Physiology output (daily)

xml-based module selection in project's setup:

< module id="output:physiology:daily" />

entity name	decription	unit
species	Abbreviated name of species	[-]
day_emergence	Day of emergence	[-]
gdd	Accumulated growing degree days	[oC]
dvs	Plant development stage (optional: GDD based or Zadok)	[-]
dvs_flush	Plant development stage (in forest simulations: relative state of foliage flushing)	[-]
dvs_mort	Relative state of foliage senescence	[-]
dN_don_upt	Plant uptake of soil organic nitrogen	[kgN m-2 ts-1]
dN_nh4_upt	Plant uptake of soil ammonium	[kgN m-2 ts-1]
dN_no3_upt	Plant uptake of soil nitrate	[kgN m-2 d-1]
dN_nh3_upt	Plant uptake of soil ammonia	[kgN m-2 d-1]
dN_nox_upt	Uptake of NOx	[kgN m-2 d-1]
dN_n2_fix	Nitrogen fixation by plants	[kgN m-2 d-1]
dC_fol_grow	Daily increase of foliages carbon	[kgC m-2 d-1]
dC_fru_grow	Daily increase of fruit carbon	[kgC m-2 d-1]
dC_frt_grow	Daily increase of (fine) roots carbon	[kgC m-2 d-1]
dC_lst_grow	Daily increase of living structural matter (carbon)	[kgC m-2 d-1]
dC_fac_grow	Daily carbon allocated to pool available substrate	[kgC m-2 d-1]
dC_fol_resp	Foliar respiration	[kgC m-2 d-1]
dC_fru_resp	Fruit respiration	[kgC m-2 d-1]
dC_frt_resp	Fine roots respiration	[kgC m-2 d-1]
dC_lst_resp	Living structural matter respiration	[kgC m-2 d-1]
dC_maintenance_resp	Total residual respiration	[kgC m-2 d-1]
dC_transport_resp	Total transport and uptake respiration	[kgC m-2 d-1]
dC_growth_resp	Total growth respiration	[kgC m-2 d-1]
dC_co2_upt	Carbon uptake-Photosynthesis rate	[kgC m-2 d-1]
f_Fac	Relative state of free available carbon	[-]
DW_fol	Living foliar biomass	[kgDW m-2]
DW_dfol	Dead foliar biomass	[kgDW m-2]
DW_fru	Fruit biomass	[kgDW m-2]
DW_frt	Fine roots biomass	[kgDW m-2]
DW_lst	Living structural matter (e.g., young wood) biomass	[kgDW m-2]
DW_dst	Dead structural matter (e.g., old wood) biomass	[kgDW m-2]
DW_above	Total aboveground biomass	[kgDW m-2]
DW_below	Total belowground biomass	[kgDW m-2]
lai	Leaf area index	[m2 m-2]
sla	Specifc leaf area	[m-2 kg-1]
n_ret	Retention of nitrogen	[kgN m-2]
NC_fol	Nitrogen content in the foliage	[kgN kgDW-1]
NC_frt	Nitrogen content in the fine roots	[kgN kgDW-1]
NC_fru	Nitrogen content in the fruit	[kgN kgDW-1]
NC_lst	Nitrogen content in living structural matter (e.g., young wood)	[kgN kgDW-1]
NC_dst	Nitrogen content in dead structural matter (e.g., old wood)	[kgN kgDW-1]
N_total	Total plant nitrogen	[kgN m-2]
dDW_fol_sen	Foliage senescence	[kgDW m-2 d-1]
dDW_fru_sen	Fruit senescence	[kgDW m-2 d-1]
dDW_frt_sen	Fine roots senescence	[kgDW m-2 d-1]
dDW_lst_sen	Living structural matter (e.g., young wood) senescence	[kgDW m-2 d-1]
dDW_dst_sen	Dead structural matter (e.g., old wood) senescence	[kgDW m-2 d-1]
dC_exsudates	Root exsudates losses	[kgC m-2 d-1]
dN_lit_fol	Nitrogen in the foliage-litter	[kgN m-2 d-1]
dN_lit_fru	Nitrogen in the Fruit-litter	[kgN m-2 d-1]
dN_lit_frt	Nitrogen in the fine roots-litter	[kgN m-2 d-1]
dN_lit_ldst_below	Nitrogen in aboveground living and dead structural matter	[kgN m-2 d-1]
dN_lit_ldst_above	Nitrogen in belowground living and dead structural matter	[kgN m-2 d-1]
drought_rel	Species specific drought stress factor	[-]
conduct_rel	Relative stomatal conductance	[-]
vc_act_25	Activity state of rubisco at 25 degrees celsius	[umol m-2 d-1]
iso_act	Activity state of isoprene synthase	[umol m-2 d-1]
d_mono_act	Activity state of monoterpene synthase	[umol m-2 d-1]
d_iso_emis	Isoprene emission from plants	[umol m-2 d-1]
d_mono_emis	Monoterpene emission from plants	[umol m-2 d-1]
d_mono_storage_emis	Monoterpene emission from plant storage	[umol:m-2]
d_ovoc_emis	OVOC emission from plant storage	[umol:m-2]
dN_nh4_throughf	Ammonium deposition through rainfall	[kgN L-1]
dN_no3_throughf	Nitrate deposition throug rainfall	[kgN L-1]

