How Install R on CentOS 7
To install R/R Studio on CentOS 7
R is a free programming language which is an implementation of S programming language on which it is compatible. R programming language is mostly used for statistics and data science by the data miners. In this tutorial we are going to see about the technique to install R programming language on CentOS 7
Installing R Studio
Before installing the R language, you need to install the epel-repository which is essential for the installation of R.
[root@linuxhelp1 ~]# yum install epel-release -y
Loaded plugins: fastestmirror, langpacks
base | 3.6 kB 00:00:00
extras | 3.4 kB 00:00:00
updates | 3.4 kB 00:00:00
Determining fastest mirrors
* base: mirror.fibergrid.in
* extras: mirror.fibergrid.in
* updates: mirror.fibergrid.in
Resolving Dependencies
--> Running transaction check
---> Package epel-release.noarch 0:7-6 will be installed
--> Finished Dependency Resolution
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.
.
Installing:
epel-release noarch 7-6 extras 14 k
Transaction Summary
============================================================================================================================================
Install 1 Package
Total download size: 14 k
Installed size: 24 k
Downloading packages:
epel-release-7-6.noarch.rpm | 14 kB 00:00:00
Running transaction check
Running transaction test
Transaction test succeeded
Running transaction
Installing : epel-release-7-6.noarch 1/1
Verifying : epel-release-7-6.noarch 1/1
Installed:
epel-release.noarch 0:7-6
Complete!
The R package is ready to be installed now. Use the following command to install it.
[root@linuxhelp1 ~]# yum install R -y
Loading mirror speeds from cached hostfile
* base: mirror.fibergrid.in
* epel: kartolo.sby.datautama.net.id
* extras: mirror.fibergrid.in
* updates: mirror.fibergrid.in
Resolving Dependencies
--> Running transaction check
---> Package R.x86_64 0:3.3.1-2.el7 will be installed
--> Processing Dependency: libRmath-devel = 3.3.1-2.el7 for package: R-3.3.1-2.el7.x86_64
--> Processing Dependency: R-java = 3.3.1-2.el7 for package: R-3.3.1-2.el7.x86_64
--> Processing Dependency: R-devel = 3.3.1-2.el7 for package: R-3.3.1-2.el7.x86_64
--> Running transaction check
---> Package R-devel.x86_64 0:3.3.1-2.el7 will be installed
--> Processing Dependency: R-java-devel = 3.3.1-2.el7 for package: R-devel-3.3.1-2.el7.x86_64
--> Processing Dependency: R-core-devel = 3.3.1-2.el7 for package: R-devel-3.3.1-2.el7.x86_64
---> Package R-java.x86_64 0:3.3.1-2.el7 will be installed
--> Processing Dependency: R-core = 3.3.1-2.el7 for package: R-java-3.3.1-2.el7.x86_64
---> Package libRmath-devel.x86_64 0:3.3.1-2.el7 will be installed
--> Processing Dependency: libRmath = 3.3.1-2.el7 for package: libRmath-devel-3.3.1-2.el7.x86_64
--> Running transaction check
---> Package R-core.x86_64 0:3.3.1-2.el7 will be installed
--> Processing Dependency: tex(latex) for package: R-core-3.3.1-2.el7.x86_64
--> Processing Dependency: tex(dvips) for package: R-core-3.3.1-2.el7.x86_64
--> Processing Dependency: redhat-rpm-config for package: R-core-3.3.1-2.el7.x86_64
--> Processing Dependency: libgfortran.so.3(GFORTRAN_1.0)(64bit) for package: R-core-3.3.1-2.el7.x86_64
--> Processing Dependency: libtre.so.5()(64bit) for package: R-core-3.3.1-2.el7.x86_64
--> Processing Dependency: libtk8.5.so()(64bit) for package: R-core-3.3.1-2.el7.x86_64
--> Processing Dependency: libtcl8.5.so()(64bit) for package: R-core-3.3.1-2.el7.x86_64
--> Processing Dependency: libquadmath.so.0()(64bit) for package: R-core-3.3.1-2.el7.x86_64
--> Processing Dependency: libgfortran.so.3()(64bit) for package: R-core-3.3.1-2.el7.x86_64
---> Package R-core-devel.x86_64 0:3.3.1-2.el7 will be installed
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texlive-tetex-bin.noarch 2:svn27344.0-38.20130427_r30134.el7
