[R] Error in installing packages

Thu Jun 7 12:17:53 CEST 2012

On 07.06.2012 00:09, Martin Morgan wrote:
> On 06/06/2012 01:41 PM, Andreia Leite wrote:
>> Yes it's windows (vista). It's not a specific package. I've tried more
>> than
>> a CRAN mirror and the message it's always date (the list with the
>> packages
>> simply doesn't appear).
>> What proxy settings should I verify specifically (sorry I don't know a
>> lot
>> on informatics)? I've installed a few packages before this and I never
>> had
>> such a message.
>
> With a brand-new 2.9.2

:-)

Thank you, Martin. We have not expected the web server change for CRAN 
extras, hence my suspicion was wrong. The changes of CRAN extras have 
been reverted now thanks to Brian Ripley and his crew in Oxford.

This also shows it makes sense to update R from time to time.

Best,
Uwe

> I did this
>
>  > utils:::menuInstallPkgs()
> --- Please select a CRAN mirror for use in this session ---
> Error in read.dcf(file = tmpf) :
> Line starting '<!DOCTYPE html PUBLI ...' is malformed!
>  > traceback()
> 4: read.dcf(file = tmpf)
> 3: available.packages(contriburl = contriburl, method = method)
> 2: install.packages(NULL, .libPaths()[1L], dependencies = NA, type = type)
> 1: utils:::menuInstallPkgs()
>  >
>  > trace(available.packages, tracer=quote(print(contriburl)))
> Tracing function "available.packages" in package "utils"
> [1] "available.packages"
>  > utils:::menuInstallPkgs()
> Tracing available.packages(contriburl = contriburl, method = method) on
> entry
> [1] "http://cran.cs.wwu.edu/bin/windows/contrib/2.9"
> [2] "http://www.stats.ox.ac.uk/pub/RWin/bin/windows/contrib/2.9"
> Error in read.dcf(file = tmpf) :
> Line starting '<!DOCTYPE html PUBLI ...' is malformed!
>
> and that second url is no longer valid (redirected to the institution
> home page). Perhaps
>
>  > getOption("repos")
> CRAN CRANextra
> "http://cran.cs.wwu.edu" "http://www.stats.ox.ac.uk/pub/RWin"
>  > options(repos=getOption("repos")["CRAN"])
>  > utils:::menuInstallPkgs()
>
> A similar problem came up on the Bioconductor mailing list, where our
> installer was pointing Mac users to the non-existent
>
> http://www.stats.ox.ac.uk/pub/RWin/bin/macosx/leopard/contrib/2.15
>
> Martin
>
>>
>> Thanks
>>
>> On Wed, Jun 6, 2012 at 6:11 PM, Uwe Ligges
>> <ligges at statistik.tu-dortmund.de>wrote:
>>
>>>
>>>
>>> On 06.06.2012 17:14, Andreia Leite wrote:
>>>
>>>> Dear list,
>>>>
>>>> I'm trying to install a package but every time I select the option form
>>>> the
>>>> menu this error message appears:
>>>>
>>>> utils:::menuInstallPkgs()
>>>>>
>>>> Error in read.dcf(file = tmpf) :
>>>> Line starting '<!DOCTYPE html PUBLI ...' is malformed!
>>>>
>>>> Do you have any clue of the reason why is it happening? I'm using a
>>>> older
>>>> version (2.9.2) but it always worked perfectly!
>>>>
>>>
>>> Have you checked proxy settings?
>>> Is this Windows?
>>> Have you checked if the (also unstated) CRAN mirror you are using works
>>> correctly and delivers that part of the repository?
>>>
>>> Uwe ligges
>>>
>>>
>>>
>>>
>>>
>>>
>>>
>>>
>>>> Best regards,
>>>> Andreia LEite
>>>>
>>>> --
>>>> View this message in context: http://r.789695.n4.nabble.com/**
>>>> Error-in-installing-packages-**tp4632543.html<http://r.789695.n4.nabble.com/Error-in-installing-packages-tp4632543.html>
>>>>
>>>> Sent from the R help mailing list archive at Nabble.com.
>>>>
>>>> ______________________________**________________
>>>> R-help at r-project.org mailing list
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>>>>
>>>> PLEASE do read the posting guide http://www.R-project.org/**
>>>> posting-guide.html<http://www.R-project.org/posting-guide.html>
>>>> and provide commented, minimal, self-contained, reproducible code.
>>>>
>>>
>>
>>
>
>