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服务举报电话：-客服部</fontR RPMS for Fedora, Red Hat Enterprise Linux and Derivatives
===========================================================
Martyn Plummer
2) EPEL for Red Hat Enterprise Linux and Others
3) RPMS for R Packages
4) Creating your own R package RPMS
R packages for Fedora Linux are maintained and distributed by Red Hat
Software. Fedora users can install R with yum from the standard Fedora
repository using
sudo yum install R
The RPM 'R' is a meta package. It has no content but ensures that the
following components are installed
R-core-devel
Developer RPM containing header files
RPM to ensure that R is configured for use with Java
Standalone R math library
libRmath-devel Header file for the standalone R math library
It is standard practice to divide RPMs into "user" and "developer"
versions. In the case of R on Fedora, these are provided by the
'R-core' and 'R-core-devel' RPMs. However, almost all R users on
Fedora will need 'R-core-devel' in order to install R packages from
source. Therefore it is recommended to install the meta-package 'R'.
2) Red Hat Enterprise Linux (RHEL)
Scientific Linux
Oracle Linux
==================================
The Fedora RPMs for R have been ported to RHEL by the project Extra
Packages for Enterprise Linux (EPEL).
http://fedoraproject.org/wiki/EPEL
These RPMs are also compatible with distributions derived from RHEL.
To use the EPEL repository, it is sufficient to download and install
the appropriate "epel-release" RPM, as described in the EPEL FAQ:
https://fedoraproject.org/wiki/EPEL/FAQ#How_can_I_install_the_packages_from_the_EPEL_software_repository.3F
Then R can be installed as described above in the section on Fedora.
3) R packages
=============
Fedora provies a selection of R packages as RPMs. A more limited
selection of these packages has been ported to EPEL. The RPM name is
derived from the R package name by adding the prefix "R-". Hence all
R-related RPMS can be listed with the yum command
yum list R-\*
The listing below shows all RPMS available for R packages on Fedora
20, classified by the R repository that would normally be used to
install the package from within R (See the help page ?chooseRepositories).
[1] "R-abind"
"R-acepack"
"R-bigmemory"
"R-bitops"
[6] "R-car"
"R-caTools"
"R-combinat"
"R-lmtest"
[11] "R-mAr"
"R-multcomp"
"R-mvtnorm"
[16] "R-pls"
"R-rlecuyer"
[21] "R-RM2"
"R-RSQLite"
"R-sandwich"
[26] "R-sciplot"
"R-statmod"
"R-systemfit"
"R-timeDate"
"R-waveslim"
[31] "R-wavethresh" "R-XML"
"R-xtable"
$`BioC software`
[1] "R-affy"
"R-affyio"
[3] "R-AnnotationDbi"
"R-Biobase"
[5] "R-BiocGenerics"
"R-biomaRt"
[7] "R-Biostrings"
"R-BSgenome"
[9] "R-BufferedMatrix"
"R-BufferedMatrixMethods"
[11] "R-DynDoc"
"R-GenomicFeatures"
[13] "R-GenomicRanges"
"R-IRanges"
[15] "R-maanova"
"R-multtest"
[17] "R-preprocessCore"
"R-qvalue"
[19] "R-ROC"
"R-Rsamtools"
[21] "R-rtracklayer"
"R-tkWidgets"
[23] "R-widgetTools"
$`BioC annotation`
[1] "R-hgu133acdf"
"R-hgu95av2cdf"
"R-hgu95av2probe"
$`BioC experiment`
[1] "R-affydata"
"R-fibroEset"
$`BioC extra`
[1] "R-RCurl"
[1] "R-Rcompression" "R-RCurl"
$`R-Forge`
[1] "R-abind"
"R-bigmemory" "R-car"
"R-multcomp"
[6] "R-mvtnorm"
"R-timeDate"
"R-waveslim"
"R-xtable"
[1] "R-GeneR"
"R-RScaLAPACK" "R-Rsolid"
Note that the classification is not mutually exclusive (e.g. R-RCurl
appears several times) and that Fedora provides RPMs that are not
available from any standard R repository. These are listed under
The above listing is created by the following utility function, which
may be freely used, redistributed and modified without restriction.
classify.rpms <- function()
## Get a list of R packages available via yum
pkg <- system("yum list -q R-\\*", intern=TRUE)
pkg <- sub(pattern="\\..+$", replacement="", pkg)
pkg <- pkg[grep("-devel$", pkg, invert=TRUE)] #no devel packages
pkg <- pkg[grep("-debuginfo$", pkg, invert=TRUE)] #no debug packages
pkg <- setdiff(pkg, c("R", "R-core", "R-java",
"Installed Packages",
"Available Packages"))
pkg <- unique(pkg)
## Get the database of standard repositories
p <- file.path(R.home("etc"), "repositories")
reps <- read.table(p, header=TRUE, sep="\t")
out <- vector("list", nrow(reps))
names(out) <- reps$menu_name
for (i in seq_along(out)) {
## Match repositories to available yum packages
setRepositories(ind=i)
av <- paste("R", available.packages()[,"Package"], sep="-")
out[[i]] <- intersect(av, pkg)
setRepositories(ind=1) #Set default repository to CRAN
0] #remove empty categories
4) Creating your own R package RPMs
===================================
Both Fedora and EPEL provide the R2spec package, which may be used
to create your own R package RPMs. See https://fedorahosted.org/r2spec/}