Physiology output (layer/daily)

xml-based module selection in project's setup:

< module id="output:physiology-layer:daily" />

entity name	decription	unit
layer	Canopy/soil layer	[-]
level	Level height	[m]
extension	Height	[m]
DW_fol/DW_frt	Foliage (living and dead) / fine roots biomass	[kgDW m-2]
lai	Leaf area index	[-]
dN_upt_nh3	Nitrogen uptake	[kgN]
dN_upt_nox	Nitrogen gasses uptake	[kgN]
dC_co2_upt	Carbon dioxide uptake	[kgN]
vc_act_25	Activity state of rubisco at 25 degrees celsius	[umol m-2 s-1]
vc_max	Actual activity state of rubisco	[umol m-2 s-1]
j_max	Maximum rate of electron transport	[umol m-2 s-1]
j_pot	Potential rate of electron transport	[umol m-2 s-1]
ci	Intercellular concentration of CO2	[umol m-2 s-1]
iso_act	Activity state of isoprene synthase	[nmol m-2 s-1]
mono_act	Activity state of monoterpene synthase	[nmol m-2 s-1]
iso_emis	Isoprene emission from plants	[umol m-2 s-1]
mono_emis	Monoterpene emission from plants	[umol m-2 s-1]
rootlength	root length	[m]

Physiology output (subdaily)

xml-based module selection in project's setup:

