R
R is a programming language primarily for statistics and numerical analysis.
Installation
USE flags
USE flags for dev-lang/R Language and environment for statistical computing and graphics
+libdeflate
|
Use app-arch/libdeflate rather than sys-libs/zlib for lazy-loaded R objects. |
X
|
Add support for X11 |
cairo
|
Enable support for the cairo graphics library |
doc
|
Add extra documentation (API, Javadoc, etc). It is recommended to enable per package instead of globally |
icu
|
Enable ICU (Internationalization Components for Unicode) support, using dev-libs/icu |
java
|
Add support for Java |
jpeg
|
Add JPEG image support |
lto
|
Enable Link-Time Optimization (LTO) to optimize the build |
minimal
|
Install a very minimal build (disables, for example, plugins, fonts, most drivers, non-critical features) |
nls
|
Add Native Language Support (using gettext - GNU locale utilities) |
openmp
|
Build support for the OpenMP (support parallel computing), requires >=sys-devel/gcc-4.2 built with USE="openmp" |
perl
|
Add optional support/bindings for the Perl language |
png
|
Add support for libpng (PNG images) |
prefix
|
Defines if a Gentoo Prefix offset installation is used |
profile
|
Add support for software performance analysis (will likely vary from ebuild to ebuild) |
readline
|
Enable support for libreadline, a GNU line-editing library that almost everyone wants |
test
|
Enable dependencies and/or preparations necessary to run tests (usually controlled by FEATURES=test but can be toggled independently) |
tiff
|
Add support for the TIFF image format |
tk
|
Add support for Tk GUI toolkit |
Emerge
root #emerge --ask dev-lang/RConfiguration
Compile flags for install.packages
At compile time, R remembers the CFLAGS and CXXFLAGS with which it was configured, storing them in $R_HOME/etc/Makeconf. However, certain CRAN packages may fail to compile with said flags, even if R itself compiled smoothly.
To rectify this, either change R's flags via /etc/portage/package.env, or work with the experimental R overlay.
Example: Removing LTO
Suppose that an attempt to install ggplot2 via install.packages("ggplot2") caused a compile time error due to -Werror=strict-aliasing, which is associated with LTO. To rectify this, use an env to demote this error to a warning. Since this warning often indicates LTO runtime issues, consider disabling lto as well.
/etc/portage/env/no-ltoRemoving LTO# These warnings were promoted to errors as they indicate likely runtime
# problems with LTO. Additively disable them since LTO is being removed.
WARNING_FLAGS="-Wno-error=odr -Wno-error=lto-type-mismatch -Wno-error=strict-aliasing"
CFLAGS="${CFLAGS} -fno-lto"
CXXFLAGS="${CXXFLAGS} -fno-lto"
FCFLAGS="${FCFLAGS} -fno-lto"
FFLAGS="${FFLAGS} -fno-lto"
USE="${USE} -lto"
/etc/portage/package.env/RRemoving LTOdev-lang/R no-lto
Reemerge R to propagate these changes.
root #emerge --ask dev-lang/RIntegration with other programs
ESS, or Emacs Speaks Statistics, is an Emacs mode that can edit R files and start R from within Emacs. To install:
root #emerge --ask app-emacs/essIn Vim, the vim-r plugin integrates vim and R through tmux and provides support for editing R and send it to an R process. To install:
root #emerge --ask app-vim/vim-rTroubleshooting
configure: error: Cannot run mixed C/Fortran code
To resolve this, check if libf2c is installed in your system:
root #find / -name libf2c.soIf command shows no output, install libf2c and try emerging again:
root #emerge --ask dev-libs/libf2cconfigure: error: Cannot compile a simple Fortran program
This error can be caused by FCFLAGS and FFLAGS flags in make.conf, which are incompatible with Fortran compiler. To fix this, you need to manually select those flags in /etc/portage/make.conf:
/etc/portage/make.confSetting FCFLAGS and FFLAGS# =========Setting flags for Fortran compiler=========
#
FCFLAGS="-O2 -march=native"
FFLAGS="${FCFLAGS}"