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How to install R packages?


I’d like to install R packages I got from CRAN repository, for example, RJDBC.

First, I tried to install rJava package because it is required for RJDBC.

I get rJava_0.9-8.tar.gz from CRAN site and upload to z/OS USS.

And then I issued install command but failed.

$ R -e 'install.packages(c("rJava_0.9-8.tar.gz"), repos = NULL, type="source")'

R version 3.3.2 (2016-10-31) -- "Sincere Pumpkin Patch"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: i370-ibm-openedition (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> install.packages(c("rJava_0.9-8.tar.gz"), repos = NULL, type="source")
Warning in strptime(xx, f <- "%Y-%m-%d %H:%M:%OS", tz = tz) :
  unknown timezone '' (open failed for "/usr/lpp/R332/R/lib/R/share/zoneinfo/UTC0")
* installing *source* package 'rJava' ...
** package 'rJava' successfully unpacked and MD5 sums checked
trap: ./configure 1956: FSUM7327 signal number 13 not conventional
checking for gcc... /u/pdharr/Rnew/devel-dist/bin/xlc_echocmd
checking whether the C compiler works... no
configure: error: in `/ZOS1/tmp/Rtmp3I0Jcq/R.INSTALL401004b63ac4b77/rJava':
configure: error: C compiler cannot create executables
See `config.log' for more details
ERROR: configuration failed for package 'rJava'
* removing '/V1R11/usr/lpp/R332/R/lib/R/library/rJava'
Warning message:
In install.packages(c("rJava_0.9-8.tar.gz"), repos = NULL, type = "source") :
  installation of package 'rJava_0.9-8.tar.gz' had non-zero exit status

I unpacked python-r-devel in /usr/lpp/R332/python-devel and I set environment variables in .profile

# env for python-devel
export BD=/usr/lpp/R332/python-devel
export PATH=$BD/bin:$PATH
export PKG_CONFIG_PATH=$BD/lib/pkgconfig:$BD/share/pkgconfig
export CURL_CA_BUNDLE=$BD/etc/ssl/cacert.pem
export FFI_LIB=$BD/lib/ffi
export X11_DIST=$BD

# env for R332
export BASE=/usr/lpp/R332/R
export PATH=$BASE/bin:$PATH
export TZDIR=$BASE/lib/R/share/zoneinfo
export RHOME=$BASE/lib/R
export R_DIST=$BASE

How can I insatall R packages?

Tomohiro Taguchi

Hello Tomohiro,

It might be difficult to get everything working that you will need to install R packages that include C or C++ code. But le us see how far we can get.

Can you please send us the file config.log?


Rick Harris
Rocket Software.


It seems that config.log file was created in /tmp directory, such as /tmp/Rtmp3I0Jcq/…, but this directory was removed after package install command.
Do you have any idea for checking config.log file?

Tomohiro Taguchi

I predict a series of little problems. I will certainly port this module
sometime in the next week or three, if you would prefer to wait.

Anyway here is a useful bit of R code:
all_packages <- c(“rJava”)
uninstalled_packages <- setdiff(all_packages,
if (length(uninstalled_packages) > 0) {
install.packages(uninstalled_packages, type = “source”, repos=“”,
destdir="/u/pdharr/Rnew/downloads", INSTALL_opts="–verbose

Rick Harris

Thank you for your support.

I tried install with --no-clean-on-error option like following but it seems config.log was removed.

install.packages(c("rJava_0.9-8.tar.gz"), repos = NULL, type="source", destdir="/u/cics004/R/package/dest",INSTALL_opts="--verbose --no-clean-on-error")

(I couldn’t find config.log even though I issued “find / -name config.log” command.)

And our z/OS environment can not access external web sites directly such as, so I have to download files by PC and transfer them to z/OS.

I’m looking forward your updates!

Tomohiro Taguchi

Do you have any updates?

Tomohiro Taguchi