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BGM files for Atlantis

A raw-data package with example .bgm files (box geometry model) for Atlantis ecosystem model.

Atlantis is a deterministic, biogeochemical, whole-of-ecosystem model: http://atlantis.cmar.csiro.au/.

PLEASE NOTE: this is not an official source of BGM for use in Atlantis.

See https://github.com/mdsumner/rbgm for an R package to read these files and work with the box geometry.

See https://github.com/AustralianAntarcticDivision/box-geometry-models for the project that collects the files used in this package.

Installation

Install from CRAN:

install.packages("bgmfiles")

Install the develop version from Github using devtools.

# install.packages("devtools")
devtools::install_github("AustralianAntarcticDivision/bgmfiles")

Usage

List the available raw files available in this package.

library(bgmfiles)
files <- bgmfiles()
print(basename(files))
#>  [1] "AEEC_poly_projETRS89_LAEA_snapped0p002.bgm"
#>  [2] "ams71.bgm"                                 
#>  [3] "antarctica_28.bgm"                         
#>  [4] "antarctica_99.bgm"                         
#>  [5] "CalCurrentV3_utm.bgm"                      
#>  [6] "Final_CAM_Boxes_8.bgm"                     
#>  [7] "GOM_BGM.bgm"                               
#>  [8] "Guam_utm1.bgm"                             
#>  [9] "JFRE_ll.bgm"                               
#> [10] "JFRE_xy.bgm"                               
#> [11] "NGOM.bgm"                                  
#> [12] "Nordic02.bgm"                              
#> [13] "VMPA_setas.bgm"

If needed filter based on a specific string with the pattern argument:

afiles <- bgmfiles(pattern = "^antarc")
print(basename(afiles))
#> [1] "antarctica_28.bgm" "antarctica_99.bgm"

This package exists as a data package to install example files, there is just one function bgmfiles that runs file finding functions:

list.files(system.file("extdata", package = "bgmfiles"), pattern = NULL, full.names = TRUE, recursive = TRUE)

We don’t need to load or attach the package to find these files, but using the installation mechanism is very convenient for R use.

Contribute!

If you would like to contribute example BGM files or to the package:

or just get in touch directly via email.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.