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updating files to support Biome-BGCMuSo v7

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Zoltan BARCZA
2023-02-07 15:15:16 +01:00
parent 8140966e0e
commit 2e0122b2b1
192 changed files with 153084 additions and 267 deletions
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RBBGCMuso/inst/data/epcConstMatrix7.json
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RBBGCMuso/inst/data/soilConstMatrix7.json
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RBBGCMuso/inst/data/varTable7.json
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RBBGCMuso/inst/examples/hhs/c3grass_muso6.epc → RBBGCMuso/inst/examples/hhs/c3grass_muso7.epc
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ECOPHYS FILE - C3 grass muso6
----------------------------------------------------------------------------------------
FLAGS
0 (flag) biome type flag (1 = WOODY 0 = NON-WOODY)
0 (flag) woody type flag (1 = EVERGREEN 0 = DECIDUOUS)
1 (flag) photosyn. type flag (1 = C3 PSN 0 = C4 PSN)
----------------------------------------------------------------------------------------
PLANT FUNCTIONING PARAMETERS
0 (yday) yearday to start new growth (when phenology flag = 0)
364 (yday) yearday to end litterfall (when phenology flag = 0)
0.5 (prop.) transfer growth period as fraction of growing season (when transferGDD_flag = 0)
0.5 (prop.) litterfall as fraction of growing season (when transferGDD_flag = 0)
0 (Celsius) base temperature
-9999 (Celsius) minimum temperature for growth displayed on current day (-9999: no T-dependence of allocation)
-9999 (Celsius) optimal1 temperature for growth displayed on current day (-9999: no T-dependence of allocation)
-9999 (Celsius) optimal2 temperature for growth displayed on current day (-9999: no T-dependence of allocation)
-9999 (Celsius) maxmimum temperature for growth displayed on current day (-9999: no T-dependence of allocation)
-9999 (Celsius) minimum temperature for carbon assimilation displayed on current day (-9999: no limitation)
-9999 (Celsius) optimal1 temperature for carbon assimilation displayed on current day (-9999: no limitation)
-9999 (Celsius) optimal2 temperature for carbon assimilation displayed on current day (-9999: no limitation)
-9999 (Celsius) maxmimum temperature for carbon assimilation displayed on current day (-9999: no limitation)
1.0 (1/yr) annual leaf and fine root turnover fraction
0.00 (1/yr) annual live wood turnover fraction
0.03 (1/yr) annual fire mortality fraction
0.01 (1/vegper) whole-plant mortality fraction in vegetation period
36.6 (kgC/kgN) C:N of leaves
45.0 (kgC/kgN) C:N of leaf litter, after retranslocation
50.0 (kgC/kgN) C:N of fine roots
36.6 *(kgC/kgN) C:N of fruit
36.6 (kgC/kgN) C:N of soft stem
0.0 *(kgC/kgN) C:N of live wood
0.0 *(kgC/kgN) C:N of dead wood
0.4 (kgC/kgDM) dry matter carbon content of leaves
0.4 (kgC/kgDM) dry matter carbon content of leaf litter
0.4 (kgC/kgDM) dry matter carbon content of fine roots
0.4 *(kgC/kgDM) dry matter carbon content of fruit
0.4 (kgC/kgDM) dry matter carbon content of soft stem
0.4 *(kgC/kgDM) dry matter carbon content of live wood
0.4 *(kgC/kgDM) dry matter carbon content of dead wood
0.68 (DIM) leaf litter labile proportion
0.23 (DIM) leaf litter cellulose proportion
0.34 (DIM) fine root labile proportion
0.44 (DIM) fine root cellulose proportion
0.68 *(DIM) fruit litter labile proportion
0.23 *(DIM) fruit litter cellulose proportion
0.68 (DIM) soft stem litter labile proportion
0.23 (DIM) soft stem litter cellulose proportion
0.00 *(DIM) dead wood cellulose proportion
0.01 (1/LAI/d) canopy water interception coefficient
0.63 (DIM) canopy light extinction coefficient
2.0 (g/MJ) potential radiation use efficiency
0.781 (DIM) radiation parameter1 (Jiang et al.2015)
-13.596 (DIM) radiation parameter2 (Jiang et al.2015)
2.0 (DIM) all-sided to projected leaf area ratio
2.0 (DIM) ratio of shaded SLA:sunlit SLA
0.14 (DIM) fraction of leaf N in Rubisco
0.03 (DIM) fraction of leaf N in PEP Carboxylase
0.004 (m/s) maximum stomatal conductance (projected area basis)
0.00006 (m/s) cuticular conductance (projected area basis)
0.04 (m/s) boundary layer conductance (projected area basis)
1.5 (m) maximum height of plant
0.8 (kgC) stem weight corresponding to maximum height
0.5 (dimless) plant height function shape parameter (slope)
4.0 (m) maximum depth of rooting zone
3.67 (DIM) root distribution parameter
0.4 (kgC) root weight corresponding to max root depth
0.5 (dimless) root depth function shape parameter (slope)
1000 (m/kg) root weight to root length conversion factor
0.3 (prop.) growth resp per unit of C grown
0.218 (kgC/kgN/d) maintenance respiration in kgC/day per kg of tissue N
0.1 (DIM) theoretical maximum prop. of non-structural and structural carbohydrates
0.24 (DIM) prop. of non-structural carbohydrates available for maintanance respiration
