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# plumber.R
library(plumber)
library(jsonlite)
library(readr)
library(futile.logger)
library(tryCatchLog)
library(ggplot2)
# creare R directory
dir.create(file.path("/tmp/R"), showWarnings = FALSE)
#* Echo back the input
#* @param msg The message to echo
#* @get /echo
function(msg="")
{
list(msg = paste0("The message is: '", msg, "'"))
}
#* @serializer unboxedJSON
#* @post /rscript
function(code="", session_id="", R_file_id="")
{
# create session directory for user
dir.create(file.path("/tmp/R/", session_id), showWarnings = FALSE)
setwd(file.path("/tmp/R/", session_id))
InputFile <- paste("/tmp/R/",session_id,"/", R_file_id,".R", sep="")
OutputFile <- paste("/tmp/R/",session_id,"/", R_file_id,".txt", sep="")
RunInputFile <- paste("Rscript", InputFile, sep=" ")
fileConn<-file(InputFile)
Line1 = paste("png('/tmp/R/",session_id,"/", R_file_id,".png')\n", sep="")
Line2 = code
Line3 = "while (!is.null(dev.list())) dev.off()"
writeLines(c(Line1, Line2, Line3), fileConn)
close(fileConn)
#ro <- system(RunInputFile, intern = TRUE)
ro <-robust.system(RunInputFile)
ro <- unlist(lapply(ro,function(x) if(identical(x,character(0))) ' ' else x))
fileConn<-file(OutputFile)
writeLines(paste0(ro), fileConn)
close(fileConn)
ro <- read_file(OutputFile)
if (file.exists(paste("/tmp/R/",session_id,"/",R_file_id,".png", sep="")) == TRUE) {
graph_exist <- TRUE
} else {
graph_exist <- FALSE
}
r<- list(status = "SUCCESS", code = "200", output = ro, graph_exist = graph_exist)
return (r)
}
#* @serializer contentType list(type='image/png')
#* @get /file
function(req, res, session_id="", R_file_id=""){
file = paste("/tmp/R/",session_id,"/",R_file_id,".png", sep="")
readBin(file,'raw',n = file.info(file)$size)
}
# function to run R script on system
robust.system <- function (cmd) {
stderrFile = tempfile(pattern="R_robust.system_stderr", fileext=as.character(Sys.getpid()))
stdoutFile = tempfile(pattern="R_robust.system_stdout", fileext=as.character(Sys.getpid()))
retval = list()
retval$exitStatus = system(paste0(cmd, " 2> ", shQuote(stderrFile), " > ", shQuote(stdoutFile)), intern = TRUE )
retval$stdout = readLines(stdoutFile)
retval$stderr = readLines(stderrFile)
unlink(c(stdoutFile, stderrFile))
return(retval)
}
#* @post /upload
upload <- function(req, res){
cat("---- New Request ----\n")
session_id <- gsub('\"', "", substr(req$postBody[length(req$postBody)-1], 1, 1000))
dir.create(file.path("/tmp/R/", session_id), showWarnings = FALSE)
# the path where you want to write the uploaded files
file_path <- paste("/tmp/R/",session_id,"/", sep="")
# strip the filename out of the postBody
file_name <- gsub('\"', "", substr(req$postBody[2], 55, 1000))
# need the length of the postBody so we know how much to write out
file_length <- length(req$postBody)-5
# first five lines of the post body contain metadata so are ignored
file_content <- req$postBody[5:file_length]
# build the path of the file to write
file_to_write <- paste0(file_path, file_name)
# write file out with no other checks at this time
write(file_content, file = file_to_write)
# print logging info to console
cat("File", file_to_write, "uploaded\n")
# return file path &name to user
ro <- file_to_write
r<- list(status = "SUCCESS", code = "200", output = ro)
return (r)
}
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