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install R on Centos 6

following this thread: http://blogs.helsinki.fi/bioinformatics-viikki/documentation/getting-started-with-r-programming/installingrlatest/#CentOS

Installing the latest R on CentOS:

Add the latest EPEL repository which you can find from here. Don’t forget to add the 64 bit f you are using a 64 bit OS. I have a CentOS release 5.8, 64 bit (Check the Ubuntu installation section of this document if you don’t know your Linux distribution or whether it is 64 or 32 bit ) and I used the following script to add the proper repository:

$ sudo rpm -Uvh http://www.nic.funet.fi/pub/mirrors/fedora.redhat.com/pub/epel/6/x86_64/epel-release-6-8.noarch.rpm

then I got the error

CentOS 6.3 Instance Giving "Cannot retrieve metalink for repository: epel" Error

follow this page: https://community.hpcloud.com/article/centos-63-instance-giving-cannot-retrieve-metalink-repository-epel-error

Walkthrough Steps

Running this command will update the repo to use HTTP rather than HTTPS:

sudo sed -i "s/mirrorlist=https/mirrorlist=http/" /etc/yum.repos.d/epel.repo

You should then be able to update with this command:

yum -y update

then I am able to install R...

$ sudo yum install R

Installed:
  R.x86_64 0:3.1.2-1.el6                                                        

Dependency Installed:
  R-core.x86_64 0:3.1.2-1.el6                                                   
  R-core-devel.x86_64 0:3.1.2-1.el6                                             
  R-devel.x86_64 0:3.1.2-1.el6                                                  
  R-java.x86_64 0:3.1.2-1.el6                                                   
  R-java-devel.x86_64 0:3.1.2-1.el6                                             
  blas.x86_64 0:3.2.1-4.el6                                                     
  blas-devel.x86_64 0:3.2.1-4.el6                                               
  bzip2-devel.x86_64 0:1.0.5-7.el6_0                                            
  cups.x86_64 1:1.4.2-67.el6                                                    
  desktop-file-utils.x86_64 0:0.15-9.el6                                        
  fontconfig-devel.x86_64 0:2.8.0-5.el6                                         
  freetype-devel.x86_64 0:2.3.11-14.el6_3.1                                     
  gcc-gfortran.x86_64 0:4.4.7-11.el6                                            
  ghostscript.x86_64 0:8.70-19.el6                                              
  ghostscript-fonts.noarch 0:5.50-23.2.el6                                      
  java-1.6.0-openjdk.x86_64 1:1.6.0.0-11.1.13.4.el6                             
  java-1.6.0-openjdk-devel.x86_64 1:1.6.0.0-11.1.13.4.el6                       
  jline.noarch 0:0.9.94-0.8.el6                                                 
  kpathsea.x86_64 0:2007-57.el6_2                                               
  lapack.x86_64 0:3.2.1-4.el6                                                   
  lapack-devel.x86_64 0:3.2.1-4.el6                                             
  lcms-libs.x86_64 0:1.19-1.el6                                                 
  libRmath.x86_64 0:3.1.2-1.el6                                                 
  libRmath-devel.x86_64 0:3.1.2-1.el6                                           
  libX11-devel.x86_64 0:1.6.0-2.2.el6                                           
  libXau-devel.x86_64 0:1.0.6-4.el6                                             
  libXft-devel.x86_64 0:2.3.1-2.el6                                             
  libXmu.x86_64 0:1.1.1-2.el6                                                   
  libXrender-devel.x86_64 0:0.9.8-2.1.el6                                       
  libXt.x86_64 0:1.1.4-6.1.el6                                                  
  libgfortran.x86_64 0:4.4.7-11.el6                                             
  libicu.x86_64 0:4.2.1-9.1.el6_2                                               
  libicu-devel.x86_64 0:4.2.1-9.1.el6_2                                         
  libxcb-devel.x86_64 0:1.9.1-2.el6                                             
  netpbm.x86_64 0:10.47.05-11.el6                                               
  netpbm-progs.x86_64 0:10.47.05-11.el6                                         
  openjpeg-libs.x86_64 0:1.3-10.el6_5                                           
  pcre-devel.x86_64 0:7.8-6.el6                                                 
  poppler.x86_64 0:0.12.4-3.el6_0.1                                             
  poppler-data.noarch 0:0.4.0-1.el6                                             
  poppler-utils.x86_64 0:0.12.4-3.el6_0.1                                       
  portreserve.x86_64 0:0.0.4-9.el6                                              
  psutils.x86_64 0:1.17-34.el6                                                  
  rhino.noarch 0:1.7-0.7.r2.2.el6                                               
  tcl.x86_64 1:8.5.7-6.el6                                                      
  tcl-devel.x86_64 1:8.5.7-6.el6                                                
  tex-preview.noarch 0:11.85-10.el6                                             
  texinfo.x86_64 0:4.13a-8.el6                                                  
  texinfo-tex.x86_64 0:4.13a-8.el6                                              
  texlive.x86_64 0:2007-57.el6_2                                                
  texlive-dvips.x86_64 0:2007-57.el6_2                                          
  texlive-latex.x86_64 0:2007-57.el6_2                                          
  texlive-texmf.noarch 0:2007-38.el6                                            
  texlive-texmf-dvips.noarch 0:2007-38.el6                                      
  texlive-texmf-errata.noarch 0:2007-7.1.el6                                    
  texlive-texmf-errata-dvips.noarch 0:2007-7.1.el6                              
  texlive-texmf-errata-fonts.noarch 0:2007-7.1.el6                              
  texlive-texmf-errata-latex.noarch 0:2007-7.1.el6                              
  texlive-texmf-fonts.noarch 0:2007-38.el6                                      
  texlive-texmf-latex.noarch 0:2007-38.el6                                      
  texlive-utils.x86_64 0:2007-57.el6_2                                          
  tk.x86_64 1:8.5.7-5.el6                                                       
  tk-devel.x86_64 1:8.5.7-5.el6                                                 
  tmpwatch.x86_64 0:2.9.16-4.el6                                                
  unzip.x86_64 0:6.0-1.el6                                                      
  urw-fonts.noarch 0:2.4-10.el6                                                 
  xdg-utils.noarch 0:1.0.2-17.20091016cvs.el6                                   
  xorg-x11-proto-devel.noarch 0:7.7-9.el6                                       
  xz-devel.x86_64 0:4.999.9-0.5.beta.20091007git.el6                            

Dependency Updated:
  cpp.x86_64 0:4.4.7-11.el6                                                     
  cups-libs.x86_64 1:1.4.2-67.el6                                               
  gcc.x86_64 0:4.4.7-11.el6                                                     
  gcc-c++.x86_64 0:4.4.7-11.el6                                                 
  libgcc.x86_64 0:4.4.7-11.el6                                                  
  libgomp.x86_64 0:4.4.7-11.el6                                                 
  libstdc++.x86_64 0:4.4.7-11.el6                                               
  libstdc++-devel.x86_64 0:4.4.7-11.el6                                         
  xz-libs.x86_64 0:4.999.9-0.5.beta.20091007git.el6                             

Complete!

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