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
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