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commit b439b630a2edf6847f6ee2486d3c612a71661852
Author: Zhengui Wang <[email protected]>
Date:   Wed Jul 3 12:36:26 2024 -0400

    working on SAV module in ICM; need more test
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wzhengui committed Jul 3, 2024
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49 changes: 20 additions & 29 deletions sample_inputs/icm.nml
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Expand Up @@ -365,10 +365,6 @@ bKhPOS = 5.0e4 !POS half saturation for POS dissolution (g/m3)
bDOc_SI = 1.0 !DO criteria for silica sorptiona (g[O2]/m3)
bJPOSa = 0.0 !additional POS flux associated with POM detrius beside algea (g.m-2.day-1)

!SAV into sediment POM (for isav_icm=1)
bFCs = 0.65 0.255 0.095 !SAV POC into 3G sed 3G POC
bFNs = 0.65 0.300 0.050 !SAV PON into 3G sed 3G PON
bFPs = 0.65 0.255 0.095 !SAV POP into 3G sed 3G POP
/

&Silica
Expand Down Expand Up @@ -437,14 +433,12 @@ pRea = 1.0 !reaeration rate for CO2
inu_ph = 0 !nudge option for pH model
/

&SAV
&SAV_ICM
!-----------------------------------------------------------------------
!Submerged Aquatic Vegetation (SAV) parameters
!-----------------------------------------------------------------------
spatch0 = -999 !region flag for SAV. (1: ON all elem.; -999: spatial)
stleaf0 = -999 !init conc of total sav leaf
ststem0 = -999 !init conc of total sav stem
stroot0 = -999 !init conc of total sav root
sav0 = 100.0 50.0 10.0 !init. SAV leaf/stem/root conc. (g[C].m-2)

!growth coefficients
sGPM = 0.1 !maximum growth rate (day-1)
Expand All @@ -454,27 +448,24 @@ sFAM = 0.2 !fraction of leaf production to active metabolism
sFCP = 0.6 0.3 0.1 !fractions of production to leaf/stem/root biomass

!metabolism coefficients
sMTB = 0.02 0.02 0.02 !metabolism rates of leaf/stem/root
sTMT = 20 20 20 !reference temp. for leaf/stem/root metabolism
sKTMT = 0.069 0.069 0.069 !temp. dependence of leaf/stem/root metabolism
sFCM = 0.05 0.15 0.3 0.5 !fractions of metabolism C into (RPOC,LPOC,DOC,CO2)
sFNM = 0.05 0.15 0.3 0.5 !fractions of metabolism N into (RPON,LPON,DON,NH4)
sFPM = 0.05 0.1 0.35 0.5 !fractions of metabolism P into (RPOP,LPOP,DOP,PO4)

!nutrient limitation
sKhNw = 0.01 !nitrogen half saturation in water column
sKhNs = 0.1 !nitrogen half saturation in sediments
sKhNH4 = 0.1 !ammonium half saturation
sKhPw = 0.001 !phosphorus half saturation in water column
sKhPs = 0.01 !phosphorus half saturation in sediments
sMTB = 0.02 0.02 0.02 !metabolism rates of leaf/stem/root (day-1)
sTMT = 20 20 20 !reference temp. for leaf/stem/root metabolism (oC)
sKTMT = 0.069 0.069 0.069 !temp. dependence of leaf/stem/root metabolism (oC-1)
sFCM = 0.05 0.15 0.3 0.5 !fractions of metabolism leaf/stem C into (RPOC,LPOC,DOC,CO2)
sFNM = 0.05 0.15 0.3 0.5 !fractions of metabolism leaf/stem N into (RPON,LPON,DON,NH4)
sFPM = 0.05 0.1 0.35 0.5 !fractions of metabolism leaf/stem P into (RPOP,LPOP,DOP,PO4)
sFCMb = 0.65 0.255 0.095 0.0 !fractions of metabolism root C into (G1/G2/G3 POC, CO2) in sediment
sFNMb = 0.65 0.300 0.050 0.0 !fractions of metabolism root N into (G1/G2/G3 PON, NH4) in sediment
sFPMb = 0.65 0.255 0.095 0.0 !fractions of metabolism root P into (G1/G2/G3 POP, PO4) in sediment

