Thanks all for chiming in!
Just tried the following:
1) HOME set incorrectly
2) $HOME or $HOME/.Rprofile not readable according to permissions and
ownership of R binary
ls -l $HOME/.Rprofile
-rw-r--r-- 1 gangc admin 17 Sep 21 07:10 /Users/gangc/.Rprofile
3) path length overflow
Less than 1024 characters.
Something in the style of (NB, this zaps an existing ~/.Rprofile if you copy
it literally)
$ echo 'Rprofile - TRUE' ~/.Rprofile
In CLI R:
file.show(paste(Sys.getenv(HOME),.Rprofile, sep=/))
Rprofile - TRUE
Rprofile
Error: object 'Rprofile' not found
From: peter dalgaard [pda...@gmail.com]
Sent: Sunday, September 21, 2014 6:12 AM
To: Prof Brian Ripley
Cc: r-sig-mac@r-project.org
Subject: Re: [R-SIG-Mac] Failure of CLI with .Rprofile on Mac OS X
I suspected that I needed to put more or less standard in my reply...
Anyways, I think PWD is a red herring. Unless I'm confused (which has
happened), the CLI on OS X is governed by src/unix/sys-unix.c and that has
attribute_hidden
FILE *R_OpenInitFile(void)
{
char buf[PATH_MAX], *home, *p = getenv(R_PROFILE_USER);
FILE *fp;
fp = NULL;
if (LoadInitFile) {
if(p) {
if(!*p) return NULL; /* set to */
return R_fopen(R_ExpandFileName(p), r);
}
if((fp = R_fopen(.Rprofile, r)))
return fp;
if((home = getenv(HOME)) == NULL)
return NULL;
snprintf(buf, PATH_MAX, %s/.Rprofile, home);
if((fp = R_fopen(buf, r)))
return fp;
}
return fp;
}
and $PWD doesn't factor into this. $HOME does, though. I can see three ways in
which $HOME/.Rprofile might drop off the radar:
1) HOME set incorrectly
2) $HOME or $HOME/.Rprofile not readable according to permissions and ownership
of R binary
3) path length overflow
Neither seem particularly likely to me, but they should be relatively easy to
check. (PATH_MAX on OS X seems to be 1024).
Something in the style of (NB, this zaps an existing ~/.Rprofile if you copy it
literally)
$ echo 'Rprofile - TRUE' ~/.Rprofile
$ R
...
Rprofile
[1] TRUE
file.show(paste(Sys.getenv(HOME),.Rprofile, sep=/))
-pd
On 21 Sep 2014, at 11:02 , Prof Brian Ripley rip...@stats.ox.ac.uk wrote:
On 21/09/2014 00:25, David Winsemius wrote:
On Sep 20, 2014, at 2:15 PM, peter dalgaard wrote:
Notice that we have a similar, but unresolved, bug report a month old.
https://bugs.r-project.org/bugzilla/show_bug.cgi?id=15940
I assume that the obvious things like a .Rprofile in the current directory
has been checked?
Running R under a debugger, single-stepping through the startup code would
likely isolate the trouble, but it's a bit of work to set up, and of course
it needs to be on the machine that actually displays the problem.
-pd
On 20 Sep 2014, at 21:27 , David Winsemius dwinsem...@comcast.net wrote:
snipped
Caveat: I'm not the best person to answer this. I'm not a skilled user of
Unix and I'm not one of the Mac development team. But those guys are often
not reading the mailing list on weekends so I thought I'd throw some ideas
out that you could investigate.
I haven't been able to find exactly what PWD is pointing to. It's not
listed in the environment variables link from ?Sys.getenv. I think it's
related tot eh[sic] Unix cli command `pwd` which prints the working
directory.
Peter;
Do you know whether the PWD value in the result from Sys.getenv() is
supposed to point at the working directory of R started from the command
line?
There are too many variables here to say for certain. The 'command line' is
a shell, but the user can choose what that is. (For Terminal.app, it is in
the Startup preferences.) The command 'cd' normally sets the environment
variable PWD, but there are variants for different shells, and /usr/bin/cd
which calls the builtin 'cd' in the current shell. (The POSIX command 'pwd'
can also set PWD, and that too can be a shell builtin.)
The user can also set PWD, both in the shell and from inside R.
--
Brian D. Ripley, rip...@stats.ox.ac.uk
Emeritus Professor of Applied Statistics, University of Oxford
1 South Parks Road, Oxford OX1 3TG, UK
--
Peter Dalgaard, Professor,
Center for Statistics, Copenhagen Business School
Solbjerg Plads 3, 2000 Frederiksberg, Denmark
Phone: (+45)38153501
Email: pd@cbs.dk Priv: pda...@gmail.com
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