documentation for these modules is pending.
Goto Parameter Databasedocumentation for these modules is pending.
Variable Name | Description | Units | Variable Type | Core/Optional |
---|---|---|---|---|
BIV_{group} |
bivalve group | $$mmol C\,m^{-2}\,day^{-1}$$ | benthic | core |
BIV_filtfrac |
filtered fraction of water | % | pelagic | optional : biv_tracer = .true. |
Variable Name | Description | Units | Variable Type | Core/Optional |
---|---|---|---|---|
BIV_tgrz |
total rate of food filtration/grazing in the water column | $$mmol C\,m^{-3}\,day^{-1}$$ | pelagic diagnostic | core |
BIV_nmp |
net mussel production | $$mmol C\,m^{-2}\,day^{-1}$$ | benthic diagnostic | core |
BIV_tbiv |
total bivalve density (all groups) | $$mmol C\,m^{-2}\,day^{-1}$$ | benthic diagnostic | core |
BIV_grz |
net bivalve filtration/grazing | $$mmol C\,m^{-2}\,day^{-1}$$ | benthic diagnostic | core |
BIV_resp |
net bivalve respiration | $$mmol C\,m^{-2}\,day^{-1}$$ | benthic diagnostic | core |
BIV_mort |
net bivalve mortality | $$mmol C\,m^{-2}\,day^{-1}$$ | benthic diagnostic | core |
BIV_excr |
net bivalve excretion | $$mmol C\,m^{-2}\,day^{-1}$$ | benthic diagnostic | core |
BIV_egst |
net bivalve egestion (faeces) | $$mmol C\,m^{-2}\,day^{-1}$$ | benthic diagnostic | core |
BIV_fT |
bivalve temperature limitation | - | benthic diagnostic | optional : extra_diag=.true. |
BIV_fD |
bivalve sediment limitation | - | benthic diagnostic | optional : extra_diag=.true. |
BIV_fG |
bivalve food limitation | - | benthic diagnostic | optional : extra_diag=.true. |
BIV_fR |
filtration rate | $$m^{3}\, mmol C\,m^{-2}\,day^{-1}$$ | benthic diagnostic | optional : extra_diag=.true. |
BIV_pf |
pseudofeaces production rate | $$day^{-1}$$ | benthic diagnostic | optional : extra_diag=.true. |
Parameter Name | Description | Units | Parameter Type | Default | Typical Range | Comment |
---|---|---|---|---|---|---|
num_biv |
number of zooplankton groups | - | integer | 0-3 | - | |
the_biv |
list of ID's of groups in aed_zoo_pars.nml (len=num_phyto) | - | integer | 1/03/2017 | - | |
n_zones |
number of sediment zones where bivalves will be active | - | integer | - | - | - |
active_zones |
the vector of sediment zones to include | - | integer (vector) | - | - | - |
biv_tracer |
opton to include water column tracer tracking filtration amount | - | boolean | .false. | - | - |
biv_feedback |
switch to enable/disable feedbacks between bivalve metabolism and water column variable concentration | - | boolean | .false. | - | - |
dn_target_variable |
water column variable to receive DON excretion | - | string | - | - | - |
pn_target_variable |
water column variable to receive PON egestion/mortality | - | string | - | - | - |
dp_target_variable |
water column variable to receive DOP excretion | - | string | - | - | - |
pp_target_variable |
water column variable to receive POP egestion/mortality | - | string | - | - | - |
dc_target_variable |
water column variable to receive DOC excretion | - | string | - | - | - |
pc_target_variable |
water column variable to receive POC egestion/mortality | - | string | - | - | - |
do_uptake_variable |
water column variable providing DO concentration | - | string | - | - | - |
ss_uptake_variable |
water column variable providing SS concentration | - | string | - | - | - |
dbase = 'AED2/aed2_bivalve_pars.nml' |
- | - | string | aed2_bivalve_pars.nml' | AED2/aed2_bivalve_pars.nml' | - |
extra_diag |
switch to enable/disable extra diagnostics to be output | - | boolean | .false. | - | - |
biv_fixedenv |
switch to enable/disable environmental variables to be fixed (for testing) | - | boolean | .false. | - | - |
fixed_temp |
fixed temperature | C | float | - | 20 | - |
fixed_oxy |
fixed oxygen concentration | $$mmol O_2\,m^{-3}$$ | float | - | 300 | - |
fixed_food |
fixed food concentration | $$mmol C\,m^{-3}$$ | float | - | 20 | - |
An example nml
block for the bivalve module is shown below.
&aed2_bivalve
num_biv = 2
the_biv = 1,2
!
dn_target_variable='' ! dissolved nitrogen target variable
pn_target_variable='' ! particulate nitrogen target variable
dp_target_variable='' ! dissolved phosphorus target variable
pp_target_variable='' ! particulate phosphorus target variable
dc_target_variable='' ! dissolved carbon target variable
pc_target_variable='' ! particulate carbon target variable
do_uptake_variable='OXY_oxy' ! oxygen uptake variable
ss_uptake_variable='' ! oxygen uptake variable
!FIX FROM ERIE!
!n_zones, active_zones, extra_diag,&
!simBivTracer, simBivFeedback, simStaticBiomass, &
!dbase, simFixedEnv, fixed_temp, fixed_sal, fixed_oxy, fixed_food, & initFromDensity
/
pending ......
To be completed ...