0.02 (kgN/m2/yr) symbiotic+asymbiotic fixation of N
0 (day) time delay for temperature in photosynthesis acclimation
----------------------------------------------------------------------------------------
CROP SPECIFIC PARAMETERS
0 (DIM) number of phenophase of germination (from 1 to 7; 0: NO specific)
0 (DIM) number of phenophase of emergence (from 1 to 7; 0: NO specific)
0.5 (prop.) critical VWCratio (prop. to FC-WP) in germination
0 (DIM) number of phenophase of photoperiodic slowing effect (from 1 to 7; 0: NO effect)
20 (hour) critical photoslow daylength
0.005 (DIM) slope of relative photoslow development rate
0 (DIM) number of phenophase of vernalization (from 1 to 7; 0: NO effect)
0 (Celsius) critical vernalization temperature 1
5 (Celsius) critical vernalization temperature 2
8 (Celsius) critical vernalization temperature 3
15 (Celsius) critical vernalization temperature 4
0.04 (DIM) slope of relative vernalization development rate
50 (n) required vernalization days (in vernalization development rate)
0 (DIM) number of flowering phenophase (from 1 to 7;0: NO effect)
35 (Celsius) critical flowering heat stress temperature 1
40 (Celsius) critical flowering heat stress temperature 2
0.2 (prop.) theoretical maximum of flowering thermal stress mortality parameter
----------------------------------------------------------------------------------------
STRESS AND SENESCENCE PARAMETERS
0.98 (prop) VWC ratio to calc. soil moisture limit 1 (prop. to FC-WP)
0.7 (prop) VWC ratio to calc. soil moisture limit 2 (prop. to SAT-FC)
0.4 (prop) minimum of soil moisture limit2 multiplicator (full anoxic stress value)
1000 (Pa) vapor pressure deficit: start of conductance reduction
4000 (Pa) vapor pressure deficit: complete conductance reduction
0.003 (prop.) maximum senescence mortality coefficient of aboveground plant material
0.001 (prop.) maximum senescence mortality coefficient of belowground plant material
0.0 (prop.) maximum senescence mortality coefficient of non-structured plant material
35 (Celsius) lower limit extreme high temperature effect on senescence mortality
40 (Celsius) upper limit extreme high temperature effect on senescence mortality
0.01 (prop.) turnover rate of wilted standing biomass to litter
0.047 (prop.) turnover rate of non-woody cut-down biomass to litter
0.01 (prop.) turnover rate of woody cut-down biomass to litter
17 (nday) drought tolerance parameter (critical value of DSWS)
0.3 (prop) soil water deficit effect on photosynthesis downregulation
----------------------------------------------------------------------------------------
GROWING SEASON PARAMETERS
5 (kg/m2) crit. amount of snow limiting photosyn.
20 (Celsius) limit1 (under:full constrained) of HEATSUM index
60 (Celsius) limit2 (above:unconstrained) of HEATSUM index
0 (Celsius) limit1 (under:full constrained) of TMIN index
5 (Celsius) limit2 (above:unconstrained) of TMIN index
4000 (Pa) limit1 (above:full constrained) of VPD index
1000 (Pa) limit2 (under:unconstrained) of VPD index
0 (s) limit1 (under:full constrained) of DAYLENGTH index
0 (s) limit2 (above:unconstrained) of DAYLENGTH index
10 (day) moving average (to avoid the effects of extreme events)
0.10 (dimless) GSI limit1 (greater that limit -> start of vegper)
0.01 (dimless) GSI limit2 (less that limit -> end of vegper)
----------------------------------------------------------------------------------------
PHENOLOGICAL (ALLOCATION) PARAMETERS (7 phenological phases)
phase1 phase2 phase3 phase4 phase5 phase6 phase7 (text) name of the phenophase
5000 200 500 200 400 200 100 (Celsius) length of phenophase (GDD)
0.3 0.4 0.4 0.4 0.4 0.4 0.4 (ratio) leaf ALLOCATION
0.5 0.4 0.4 0.4 0.4 0.4 0.4 (ratio) fine root ALLOCATION
0.0 0.0 0.0 0.0 0.0 0.0 0.0 (ratio) fruit ALLOCATION
0.2 0.2 0.2 0.2 0.2 0.2 0.2 (ratio) soft stem ALLOCATION
0 0 0 0 0 0 0 (ratio) live woody stem ALLOCATION
0 0 0 0 0 0 0 (ratio) dead woody stem ALLOCATION
0 0 0 0 0 0 0 (ratio) live coarse root ALLOCATION
0 0 0 0 0 0 0 (ratio) dead coarse root ALLOCATION
49 49 49 49 49 49 49 (m2/kgC) canopy average specific leaf area (projected area basis)
0.37 0.37 0.37 0.37 0.37 0.37 0.37 (prop.) current growth proportion
10000 10000 10000 10000 10000 10000 10000 (Celsius) maximal lifetime of plant tissue
ECOPHYS FILE - C3 grass muso6
----------------------------------------------------------------------------------------
FLAGS
0 (flag) biome type flag (1 = WOODY 0 = NON-WOODY)
0 (flag) woody type flag (1 = EVERGREEN 0 = DECIDUOUS)
1 (flag) photosyn. type flag (1 = C3 PSN 0 = C4 PSN)
----------------------------------------------------------------------------------------
PLANT FUNCTIONING PARAMETERS
0 (yday) yearday to start new growth (when phenology flag = 0)
364 (yday) yearday to end litterfall (when phenology flag = 0)
0.5 (prop.) transfer growth period as fraction of growing season (when transferGDD_flag = 0)
0.5 (prop.) litterfall as fraction of growing season (when transferGDD_flag = 0)
