Hello!
with the R system command I would like to call a perl script which needs an
input directory and an output directory in form of a path. When I put in the
path directly it works. The script line looks as follows:
system("perl '../path1' '../path2' '../path3'")
If I store the path in a variable/object and call the perl script again it
does not run and I don't know how to overcome that issue.
p1 <- "../path1"
p2 <- "../path2"
p3 <- "../path3"
system("perl p1 p2 p3")
I also tried:
system("perl 'p1' 'p2' 'p3'")
Can anyone help?
Best,
syrvn
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R system command does not work with objects/variables
4 messages · Brian Ripley, syrvn, Johann Hibschman
See ?paste
or use system2("perl", shQuote(c(p1, p2, p3)))
On Tue, 23 Aug 2011, syrvn wrote:
Hello!
with the R system command I would like to call a perl script which needs an
input directory and an output directory in form of a path. When I put in the
path directly it works. The script line looks as follows:
system("perl '../path1' '../path2' '../path3'")
If I store the path in a variable/object and call the perl script again it
does not run and I don't know how to overcome that issue.
p1 <- "../path1"
p2 <- "../path2"
p3 <- "../path3"
system("perl p1 p2 p3")
I also tried:
system("perl 'p1' 'p2' 'p3'")
Can anyone help?
Best,
syrvn
--
View this message in context: http://r.789695.n4.nabble.com/R-system-command-does-not-work-with-objects-variables-tp3762544p3762544.html
Sent from the R help mailing list archive at Nabble.com.
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Brian D. Ripley, ripley at stats.ox.ac.uk Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UK Fax: +44 1865 272595
Hi, it works great with the paste command! thanks a lot! Best, syrvn -- View this message in context: http://r.789695.n4.nabble.com/R-system-command-does-not-work-with-objects-variables-tp3762544p3762583.html Sent from the R help mailing list archive at Nabble.com.
syrvn <mentor_ at gmx.net> writes:
If I store the path in a variable/object and call the perl script again it
does not run and I don't know how to overcome that issue.
p1 <- "../path1"
p2 <- "../path2"
p3 <- "../path3"
system("perl p1 p2 p3")
You want something like:
system(paste("perl", p1, p2, p3"))
Strings don't do interpolation by themselves; you need to tell R, via
the "paste" function, that you want to concatenate the strings together.
-Johann