Package 'PEcAn.LINKAGES'

Write LINKAGES met files

Description

Converts a met CF file to a model specific met file. The input files are calld <in.path>/<in.prefix>.YYYY.cf

Usage

met2model.LINKAGES(
  in.path,
  in.prefix,
  outfolder,
  start_date,
  end_date,
  overwrite = FALSE,
  verbose = FALSE,
  ...
)

Arguments

in.path	path on disk where CF file lives
in.prefix	prefix for each file
outfolder	location where model specific output is written
start_date, end_date	when to start and end conversion. Only year portion is used
overwrite	Force replacement of an existing output file?
verbose	ignored
...	Additional arguments, currently ignored

Value

OK if everything was succesful.

Author(s)

Ann Raiho, Betsy Cowdery

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Convert LINKAGES's output into netCDF format

Description

Convert MODEL output into the NACP Intercomparison format (ALMA using netCDF)

Usage

model2netcdf.LINKAGES(
  outdir,
  sitelat,
  sitelon,
  start_date = NULL,
  end_date = NULL,
  pft_names = NULL
)

Arguments

outdir	Location of model output
sitelat	Latitude of the site
sitelon	Longitude of the site
start_date	Start time of the simulation
end_date	End time of the simulation
pft_names	names of PFTs to use in output labels

Author(s)

Ann Raiho, Betsy Cowdery

---

Read Restart for LINKAGES

Description

Read Restart for LINKAGES

Usage

read_restart.LINKAGES(
  outdir,
  runid,
  stop.time,
  settings,
  var.names = NULL,
  params = NULL
)

Arguments

outdir	output directory
runid	run ID
stop.time	year that is being read
settings	PEcAn settings object
var.names	var.names to be extracted
params	passed on to return value

Value

X.vec vector of forecasts

Author(s)

Ann Raiho [email protected]

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split_inputs.LINKAGES

Description

Splits climate met for LINKAGES

Usage

split_inputs.LINKAGES(settings, start.time, stop.time, inputs)

Arguments

settings	ignored
start.time, stop.time	ignored
inputs	returned

Details

Stub implementation – currently returns 'inputs' and ignores all other arguments

Value

files split up climate files

Author(s)

Ann Raiho

---

write_restart.LINKAGES

Description

Write restart files for LINKAGES

Usage

write_restart.LINKAGES(
  outdir,
  runid,
  start.time,
  stop.time,
  settings,
  new.state,
  RENAME = TRUE,
  new.params,
  inputs
)

Arguments

outdir	output directory
runid	run ID
start.time, stop.time	year that is being read
settings	PEcAn settings object
new.state	analysis vector
RENAME	flag to either rename output file or not
new.params	updated parameter values to write.
inputs	passed on to 'write.config.LINKAGES()'

Value

NONE

Author(s)

Ann Raiho [email protected]

---

Writes a LINKAGES config file.

Description

Requires a pft xml object, a list of trait values for a single model run, and the name of the file to create

Usage

write.config.LINKAGES(
  defaults = NULL,
  trait.values,
  settings,
  run.id,
  restart = NULL,
  spinup = FALSE,
  inputs = NULL,
  IC = NULL
)

Arguments

defaults	list of defaults to process
trait.values	vector of samples for a given trait
settings	list of settings from pecan settings file
run.id	id of run
restart	logical: Write a restart file? If NULL (default), treated as FALSE
spinup	logical: perform spinup using 'spinup.LINKAGES()'? If NULL (default), treated as FALSE
inputs	inputs section of a PEcAn settings object. Currently only used for climate file (inputs$met$path), which is taken from 'settings$input$met$path' if 'inputs' is NULL.
IC	TODO currently ignored

Value

configuration file for LINKAGES for given run

Author(s)

Ann Raiho, Betsy Cowdery

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