0 (Celsius) base temperature
-9999 (Celsius) minimum temperature for growth displayed on current day (-9999: no T-dependence of allocation)
-9999 (Celsius) optimal1 temperature for growth displayed on current day (-9999: no T-dependence of allocation)
-9999 (Celsius) optimal2 temperature for growth displayed on current day (-9999: no T-dependence of allocation)
-9999 (Celsius) maxmimum temperature for growth displayed on current day (-9999: no T-dependence of allocation)
-9999 (Celsius) minimum temperature for carbon assimilation displayed on current day (-9999: no limitation)
-9999 (Celsius) optimal1 temperature for carbon assimilation displayed on current day (-9999: no limitation)
-9999 (Celsius) optimal2 temperature for carbon assimilation displayed on current day (-9999: no limitation)
-9999 (Celsius) maxmimum temperature for carbon assimilation displayed on current day (-9999: no limitation)
30 (Celsius) threshold temperature for ET-calculation (line 57 in INI file) using PT-method (-9999: no data - only PM-method)
1.0 (1/yr) annual leaf and fine root turnover fraction
0.00 (1/yr) annual live wood turnover fraction
0.03 (1/yr) annual fire mortality fraction
0.01 (1/vegper) whole-plant mortality fraction in vegetation period
0.2 (prop) dead stem biomass combustion proportion
0.3 (prop) coarse woody biomass combustion proportion
36.6 (kgC/kgN) C:N of leaves
45.0 (kgC/kgN) C:N of leaf litter, after retranslocation
50.0 (kgC/kgN) C:N of fine roots
36.6 *(kgC/kgN) C:N of fruit
36.6 (kgC/kgN) C:N of soft stem
0.0 *(kgC/kgN) C:N of live wood
0.0 *(kgC/kgN) C:N of dead wood
0.4 (kgC/kgDM) dry matter carbon content of leaves
0.4 (kgC/kgDM) dry matter carbon content of leaf litter
0.4 (kgC/kgDM) dry matter carbon content of fine roots
0.4 *(kgC/kgDM) dry matter carbon content of fruit
0.4 (kgC/kgDM) dry matter carbon content of soft stem
0.4 *(kgC/kgDM) dry matter carbon content of live wood
0.4 *(kgC/kgDM) dry matter carbon content of dead wood
0.68 (DIM) leaf litter labile proportion
0.23 (DIM) leaf litter cellulose proportion
0.34 (DIM) fine root labile proportion
0.44 (DIM) fine root cellulose proportion
0.68 *(DIM) fruit litter labile proportion
0.23 *(DIM) fruit litter cellulose proportion
0.68 (DIM) soft stem litter labile proportion
0.23 (DIM) soft stem litter cellulose proportion
0.00 *(DIM) dead wood cellulose proportion
0.01 (1/LAI/d) canopy water interception coefficient
0.63 (DIM) canopy light extinction coefficient
2.0 (g/MJ) potential radiation use efficiency
0.781 (DIM) radiation parameter1 (Jiang et al.2015)
-13.596 (DIM) radiation parameter2 (Jiang et al.2015)
2.0 (DIM) all-sided to projected leaf area ratio
2.0 (DIM) ratio of shaded SLA:sunlit SLA
0.14 (DIM) fraction of leaf N in Rubisco
0.03 (DIM) fraction of leaf N in PEP Carboxylase
0.004 (m/s) maximum stomatal conductance (projected area basis)
0.00006 (m/s) cuticular conductance (projected area basis)
0.04 (m/s) boundary layer conductance (projected area basis)
1.5 (m) maximum height of plant
0.8 (kgC) stem weight corresponding to maximum height
0.5 (dimless) plant height function shape parameter (slope)
4.0 (m) maximum depth of rooting zone
3.67 (DIM) root distribution parameter
0.4 (kgC) root weight corresponding to max root depth
0.5 (dimless) root depth function shape parameter (slope)
1000 (m/kg) root weight to root length conversion factor
0.3 (prop.) growth resp per unit of C grown
0.218 (kgC/kgN/d) maintenance respiration in kgC/day per kg of tissue N
0.1 (DIM) theoretical maximum prop. of non-structural and structural carbohydrates
0.24 (DIM) prop. of non-structural carbohydrates available for maintanance respiration
0.02 (kgN/m2/yr) symbiotic+asymbiotic fixation of N
0 (day) time delay for temperature in photosynthesis acclimation
----------------------------------------------------------------------------------------
CROP SPECIFIC PARAMETERS
0 (DIM) number of phenophase of germination (from 1 to 7; 0: NO specific)
0 (DIM) number of phenophase of emergence (from 1 to 7; 0: NO specific)
0.5 (prop.) critical VWCratio (prop. to FC-WP) in germination
0 (DIM) number of phenophase of photoperiodic slowing effect (from 1 to 7; 0: NO effect)
20 (hour) critical photoslow daylength
0.005 (DIM) slope of relative photoslow development rate
0 (DIM) number of phenophase of vernalization (from 1 to 7; 0: NO effect)
0 (Celsius) critical vernalization temperature 1
5 (Celsius) critical vernalization temperature 2
8 (Celsius) critical vernalization temperature 3
15 (Celsius) critical vernalization temperature 4
0.04 (DIM) slope of relative vernalization development rate
50 (n) required vernalization days (in vernalization development rate)
0 (DIM) number of flowering phenophase (from 1 to 7;0: NO effect)
35 (Celsius) critical flowering heat stress temperature 1
40 (Celsius) critical flowering heat stress temperature 2
