https://stat.ethz.ch/pipermail/r-help/2012-September/322985.html >>> for RSERVER in 'foo' 'bar' 'baz' ; do >>> ssh ${RSERVER} '<query R for package=package_name>' >>> done
>>> or is there a better way to script checking for an R package? https://stat.ethz.ch/pipermail/r-help/2012-September/323000.html >> I would call something like this via ssh [...] >> Rscript -e >> 'as.numeric(suppressWarnings(suppressPackageStartupMessages(require(ggplot2))))' https://stat.ethz.ch/pipermail/r-help/2012-September/323024.html > Thanks! but [the] cluster where I need to run this (where I do *not* > have root) [lacks Rscript.] So I'm wondering: > 1 Is there a way to do `Rscript -e` with plain, commandline R? I learned how to use `R CMD BATCH`. It's definitely more painful than `Rscript -e`, but at least the following works: EXEC_DIR='/share/linux86_64/bin' # on foo, at least # EXEC_NAME='Rscript' EXEC_NAME='R' EXEC_PATH="${EXEC_DIR}/${EXEC_NAME}" BATCH_INPUT_PATH="./junk.r" # presumably in home dir BATCH_OUTPUT_PATH="./junk.r.out" # ditto for RSERVER in 'foo' 'bar' 'baz' ; do echo -e "${RSERVER}:" # The following 3 commands attempted to debug a # separate but related problem; about which, see # http://serverfault.com/questions/424027/ssh-foo-command-not-loading-remote-aliases # ssh ${RSERVER} "${EXEC_NAME} --version | head -n 1" # ssh ${RSERVER} "grep -nHe 'bashrc' ~/.bash_profile" # ssh ${RSERVER} "grep -nHe '\W${EXEC_NAME}\W' ~/.bashrc" ssh ${RSERVER} "${EXEC_PATH} --version | head -n 1" ssh ${RSERVER} "echo -e 'as.numeric(suppressWarnings(suppressPackageStartupMessages(require(M3))))\n' > ${BATCH_INPUT_PATH}" ssh ${RSERVER} "rm ${BATCH_OUTPUT_PATH}" ssh ${RSERVER} "ls -al ${BATCH_INPUT_PATH}" ssh ${RSERVER} "cat ${BATCH_INPUT_PATH}" ssh ${RSERVER} "${EXEC_PATH} CMD BATCH --slave --no-timing ${BATCH_INPUT_PATH} ${BATCH_OUTPUT_PATH}" ssh ${RSERVER} "ls -al ${BATCH_OUTPUT_PATH}" ssh ${RSERVER} "head -n 1 ${BATCH_OUTPUT_PATH}" echo # newline done Given the pain, I'd still like to know: > 2 What should my admin have done to install both Rscript and R? > (Alternatively, what should I tell my admin to do in order to make > both Rscript and R available?) > 3 Is there any reason to install R without Rscript? (Alternatively, > when I ask my admin to install Rscript, is there any objection > I should anticipate?) your assistance is appreciated, Tom Roche <tom_ro...@pobox.com> ______________________________________________ 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.
