model.chapy.customize {barrks} | R Documentation |
This page describes the parameters that can be used to customize CHAPY. The model was developed by Ogris et al. (2020). Look here to find out how to apply the model.
dd_onset_start_date |
The date, when the degree days start to sum up ('MM-DD'). |
dd_onset_base |
Base temperature to calculate degree days to trigger the onset. |
dd_onset_threshold |
Degree days that are required to trigger the onset of
infestation. Additionally, the maximum temperature must exceed |
tfly |
Minimum temperature that beetles need to fly. |
dd_development_base |
Base temperature to calculate degree days for development. |
dd_total_dev |
Degree days that are required for a generation to fully develop |
dev_start , dev_end |
Share in total development when the egg development starts and the juvenile beetle's development ends respectively. Usable if the development below/above these thresholds should account for mating, oviposition etc. |
dev_sister_brood |
Share in the total development, when a sister brood will be established. |
dev_mortal_min , dev_mortal_max |
The beetles are considered to be in
white stages (egg, larva, pupa) if their development exceeds |
func_ftmin , func_ftmean , func_ftmax |
Functions to caclulate the air temperature in forest stands (see Ogris et al. 2019, equations 1 - 3). Each parameter will be passed as SpatRaster:
|
func_btmin , func_btmean , func_btmax |
Functions to caclulate the bark temperature (see Ogris et al. 2019, equations 4 - 6). Each parameter will be passed as SpatRaster:
|
dt_low , dt_up , topt , tmax , alpha , beta , gamma |
Parameters to calculate the effective bark temperature (see Ogris et al. 2020, equations A.7 - A.9). |
model_end_date |
Date when the model ends (no further development will be modeled). |
daylength_dia |
When the daylength falls below this threshold, diapause will be initiated. |
mortality_date |
Date when all white stages (egg, larva, pupa) die. |
In barrks
, model()
is used to customize a model. The following code
illustrates which parameters are available for CHAPY and specifies their
default values.
model("chapy", # ==== onset ==== dd_onset_start_date = '03-09', dd_onset_base = 7.4, dd_onset_threshold = 216.5, # ==== onset + development ==== tfly = 15.6, # ==== development ==== dd_development_base = 7.4, dd_total_dev = 635.4, dev_start = 0, dev_end = 1, dev_sister_brood = 0.5, dev_mortal_min = NULL, dev_mortal_max = 0.8, func_ftmin = function(tmin) { 1.44 + 0.82 * tmin }, func_ftmean = function(tmean) { 0.50 + 0.81 * tmean }, func_ftmax = function(tmax) { 1.03 + 0.86 * tmax }, func_btmin = function(atmin) { 0.56 + 0.99 * atmin }, func_btmean = function(atmean) { -0.48 + 1.03 * atmean }, func_btmax = function(atmax) { 0.03 + 0.99 * atmax }, dt_low = 7.4, dt_up = 39.4, topt = 30, tmax = 41.97, alpha = 0.031, beta = 5.3, gamma = 1.25, model_end_date = '12-31', # ==== diapause ==== daylength_dia = 13.6, # ==== mortality ==== mortality_date = '12-31' )
Ogris N, Ferlan M, Hauptman T, Pavlin R, Kavčič A, Jurc M, De Groot M (2019).
“RITY–A phenology model of Ips typographus as a tool for optimization of its monitoring.”
Ecological Modelling, 410, 108775.
doi:10.1016/j.ecolmodel.2019.108775.
Ogris N, Ferlan M, Hauptman T, Pavlin R, Kavčič A, Jurc M, de Groot M (2020).
“Sensitivity analysis, calibration and validation of a phenology model for Pityogenes chalcographus (CHAPY).”
Ecological Modelling, 430, 109137.
ISSN 0304-3800, doi:10.1016/j.ecolmodel.2020.109137.
model()
, phenology()
, model.chapy.apply
Other model customizations:
model.bso.customize
,
model.joensson.customize
,
model.lange.customize
,
model.phenips.customize
,
model.phenips_clim.customize
,
model.rity.customize