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September 2009

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Subject:
From:
Eva Myers <[log in to unmask]>
Reply To:
Eva Myers <[log in to unmask]>
Date:
Tue, 29 Sep 2009 13:48:40 +0100
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Dear All,
Over the past month or two, I've been having problems updating R from
the UK mirror of the CRAN repository.  I have the R repository
enabled:


sirtommy 13:41% more /etc/yum.repos.d/R.repo
[R]
name=CRAN R repository
baseurl=http://www.stats.bris.ac.uk/R/bin/linux/redhat/el5/i386/
enabled=1
gpgcheck=0
gpgkey=file:///etc/pki/rpm-gpg/RPM-GPG-KEY-csieh file:///etc/pki/rpm-gpg/RPM-GPG-KEY-dawson file:///etc/pki/rpm-gpg/RPM-GPG-KEY-jpolok file:///etc/pki/rpm-gpg/RPM-GPG-KEY-cern


However, "yum update" has persistently refused to update R, which has
remained stuck at version 2.9.0 rather than the latest version 2.9.2.
"yum clean all" makes no difference.

On one of my SL52 machines I have done some further experiments, but
they didn't solve the problem.  I tried "yum install R-core" but got
the error message

 --> Missing Dependency: perl(File::Copy::Recursive) is needed by
     package R-core-2.9.2-1.el5.i386 (R)

That was resolved by installing the required perl package from the dag
repo, but the next attempt to install R-core gave a stream of error
messages about file conflicts, for example

  file /usr/lib/R/library/utils/html/example.html from install of
  R-core-2.9.2-1.el5 conflicts with file from package R-2.9.0-1.rh5

After I uninstalled the R-2.9.0 package, R-core would install, but
"yum install R" found only the old R from sl-base, as did "yum list
R":


sirtommy 13:46% yum list R
Loaded plugins: kernel-module, protect-packages
Available Packages
R.i386                           2:2.7.0-1.sl5                           sl-base


What should I do to install R 2.9.2 from CRAN?
Eva.

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