Mercurial > repos > ecology > regionalgam_flight_curve

comparison flight-curve.R @ 0:1767753d578f draft default tip

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planemo upload for repository https://github.com/galaxyecology/tools-ecology/tree/master/tools/regionalgam commit ffe42225fff8992501b743ebe2c78e50fddc4a4e
author ecology
date Thu, 20 Jun 2019 03:59:27 -0400
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-1:000000000000 0:1767753d578f
1 #!/usr/bin/env Rscript
2 args = commandArgs(trailingOnly=TRUE)
3 source(args[1]) #TODO replace by library(regionalGAM) if available as official package from bioconda
4 tryCatch({input = read.table(args[2], header=TRUE,sep=" ")},finally={input = read.table(args[2], header=TRUE,sep=",")})
5 dataset1 <- input[,c("SPECIES", "SITE", "YEAR", "MONTH", "DAY", "COUNT")]
6 pheno <- flight_curve(dataset1, MinVisit = args[3], MinOccur = args[4])
7
8 write.table(pheno, file="pheno", row.names=FALSE, sep=" ")