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Clean install of R 2.6.2 - soft links
3 messages · Shelah Morita, Simon Urbanek
I just tried running R 2.6.2 for Mac OS X and it crashed. The crash log is attached. Hopefully this can help with the problem. Shelah
Shelah Morita wrote:
Hi, I recently tried to re-install R 2.6.2.dmg from R 2.5 similar to Brendan below. I also got an installer error associated with tcl/tk. I removed R and all the associate receipts (including for tcl) and tried to reinstall, but got the same error. As you suggested to Brendan, I have looked in /usr/local and /usr/local/lib. I get the following error with trying to cd to /usr/local/lib: -bash: cd: lib: Too many levels of symbolic links I know that system did not have this problem before I tried to reinstall R. But I have not idea how to figure out where the symbolic loop is, especially if I can't even open the directory. Can you please help. Thanks, Shelah
Brendan,
you have likely an infinite softlink in /usr/local. Please verify that
your /usr/local and /usr/local/lib is in order. If the error still
persists, please send us the installer log from the failed installation.
Cheers,
Simon
PS: Please don't set high-priority flags on your emails, it's
superfluous and considered rude by some.
On Apr 11, 2008, at 7:05 PM, Brendan Casey wrote:
/ Hello,
/>/ />/ I had problems with rcmdr and tcl/tk before but straightened them />/ out. this time, I am really stuck. />/ />/ I was having alot of issues with Rgrphviz so I fiured I would just />/ start over. I uninstalled all the R folder, libraries, frameworks, />/ and packages. I then downloaded the latest (2008-02-08) version of R />/ 2.6.2 for my Mac OSX (10.4.11) I also have X11 installed (1.1.3) and />/ was able to run some sort of X11 update from apple. I also tried />/ xcode tools download from apple, but it didnt give me an option to />/ install X11 again. />/ />/ When I install R from the disk image, it says that there was an error />/ with the installation. When i try to install the tcl/tk package />/ alone, it also says error with the installation. It seems like its />/ installing R and Rgui, but nothing else. />/ />/ After starting R (gui) I installed rcmdr and the dependencies. I />/ then started X11 and tried to load rcmdr. Here is what I got: />/ />/ Loading required package: tcltk />/ Loading Tcl/Tk interface ... Error in fun(...) : />/ Can't find a usable init.tcl in the following directories: />/ @TCL_IN_FRAMEWORK@ @TCL_IN_FRAMEWORK@ />/ />/ This probably means that Tcl wasn't installed properly. />/ />/ In addition: Warning messages: />/ 1: In library() : />/ library '/Users/brendancasey/Library/R/2.6/library' contains no />/ packages />/ 2: In library() : />/ library '/Users/brendancasey/Library/R/2.6/library' contains no />/ packages />/ Error : .onLoad failed in 'loadNamespace' for 'tcltk' />/ Error: package 'tcltk' could not be loaded />/ ____________________________ />/ I dont mind uninstalling more folders and starting from scratch (X11, />/ R, Rgui, etc), but I am not prepared to reinstall my OS if that is />/ what it will take. />/ />/ Can someone please help me with this? />/ />/ Brendan Casey />/ bcasey1 at hotmail dot com />/ _______________________________________________ />/ R-SIG-Mac mailing list />/ R-SIG-Mac at stat.math.ethz.ch <https://stat.ethz.ch/mailman/listinfo/r-sig-mac> />/ https://stat.ethz.ch/mailman/listinfo/r-sig-mac />/ />/ /
Shelah Morita Ph.D. NSF International Research Fellow Department of Botany and Zoology University of Stellenbosch Private Bag X1, Matieland 7602 SOUTH AFRICA +27 21 808-3232 Office +27 21 808-2405 Fax +27 79 774-8372 Cell +1 202 684-6849 (Voice Mail) Skype:bellamyia http://pangonid.net _ _ ( \ ! `.\| , <!||)( )(O\______________ /|\ `^ / / | -------------- next part -------------- An HTML attachment was scrubbed... URL: https://stat.ethz.ch/pipermail/r-sig-mac/attachments/20080413/c32fa5d0/attachment-0001.html -------------- next part -------------- An embedded and charset-unspecified text was scrubbed... Name: R.crash.log Url: https://stat.ethz.ch/pipermail/r-sig-mac/attachments/20080413/c32fa5d0/attachment-0001.pl
On Apr 13, 2008, at 10:58 AM, Shelah Morita wrote:
Hi, I recently tried to re-install R 2.6.2.dmg from R 2.5 similar to Brendan below. I also got an installer error associated with tcl/ tk. I removed R and all the associate receipts (including for tcl) and tried to reinstall, but got the same error.
