-1)
DOC: DOC/C # dissolved organic carbon (ugC L-1)
bacteria:
model: su/bacteria
initialization:
bC: 1.0 # core bacterial C-biomass (ugC L-1)
coupling:
NH4: ammonium/N # ammonium (ugN L-1)
NO3: nitrate/N # nitrate (ugN L-1)
DIP: phosphate/P # dissolved inorganic phosphorus (ugP L-1)
DIC: DIC/C # dissolved inorganic carbon (ugC L-1)
DOC: DOC/C # dissolved organic carbon (ugC L-1)
sDOMC: sDOM/C # semi-labile dissolved organic material-carbon (ugC L-1)
sDOMN: sDOM/N # semi-labile dissolved organic material-nitrogen (ugN L-1)
sDOMP: sDOM/P # semi-labile dissolved organic material-phosphorus (ugP L-1)
cDOMC: cDOM/C # combined dissolved organic material-carbon (ugC L-1)
cDOMN: cDOM/N # combined dissolved organic material-nitrogen (ugN L-1)
cDOMP: cDOM/P # combined dissolved organic material-phosphorus (ugP L-1)
PB:
long_name: Perfect Beast
model: su/mixo
parameters:
mChlCabs: 0.03 # absolute maximum Chl:C (gChl (gC)-1), default = 0.03
Smix: 0 # switch to mix C input; 0 if substitutional; 1 if additive mixotrophic interaction (dl), default = 0
Svol: 1 # switch to share cell volume; 0 if feeding vacuole does not compromise ChlCmax (dl), default = 0
mUm: 0.7 # maximum possible growth rate (day-1), default = 0.7
mUphot: 0.35 # maximum phototrophic growth rate (day-1), default = 0.35
kpmax: 1.852 # kleptochloroplast photosynthetic rate (gC/gC/day), default = 0.0
SSi: false # switch to activate silicate limitation, default = false
nprey: 2 # number of prey types, default = 0
preyESD1: 10.5 # size in ESD1 (um)
pref1: 1.0 # prey preference1 (dl)
steal1: 1 # steal or not chloroplasts from prey1
preyESD2: 1.0 # size in ESD2 (um)
pref2: 1.0 # prey preference2 (dl)
steal2: 0 # steal or not chloroplasts from prey2
initialization:
mC: 1.0 # core C-biomass (ugC L-1)
mN: 0.2 # core N-biomass (ugN L-1)
mP: 0.02 # core P-biomass (ugP L-1)
mChl: 0.01 # core Chl-biomass (ugChl L-1)
mF: 1e-12 # food vacuole C-biomass (ugC L-1)
mFN: 0.0 # food vacuole N-biomass (ugN L-1)
mFP: 0.0 # food vacuole P-biomass (ugP L-1)
mFChl: 1e-18 # food vacuole Chl-biomass (ugChl L-1)
coupling:
prey1: algae
prey2: bacteria
NH4: ammonium
NO3: nitrate
DIP: phosphate
DIC: DIC
sDOMC: sDOM
sDOMN: sDOM
sDOMP: sDOM
DOC: DOC
RPs: POM