# Forceps setup file

siteFileName = 01_SITE/forceps.PYR00.site

speciesFileName = forceps3.New_species

defaultClimateFileName = 02_CLIMATE/Climate/PROJECTIONS/RESAMPLED/resample_BASE/forceps.RESAMPLED_resample_BASEPYR00.climate
defaultClimateIsDaily = true

initDate = 2022
randomSeed = 123

inventory = true
inventoryFileName = 03_INVENTORY/forceps.PYR00.inv

bareGround = false
bareGroundPatchN = 1
bareGroundPatchArea = 100

equilibriumInitialCanopy = true
# equilibriumInitialCanopy = false

sureauSoilParametersFileName = 04_SOIL/SurEauSoilParameters_PYR00.txt

management = true
managementFileName = 05_MANAGEMENT/forceps.PYR00_R2.management

potentialSpeciesList = 0 13 15 17 18 20 21 23 25 31

phenofitActivated = true
phenofitPath = 06_PHENOLOGY/PYR00/
phenofitSpeciesCorrespondanceFileName = phenofit4/phenofitSpeciesCorrespondance.txt

####

adaptiveMode = false
adaptiveInputCompleteExport = inputCompleteExport.adaptive
# adaptiveVarianceLevel: ADAPTIVE_VARIANCE_LEVEL_LOW, ADAPTIVE_VARIANCE_LEVEL_MEDIUM or ADAPTIVE_VARIANCE_LEVEL_HIGH
adaptiveVarianceLevel = ADAPTIVE_VARIANCE_LEVEL_LOW
# adaptiveTradeOffOption: ADAPTIVE_NO_TRADEOFF_OPTION, ADAPTIVE_TRADEOFF_DRTOL_OPTION or ADAPTIVE_TRADEOFF_G_OPTION
adaptiveTradeOffOption = ADAPTIVE_TRADEOFF_G_OPTION
adaptiveInventoryPatchN = 50
adaptiveInventoryPatchArea = 800

adaptiveInitial_laSd = 0
adaptiveInitial_drtolSd = 0
adaptiveInitial_gSd = 0
#adaptiveInitial_laSd = 0.03
#adaptiveInitial_drtolSd = 0.1
#adaptiveInitial_gSd = 5

adaptiveExtraVariance_drtol = 0.03
adaptiveExtraVariance_g = 5

# fc+ld-8.11.2022
adaptiveConstantVarianceMode = false
adaptiveConstantVariance_laSd = 0.8
adaptiveConstantVariance_gSd = 32
adaptiveConstantVariance_drtolSd = 0.03

adaptiveMultiNormalCorrelation_g_la = 0
adaptiveMultiNormalCorrelation_drtol_g = -0.5
adaptiveMultiNormalCorrelation_la_drtol = 0

adaptiveTreeReproductionWeight = true

adaptiveReadSpeciesParametersInCompleteExport = false

################### adaptive2 ###################

# User must choose adaptiveMode or adaptive2Mode but not both

adaptive2Mode = false
adaptive2FileName = forcepsAdaptive2.trait

#####################################################

# fc+ld-4.1.2023
adaptiveHeritability = 0.3
regenerationForclimLike_withMigration = false
# ld-3.7.2023 Added a migration multiplicator to control the number of migrant per patch each year
migrationFactor = 1

#distProba = 0.5
distProba = 0.005
#distProba = 0

#deathProbaCoef = 0
deathProbaCoef = 4.605

#slowGrowthProba = 0
slowGrowthProba = 0.368

slowGrowthTime = 2

# If true, trees get a real crown length
crownLengthOption = true
crownLengthImpactOnGrowth = true

# Regeneration: one option out of these 3 must be selected

regenerationMaxTreesPerPatchOption = false
regenerationMaxTreesPerPatchNumber = 50
regenerationMaxTreesPerPatchWithNTries = false
regenerationMaxTreesPerPatchNTries = 5

regenerationSeedlingsPerPatchOption = false
regenerationSeedlingsPerPatchNumber = 100

regenerationForclimLike = true


regelibActivated = false
regelibFileName = 


# Regeneration: additional options

regenerationActualSpeciesOnly = false
regenerationActualSpeciesOnlyAtPatchLevel = false
regenerationConstraint = true
# fc+xm+lv-10.5.2021 added regenerationActualSpeciesOnlyAbundance
regenerationActualSpeciesOnlyAbundance = false
# fc+ld-24.2.2023 addedregenerationSpeciesContributionsBasedAbundance
regenerationSpeciesContributionsBasedAbundance = false

establishmentProbabilityCoef = 0.1
establishmentProbabilityCoef = 0.1

ppMothActivated = false 
ppMothRegionalPercentageOfInfestedTreesOption = false
ppMothRegionalPercentageOfInfestedTrees = 0.12

variability = false
variabilityFileName = forceps.fitnessVariability

climaticFitness = false
fitnessImpactsGrowth = false

#droughtStressOption = FORCLIM_LIKE_DROUGHT_STRESS
droughtStressOption = PATCH_LEVEL_DROUGHT_STRESS