Please read http://article.gmane.org/gmane.comp.lang.r.mac/2305 Cheers, Simon
As you suggested to Brendan, I have looked in /usr/local and /usr/local/lib. I get the following error with trying to cd to /usr/local/lib: -bash: cd: lib: Too many levels of symbolic links I know that system did not have this problem before I tried to reinstall R. But I have not idea how to figure out where the symbolic loop is, especially if I can't even open the directory. Can you please help. Thanks, Shelah
Brendan, you have likely an infinite softlink in /usr/local. Please verify that your /usr/local and /usr/local/lib is in order. If the error still persists, please send us the installer log from the failed installation. Cheers, Simon PS: Please don't set high-priority flags on your emails, it's superfluous and considered rude by some. On Apr 11, 2008, at 7:05 PM, Brendan Casey wrote:
/ Hello,
/>/ />/ I had problems with rcmdr and tcl/tk before but straightened them />/ out. this time, I am really stuck. />/ />/ I was having alot of issues with Rgrphviz so I fiured I would just />/ start over. I uninstalled all the R folder, libraries, frameworks, />/ and packages. I then downloaded the latest (2008-02-08) version of R />/ 2.6.2 for my Mac OSX (10.4.11) I also have X11 installed (1.1.3) and />/ was able to run some sort of X11 update from apple. I also tried />/ xcode tools download from apple, but it didnt give me an option to />/ install X11 again. />/ />/ When I install R from the disk image, it says that there was an error />/ with the installation. When i try to install the tcl/tk package />/ alone, it also says error with the installation. It seems like its />/ installing R and Rgui, but nothing else. />/ />/ After starting R (gui) I installed rcmdr and the dependencies. I />/ then started X11 and tried to load rcmdr. Here is what I got: />/ />/ Loading required package: tcltk />/ Loading Tcl/Tk interface ... Error in fun(...) : />/ Can't find a usable init.tcl in the following directories: />/ @TCL_IN_FRAMEWORK@ @TCL_IN_FRAMEWORK@ />/ />/ This probably means that Tcl wasn't installed properly. />/ />/ In addition: Warning messages: />/ 1: In library() : />/ library '/Users/brendancasey/Library/R/2.6/library' contains no />/ packages />/ 2: In library() : />/ library '/Users/brendancasey/Library/R/2.6/library' contains no />/ packages />/ Error : .onLoad failed in 'loadNamespace' for 'tcltk' />/ Error: package 'tcltk' could not be loaded />/ ____________________________ />/ I dont mind uninstalling more folders and starting from scratch (X11, />/ R, Rgui, etc), but I am not prepared to reinstall my OS if that is />/ what it will take. />/ />/ Can someone please help me with this? />/ />/ Brendan Casey />/ bcasey1 at hotmail dot com />/ _______________________________________________ />/ R-SIG-Mac mailing list />/ R-SIG-Mac at stat.math.ethz.ch <https://stat.ethz.ch/mailman/listinfo/r-sig-mac
/>/ https://stat.ethz.ch/mailman/listinfo/r-sig-mac />/ />/ /
-- Shelah Morita Ph.D. NSF International Research Fellow Department of Botany and Zoology University of Stellenbosch Private Bag X1, Matieland 7602 SOUTH AFRICA +27 21 808-3232 Office +27 21 808-2405 Fax +27 79 774-8372 Cell +1 202 684-6849 (Voice Mail) Skype:bellamyia http://pangonid.net _ _ ( \ ! `.\| , <!||)( )(O\______________ /|\ `^ / / | [[alternative HTML version deleted]]
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