0.2 (prop.) theoretical maximum of flowering thermal stress mortality parameter
----------------------------------------------------------------------------------------
STRESS AND SENESCENCE PARAMETERS
0.98 (prop) VWC ratio to calc. soil moisture limit 1 (prop. to FC-WP)
0.7 (prop) VWC ratio to calc. soil moisture limit 2 (prop. to SAT-FC)
0.4 (prop) minimum of soil moisture limit2 multiplicator (full anoxic stress value)
1000 (Pa) vapor pressure deficit: start of conductance reduction
4000 (Pa) vapor pressure deficit: complete conductance reduction
0.003 (prop.) maximum senescence mortality coefficient of aboveground plant material
0.001 (prop.) maximum senescence mortality coefficient of belowground plant material
0.0 (prop.) maximum senescence mortality coefficient of non-structured plant material
35 (Celsius) lower limit extreme high temperature effect on senescence mortality
40 (Celsius) upper limit extreme high temperature effect on senescence mortality
0.01 (prop.) turnover rate of wilted standing biomass to litter
0.047 (prop.) turnover rate of non-woody cut-down biomass to litter
0.01 (prop.) turnover rate of woody cut-down biomass to litter
17 (nday) drought tolerance parameter (critical value of DSWS)
0.3 (prop) soil water deficit effect on photosynthesis downregulation
----------------------------------------------------------------------------------------
GROWING SEASON PARAMETERS
5 (kg/m2) crit. amount of snow limiting photosyn.
20 (Celsius) limit1 (under:full constrained) of HEATSUM index
60 (Celsius) limit2 (above:unconstrained) of HEATSUM index
0 (Celsius) limit1 (under:full constrained) of TMIN index
5 (Celsius) limit2 (above:unconstrained) of TMIN index
4000 (Pa) limit1 (above:full constrained) of VPD index
1000 (Pa) limit2 (under:unconstrained) of VPD index
0 (s) limit1 (under:full constrained) of DAYLENGTH index
0 (s) limit2 (above:unconstrained) of DAYLENGTH index
10 (day) moving average (to avoid the effects of extreme events)
0.10 (dimless) GSI limit1 (greater that limit -> start of vegper)
0.01 (dimless) GSI limit2 (less that limit -> end of vegper)
----------------------------------------------------------------------------------------
PHENOLOGICAL (ALLOCATION) PARAMETERS (7 phenological phases)
phase1 phase2 phase3 phase4 phase5 phase6 phase7 (text) name of the phenophase
5000 200 500 200 400 200 100 (Celsius) length of phenophase (GDD)
0.3 0.4 0.4 0.4 0.4 0.4 0.4 (ratio) leaf ALLOCATION
0.5 0.4 0.4 0.4 0.4 0.4 0.4 (ratio) fine root ALLOCATION
0.0 0.0 0.0 0.0 0.0 0.0 0.0 (ratio) fruit ALLOCATION
0.2 0.2 0.2 0.2 0.2 0.2 0.2 (ratio) soft stem ALLOCATION
0 0 0 0 0 0 0 (ratio) live woody stem ALLOCATION
0 0 0 0 0 0 0 (ratio) dead woody stem ALLOCATION
0 0 0 0 0 0 0 (ratio) live coarse root ALLOCATION
0 0 0 0 0 0 0 (ratio) dead coarse root ALLOCATION
49 49 49 49 49 49 49 (m2/kgC) canopy average specific leaf area (projected area basis)
0.37 0.37 0.37 0.37 0.37 0.37 0.37 (prop.) current growth proportion
10000 10000 10000 10000 10000 10000 10000 (Celsius) maximal lifetime of plant tissue
RBBGCMuso/inst/examples/hhs/compile_log_linux.txt
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System: Linux meteor30 4.19.0-6-amd64 #1 SMP Debian 4.19.67-2+deb10u2 (2019-11-11) x86_64 GNU/Linux
Compilation time: Mon 02 Dec 2019 02:03:10 PM CET
Compiler: gcc (Debian 8.3.0-6) 8.3.0
Compiler flags:
Model version: 6.0.3
RBBGCMuso/inst/examples/hhs/hhs.soi
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SOILPROP FILE - hhs muso6
----------------------------------------------------------------------------------------
NITROGEN AND DECOMPOSITION PARAMETERS
0.1 (prop.) denitrification rate per g of CO2 respiration of SOM
0.2 (prop.) nitrification coefficient 1
0.1 (prop.) nitrification coefficient 2
0.02 (prop.) coefficient of N2O emission of nitrification
0.1 (prop.) NH4 mobilen proportion
1.0 denitrification related N2/N2O ratio multiplier (soil texture effect)
10 (m) e-folding depth of decomposition rate's depth scalar
0.002 (prop.) fraction of dissolved part of SOIL1 organic matter
0.002 (prop.) fraction of dissolved part of SOIL2 organic matter
0.002 (prop.) fraction of dissolved part of SOIL3 organic matter
0.002 (prop.) fraction of dissolved part of SOIL4 organic matter
0.1 (prop.) minimum WFPS for scalar of nitrification calculation
0.45 (prop.) lower optimum WFPS for scalar of nitrification calculation
0.55 (prop.) higher optimum WFPS for scalar of nitrification calculation
0.2 (prop.) minimum value for saturated WFPS scalar of nitrification calculation
10 (ppm) C:N ratio of recaltirant SOM (slowest)
----------------------------------------------------------------------------------------
RATE SCALARS
0.39 (DIM) respiration fractions for fluxes between compartments (l1s1)
0.55 (DIM) respiration fractions for fluxes between compartments (l2s2)
0.29 (DIM) respiration fractions for fluxes between compartments (l4s3)
