diff flight-curve.R @ 0:a79f5f0f17ad draft default tip

planemo upload for repository https://github.com/galaxyecology/tools-ecology/tree/master/tools/regionalgam commit ffe42225fff8992501b743ebe2c78e50fddc4a4e
author ecology
date Thu, 20 Jun 2019 04:02:41 -0400
parents
children
line wrap: on
line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/flight-curve.R	Thu Jun 20 04:02:41 2019 -0400
@@ -0,0 +1,8 @@
+#!/usr/bin/env Rscript
+args = commandArgs(trailingOnly=TRUE)
+source(args[1]) #TODO replace by library(regionalGAM) if available as official package from bioconda
+tryCatch({input = read.table(args[2], header=TRUE,sep="	")},finally={input = read.table(args[2], header=TRUE,sep=",")})
+dataset1 <- input[,c("SPECIES", "SITE", "YEAR", "MONTH", "DAY", "COUNT")]
+pheno <- flight_curve(dataset1, MinVisit = args[3], MinOccur = args[4])
+
+write.table(pheno, file="pheno", row.names=FALSE, sep="	")