Package: PEcAn.workflow 1.8.0.9000

David LeBauer

PEcAn.workflow: PEcAn Functions Used for Ecological Forecasts and Reanalysis

The Predictive Ecosystem Carbon Analyzer (PEcAn) is a scientific workflow management tool that is designed to simplify the management of model parameterization, execution, and analysis. The goal of PEcAn is to streamline the interaction between data and models, and to improve the efficacy of scientific investigation. This package provides workhorse functions that can be used to run the major steps of a PEcAn analysis.

Authors:Mike Dietze [aut], David LeBauer [aut, cre], Xiaohui Feng [aut], Dan Wang [aut], Carl Davidson [aut], Rob Kooper [aut], Shawn Serbin [aut], University of Illinois, NCSA [cph]

# Install 'PEcAn.workflow' in R:

install.packages('PEcAn.workflow', repos = c('https://pecanproject.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/pecanproject/pecan/issues

Uses libs:

jags– Just Another Gibbs Sampler for Bayesian MCMC
c++– GNU Standard C++ Library v3

On CRAN:

bayesian cyberinfrastructure data-assimilation data-science ecosystem-model ecosystem-science forecasting meta-analysis national-science-foundation pecan plants jags cpp

8.82 score 215 stars 4 packages 15 scripts 8 exports 276 dependencies

Last updated 3 days agofrom:78701515a6. Checks:9 OK. Indexed: yes.

Target	Result	Latest binary
Doc / Vignettes	OK	Mar 07 2025
R-4.5-win	OK	Mar 07 2025
R-4.5-mac	OK	Mar 07 2025
R-4.5-linux	OK	Mar 07 2025
R-4.4-win	OK	Mar 07 2025
R-4.4-mac	OK	Mar 07 2025
R-4.4-linux	OK	Mar 07 2025
R-4.3-win	OK	Mar 07 2025
R-4.3-mac	OK	Mar 07 2025

Exports:create_execute_test_xml do_conversions model_specific_tags run.write.configs runModule_start_model_runs runModule.get.trait.data runModule.run.write.configs start_model_runs

Dependencies:abind admisc amerifluxr ape arrow askpass assertthat backports base64enc bigleaf bit bit64 bitops blob boot bslib ca cachem callr CDM cellranger checkmate class classInt cli clipr clue cluster coda codetools colorspace cpp11 crayon crosstalk crul curl data.table DBI dbplyr deldir dendextend DEoptimR digest doParallel downloader dplR dplyr duckdb duckdbfs e1071 egg evaluate fansi farver fastmap fastmatch fauxpas fBasics fontawesome foreach foreign Formula fs furrr future gclus generics geonames getopt ggplot2 ggrepel globals glue gridExtra gss gtable HDInterval heatmaply here highr Hmisc hms hoardr htmlTable htmltools htmlwidgets httpcode httr igraph isoband iterators jquerylib jsonlite KernSmooth kknn knitr labeling later lattice lazyeval lifecycle listenv lme4 lubridate magrittr MASS Matrix MatrixModels matrixStats mcmc MCMCpack memoise mgcv mime minqa mlegp modeest MODISTools munsell mvtnorm natserv ncdf4 neonstore neonUtilities nlme nloptr nneo nnet openssl optparse parallelly pbapply pbv PEcAn.benchmark PEcAn.data.atmosphere PEcAn.data.land PEcAn.data.remote PEcAn.DB PEcAn.emulator PEcAn.logger PEcAn.MA PEcAn.priors PEcAn.remote PEcAn.settings PEcAn.uncertainty PEcAn.utils PEcAn.visualization permute phangorn pillar pkgconfig plotly plyr png polyclip polycor prettyunits processx progress promises proxy ps purrr qap quadprog quantreg R.methodsS3 R.oo R.utils R6 randtoolbox rappdirs raster ratelimitr rbibutils RColorBrewer Rcpp RcppArmadillo RcppEigen RcppTOML RCurl Rdpack readr readxl REddyProc reformulas registry rematch rentrez reshape2 reticulate rex ritis rjags rjson rlang rmarkdown rmutil rncl rngWELL robustbase rotl rpart rprojroot rredlist rstudioapi runjags rvest s2 sass scales selectr seriation sf signal SimilarityMeasures sirt solartime solrium sp SparseM spatial spatstat.data spatstat.geom spatstat.univar spatstat.utils stable stabledist statip storr stringi stringr suntools survival swfscMisc sys TAM taxize terra thor tibble tidyr tidyselect timechange timeDate timeSeries tinytex traits triebeard truncnorm TSP tzdb units urltools utf8 vctrs vegan viridis viridisLite vroom webshot whisker WikidataQueryServiceR WikidataR WikipediR wikitaxa withr wk worrms xfun XML xml2 xts yaml zip zoo

Help page	Topics
Create a PEcAn XML file and use it to run a PEcAn workflow	create_execute_test_xml
do_conversions	do.conversions do_conversions
model_specific_tags	model_specific_tags
Write model-specific run scripts and configuration files	run.write.configs
Get trait data for all PFTs in a settings list	runModule.get.trait.data
Generate model-specific run configuration files for one or more PEcAn runs	runModule.run.write.configs
Start selected ecosystem model runs within PEcAn workflow	runModule_start_model_runs start_model_runs

Package: PEcAn.workflow 1.8.0.9000

PEcAn.workflow: PEcAn Functions Used for Ecological Forecasts and Reanalysis

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