r-software
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r-software [2021/05/05 13:24] – aorth | r-software [2022/05/27 06:32] – aorth | ||
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===== Information ===== | ===== Information ===== | ||
- | * Version: 4.0 (4.0.3) | + | * Version: 4.2 (4.2.0) |
* Added: February, 2015 | * Added: February, 2015 | ||
- | * Updated: | + | * Updated: |
* Link: https:// | * Link: https:// | ||
===== Usage ===== | ===== Usage ===== | ||
- | See versions | + | See which versions are available: |
< | < | ||
Load one version into your environment and run it: | Load one version into your environment and run it: | ||
- | < | + | < |
$ R</ | $ R</ | ||
Line 23: | Line 23: | ||
Notes from the sysadmin during installation. | Notes from the sysadmin during installation. | ||
- | First, compile the main R application | + | First, compile the main R application: |
< | < | ||
- | $ wget https:// | + | $ wget https:// |
- | $ tar xf R-4.0.3.tar.gz | + | $ tar xf R-4.2.0.tar.gz |
- | $ cd R-4.0.3 | + | $ cd R-4.2.0 |
- | # install packages to enable capabilities in R | + | $ ./configure --enable-R-shlib --prefix=/ |
- | $ sudo yum install libX11-devel libXaw-devel bzip2-devel libcurl-devel xz-devel readline-devel glibc-headers pcre2-devel.x86_64 | + | $ chrt -b 0 make -j4 |
- | # install a newer compiler from Red Hat software collections | + | $ sudo mkdir / |
- | $ sudo yum install devtoolset-7-gcc devtoolset-7-gcc-gfortran devtoolset-7-libquadmath-devel devtoolset-7-gcc-c++ | + | $ sudo chown aorth:aorth / |
- | $ scl enable devtoolset-7 bash | + | |
- | # R packages are written in C99 and GCC 7 uses a newer standard by default, so tell configure script to use C99 explicitly | + | |
- | $ export CFLAGS=' | + | |
- | $ ./configure --enable-R-shlib --prefix=/ | + | |
- | $ make -j4 | + | |
- | $ sudo mkdir -p / | + | |
- | $ sudo chown aorth:aorth / | + | |
$ make install</ | $ make install</ | ||
Then install some common libraries used by our users because some of them are quite complicated, | Then install some common libraries used by our users because some of them are quite complicated, | ||
- | < | + | < |
- | > install.packages(' | + | # > Sys.setenv(MAKEFLAGS = " |
+ | > options(Ncpus = 4) # This does 4 parallel package installs | ||
+ | > install.packages(' | ||
> install.packages(" | > install.packages(" | ||
> install.packages(" | > install.packages(" | ||
Line 56: | Line 51: | ||
> install_github(" | > install_github(" | ||
> q() | > q() | ||
- | $ sudo chown -R root:root / | + | $ sudo chown -R root:root / |
- | + | ||
- | **Note:** some of these packages will need system libraries installed, for example: | + | |
- | * libgit2-devel.x86_64 | + | |
- | * libjpeg-turbo-devel.x86_64 | + | |
- | * gsl-devel.x86_64 | + |
r-software.txt · Last modified: 2023/07/12 06:39 by aorth