See the getopt R package and have a look at ?Rscript Also on Windows see Rscript.bat and #Rscript.bat in http://batchfiles.googlecode.com
and on Linux see: http://dirk.eddelbuettel.com/code/littler.html On Thu, Jun 18, 2009 at 1:25 PM, Jim Nemesh<nem...@broad.mit.edu> wrote: > I develop quite a bit of R code that I tend to distribute, or let > other people embed in their software. One of the things I'd really > like to do is find a way to load an R library I've developed, and call > one function with arguments. > > Currently, I achieve that by building a separate R client file, which > reads in the command line arguments, loads the library, and calls the > main function. The commandLineArgs function below uses commandArgs(), > and searches the vector for the keys/values to make life easier. > > (code available at inside "birdsuite executables" at > http://www.broad.mit.edu/science/programs/medical-and-population-genetics/birdsuite/birdsuite-downloads-0) > > Example: > --- > library (broadgap.utils) > pedigreeFile<-commandLineArg("pedigreeFile", verbose=T) > outPedigreeFile<-commandLineArg("outPedigreeFile", verbose=T) > relabelPedigree(pedigreeFile, outPedigreeFile) > --- > called by: > > R CMD BATCH --pedigreeFile="foo" --outPedigreeFile="bar" > example_client.R > > What I'd like to do is find a way to achieve the above, but without > writing the client file, so I can avoid distributing these wrapper > client files. While the above works, it's not terribly robust, and a > user needs to know what they are doing. To make this robust, there > would have to be a fair bit of work to properly validate arguments, > and print help files appropriately. Python would be an obvious choice > for writing CLI's, as it has great CLI support and is easy to > distribute and build executables. > > I've looked at the following options: > > RPy (setup is difficult, some users don't even know R, much less being > capable of the setup required here, which looks like it needs root) > RSPython (same problems as RPy) > > These are reasonable for me to use for my own personal fooling around, > but not for distributing software to 1000's of users. > > Rscript looks like it could be a possibility: > >Rscript -e 'library(broadgap. utils)' -e 'ls()' > character(0) > > Unfortunately, it looks like each expression is evaluated separately. > Is there a way to evaluate multiple expressions in the same > environment to make the above work? If so, I could then wrap R in > whatever language of choice I'd like, and only have to make a user > install a library. > > Are there other options I'm missing? > > Thanks for help/input on this. > > -Jim Nemesh > [[alternative HTML version deleted]] > > ______________________________________________ > R-help@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. > ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
