You could make a hash bang bash script that sources the file and then proceeds to do whatever you want. Bourne shell should have no problems invoking another shell. --------------------------------------------------------------------------- Jeff Newmiller The ..... ..... Go Live... DCN:<jdnew...@dcn.davis.ca.us> Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research Engineer (Solar/Batteries O.O#. #.O#. with /Software/Embedded Controllers) .OO#. .OO#. rocks...1k --------------------------------------------------------------------------- Sent from my phone. Please excuse my brevity.
Justin Haynes <jto...@gmail.com> wrote: >I need to run a bash command, but when you call system() the default >shell >is sh (see my sessionInfo below). >I found the shell command ( >http://www.stat.ucl.ac.be/ISdidactique/Rhelp/library/base/html/shell.html) >but it seems to be disappeared in current versions of R? >I am running all this from R CMD BATCH with "system" calls to other R >scripts. > >For a little more info, I'm generating sphinx documents (a python >documentation library) through R and need to use a python virtual >environment. >So I need to call system('source bin/activate'), but "source" isn't a >recognized command in the sh shell... > > >Any help is appreciated, > >Justin > >> sessionInfo() >R version 2.15.0 (2012-03-30) >Platform: x86_64-pc-linux-gnu (64-bit) > >locale: > [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C >LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 > [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 LC_PAPER=C > LC_NAME=C > [9] LC_ADDRESS=C LC_TELEPHONE=C >LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C > >attached base packages: >[1] graphics grDevices utils datasets stats grid methods >base > >other attached packages: >[1] ggplot2_0.9.0 reshape2_1.2.1 plyr_1.7.1 > >loaded via a namespace (and not attached): >[1] colorspace_1.1-1 dichromat_1.2-4 digest_0.5.1 >MASS_7.3-16 > memoise_0.1 munsell_0.3 >[7] proto_0.3-9.2 RColorBrewer_1.0-5 scales_0.2.0 >stringr_0.6 > tools_2.15.0 > > [[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.