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r-software [2017/04/24 10:05] – aorthr-software [2019/08/08 13:27] – aorth
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 ===== Information ===== ===== Information =====
  
-  * Latest version: 3.3.3+  * Version: 3.5.3
   * Added: February, 2015   * Added: February, 2015
-  * Updated: April, 2017 +  * Updated: July, 2019 
-  * Link: http://www.r-project.org/+  * Link: https://www.r-project.org/
  
 ===== Usage ===== ===== Usage =====
  
-=== See versions of R which are available === +See versions of R that are available: 
-<code>module avail R</code>+<code>$ module avail R</code>
  
-A good resource on installing R packages into user libraries is: https://www.osc.edu/resources/getting_started/howto/howto_install_local_r_packages+Load one version into your environment and run it: 
 +<code>$ module load R/3.5 
 +$ R</code> 
 + 
 +Here is a good resource on [[https://www.osc.edu/resources/getting_started/howto/howto_install_local_r_packages|installing R packages into user libraries]].
  
 ===== Installation ====== ===== Installation ======
-Notes from the sysadmin during installation (also covers the installation of zlib, bzip2, xz, pcre, and curl, as they are needed by R since ~3.3.x):+Notes from the sysadmin during installation:
  
 <code>$ cd /tmp <code>$ cd /tmp
-$ wget http://zlib.net/zlib-1.2.11.tar.xz +$ wget https://cran.r-project.org/src/base/R-3/R-3.5.3.tar.gz 
-$ tar xf zlib-1.2.11.tar.xz +$ tar xf R-3.5.3.tar.gz 
-$ cd zlib-1.2.11 +$ cd R-3.5.3 
-$ ./configure --prefix=/export/apps/zlib/1.2.11 +$ sudo yum install gcc-gfortran gcc-c++ libX11-devel libXaw-devel bzip2-devel libcurl-devel xz-devel readline-devel 
-$ make +$ ./configure --enable-R-shlib --prefix=/export/apps/R/3.5 
-$ make check +$ make -j4 
-$ sudo mkdir -p /export/apps/zlib/1.2.11 +$ sudo mkdir -p /export/apps/R/3.5 
-$ sudo chown aorth /export/apps/zlib/1.2.11+$ sudo chown aorth:aorth /export/apps/R/3.5
 $ make install $ make install
-$ sudo chown -R root:root /export/apps/zlib/1.2.11+$ sudo chown -R root:root /export/apps/R/3.5</code>
  
-$ cd /tmp +Note to future Alan: don't remove ''gcc-gfortran'' after the install because some users need it!
-$ wget http://www.bzip.org/1.0.6/bzip2-1.0.6.tar.gz +
-$ tar xf bzip2-1.0.6.tar.gz +
-$ cd bzip2-1.0.6 +
-$ make -f Makefile-libbz2_so +
-$ sudo mkdir -p /export/apps/bzip2/1.0.6 +
-$ sudo chown aorth /export/apps/bzip2/1.0.6 +
-$ make install PREFIX=/export/apps/bzip2/1.0.6 +
-$ sudo chown -R root:root /export/apps/bzip2/1.0.6 +
- +
-$ cd /tmp +
-$ wget https://tukaani.org/xz/xz-5.2.3.tar.xz +
-$ tar xf xz-5.2.3.tar.xz +
-$ cd xz-5.2.3 +
-$ ./configure --prefix=/export/apps/xz/5.2.3 +
-$ make +
-$ make check +
-$ sudo mkdir -p /export/apps/xz/5.2.3 +
-$ sudo chown aorth /export/apps/xz/5.2.3 +
-$ make install +
-$ sudo chown -R root:root /export/apps/xz/5.2.3 +
- +
-$ cd /tmp +
-$ wget http://downloads.sourceforge.net/pcre/pcre-8.40.tar.bz2 +
-$ tar xf pcre-8.40.tar.bz2 +
-$ cd pcre-8.40 +
-$ ./configure --prefix=/export/apps/pcre/8.40 --enable-unicode-properties --enable-pcre16 --enable-pcre32 --enable-pcregrep-libz --enable-pcregrep-libbz2 --enable-pcretest-libreadline +
-$ make +
-$ make check +
-$ sudo mkdir -p /export/apps/pcre/8.40 +
-$ sudo chown aorth /export/apps/pcre/8.40 +
-$ make install +
-$ sudo chown -R root:root /export/apps/pcre/8.40 +
- +
-$ cd /tmp +
-$ tar xf curl-7.54.0.tar.gz +
-$ cd curl-7.54.0 +
-$ ./configure --enable-ipv6 --prefix=/export/apps/curl/7.54.0 +
-$ make +
-$ make check +
-$ sudo mkdir -p /export/apps/curl/7.54.0 +
-$ sudo chown aorth /export/apps/curl/7.54.0 +
-$ make install +
-$ sudo chown -R root:root /export/apps/curl/7.54.0 +
- +
-$ export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/export/apps/zlib/1.2.11/lib:/export/apps/bzip2/1.0.6/lib:/export/apps/xz/5.2.3/lib:/export/apps/pcre/8.40/lib:/export/apps/curl/7.54.0/lib LDFLAGS="$LDFLAGS -L/export/apps/zlib/1.2.11/lib -L/export/apps/bzip2/1.0.6/lib -L/export/apps/xz/5.2.3/lib -L/export/apps/pcre/8.40/lib -L/export/apps/curl/7.54.0/lib" CFLAGS="$CFLAGS -I/export/apps/zlib/1.2.11/include -I/export/apps/bzip2/1.0.6/include -I/export/apps/xz/5.2.3/include -I/export/apps/pcre/8.40/include -I/export/apps/curl/7.54.0/include" +
-$ wget https://cran.r-project.org/src/base/R-3/R-3.3.3.tar.gz +
-$ tar xf R-3.3.3.tar.gz +
-$ cd R-3.3.3 +
-$ ./configure --enable-R-shlib --prefix=/export/apps/R/3.3.3 +
-$ make -j4 +
-$ make install +
-$ sudo mkdir -p /export/apps/R/3.3.3 +
-$ sudo chown aorth /export/apps/R/3.3.3 +
-$ sudo chown -R root:root /export/apps/R/3.3.3 +
-$ exit</code>+
r-software.txt · Last modified: 2023/07/12 06:39 by aorth