model.phenips.customize {barrks} | R Documentation |
Customize PHENIPS
Description
This page describes the parameters that can be used to customize PHENIPS. The model was developed by Baier et al. (2007). Look here to find out how to apply the model.
Arguments
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 calculating the beetles 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 |
topt |
Temperature for optimal development. |
tlow , tup |
Temperature below/above which no development happens. |
func_btmean , func_btmax , func_btdiff |
Functions to caclulate the effective bark temperature (see Baier et al. 2007, equations A.3 to A5). Each parameter will be passed as SpatRaster:
|
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. |
Details
In barrks
, model()
is used to customize a model. The following code
illustrates which parameters are available for PHENIPS and specifies their
default values.
model("phenips", # ==== onset ==== dd_onset_start_date = '04-01', dd_onset_base = 8.3, dd_onset_threshold = 140, # ==== onset + development ==== tfly = 16.5, # ==== development ==== dd_development_base = 8.3, dd_total_dev = 557, dev_start = 0, dev_end = 1, dev_sister_brood = 0.5, dev_mortal_min = NULL, dev_mortal_max = 0.6, topt = 30.4, tlow = 8.3, tup = 38.9, func_btmean = function(tmean, rad) { -0.173 + 0.0008518 * rad + 1.054 * tmean }, func_btmax = function(tmax, rad) { 1.656 + 0.002955 * rad + 0.534 * tmax + 0.01884 * tmax ^ 2 }, func_btdiff = function(btmax) { (-310.667 + 9.603 * btmax) / 24 }, model_end_date = '10-31', # ==== diapause ==== daylength_dia = 14.5, # ==== mortality ==== mortality_date = '10-31' )
References
Baier P, Pennerstorfer J, Schopf A (2007). “PHENIPS—A comprehensive phenology model of Ips typographus (L.)(Col., Scolytinae) as a tool for hazard rating of bark beetle infestation.” Forest Ecology and Management, 249(3), 171–186. doi:10.1016/j.foreco.2007.05.020.
See Also
model()
, phenology()
, model.phenips.apply
Other model customizations:
model.bso.customize
,
model.chapy.customize
,
model.joensson.customize
,
model.lange.customize
,
model.phenips_clim.customize
,
model.rity.customize