0.28 (DIM) respiration fractions for fluxes between compartments (s1s2)
0.46 (DIM) respiration fractions for fluxes between compartments (s2s3)
0.55 (DIM) respiration fractions for fluxes between compartments (s3s4)
0.7 (DIM) rate constant scalar of labile litter pool
0.07 (DIM) rate constant scalar of cellulose litter pool
0.014 (DIM) rate constant scalar of lignin litter pool
0.07 (DIM) rate constant scalar of fast microbial recycling pool
0.014 (DIM) rate constant scalar of medium microbial recycling pool
0.0014 (DIM) rate constant scalar of slow microbial recycling pool
0.0001 (DIM) rate constant scalar of recalcitrant SOM (humus) pool
0.001 (DIM) rate constant scalar of physical fragmentation of coarse woody debris
----------------------------------------------------------------------------------------
CH4 PARAMETERS
212.5 (DIM) soil CH4 emission bulk density dependence parameter1
1.81 (DIM) soil CH4 emission bulk density dependence parameter2
-1.353 (DIM) soil CH4 emission soil water content dependence parameter1
0.2 (DIM) soil CH4 emission soil water content dependence parameter2
1.781 (DIM) soil CH4 emission soil water content dependence parameter3
6.786 (DIM) soil CH4 emission soil water content dependence parameter4
0.010 (DIM) soil CH4 emission soil temperature dependence parameter1
----------------------------------------------------------------------------------------
SOIL PARAMETERS
2 (m) depth of soil
6 (mm) limit of first stage evaporation
5.00 (mm) maximum height of pond water
1 (dimless) curvature of soil stress function
-9999 (dimless) runoff curve number (-9999: no , model estimation)
107 (s/m) aerodynamic resistance (Wallace and Holwill, 1997)
----------------------------------------------------------------------------------------
SOIL COMPOSITION AND CHARACTERISTIC VALUES (-9999: no measured data)
30.0 30.0 30.0 30.0 30.0 30.0 30.0 30.0 30.0 30.0 (%) sand percentage by volume in rock-free soil
50.0 50.0 50.0 50.0 50.0 50.0 50.0 50.0 50.0 50.0 (%) silt percentage by volume in rock-free soil
7.0 7.0 7.0 7.0 7.0 7.0 7.0 7.0 7.0 7.0 (dimless) soil pH (dimless) measured runoff curve number
-9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 (g/cm3) bulk density
-9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 (m3/m3) SWC at saturation
-9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 (m3/m3) SWC at field capacity
-9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 (m3/m3) SWC at wilting point
-9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 (m3/m3) SWC at hygroscopic water content
-9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 (dimless) drainage coefficient
-9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 -9999 (cm/day) hydraulic condictivity at saturation
RBBGCMuso/inst/examples/hhs/hhs_MuSo7.soi
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SOILPROP FILE - MuSo6
--------------------------------------------------------------------------------
SOIL GENERIC PARAMETERS
3.000000 (m) depth of soil
10.000000 (ppm) C:N ratio of labile soil pool (soil1)
15.000000 (ppm) C:N ratio of medium soil pool (soil2)
20.000000 (ppm) C:N ratio of slow soil pool (soil3)
12.000000 (ppm) C:N ratio of passive soil pool (soil4)
10.000000 (kgC/m2) total SOC content (critical value for spinup run)
0.100000 (prop) NH4 mobilen proportion
107.000000 (s/m) aerodynamic resistance (Wallace and Holwill, 1997)
--------------------------------------------------------------------------------
DECOMPOSITION, NITRIFICATION AND DENITRIFICATION PARAMETERS
0.100000 (prop) VWC ratio to calc. decomposition limit 1 (prop. to FC-HW)
1.000000 (prop) VWC ratio to calc. decomposition limit 2 (prop. to SAT-FC)
1.000000 (dimless) curvature of decomposition limitation function
-9999.000000 (dimless) parameter 1 for tscalar function of decomposition
308.559998 (dimless) parameter 2 for tscalar function of decomposition
71.019997 (dimless) parameter 3 for tscalar function of decomposition
227.130005 (dimless) parameter 4 for tscalar function of decomposition
-5.000000 (Celsius) minimum soil temperature for decomposition
10.000000 (m) e-folding depth of decomposition rate depth scalar
0.200000 (prop) net mineralization proportion of nitrification
0.100000 (1/day) maximum nitrification rate
0.020000 (prop) coefficient of N2O emission of nitrification
0.150000 (dimless) parameter 1 for pHscalar function of nitrification
1.000000 (dimless) parameter 2 for pHscalar function of nitrification
5.200000 (dimless) parameter 3 for pHscalar function of nitrification
0.550000 (dimless) parameter 4 for pHscalar function of nitrification
-9999.000000 (dimless) parameter 1 for tscalar function of nitrification
308.559998 (dimless) parameter 2 for tscalar function of nitrification
71.019997 (dimless) parameter 3 for tscalar function of nitrification
227.130005 (dimless) parameter 4 for tscalar function of nitrification
