I have a script called foo.R
that includes another script other.R
, which is in the same directory:
#!/usr/bin/env Rscript
message("Hello")
source("other.R")
But I want R
to find that other.R
no matter what the current working directory.
In other words, foo.R
needs to know its own path. How can I do that?
How do I find out the current directory location and shell script directory location in Bash running on Linux or Unix like operating systems? basename command – Display filename portion of pathname. dirname command – Display directory portion of pathname.
PATH is a colon separated list of directories: $ echo $PATH /usr/local/bin:/usr/bin:/bin:/usr/sbin:/sbin. The shell will look through these directories in order for the given command.
In bash, there are a number of ways of retrieving the full address of a script. In particular, we can use realpath, readlink, or even create our custom little script. When we want to know the directory path, we can use the dirname command in our bash script to retrieve our directory path.
To use full path you type sh /home/user/scripts/someScript . sh /path/to/file is different from /path/to/file . sh runs /bin/sh which is symlinked to /bin/dash . Just making something clear on the examples you see on the net, normally you see sh ./somescript which can also be typed as `sh /path/to/script/scriptitself'.
Here there is a simple solution for the problem. This command:
script.dir <- dirname(sys.frame(1)$ofile)
returns the path of the current script file. It works after the script was saved.
You can use the commandArgs
function to get all the options that were passed by Rscript to the actual R interpreter and search them for --file=
. If your script was launched from the path or if it was launched with a full path, the script.name
below will start with a '/'
. Otherwise, it must be relative to the cwd
and you can concat the two paths to get the full path.
Edit: it sounds like you'd only need the script.name
above and to strip off the final component of the path. I've removed the unneeded cwd()
sample and cleaned up the main script and posted my other.R
. Just save off this script and the other.R
script into the same directory, chmod +x
them, and run the main script.
main.R:
#!/usr/bin/env Rscript
initial.options <- commandArgs(trailingOnly = FALSE)
file.arg.name <- "--file="
script.name <- sub(file.arg.name, "", initial.options[grep(file.arg.name, initial.options)])
script.basename <- dirname(script.name)
other.name <- file.path(script.basename, "other.R")
print(paste("Sourcing",other.name,"from",script.name))
source(other.name)
other.R:
print("hello")
output:
burner@firefighter:~$ main.R
[1] "Sourcing /home/burner/bin/other.R from /home/burner/bin/main.R"
[1] "hello"
burner@firefighter:~$ bin/main.R
[1] "Sourcing bin/other.R from bin/main.R"
[1] "hello"
burner@firefighter:~$ cd bin
burner@firefighter:~/bin$ main.R
[1] "Sourcing ./other.R from ./main.R"
[1] "hello"
This is what I believe dehmann is looking for.
I couldn't get Suppressingfire's solution to work when 'source'ing from the R console.
I couldn't get hadley's solution to work when using Rscript.
Best of both worlds?
thisFile <- function() {
cmdArgs <- commandArgs(trailingOnly = FALSE)
needle <- "--file="
match <- grep(needle, cmdArgs)
if (length(match) > 0) {
# Rscript
return(normalizePath(sub(needle, "", cmdArgs[match])))
} else {
# 'source'd via R console
return(normalizePath(sys.frames()[[1]]$ofile))
}
}
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