[R-SIG-Mac] Failed tar extract due to symlinks put in place by Rswitch

[Steven McKinney]

Hi all,

I am attempting to install macosx tools to a new Mac Pro.
When I attempt to install the devpack
   sudo tar fvxz /Users/stevenmckinney/Software/R/R-2.10.1/devpack4-darwin8-bin4.tar.gz  -C /
the tar extract fails due to symlink issues, related to symlinks
set up by Rswitch.

Has anyone else encountered this issue, and know of a fix?

This is the output from the tar extract command:

[momac13:/ stevenmckinney]
$ sudo tar fvxz /Users/stevenmckinney/Software/R/R-2.10.1/devpack4-darwin8-bin4.tar.gz  -C /
x usr/
x usr/local/
x usr/local/bin/
x usr/local/bin/fc-cache
x usr/local/bin/fc-cat
x usr/local/bin/fc-list
.
.
.
x usr/local/share/man/man5/png.5
x Library/
x Library/Frameworks/
x Library/Frameworks/R.framework/
x Library/Frameworks/R.framework/Resources/
x Library/Frameworks/R.framework/Resources/fontconfig/: Cannot extract through symlink Library/Frameworks/R.framework/Resources
x Library/Frameworks/R.framework/Resources/fontconfig/cache/: Cannot extract through symlink Library/Frameworks/R.framework/Resources
x Library/Frameworks/R.framework/Resources/fontconfig/fonts/: Cannot extract through symlink Library/Frameworks/R.framework/Resources
x Library/Frameworks/R.framework/Resources/fontconfig/fonts/conf.avail/: Cannot extract through symlink Library/Frameworks/R.framework/Resources
x Library/Frameworks/R.framework/Resources/fontconfig/fonts/conf.avail/10-autohint.conf: Cannot extract through symlink Library/Frameworks/R.framework/Resources
.
.
.
x Library/Frameworks/R.framework/Resources/fontconfig/fonts/fonts.conf: Cannot extract through symlink Library/Frameworks/R.framework/Resources
x Library/Frameworks/R.framework/Resources/fontconfig/fonts/fonts.dtd: Cannot extract through symlink Library/Frameworks/R.framework/Resources
tar: Error exit delayed from previous errors.
[momac13:/ stevenmckinney]


I see the following symlinks set up in /Library/Frameworks/R.framework

[momac13:/Library/Frameworks/R.framework stevenmckinney]
$ ls -alF
total 40
drwxrwxr-x@  8 root  admin  272 21 Oct  2008 ./
drwxrwxr-x@ 12 root  admin  408 21 Oct  2008 ../
lrwxr-xr-x   1 root  admin   24 19 Apr 14:57 Headers@ -> Versions/Current/Headers
lrwxr-xr-x   1 root  admin   30 19 Apr 14:57 Libraries@ -> Versions/Current/Resources/lib
lrwxr-xr-x   1 root  admin   31 19 Apr 14:57 PrivateHeaders@ -> Versions/Current/PrivateHeaders
lrwxr-xr-x   1 root  admin   18 19 Apr 14:57 R@ -> Versions/Current/R
lrwxr-xr-x   1 root  admin   26 21 Oct  2008 Resources@ -> Versions/Current/Resources
drwxrwxr-x   7 root  admin  238 19 Apr 14:57 Versions/


> sessionInfo()
R version 2.10.1 Patched (2010-04-07 r51689) 
x86_64-apple-darwin9.8.0 

locale:
[1] en_CA.UTF-8/en_CA.UTF-8/C/C/en_CA.UTF-8/en_CA.UTF-8

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     
> 




Steven McKinney

Statistician
Molecular Oncology and Breast Cancer Program
British Columbia Cancer Research Centre

email: smckinney +at+ bccrc +dot+ ca

tel: 604-675-8000 x7561

BCCRC
Molecular Oncology
675 West 10th Ave, Floor 4
Vancouver B.C.
V5Z 1L3
Canada