0.100000 (prop) minimum WFPS for scalar of nitrification calculation
0.450000 (prop) lower optimum WFPS for scalar of nitrification calculation
0.550000 (prop) higher optimum WFPS for scalar of nitrification calculation
0.200000 (prop) minimum value for saturated WFPS scalar of nitrification calculation
0.050000 (1/gCO2) soil respiration related denitrification rate
2.000000 (dimless) denitrification related N2/N2O ratio multiplier
0.550000 (prop) critical WFPS value for denitrification
--------------------------------------------------------------------------------
RATE SCALARS
0.390000 (dimless) respiration fractions for fluxes between compartments (11s1)
0.550000 (dimless) respiration fractions for fluxes between compartments (l2s2)
0.290000 (dimless) respiration fractions for fluxes between compartments (l4s3)
0.280000 (dimless) respiration fractions for fluxes between compartments (s1s2)
0.460000 (dimless) respiration fractions for fluxes between compartments (s2s3)
0.550000 (dimless) respiration fractions for fluxes between compartments (s3s4)
0.700000 (1/day) rate constant scalar of labile litter pool
0.070000 (1/day) rate constant scalar of cellulose litter pool
0.014000 (1/day) rate constant scalar of lignin litter pool
0.070000 (1/day) rate constant scalar of fast microbial recycling pool
0.014000 (1/day) rate constant scalar of medium microbial recycling pool
0.001400 (1/day) rate constant scalar of slow microbial recycling pool
0.000100 (1/day) rate constant scalar of recalcitrant SOM pool
0.001000 (1/day) rate constant scalar of physical fragmentation of coarse woody debris
0.000000 (1/day) fraction of direct decomposition of labile litter pool
0.000000 (1/day) fraction of direct decomposition of cellulose litter pool
0.000000 (1/day) fraction of direct decomposition of lignin litter pool
--------------------------------------------------------------------------------
SOIL MOISTURE PARAMETERS
6.000000 (mm) limit of first stage evaporation
5.000000 (mm) maximum height of pond water
1.000000 (dimless) curvature of soil stress function
-9999.000000 (dimless) measured runoff curve number (0: no runoff, -9999: model estimation)
0.002000 (prop) fraction of dissolved part of SOIL1 organic matter
0.002000 (prop) fraction of dissolved part of SOIL2 organic matter
0.001000 (prop) fraction of dissolved part of SOIL3 organic matter
0.001000 (prop) fraction of dissolved part of SOIL4 organic matter
2.000000 (dimless) mulch parameter: number of layer affected by mulch
0.000000 (kgC/m2) mulch parameter: critical amount
100.000000 (dimless) parameter 1 for mulch function
0.750000 (dimless) parameter 2 for mulch function
0.750000 (dimless) parameter 3 for mulch function
0.500000 (prop) mulch parameter: evaporation reduction
0.880000 (dimless) parameter 1 for diffusion calculation - tipping
35.400002 (dimless) parameter 2 for diffusion calculation - tipping
5.000000 (cm/day) limit of assumed diffusivity in tipping calculation
--------------------------------------------------------------------------------
CH4 PARAMETERS
212.500000 (dimless) soil CH4 emission bulk density dependence parameter1
1.810000 (dimless) soil CH4 emission bulk density dependence parameter2
-1.353000 (dimless) soil CH4 emission soil water content dependence parameter1
0.200000 dimless) soil CH4 emission soil water content dependence parameter2
1.781000 (dimless) soil CH4 emission soil water content dependence parameter3
6.786000 (dimless) soil CH4 emission soil water content dependence parameter4
0.010000 (dimless) soil CH4 emission soil temperature dependence parameter1
--------------------------------------------------------------------------------
SOIL COMPOSITION AND CHARACTERISTIC VALUES (-9999: no measured data)
28.000000 28.000000 28.000000 30.000000 30.000000 41.000000 41.000000 41.000000 41.000000 41.000000 (%) sand percentage by volume in rock-free soil
49.000000 49.000000 49.000000 41.000000 46.000000 36.000000 36.000000 36.000000 36.000000 36.000000 (%) silt percentage by volume in rock-free soil
8.200000 8.200000 8.200000 8.500000 8.700000 8.700000 8.700000 8.700000 8.700000 8.700000 (dimless) soil pH
-9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 (dimless) Clapp-Hornberger soilB parameter
-9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 (g/cm3) bulk density
-9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 (m3/m3) SWC at saturation
-9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 (m3/m3) SWC at field capacity
-9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 (m3/m3) SWC at wilting point
-9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 (m3/m3) SWC at hygroscopic water content
-9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 (dimless) drainage coefficient
-9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 (cm/day) hydraulic condictivity at saturation
