runDEoptim: Wrapper around 'DEoptim' call

In PredictiveEcology/fireSenseUtils: Utilities for Working With the 'fireSense' Group of 'SpaDES' Modules

Description

Does the multiple cluster connections. This will only work if ssh keys are correctly made between machines (if using multiple machines).

Usage

runDEoptim(
  landscape,
  annualDTx1000,
  nonAnnualDTx1000,
  fireBufferedListDT,
  historicalFires,
  itermax,
  initialpop,
  NP,
  trace,
  strategy,
  cores,
  logPath,
  cachePath,
  iterStep = 25,
  lower,
  upper,
  formula,
  objFunCoresInternal,
  covMinMax = covMinMax,
  tests,
  maxFireSpread,
  Nreps,
  .verbose,
  visualizeDEoptim
)

DEoptimIterative(
  itermax,
  lower,
  upper,
  control,
  formula,
  covMinMax,
  tests,
  objFunCoresInternal,
  maxFireSpread,
  Nreps,
  visualizeDEoptim,
  cachePath,
  iterStep = 25,
  .verbose
)

Arguments

landscape	A RasterLayer which has the correct metadata associated with the pixelID and cells of other objects in this function call
annualDTx1000	A list of data.table objects. Each list element will be from 1 year, and it must be the same length as fireBufferedListDT and historicalFires
nonAnnualDTx1000	A list of data.table objects. Each list element must be named with a concatenated sequence of names from names(annualDTx1000), e.g., 1991_1992_1993. It should contain all the years in names(annualDTx1000).
fireBufferedListDT	A list of data.table objects. It must be same length as annualDTx1000, with same names. Each element is a data.table with columns: buff...TODO: INCOMPLETE
historicalFires	DESCRIPTION NEEDED
itermax	Passed to DEoptim.control
initialpop	DESCRIPTION NEEDED
NP	DESCRIPTION NEEDED
trace	Passed to DEoptim.control
strategy	Passed to DEoptim.control
cores	A numeric (for running on localhost only) or a character vector of machine names (including possibly "localhost"), where the length of the vector indicates how many cores should be used on that machine.
logPath	A character string indicating what file to write logs to. This dirname(logPath) must exist on each machine, though the function will make sure it does internally.
cachePath	The cachePath to store cache in. Should likely be cachePath(sim)
iterStep	Integer. Must be less than itermax. This will cause DEoptim to run the itermax iterations in ceiling(itermax / iterStep) steps. At the end of each step, this function will plot, optionally, the parameter histograms (if visualizeDEoptim is TRUE)
lower	Passed to DEoptim
upper	Passed to DEoptim
formula	Passed to DEoptim
objFunCoresInternal	DESCRIPTION NEEDED
covMinMax	Passed to fireSenseUtils::.objfun
tests	Passed to fireSenseUtils::.objfun
maxFireSpread	Passed to fireSenseUtils::.objfun
Nreps	Passed to fireSenseUtils::.objfun
.verbose	Passed to fireSenseUtils::.objfun
visualizeDEoptim	Logical. If TRUE, then histograms will be made of DEoptim outputs
control	DESCRIPTION NEEDED

Value

DESCRIPTION NEEDED

PredictiveEcology/fireSenseUtils documentation built on Sept. 18, 2020, 1:58 a.m.