!misc. coefficients
salpha = 0.006 !init. slope of P-I curve (g[C]*m2/g[Chl]/E)
sKe = 0.045 !light attenuation due to sav absorption
shtm = 0.054 2.0 !minimum (base) and maximium canopy height
s2ht = 0.0036 0.0036 0.0 !coeffs. converting (leaf,stem,root) to canopy height
sc2dw = 0.38 !carbon to dry weight ratio of SAV
s2den = 10 !coeff. computing SAV density from leaf&stem
sKhN = 0.01 0.1 !reference N conc. in water and sediment (mg/L)
sKhP = 0.001 0.01 !reference P conc. in water and sediment (mg/L)
salpha = 0.006 !init. slope of P-I curve (g[C].m2.g[Chl]-1.E-1)
sKe = 0.045 !light attenuation from leaf/stem absorption (g-1[C].m2)
shtm = 0.054 2.0 !minimum (base) and maximium canopy height (m)
s2ht = 0.0036 0.0036 0.0 !coeffs. converting (leaf,stem,root) to canopy height (g-1[C].m3)
sc2dw = 0.38 !carbon to dry weight ratio of sav
sn2c = 0.09 !nitrogen to carbon ratio of sav
sp2c = 0.01 !phosphorus to carbon ratio
so2c = 2.67 !oxygen to carbon ratio
Expand All @@ -486,7 +477,7 @@ so2c = 2.67 !oxygen to carbon ratio
!-----------------------------------------------------------------------
iNmarsh = 1 !whether turn on nitrogen/phosphorus dynamics in Marsh kenetics (0: OFF; 1: ON)
vpatch0 = -999 !region flag for marsh. (1: ON all elem.; -999: spatial)
vmarsh0 = 100.0 100.0 100.0 100.0 100.0 100.0 30.0 30.0 30.0 !init. leaf/stem/root conc. [nmarsh,3]
vmarsh0 = 100.0 100.0 100.0 100.0 100.0 100.0 30.0 30.0 30.0 !init. leaf/stem/root conc. (g[C].m-3) [nmarsh,3]

!growth coefficients
vGPM = 0.1 0.1 0.1 !maximum growth rate (day-1)
Expand All @@ -499,7 +490,7 @@ vFCP = 0.6 0.6 0.6 0.3 0.3 0.3 0.1 0.1 0.1 !partitionin
vMTB = 0.02 0.02 0.02 0.02 0.02 0.02 0.01 0.01 0.01 !metabolism rates of leaf/stem/root (day-1)[nmarsh,3]
vTMT = 20.0 20.0 20.0 20.0 20.0 20.0 20.0 20.0 20.0 !reference temp. for metabolism (oC) [nmarsh,3]
vKTMT = 0.069 0.069 0.069 0.069 0.069 0.069 0.069 0.069 0.069 !temp. depdenpence for metabolism (oC-1) [nmarsh,3]
vFCM = 0.05 0.05 0.05 0.15 0.15 0.15 0.3 0.3 0.3 0.5 0.5 0.5 !partition of metabolism N into (RPOC,LPOC,DOC,CO2) [nmarsh,4]
vFCM = 0.05 0.05 0.05 0.15 0.15 0.15 0.3 0.3 0.3 0.5 0.5 0.5 !partition of metabolism C into (RPOC,LPOC,DOC,CO2) [nmarsh,4]
vFNM = 0.05 0.05 0.05 0.15 0.15 0.15 0.3 0.3 0.3 0.5 0.5 0.5 !partition of metabolism N into (RPON,LPON,DON,NH4) [nmarsh,4]
vFPM = 0.05 0.05 0.05 0.1 0.1 0.1 0.35 0.35 0.35 0.5 0.5 0.5 !partition of metabolism P into (RPOP,LPOP,DOP,PO4) [nmarsh,4]
vFW = 0.5 0.5 0.5 !partitioning of leaf/stem metabolsim to water [nmarsh]
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