-9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 -9999.000000 (cm) capillary fringe
RBBGCMuso/inst/examples/hhs/hhs.mgm → RBBGCMuso/inst/examples/hhs/hhs_muso7.mgm
+41 -33
View File
@@ -1,33 +1,41 @@
MANAGEMENT_INFORMATION MuSo6
-------------------------------------------------------------------------------------------------------------------
PLANTING
0 (flag) flag of management action: 0 - no MGM, 1 - MGM information from file below
none
-------------------------------------------------------------------------------------------------------------------
THINNING
0 (flag) flag of management action: 0 - no MGM, 1 - MGM information from file below
none
-------------------------------------------------------------------------------------------------------------------
MOWING
1 (flag) flag of management action: 0 - no MGM, 1 - MGM information from file below
hhs.mow
-------------------------------------------------------------------------------------------------------------------
GRAZING
0 (flag) flag of management action: 0 - no MGM, 1 - MGM information from file below
none
-------------------------------------------------------------------------------------------------------------------
HARVESTING
0 (flag) flag of management action: 0 - no MGM, 1 - MGM information from file below
none
-------------------------------------------------------------------------------------------------------------------
PLOUGHING
0 (flag) flag of management action: 0 - no MGM, 1 - MGM information from file below
none
-------------------------------------------------------------------------------------------------------------------
FERTILIZING
0 (flag) flag of management action: 0 - no MGM, 1 - MGM information from file below
none
-------------------------------------------------------------------------------------------------------------------
IRRIGATING
0 (flag) flag of management action: 0 - no MGM, 1 - MGM information from file below
none
MANAGEMENT_INFORMATION MuSo7
-------------------------------------------------------------------------------------------------------------------
PLANTING
0 (flag) flag of management action: 0 - no MGM, 1 - MGM information from file below
none
-------------------------------------------------------------------------------------------------------------------
THINNING
0 (flag) flag of management action: 0 - no MGM, 1 - MGM information from file below
none
-------------------------------------------------------------------------------------------------------------------
MOWING
1 (flag) flag of management action: 0 - no MGM, 1 - MGM information from file below
hhs.mow
-------------------------------------------------------------------------------------------------------------------
GRAZING
0 (flag) flag of management action: 0 - no MGM, 1 - MGM information from file below
none
-------------------------------------------------------------------------------------------------------------------
HARVESTING
0 (flag) flag of management action: 0 - no MGM, 1 - MGM information from file below
none
-------------------------------------------------------------------------------------------------------------------
PLOUGHING
0 (flag) flag of management action: 0 - no MGM, 1 - MGM information from file below
none
-------------------------------------------------------------------------------------------------------------------
FERTILIZING
0 (flag) flag of management action: 0 - no MGM, 1 - MGM information from file below
none
-------------------------------------------------------------------------------------------------------------------
IRRIGATING
0 (flag) flag of management action: 0 - no MGM, 1 - MGM information from file below
none
-------------------------------------------------------------------------------------------------------------------
MULCHING
0 (flag) flag of management action: 0 - no MGM, 1 - MGM information from file below
none
-------------------------------------------------------------------------------------------------------------------
CWD-EXTRACT
0 (flag) flag of management action: 0 - no MGM, 1 - MGM information from file below
none
RBBGCMuso/inst/examples/hhs/muso
BIN
View File
Binary file not shown.
RBBGCMuso/inst/examples/hhs/n.ini
+9 -10
View File
@@ -8,8 +8,8 @@ hhs.mtc43
RESTART
1 (flag) 1 = read restart; 0 = dont read restart
0 (flag) 1 = write restart; 0 = dont write restart
hhs_MuSo6.endpoint (filename) name of the input restart file
hhs_MuSo6.endpoint (filename) name of the output restart file
hhs_MuSo7.endpoint (filename) name of the input restart file
hhs_MuSo7.endpoint (filename) name of the output restart file
TIME_DEFINE
9 (int) number of simulation years
@@ -24,25 +24,23 @@ CO2.txt
NDEP_CONTROL
1 (flag) 0=constant; 1=vary with file
0.001400 (kgN/m2/yr) wet+dry atmospheric deposition of N
0.000200 (kgN/m2/yr) wet+dry atmospheric deposition of N
0.50 (prop.) proprortion of NH4 flux of N-deposition
Ndep.txt (filename) name of the N-dep file
