Description Usage Arguments Details Value Examples
View source: R/data_handling.R
collate_run
collates all Vortex output files with extension .run
matching the project and scenario name in a given directory into one named
list.
1 2 3 4 5 6 7 8 9 | collate_run(
project,
scenario,
npops = 1,
dir_in = NULL,
save2disk = TRUE,
dir_out = "ProcessedData",
verbose = TRUE
)
|
project |
The Vortex project name to be imported |
scenario |
The scenario name |
npops |
The total number of simulated populations including the metapopulation |
dir_in |
The local folder containing Vortex files, default: NULL. If not specified, will fall back to use current working directory. |
save2disk |
Whether to save the data as rda and csv, default: TRUE |
dir_out |
The local path to store the output. Default: ProcessedData |
verbose |
Progress messages, default: TRUE |
dir_in
may contain other files; only files matching the project and
the scenario name will be read.
dir_out
is created within the working directory unless a full path is
provided.
If no matching files are found in the given directory, an error is reported.
When verbose=TRUE
the progress (i.e. the file being read) is reported
on screen.
a list with two elements: run, a data.frame with data from all Vortex files and lrun, where the same data are re-arranged in long format
1 2 3 4 5 | # Using Pacioni et al. example files. See ?pacioni for more details.
pac.dir <- system.file('extdata', 'pacioni', package='vortexRdata')
# Run collate_run on all .run of the project 'Pacioni_et_al' and
run <- collate_run('Pacioni_et_al', 'ST_LHS', 1, dir_in=pac.dir,
save2disk=FALSE)
|
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