Dear all, I am trying to run a simple R script in batch mode on a cluster. Running a simple test script with
"R CMD BATCH test.R test.Rout" works fine, but as soon as I submit the very same command to the queue and the job gets sent to a node, the following error is written to test.Rout: Fatal error: cannot mkdir R_TempDir I set the environment variables TEMP, TMP and TMPDIR to /tmp/ and I also make sure that all environment variables are set on the nodes. Running the R command "tempdir()" on a node returns something like "/tmp/RtmpadvdoQ". I also made sure that the /tmp/ directory is readable and writable on all nodes. I know that this question might be more cluster-specific (I'm running scientific linux) than R specific and my example is hard to reproduce. However, maybe someone encountered similar problems. Is it maybe possible to specify the tempdir in an argument to R CMD BATCH? Many thanks in advance, Hannes -- View this message in context: http://r.789695.n4.nabble.com/R-in-batch-mode-cannot-mkdir-R-TempDir-tp4649503.html Sent from the R help mailing list archive at Nabble.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.
