Mercurial > repos > ecology > entities_template
view geo_cov_temp.R @ 0:5bfceb4ef59b draft
planemo upload for repository https://github.com/galaxyecology/tools-ecology/tree/master/tools/EMLassemblyline commit f00c48e2a16ba6154e6c1aa50330586eefb13a32
author | ecology |
---|---|
date | Sat, 23 Dec 2023 20:40:51 +0000 |
parents | |
children | 8de58d879d6e |
line wrap: on
line source
#27/11/2023 #Seguineau Pauline #Make geographic coverage template #Load packages library(EMLassemblyline) #Load arguments args = commandArgs(trailingOnly=TRUE) if(length(args)>0){ data_table <- args[1] tablename <- args[2] lat_col <- as.numeric(args[3]) long_col <- as.numeric(args[4]) site_col <- as.numeric(args[5]) empty <- args[6] } datatable = read.table(data_table,header=T) latcol = names(datatable[lat_col]) longcol = names(datatable[long_col]) sitecol = names(datatable[site_col]) if (empty == "false"){ empty = FALSE }else if (empty=="true"){ empty=TRUE} #Make template template_geographic_coverage(path =".", data.path = "data_files", data.table = tablename, lat.col = latcol, lon.col = longcol, site.col = sitecol, empty = empty)