#trunkVolumeOption = FORCLIM_TRUNK_VOLUME
trunkVolumeOption = EMERGE_TRUNK_VOLUME

leafLossImpactOnGrowthFactor = 0.5
frostLeafLossImpactOnLAI = true

reproductiveSuccessImpactOnRege = true


# Extra options
canopyLayerThickness = 1

crownA1ReversionFactor = 0.05

variableAllometry = true

treeHeightFromInventory = true

conicalCanopyShadows = true

equilibriumError = 0.05

layeredCrownAndHeightPlasticityCalculation = true

speciesCrownShapeParameters = true

speciesSpecificLeafArea = true

densityDependentLightAttenuation = true

leafPhenologyImpactOnLightCompetition = true
leafPhenologyImpactOnLightCompetition_GDDweights = false

percentOfRainExclusion = 0


# deadWoodModule
deadWoodActivated = true
initialLitterBiomassInformation = initialLitterBiomass()
#initialLitterBiomassInformation = initialLitterBiomass(Phal(2000000,5))
#initialLitterBiomassInformation = initialLitterBiomass(kSName_1(Biomass_kg_ha,mean_diameter_cm);kSName_2(Biomass_kg_ha,mean_diameter_cm))

yassoActivated = true
yassoParametersFileName = yassoParameters.txt
yassoSpeciesFileName = YassoSpeciesParameters.csv

soilCarbonEquilibriumInitialization = false
soilCarbonInitializationInformation = soilCarbonInitializationInformation(5000;1970;2020;2;0;0)
#soilCarbonInitializationInformation = soilCarbonInitializationInformation(calibrationYearLength;climateStartYear;climateEndYear;yearlyMortalityPercentRate;yearlyCutPercentRate;extractedBranchPercentage)

canopyStructureMemory = true
microClimateActivated = true

activateTREMCalculator = true


# Options for Sureau linking

sureauActivated = true

sureauExplicitScheme = false

sureauSmallTimeStep = 1200

sureauTimeStep = 1

sureauClassNbPerSpecies = 10

sureauMortalityModule = true

sureauGrowthModule = true


# WRITING_DISABLED, WRITING_FREQUENCY_YEAR, WRITING_FREQUENCY_DAY, or a number of seconds
sureauWritingFrequency = WRITING_FREQUENCY_DAY

yearToYearPLC = true

growthToCavitationRepairConversionFactor = 1

droughtInducedDefoliation = true

droughtInducedDefoliationImpactOnGrowth = true 

droughtInducedDefoliationImpactOnLightCompetition = true

explicitRootLength = true
rootLengthPlasticity = true

cavitationMortalityTresholdPercentage = 20

# Can be set either to a number of years > 1 or to -1. In wase -1 is used, no delay is involved and mortality from PLC is evaluated each year
plcMortalityDelayYear = -1

# If true, must be used with plcMortalityDelayYear = 1 is false, plcMortalityDelayYear must be a different int than 1
resetPLCAfterMortalityTest = false 

sureau_drtolFromSMRI = false

# LAI_BASED_TRUNK_INTERFACE_AREA_OPTION, AGGREGATE_TRUNK_INTERFACE_AREA_OPTION, SUMMED_TRUNK_INTERFACE_AREA_OPTION

sureauTrunkInterfaceAreaOption = LAI_BASED_TRUNK_INTERFACE_AREA_OPTION

# SPECIFIC_TO_TREE_TYPE, GROWTH_BASED_ONLY (original method implemented by Tanguy) or SPECIFIC_TO_TREE_TYPE_GROWTH_DEPENDENT (mix of both methods)
cavitationReparationMethod = GROWTH_BASED_ONLY

rootDepthEquilibriumCalibration = false
rootDepthInitializationInformation = rootDepthInitializationInformation()