texlive-tex.noarch 2:svn26689.3.1415926-38.el7
texlive-tex-bin.x86_64 2:svn26912.0-38.20130427_r30134.el7
texlive-tex-gyre.noarch 2:svn18651.2.004-38.el7
texlive-tex-gyre-math.noarch 2:svn29045.0-38.el7
texlive-texconfig.noarch 2:svn29349.0-38.el7
texlive-texconfig-bin.noarch 2:svn27344.0-38.20130427_r30134.el7
texlive-texlive.infra.noarch 2:svn28217.0-38.el7
texlive-texlive.infra-bin.x86_64 2:svn22566.0-38.20130427_r30134.el7
texlive-textcase.noarch 2:svn15878.0-38.el7
texlive-thumbpdf.noarch 2:svn26689.3.15-38.el7
texlive-thumbpdf-bin.noarch 2:svn6898.0-38.20130427_r30134.el7
texlive-times.noarch 2:svn28614.0-38.el7
texlive-tipa.noarch 2:svn29349.1.3-38.el7
texlive-tools.noarch 2:svn26263.0-38.el7
texlive-txfonts.noarch 2:svn15878.0-38.el7
texlive-type1cm.noarch 2:svn21820.0-38.el7
texlive-typehtml.noarch 2:svn17134.0-38.el7
texlive-ucs.noarch 2:svn27549.2.1-38.el7
texlive-underscore.noarch 2:svn18261.0-38.el7
texlive-unicode-math.noarch 2:svn29413.0.7d-38.el7
texlive-url.noarch 2:svn16864.3.2-38.el7
texlive-utopia.noarch 2:svn15878.0-38.el7
texlive-varwidth.noarch 2:svn24104.0.92-38.el7
texlive-wasy.noarch 2:svn15878.0-38.el7
texlive-wasysym.noarch 2:svn15878.2.0-38.el7
texlive-xcolor.noarch 2:svn15878.2.11-38.el7
texlive-xdvi.noarch 2:svn26689.22.85-38.el7
texlive-xdvi-bin.x86_64 2:svn26509.0-38.20130427_r30134.el7
texlive-xkeyval.noarch 2:svn27995.2.6a-38.el7
texlive-xunicode.noarch 2:svn23897.0.981-38.el7
texlive-zapfchan.noarch 2:svn28614.0-38.el7
texlive-zapfding.noarch 2:svn28614.0-38.el7
tk.x86_64 1:8.5.13-6.el7
tk-devel.x86_64 1:8.5.13-6.el7
tre.x86_64 0:0.8.0-18.20140228gitc2f5d13.el7
tre-common.noarch 0:0.8.0-18.20140228gitc2f5d13.el7
tre-devel.x86_64 0:0.8.0-18.20140228gitc2f5d13.el7
xorg-x11-proto-devel.noarch 0:7.7-12.el7
xz-devel.x86_64 0:5.1.2-12alpha.el7
zlib-devel.x86_64 0:1.2.7-15.el7
zziplib.x86_64 0:0.13.62-5.el7
Complete!
The installation is not complete yet. It is required to install the server IDE - rstudio-server. Use the following command to download it from the site.
[root@linuxhelp1 ~]# wget https://download2.rstudio.org/rstudio-server-rhel-1.0.44-x86_64.rpm
--2016-11-26 07:13:45-- https://download2.rstudio.org/rstudio-server-rhel-1.0.44-x86_64.rpm
Resolving download2.rstudio.org (download2.rstudio.org)... 52.222.135.245, 52.222.135.254, 52.222.135.109, ...
Connecting to download2.rstudio.org (download2.rstudio.org)|52.222.135.245|:443... connected.
HTTP request sent, awaiting response... 200 OK
Length: 41364624 (39M) [application/x-redhat-package-manager]
Saving to: ‘ rstudio-server-rhel-1.0.44-x86_64.rpm’
100%[==================================================================================================> ] 41,364,624 270KB/s in 2m 32s
2016-11-26 07:16:18 (265 KB/s) - ‘ rstudio-server-rhel-1.0.44-x86_64.rpm’ saved [41364624/41364624]
Once you have downloaded the server, install it with the help of following command.
[root@linuxhelp1 ~]# yum install --nogpgcheck rstudio-server-rhel-1.0.44-x86_64.rpm
Loaded plugins: fastestmirror, langpacks
Examining rstudio-server-rhel-1.0.44-x86_64.rpm: rstudio-server-1.0.44-1.x86_64
Marking rstudio-server-rhel-1.0.44-x86_64.rpm to be installed
Resolving Dependencies
--> Running transaction check
---> Package rstudio-server.x86_64 0:1.0.44-1 will be installed
--> Finished Dependency Resolution
Dependencies Resolved
============================================================================================================================================
Package Arch Version Repository Size
============================================================================================================================================
Installing:
rstudio-server x86_64 1.0.44-1 /rstudio-server-rhel-1.0.44-x86_64 310 M
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.
