Right, thanks. Finally sank in. The dialog box looks to me like the Finder icon (I don't know what that means yet, but it doesn't look like the gatekeeper thing which is in newer versions of os x ). There is sophos on the system and it beyond me to do anything I think. Anyway, you've given me something to discus with our technical support (like turning sophos off for 2 minutes while I check if that's the problem). I will email back when it's fixed.
Thanks Paul =+=+=+=+=+=+=+=+=+=+=+= Paul Hewson Editor, Teaching Statistics (www.teachingstatistics.co.uk) Associate Professor (SL) Statistics School of Computing & Maths Plymouth University Drake Circus Plymouth PL4 8AA ++44 (0)1752 586870 On 20 Oct 2012, at 13:34, "Simon Urbanek" <[email protected]> wrote: > > On Oct 20, 2012, at 1:40 AM, Paul Hewson wrote: > >> Thanks very much all, I'm still sure this is mac naivety on my part, but I'm >> still curious how I've managed to foul up what seems like such a simple >> procedure. >> >> >> John's longer point - I'm going to check out removing and re-installing. I >> had to enter a system password and checkbox that I wanted all users to be >> able to use R. I can certainly use R GUI as myself so don't entirely >> understand how I gave R gui different ownerships/permissions that R console. >> >> Regarding the other questions (my naive and presumably wrong thought was >> that I need to put myself as a user in group admin, but I'm not sure that's >> entirely correct). >> >> >> John's question >> R.home() gives >> "/Library/Frameworks/R.framework/Resources" >> Checking permissions gives >> pm6-0068:~ phewson$ ls -l /Library/Frameworks/R.framework >> total 40 >> lrwxr-xr-x 1 root admin 24 18 Oct 11:16 Headers -> >> Versions/Current/Headers >> lrwxr-xr-x 1 root admin 30 18 Oct 11:16 Libraries -> >> Versions/Current/Resources/lib >> lrwxr-xr-x 1 root admin 31 18 Oct 11:16 PrivateHeaders -> >> Versions/Current/PrivateHeaders >> lrwxr-xr-x 1 root admin 18 18 Oct 11:16 R -> Versions/Current/R >> lrwxr-xr-x 1 root admin 26 18 Oct 11:16 Resources -> >> Versions/Current/Resources >> drwxrwxr-x 5 root admin 170 18 Oct 21:22 Versions >> >> >> Simon's question, yes typing R in the console gives me a the dialog box, but >> the console does also gives me the following: >> /usr/bin/R: line 259: >> /Library/Frameworks/R.framework/Resources/bin/exec/x86_64/R: Permission >> denied >> /usr/bin/R: line 259: >> /Library/Frameworks/R.framework/Resources/bin/exec/x86_64/R: Undefined >> error: >> (same for R vanilla) >> > > Are you running any anti-virus software or other haxxies? The thing is that R > will not show any dialog box since it is a console tool, so the dialog box > has to come from some other software that may be causing the issue in the > first place ... > > >> Davor's question yields: >> phewson$ ls -l /Library/Frameworks/R.framework/Resources/bin >> total 10176 >> -rwxrwxr-x 1 root admin 1828 22 Jun 20:16 BATCH >> -rwxrwxr-x 1 root admin 2112 22 Jun 20:16 COMPILE >> -rwxrwxr-x 1 root admin 823 22 Jun 20:16 INSTALL >> -rwxrwxr-x 1 root admin 1579 22 Jun 20:16 LINK >> lrwxr-xr-x 1 root admin 3 18 Oct 11:18 R -> R64 >> -rwxrwxr-x 1 root admin 8773 18 Oct 11:18 R32 >> -rwxrwxrwx 1 root admin 8775 18 Oct 11:18 R64 >> -rwxrwxr-x 1 root admin 158 22 Jun 20:16 REMOVE >> -rwxrwxr-x 1 root admin 1374 22 Jun 20:16 Rcmd >> -rwxrwxr-x 1 root admin 312 22 Jun 20:16 Rd2pdf >> -rwxrwxr-x 1 root admin 359 22 Jun 20:16 Rdconv >> -rwxrwxr-x 1 root admin 258 22 Jun 20:16 Rdiff >> -rwxrwxr-x 1 root admin 310 22 Jun 20:16 Rprof >> -rwxrwxr-x 1 root admin 37992 22 Jun 20:18 Rscript >> -rwxrwxr-x 1 root admin 155 22 Jun 20:16 SHLIB >> -rwxrwxr-x 1 root admin 318 22 Jun 20:16 Stangle >> -rwxrwxr-x 1 root admin 316 22 Jun 20:16 Sweave >> -rwxrwxr-x 1 root admin 41048 5 Nov 2011 arch >> -rwxrwxr-x 1 root admin 317 22 Jun 20:16 build >> -rwxrwxr-x 1 root admin 317 22 Jun 20:16 check >> -rwxrwxr-x 1 root admin 7486 22 Jun 20:16 config >> drwxrwxr-x 4 root admin 136 22 Jun 20:16 exec >> -rwxrwxr-x 1 root admin 3600 22 Jun 20:16 f77_f2c >> -rwxrwxr-x 1 root admin 2326336 22 Jun 20:18 fc-cache >> -rwxrwxr-x 1 root admin 13760 22 Jun 20:16 javareconf >> -rwxrwxr-x 1 root admin 274347 22 Jun 20:16 libtool >> -rwxrwxr-x 1 root admin 3494 22 Jun 20:16 mkinstalldirs >> -rwxrwxr-x 1 root admin 413 22 Jun 20:16 pager >> -rwxrwxr-x 1 root admin 2385276 22 Jun 20:18 qpdf >> -rwxrwxr-x 1 root admin 4121 22 Jun 20:16 rtags >> >> Best >> paul >> -=-=-=-=-=-=-=-=-=-=-=-= >> Dr. Paul Hewson >> Editor, Teaching Statistics (www.teachingstatistics.co.uk) >> Associate Professor (Senior Lecturer) in Statistics >> School of Computing and Mathematics >> University of Plymouth >> Drake Circus >> Plymouth PL4 8AA >> >> tel (01752) 586870 >> fax (01752) 586900 >> VoIP: sip:[email protected] >> >> email: [email protected] >> web: http://www.plymouth.ac.uk/staff/phewson >> -=-=-=-=-=-=-=-=-=-=-=-= >> ________________________________________ >> From: Davor Cubranic [[email protected]] >> Sent: 20 October 2012 03:40 >> To: Paul Hewson >> Cc: [email protected] >> Subject: Re: [R-SIG-Mac] Naive question about permissions >> >> On 12-10-19 02:28 PM, Paul Hewson wrote: >>> As I say, I think I've tracked the symlink itself as well as the >>> files it links to /usr/bin/R is itself a symlink to R64. All three >>> users have an x when you do ls -l , they don't all have r and w. >> >> Can you show us the output of running: >> ls -l /Library/Frameworks/R.framework/Resources/bin >> >> Davor >> >> _______________________________________________ >> R-SIG-Mac mailing list >> [email protected] >> https://stat.ethz.ch/mailman/listinfo/r-sig-mac >> >> > _______________________________________________ R-SIG-Mac mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/r-sig-mac