SITE
248.0 (m) site elevation
46.95 (degrees) site latitude (- for S.Hem.)
0.20 (DIM) site shortwave albedo
9.00 (Celsius) mean annual air temperature
10.15 (Celsius) mean annual air temperature range
0.50 (prop.) proprortion of NH4 flux of N-deposition
SOIL_FILE
hhs.soi (filename) SOIL filename
hhs_muso7.soi (filename) SOIL filename
EPC_FILE
c3grass_muso6.epc (filename) EPC filename
c3grass_muso7.epc (filename) EPC filename
MANAGEMENT_FILE
hhs.mgm (filename) MGM filename (or "none")
hhs_muso7.mgm (filename) MGM filename (or "none")
SIMULATION_CONTROL
1 (flag) phenology flag (1 = MODEL PHENOLOGY 0 = USER-SPECIFIED PHENOLOGY)
@@ -59,6 +57,7 @@ SIMULATION_CONTROL
0 (flag) evapotranspiration calculation method (0: Penman-Montieth, 1: Priestly-Taylor)
0 (flag) radiation calculation method (0: SWabs, 1: Rn)
0 (flag) soilstress calculation method (0: based on VWC, 1: based on transp. demand)
1 (flag) interception calculation method (0: based on allLAI, 1: based on allLAI)
W_STATE
0.0 (kg/m2) water stored in snowpack
@@ -103,7 +102,7 @@ CONDITIONAL_MANAGEMENT_STRATEGIES
0.0 (kgH2O/m2) maximum amount of irrigated water
OUTPUT_CONTROL
hhs_MuSo6 (filename) output prefix
hhs_MuSo7 (filename) output prefix
1 (flag) writing daily output (0 = no; 1 = binary; 2 = ascii; 3 = on-screen)
0 (flag) writing monthly average of daily output (0 = no; 1 = binary; 2 = ascii; 3 = on-screen)
0 (flag) writing annual average of daily output (0 = no; 1 = binary; 2 = ascii; 3 = on-screen)
RBBGCMuso/inst/examples/hhs/parameters.csv
+20 -13
View File
@@ -1,15 +1,22 @@
ABREVIATION,INDEX,min,max MuSo6
ABREVIATION,INDEX,min,max
TRANSFERGROWTHP,11,0.1,1
T_BASE,13,0,8
WPM,25,0,0.1
CN_leaf,26,14.3,58.8
CWIC,49,0.01,0.07
CLEC,50,0.3,0.8
FLNR,56,0.1,0.2
MSTOMACOND,58,0.001,0.007
ROOTDEPTH,64,0.5,3
ROOTDISTRIB,65,0.2,5
RELSWCCRIT1,96,0.97,1
RELSWCCRIT2,97,0.4,1
SENESCENCABG,101,0,0.1
SLA,137.60,10,60
WPM,26,0,0.1
CN_leaf,29,14.3,58.8
CWIC,52,0.01,0.07
CLEC,53,0.3,0.8
FLNR,59,0.1,0.2
MSTOMACOND,61,0.001,0.007
ROOTDEPTH,67,0.5,3
ROOTDISTRIB,68,0.2,5
RELSWCCRIT1,99,0.97,1
RELSWCCRIT2,100,0.4,1
SENESCENCABG,104,0,0.1
AllocP_l, 132.60,0,1
AllocP_fr,133.60,0,1
AllocP_fr,134.60,0,0
AllocP_ss,135.60,0,1
AllocP_ls,136.60,0,0
AllocP_ds,137.60,0,0
AllocP_lr,138.60,0,0
AllocP_dr,139.60,0,0
1 ABREVIATION INDEX min max MuSo6 max
2 TRANSFERGROWTHP 11 0.1 1
3 T_BASE 13 0 8
4 WPM 25 26 0 0.1
5 CN_leaf 26 29 14.3 58.8
6 CWIC 49 52 0.01 0.07
7 CLEC 50 53 0.3 0.8
8 FLNR 56 59 0.1 0.2
9 MSTOMACOND 58 61 0.001 0.007
10 ROOTDEPTH 64 67 0.5 3
11 ROOTDISTRIB 65 68 0.2 5
12 RELSWCCRIT1 96 99 0.97 1
13 RELSWCCRIT2 97 100 0.4 1
14 SENESCENCABG 101 104 0 0.1
15 SLA AllocP_l 137.60 132.60 10 0 60 1
16 AllocP_fr 133.60 0 1
17 AllocP_fr 134.60 0 0
18 AllocP_ss 135.60 0 1
19 AllocP_ls 136.60 0 0
20 AllocP_ds 137.60 0 0
21 AllocP_lr 138.60 0 0
22 AllocP_dr 139.60 0 0
RBBGCMuso/inst/examples/hhs/s.ini
+7 -8
View File
@@ -8,8 +8,8 @@ hhs.mtc43
RESTART
0 (flag) 1 = read restart; 0 = dont read restart
1 (flag) 1 = write restart; 0 = dont write restart
hhs_MuSo6.endpoint (filename) name of the input restart file
hhs_MuSo6.endpoint (filename) name of the output restart file
hhs_MuSo7.endpoint (filename) name of the input restart file
hhs_MuSo7.endpoint (filename) name of the output restart file
TIME_DEFINE
54 (int) number of simulation years
@@ -25,21 +25,19 @@ CO2.txt
NDEP_CONTROL
1 (flag) 0=constant; 1=vary with file
0.000200 (kgN/m2/yr) wet+dry atmospheric deposition of N
0.50 (prop.) proprortion of NH4 flux of N-deposition
Ndep.txt (filename) name of the N-dep file
SITE
248.0 (m) site elevation
46.95 (degrees) site latitude (- for S.Hem.)
0.20 (DIM) site shortwave albedo
9.00 (Celsius) mean annual air temperature
10.15 (Celsius) mean annual air temperature range
0.50 (prop.) proprortion of NH4 flux of N-deposition
SOIL_FILE
hhs.soi (filename) SOIL filename
hhs_muso7.soi (filename) SOIL filename
EPC_FILE
c3grass_muso6.epc (filename) EPC filename
c3grass_muso7.epc (filename) EPC filename
MANAGEMENT_FILE
none (filename) MGM filename (or "none")
@@ -59,6 +57,7 @@ SIMULATION_CONTROL
0 (flag) evapotranspiration calculation method (0: Penman-Montieth, 1: Priestly-Taylor)
0 (flag) radiation calculation method (0: SWabs, 1: Rn)
0 (flag) soilstress calculation method (0: based on VWC, 1: based on transp. demand)
1 (flag) interception calculation method (0: based on allLAI, 1: based on allLAI)
W_STATE
0.0 (kg/m2) water stored in snowpack
@@ -103,7 +102,7 @@ CONDITIONAL_MANAGEMENT_STRATEGIES
0.0 (kgH2O/m2) maximum amount of irrigated water
OUTPUT_CONTROL
hhs_MuSo6_Spinup (filename) output prefix
hhs_MuSo7_Spinup (filename) output prefix
0 (flag) writing daily output (0 = no; 1 = binary; 2 = ascii; 3 = on-screen)
0 (flag) writing monthly average of daily output (0 = no; 1 = binary; 2 = ascii; 3 = on-screen)
0 (flag) writing annual average of daily output (0 = no; 1 = binary; 2 = ascii; 3 = on-screen)