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Verifying : rstudio-server-1.0.44-1.x86_64 1/1
Installed:
rstudio-server.x86_64 0:1.0.44-1
Complete!
The service starts immediately. Lets check if it is running properly by triggering the following command.
[root@linuxhelp1 ~]# systemctl status rstudio-server.service
rstudio-server.service - RStudio Server
Loaded: loaded (/etc/systemd/system/rstudio-server.service enabled vendor preset: disabled)
Active: active (running) since Sat 2016-11-26 07:17:55 IST 41s ago
Process: 4267 ExecStart=/usr/lib/rstudio-server/bin/rserver (code=exited, status=0/SUCCESS)
Main PID: 4268 (rserver)
CGroup: /system.slice/rstudio-server.service
??4268 /usr/lib/rstudio-server/bin/rserver
Nov 26 07:17:53 linuxhelp1 systemd[1]: Starting RStudio Server...
Nov 26 07:17:55 linuxhelp1 systemd[1]: Started RStudio Server.
RStudio service is running well. Lets connect to the server. Use the IP address of your server and port 8787 lilke http://youriporhostname:8787/
Log in with your non-root Linux user that you have created. After logging in, you would get to IDE as the following image.
Adding packages from CRAN
On above picture we see the R prompt where you can type commands. This commands will execute as non-root user. When you want to add new packages from CRAN (Comprehensive R Archive Network) you generally need to use root user. That way you will have packages usable for all users, while when adding as non-root, you will be able to use it only as that user. You can add packages as root outside of IDE, type sudo -i R on your server bash shell logged in as user. As we are going to add packages that are not entirely written in R, we need to add build tools first.
[root@linuxhelp1 ~]# yum groupinstall " Development Tools"
Loaded plugins: fastestmirror, langpacks
There is no installed groups file.
Maybe run: yum groups mark convert (see man yum)
Loading mirror speeds from cached hostfile
* base: mirror.fibergrid.in
* epel: epel.mirror.angkasa.id
* extras: mirror.fibergrid.in
* updates: mirror.fibergrid.in
Resolving Dependencies
--> Running transaction check
---> Package autoconf.noarch 0:2.69-11.el7 will be installed
--> Processing Dependency: m4 > = 1.4.14 for package: autoconf-2.69-11.el7.noarch
---> Package automake.noarch 0:1.13.4-3.el7 will be installed
--> Processing Dependency: perl(Thread::Queue) for package: automake-1.13.4-3.el7.noarch
--> Processing Dependency: perl(TAP::Parser) for package: automake-1.13.4-3.el7.noarch
---> Package bison.x86_64 0:2.7-4.el7 will be installed
---> Package byacc.x86_64 0:1.9.20130304-3.el7 will be installed
---> Package cscope.x86_64 0:15.8-7.el7 will be installed
---> Package ctags.x86_64 0:5.8-13.el7 will be installed
---> Package diffstat.x86_64 0:1.57-4.el7 will be installed
---> Package doxygen.x86_64 1:1.8.5-3.el7 will be installed
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Dependency Installed:
apr.x86_64 0:1.4.8-3.el7 apr-util.x86_64 0:1.5.2-6.el7 gettext-common-devel.noarch 0:0.18.2.1-4.el7
gettext-devel.x86_64 0:0.18.2.1-4.el7 kernel-devel.x86_64 0:3.10.0-327.36.3.el7 m4.x86_64 0:1.4.16-10.el7
mokutil.x86_64 0:0.9-2.el7 perl-Error.noarch 1:0.17020-2.el7 perl-Git.noarch 0:1.8.3.1-6.el7_2.1
perl-TermReadKey.x86_64 0:2.30-20.el7 perl-Test-Harness.noarch 0:3.28-3.el7 perl-Thread-Queue.noarch 0:3.02-2.el7
perl-XML-Parser.x86_64 0:2.41-10.el7 subversion-libs.x86_64 0:1.7.14-10.el7 systemtap-client.x86_64 0:2.8-10.el7
systemtap-devel.x86_64 0:2.8-10.el7
Complete!
Log into the R prompt as follows.
[root@linuxhelp1 ~]# sudo -i R
R version 3.3.1 (2016-06-21) -- " Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-redhat-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type ' license()' or ' licence()' for distribution details.
