create_sp_dirs: Creating folder and subfolder structure of gap analysis...

Description Usage Arguments Value References Examples

Description

Creates the output folders structure for each species to host results obtained by the gap analysis pipeline This function is used internally in the create_folder_structure function

Usage

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create_sp_dirs(species, gap_dir, run_version)

Arguments

species

A name species compiled using '_' to call occurrences files from Workspace/parameter/occurrences folder

run_version

The version of the analysis used (e.g 'v1')

Workspace

A forder where the pipeline will be executed

Value

It returns a folder structure with the following subfolder schema:

species name species name as species parameter
└───v1 #Run version
│ ├───gap_analysis # Gap analysis results
│ ├───combined #Folder where results of fcs_combine.R are saved
│ ├───exsitu #Folder where Ex-situ indicators results will be saved
│ └───insitu #Folder where In-situ indicators results will be saved
└───redList #Folder where results of eooAoo function will be saved

References

Khoury, C. K., Amariles, D., Soto, J. S., Diaz, M. V., Sotelo, S., Sosa, C. C., … Jarvis, A. (2019). Comprehensiveness of conservation of useful wild plants: An operational indicator for biodiversity and sustainable development targets. Ecological Indicators. https://doi.org/10.1016/j.ecolind.2018.11.016

Examples

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create_sp_dirs('Cucurbita_digitata',Workspace,'v1')

Workspace  <-  'E:/CIAT/workspace/Workspace_test/workspace'
run_version  <- 'v1'
species_list <- c('Cucurbita_cordata',
 'Cucurbita_digitata',
 'Cucurbita_foetidissima',
 'Cucurbita_palmata')

 run_version <-'v1'
lapply(1:length(species_list),function(i){
   species <- species_list[[i]]
   x <- create_sp_dirs(species,Workspace,run_version)
   print(paste0(species,' DONE!'))
})

dcarver1/gapAnalysisR documentation built on Feb. 29, 2020, 12:13 p.m.