Differences

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--- r-software [2015/02/19 07:01] – created aorth
+++ r-software [2017/04/28 08:38] – aorth
@@ Line 4: / Line 4: @@
 ===== Information =====
-  * Version: 3.1.2
+  * Latest version: 3.3.3
   * Added: February, 2015
+  * Updated: April, 2017
   * Link: http://www.r-project.org/
@@ Line 12: / Line 13: @@
 === See versions of R which are available ===
 <code>module avail 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 ======
-Notes from the sysadmin during 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):
 <code>$ cd /tmp
-$ wget http://cran.uni-muenster.de/src/base/R-3/R-3.1.2.tar.gz
+$ wget http://zlib.net/zlib-1.2.11.tar.xz
-$ tar xf R-3.1.2.tar.gz
+$ tar xf zlib-1.2.11.tar.xz
-$ cd R-3.1.2
+$ cd zlib-1.2.11
-$ scl enable devtoolset-2 bash
+$ ./configure --prefix=/export/apps/zlib/1.2.11
-$ CC=clang ./configure --enable-R-shlib --prefix=/export/apps/R/3.1.2
+$ make
+$ make check
+$ sudo mkdir -p /export/apps/zlib/1.2.11
+$ sudo chown aorth /export/apps/zlib/1.2.11
+$ make install
+$ sudo chown -R root:root /export/apps/zlib/1.2.11
+$ cd /tmp
+$ 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
+$ wget https://curl.haxx.se/download/curl-7.54.0.tar.gz
+$ 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
-$ sudo mkdir -p /export/apps/R/3.1.2
+$ make install
-$ sudo chown aorth:aorth /export/apps/R/3.1.2
+$ sudo mkdir -p /export/apps/R/3.3.3
-$ sudo chown root:root /export/apps/R/3.1.2</code>
+$ sudo chown aorth /export/apps/R/3.3.3
+$ sudo chown -R root:root /export/apps/R/3.3.3
+$ exit</code>