[R-SIG-Mac] unprecedented errors at start-up

[Massimo Pinto]

Thank you Simon. I have tried the changing locale option but got no
result. When you allude to restoring permissions, what are the files
that you have in mind?
Cheers
Massimo


On Tue, Dec 22, 2009 at 16:44, Simon Urbanek
<simon.urbanek at r-project.org> wrote:
>
> On Dec 22, 2009, at 9:34 , Massimo Pinto wrote:
>
>> Greetings all
>>
>> I have left R aside for about a week and upon going back to it I have
>> found errors which I had not encountered before. I have upgraded to
>> OSX 10.6 recently and these errors may be a consequence of such
>> upgrade.
>>
>
> Seems like it. Your system locales seem to be completely messed up. Seems
> like Archive&Install is probably what you want to do ... I have never seen
> this before so I don't know why your OS broke so badly. You may try the
> usual restore permissions, change locale, re-install OS X etc.
>
> Cheers,
> Simon
>
>
>> A first error encountered at start-up refers to the use of my locale:
>>
>> ========
>>
>> During startup - Warning messages:
>> 1: Setting LC_CTYPE failed, using "C"
>> 2: Setting LC_COLLATE failed, using "C"
>> 3: Setting LC_TIME failed, using "C"
>> 4: Setting LC_MESSAGES failed, using "C"
>> [R.app GUI 1.31 (5537) i386-apple-darwin9.8.0]
>>
>> WARNING: You're using a non-UTF8 locale, therefore only ASCII
>> characters will work.
>> Please read R for Mac OS X FAQ (see Help) section 9 and adjust your
>> system preferences accordingly.
>>
>> ============
>>
>> when trying to install a binary package from BioConductor, using the R
>> GUI, I get:
>>
>> =-===========
>> The downloaded packages are in
>>
>>  ‘/private/var/folders/vM/vMSy+Iu8HwS2jf2eaEcYFU+++TI/-Tmp-/RtmpipsYIY/downloaded_packages’
>> trying URL
>> 'http://www.bioconductor.org/packages/2.5/bioc/bin/macosx/leopard/contrib/2.10/Rgraphviz_1.24.0.tgz'
>> Content type 'application/x-gzip' length 800621 bytes (781 Kb)
>> opened URL
>>
>> downloaded 781 Kb
>>
>> tar: Failed to set default locale
>> ===============================================
>>
>> similarly, when trying a source package:
>>
>> =========
>> trying URL
>> 'http://www.bioconductor.org/packages/2.5/bioc/src/contrib/Rgraphviz_1.24.0.tar.gz'
>> Content type 'application/x-gzip' length 571761 bytes (558 Kb)
>> opened URL
>> ==================================================
>> downloaded 558 Kb
>>
>> During startup - Warning messages:
>> 1: Setting LC_CTYPE failed, using "C"
>> 2: Setting LC_TIME failed, using "C"
>> 3: Setting LC_MESSAGES failed, using "C"
>> tar: Failed to set default locale
>> * installing *source* package 'Rgraphviz' ...
>> checking for gcc... no
>> checking for cc... no
>> checking for cl.exe... no
>> configure: error: no acceptable C compiler found in $PATH
>> See `config.log' for more details.
>> ERROR: configuration failed for package 'Rgraphviz'
>> * removing
>> '/Library/Frameworks/R.framework/Versions/2.10/Resources/library/Rgraphviz'
>> * restoring previous
>>
>> '/Library/Frameworks/R.framework/Versions/2.10/Resources/library/Rgraphviz'
>> ============================
>>
>> This situation won't change if I set the locale to
>>
>>> Sys.setlocale("LC_ALL", "en_GB.UTF-8")
>>
>> Has anyone experienced this before?
>> Thank you in advance
>> Massimo
>>
>>> sessionInfo()
>>
>> R version 2.10.1 (2009-12-14)
>> i386-apple-darwin9.8.0
>>
>> locale:
>> [1] en_GB.UTF-8/en_GB.UTF-8/en_GB.UTF-8/C/en_GB.UTF-8/en_GB.UTF-8
>>
>> attached base packages:
>> [1] grid      stats     graphics  grDevices utils     datasets
>> methods   base
>>
>> other attached packages:
>> [1] graph_1.22.2
>>
>> loaded via a namespace (and not attached):
>> [1] tools_2.10.1
>>
>> Massimo Pinto
>> Post Doctoral Research Fellow
>> Enrico Fermi Centre and Italian Public Health Research Institute (ISS),
>> Rome
>> http://claimid.com/massimopinto
>>
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>> R-SIG-Mac at stat.math.ethz.ch
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>>
>>
>
>