Natural language support but running in an English locale
R is a collaborative project with many contributors.
Type ' contributors()' for more information and
' citation()' on how to cite R or R packages in publications.
Type ' demo()' for some demos, ' help()' for on-line help, or
' help.start()' for an HTML browser interface to help.
Type ' q()' to quit R.
>
And there type the following to install package we need:
install.packages(" quantmod" )
Installing package into ‘ /usr/lib64/R/library’
(as ‘ lib’ is unspecified)
--- Please select a CRAN mirror for use in this session ---
also installing the dependencies ‘ xts’ , ‘ zoo’ , ‘ TTR’
trying URL ' https://ftp.iitm.ac.in/cran/src/contrib/xts_0.9-7.tar.gz'
Content type ' unknown' length 470815 bytes (459 KB)
==================================================
downloaded 459 KB
trying URL ' https://ftp.iitm.ac.in/cran/src/contrib/zoo_1.7-13.tar.gz'
Content type ' unknown' length 842068 bytes (822 KB)
==================================================
downloaded 822 KB
A HTTPS CRAN mirror prompt appears which has the list of geographical location from where to fetch the package. Choose which is closest to you.
After package is fetched, it will compile it and we can move to next package we need.
> install.packages(' txtplot' )
Installing package into ‘ /usr/lib64/R/library’
(as ‘ lib’ is unspecified)
trying URL ' https://ftp.iitm.ac.in/cran/src/contrib/txtplot_1.0-3.tar.gz'
Content type ' unknown' length 6152 bytes
==================================================
downloaded 6152 bytes
* installing *source* package ‘ txtplot’ ...
** package ‘ txtplot’ successfully unpacked and MD5 sums checked
** R
** preparing package for lazy loading
** help
*** installing help indices
converting help for package ‘ txtplot’
finding HTML links ... done
txtboxplot html
txtplot html
Making the Statistical graph in R-Studio
Let us make a statistical graph using R-Studio. Here we are going to make a graph of Hat stock. So, load the library you are going to use as follows.
library(' quantmod' )
Loading required package: xts
Loading required package: zoo
Attaching package: ‘ zoo’
The following objects are masked from ‘ package:base’ :
as.Date, as.Date.numeric
Loading required package: TTR
Version 0.4-0 included new data defaults. See ?getSymbols.
Add environment variable
> data < - new.env()
And plot data
getSymbols(' RHT' ,data)
As of 0.4-0, ‘ getSymbols’ uses env=parent.frame() and
auto.assign=TRUE by default.
This behavior will be phased out in 0.5-0 when the call will
default to use auto.assign=FALSE. getOption(" getSymbols.env" ) and
getOptions(" getSymbols.auto.assign" ) are now checked for alternate defaults
This message is shown once per session and may be disabled by setting
options(" getSymbols.warning4.0" =FALSE). See ?getSymbols for more details.
[1] " RHT"
>
> plot(data$RHT)
Warning message:
In plot.xts(data$RHT) : only the univariate series will be plotted
The graph looks as follows.
wtbrown
Apr 19 2018
Error :
Package libcurl was not found in the pkg-config search path.
Perhaps you should add the directory containing `libcurl.pc'
Solution:
rpm -qa|grep curl
python-pycurl-7.19.0-19.el7.x86_64
curl-7.29.0-42.el7_4.1.x86_64
libcurl-7.29.0-42.el7_4.1.x86_64
libcurl-devel-7.29.0-42.el7_4.1.x86_64 <---- this was missing. Needed to run : yum install libcurl-devel
Q
How to install the server IDE - rstudio-server?
A
Use the following command to download it from the site.
# wget https://download2.rstudio.org/rstudio-server-rhel-1.0.44-x86_64.rpm
# wget https://download2.rstudio.org/rstudio-server-rhel-1.0.44-x86_64.rpm
Q
How to install R on CentOS 7?
A
The R package is ready to be installed now. Use the following command to install it.
# yum install R
# yum install R
Q
How to install R on CentOS 7?
A
The R package is ready to be installed now. Use the following command to install it.
# yum install R
# yum install R
Q
How do I remove unwanted objects and functions?
A
By using following command
rm(object_name1, object_names2, etc.)
rm(function_name1, function_name2, etc.)
rm(object_name1, object_names2, etc.)
rm(function_name1, function_name2, etc.)
Q
How do I save all the commands that I have used in an R session?
A
You can save a history of your R session in an. Rhistory file by using the history function. It is very important that you remember to include the