Difference between revisions of "R"
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| − | == | + | == Personalised install == |
You may want to install R locally in your home directory. This puts you in control of the version installed, the packages installed and you can tweak the installation according to your needs. Consequently, before you can use R, you have to do the following: | You may want to install R locally in your home directory. This puts you in control of the version installed, the packages installed and you can tweak the installation according to your needs. Consequently, before you can use R, you have to do the following: | ||
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* Write the code to be executed on the cluster | * Write the code to be executed on the cluster | ||
* Write the submit script to be submitted via qsub | * Write the submit script to be submitted via qsub | ||
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== System-wide install == | == System-wide install == | ||
| − | + | The system-wide install of R has been compiled and installed with the commands given below. If this is sufficient for your purposes, you don't have to install your own version in your home directory. Available in '''/apps/R-3.0.1'''. | |
<pre> | <pre> | ||
Revision as of 12:12, 4 July 2013
Personalised install
You may want to install R locally in your home directory. This puts you in control of the version installed, the packages installed and you can tweak the installation according to your needs. Consequently, before you can use R, you have to do the following:
- Install R and the relevant packages
- Write the code to be executed on the cluster
- Write the submit script to be submitted via qsub
System-wide install
The system-wide install of R has been compiled and installed with the commands given below. If this is sufficient for your purposes, you don't have to install your own version in your home directory. Available in /apps/R-3.0.1.
$ ./configure --prefix=/apps/R-3.0.1 --enable-R-shlib --with-blas --with-lapack --with-system-zlib --with-system-bzlib --with-system-pcre --with-x=no $ make $ make check $ make install
Rmpi 0.6-3
/apps/R-3.0.1/bin/R CMD INSTALL \
-l /apps/R-3.0.1/lib64/R/library/ \
--configure-args=" \
--with-mpi=/usr/lib64/openmpi/ \
--with-Rmpi-libpath=/usr/lib64/openmpi/lib/ \
--with-Rmpi-include=/usr/include/openmpi-x86_64/ \
--with-Rmpi-type=OPENMPI" \
/usr/local/src/shared/Rmpi_0.6-3.tar.gz