< module id="output:physiology:subdaily" />

entity name	decription	unit
day_emerg	Day of emergence	[day]
temp_cum	Growing degree days	[gdd]
dvs_flush	Relative state of foliage flushing in forest simulations	[-]
dvs_mort	Relative state of foliage senescence	[-]
dN_don_upt	Plant uptake of soil organic nitrogen	[kgN m-2 ts-1]
dN_nh4_upt	Plant uptake of soil ammonium	[kgN m-2 ts-1]
dN_no3_upt	Plant uptake of soil nitrate	[kgN m-2 ts-1]
dN_nh3_upt	Plant uptake of soil ammonia	[kgN m-2 ts-1]
dN_nox_upt	Uptake of NOx	[kgN m-2 ts-1]
dN_n2_fix	Nitrogen fixation by plants	[kgN m-2 ts-1]
dC_fol_grow	Increase of foliages carbon	[kgC m-2 ts-1]
dC_frt_grow	Increase of (fine) roots carbon	[kgC m-2 ts-1]
dC_lst_grow	Increase of living structural tissue carbon	[kgC m-2 ts-1]
dC_fru_grow	Increase of fruit (buds) carbon	[kgC m-2 ts-1]
dC_fac_grow	Carbon allocated to pool available substrate	[kgC m-2 ts-1]
dC_fol_resp	Foliar respiration	[kgC m-2 ts-1]
dC_frt_resp	Fine roots respiration	[kgC m-2 ts-1]
dC_lst_resp	Young living structural tissue respiration	[kgC m-2 ts-1]
dC_fru_resp	Fruit (buds) respiration	[kgC m-2 ts-1]
dC_maintenance_resp	Total residual respiration	[kgC m-2 ts-1]
dC_transport_resp	Total transport and uptake respiration	[kgC m-2 ts-1]
dC_growth_resp	Total growth respiration	[kgC m-2 ts-1]
dC_co2_upt	Carbon uptake-Photosynthesis rate	[kgC m-2 ts-1]
f_Fac	Relative state of free available carbon	[-]
DW_fol	Foliar mass	[kgDW m-2]
DW_frt	Fine roots mass	[kgDW m-2]
DW_lst	Living structural tissue mass	[kgDW m-2]
DW_dst	Dead structural tissue mass	[kgDW m-2]
DW_fru	Fruit (buds) mass	[kgDW m-2]
lai	Leaf area index	[-]
sla	Leaf area index	[m-2 kg-1]
n_ret	Retention of nitrogen	[kgN m-2]
NC_fol	Nitrogen content in the foliage	[kgN kgDW-1]
NC_frt	Nitrogen content in the fine roots	[kgN kgDW-1]
NC_lst	Nitrogen content in the living structural tissue	[kgN kgDW-1]
NC_dst	Nitrogen content in the dead structural tissue	[kgN kgDW-1]
NC_fru	Nitrogen content in the fruit	[kgN kgDW-1]
dC_fol_sen	Foliage senescence	[kgDW m-2 ts-1]
dC_frt_sen	Fine roots senescence	[kgDW m-2 ts-1]
dC_lst_sen	Living structural tissue senescence	[kgDW m-2 ts-1]
dC_fru_sen	Fruit (buds) senescence	[kgDW m-2 ts-1]
dC_exsudates	Root exsudates losses	[kgC m-2 ts-1]
N_lit_fol	Nitrogen in the foliage-litter	[kgN m-2]
N_lit_frt	Nitrogen in the fine roots-litter	[kgN m-2]
N_lit_lst	Nitrogen in the living structural tissue-litter	[kgN m-2]
N_lit_fru	Nitrogen in the fruit-litter	[kgN m-2]
drought_rel	Species specific drought stress factor	[-]
conduct_rel	Conductance rel	[-]
vc_act_25	Activity state of rubisco at 25 degrees celsius	[umol m-2 s-1]
iso_act	Activity state of isoprene synthase	[umol m-2 s-1]
mono_act	Activity state of monoterpene synthase	[umol m-2 s-1]
iso_emis	Isoprene emission from plants	[umol m-2 s-1]
mono_emis	Monoterpene emission from plants	[umol m-2 s-1]
dN_nh4_throughf	Ammonium deposition through rainfall	[kgN L-1]
dN_no3_throughf	Nitrate deposition throug rainfall	[kgN L-1]

Physiology output (yearly)

xml-based module selection in project's setup:

< module id="output:physiology:yearly" />

entity name	decription	unit
aN_n2_fix	Annual nitrogen fixation	[kgN m-2]
DW_fol	Foliage biomass	[kgDW m-2]
DW_frt	Fine roots biomass	[kgDW m-2]
DW_lst	Living structural biomass	[kgDW m-2]
DW_dst	Dead structural biomass	[kgDW m-2]
DW_fru	Fruit (grain, storage) biomass	[kgDW m-2]
DW_above	Aboveground biomass	[kgDW m-2]
DW_below	Belowground biomass	[kgDW m-2]
NC_fol	Nitrogen content in the foliage	[kgN kgDW-1]
NC_frt	Nitrogen content in the fine roots	[kgN kgDW-1]
NC_fru	Nitrogen content in the fruit	[kgN kgDW-1]
NC_lst	Nitrogen content in living structural matter (e.g., young wood)	[kgN kgDW-1]
NC_dst	Nitrogen content in dead structural matter (e.g., old wood)	[kgN kgDW-1]
N_total	Total plant nitrogen	[kgN m-2]