Hello,
I am trying to run an R script that is executed using an "R CMD BATCH" command in the command prompt. I first tried using the "install.packages" command at the beginning of my script but it failed because it could not select a CRAN mirror. I changed this to install.packages('Package Name', repos='http://cran.us.r-project.org') and then library(Package Name). Sometimes my code works fine but other times my .Rout file provides an error such as this:
Warning message:
In library(package, lib.loc = lib.loc character.only=TRUE logical.return=TRUE, : there is no package called 'plyr')
It also tends to fail with the foreign and reshape packages. How can I install packages via R script so it does not fail? My current code appears below:
install.packages('reshape', repos='http://cran.us.r-project.org')
install.packages('foreign', repos='http://cran.us.r-project.org')
install.packages('plyr', repos='http://cran.us.r-project.org')
install.packages('dplyr', repos='http://cran.us.r-project.org')
install.packages('doBy', repos='http://cran.us.r-project.org')
require(reshape)
require(foreign)
require(plyr)
require(doBy)
require(dplyr)
Thanks!
This might be helpful it's a good example showing the differences between require and library http://yihui.name/en/2014/07/library-vs-require/
Thanks William. I already tried using library instead of require, but I receive the same error.
It may happen that install.packages() command does not install a package: for example, it may try to install it into a library where you do not have the write permission.
I'd suggest first install the packages interactively, and then call the script without installing them.
Another option is you could try and just make your R script into a package, if the packages are in the NAMESPACE it'll make sure to download and load them for you
Boris, I tried that but I am having issues figuring out the code. The package folders appear in my library folder but when I run the following code, it tells me there is not "foreign" package:
library("foreign", lib.loc="C:/Program Files/R/R-3.2.2/library/")
Would this approach be an acceptable alternative?
install.packages("C:/Program Files/R/R-3.2.2/foreign_0.8-66.tar.gz", repos = NULL, type="source")
William, that is an interesting idea and something I would like to get into. Would you just suggest the "Creating R Packages: A Tutorial" on the r-project website for a newbie?
Here you go!
http://hilaryparker.com/2014/04/29/writing-an-r-package-from-scratch/
Quick question are you using normal R or RStudio?
Alese, there is a function .libPaths() (starting with dot!), which shows where does R (1) looks for packages, and (2) installs packages to. What does it say for you?
This is what I get...
[1] "C:/Users/awooditc/Documents/R/win-library/3.2"
[2] "C:/Program Files/R/R-3.2.2/library"
I would recommend installing r and r-studio outside the program files directory in windows to avoid the permission issues. In your case I would recommend starting the command line in administrator mode by right clicking the terminal/command prompt icon and choosing "run as administrator" beside choosing a working directory outside the system folders.
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