Package index • PEcAn.utils

All functions
`PEcAn.utils` `PEcAn.utils-package` `PEcAn` `PECAn` `pecan` `package-pecan`	R package to support PEcAn, the Predictive Ecosystem Analyzer
`arrhenius.scaling()`	Arrhenius scaling
`as.sequence()`	Convert categorical variable into sequential integers
`bibtexify()`	bibtexify
`bugs.rdist()`	Sample from an R distribution using JAGS
`capitalize()`	Capitalize a string
`cf2datetime()`	Convert CF-style date-time to POSIXct date-time
`clear.scratch()`	Removes previous model run output from worker node local scratch directories on EBI-CLUSTER
`convert.expr()`	Convert expression to variable names
`datetime2cf()`	Convert POSIXct date-time to CF-style date-time
`datetime2doy()` `cf2doy()`	Extract Julian day from CF or POSIXct date-times
`days_in_year()`	Number of days in a year
`distn.stats()`	Distribution Stats
`distn.table.stats()`	Helper function for computing summary statistics of a parametric distribution
`download.url()`	Try and download a file.
`download_file()`	Simple function to use ncftpget for FTP downloads behind a firewall.
`full.path()`	Creates an absolute path to a folder.
`get.ensemble.inputs()`	get.ensemble.inputs
`get.parameter.stat()`	Get Parameter Statistics
`get.quantiles()`	Get Quantiles
`get.run.id()`	returns an id representing a model run
`get.sa.sample.list()`	get sensitivity samples as a list
`get.sa.samples()`	Get sensitivity analysis samples
`get.stats.mcmc()`	Further summarizes output from summary.mcmc
`left.pad.zeros()`	Left Pad Zeros
`listToArgString()`	format a list of arguments as one comma-separated string
`load.modelpkg()`	Load model package
`load_local()`	Load an `RData` file into a list
`match_file()`	Match a file
`mcmc.list2init()`	Convert mcmc.list to initial condition list
`met2model.exists()`	checks that met2model function exists
`misc.are.convertible()`	function to check whether units are convertible by misc.convert function
`misc.convert()`	conversion function for the unit conversions that udunits cannot handle but often needed in PEcAn calculations
`mstmipvar()`	return MstMIP variable as ncvar
`n_leap_day()`	n_leap_day
`need_packages()`	Check if required packages are installed, and throw an informative error if not.
`newxtable()`	New xtable
`paste.stats()`	Paste Stats
`pdf.stats()`	Probability Distribution Function Statistics
`r2bugs.distributions()`	convert R parameterizations to BUGS paramaterizations
`read.output()`	Read model output
`read_web_config()`	Read `config.php` file into an R list
`retry.func()`	Retry function X times before stopping in error
`robustly()`	Adverb to try calling a function `n` times before giving up
`rsync()`	R implementation of rsync
`seconds_in_year()`	Number of seconds in a given year
`sendmail()`	Sends email. This assumes the program sendmail is installed.
`ssh()`	R implementation of SSH
`standard_vars`	Standardized variable names and units for PEcAn
`status.start()` `status.end()` `status.skip()` `status.check()`	PEcAn workflow status tracking
`summarize.result()`	Summarize results of replicate observations in trait data query
`tabnum()`	Table numbers
`temp.settings()`	Create a temporary settings file
`timezone_hour()`	Timezone Hour
`to_ncdim()`	Make some values into an NCDF dimension variable
`to_ncvar()`	Define an NCDF variable
`trait.lookup()`	Dictionary of terms used to identify traits in ed, filenames, and figures
`transformstats()`	Transform misc. statistics to SE
`tryl()`	Test if function gives an error
`ud_convert()`	Convert units
`unit_is_parseable()`	Check whether a string can be interpreted as a unit
`units_are_equivalent()`	Check if two unit strings are equivalent
`vecpaste()`	Convert vector to comma delimited string
`zero.bounded.density()`	Zero bounded density using log density transform
`zero.truncate()`	Zero Truncate

Reference

All functions