'options=utils::recover' not working in .Rprofile or within R
[Sent this before completing my last sentence; here's another attempt]
On 29/05/2009 11:45 PM, Mark Kimpel wrote:
For years I have been using options(error = recover) either in .Rprofile or from within R for debugging purposes. The functionality of this appears to have changed and I can't recover it (no pun intended) using the ?options help page. How can I get the old functionality back, particularly from within .Rprofile? A specific line entry would be appreciated. An example, the help page, and sessionInfo() follow. Thanks, Mark
I don't think there were any substantial changes in 2.9.0, so I would
guess that you have a local object named "recover" or "options", and it
is causing your problems. When I run options(error=recover) and your
two lines below, I get this output:
> options(error=recover)
> b.func <- function(x) {y <- x + 2; nonsense; y}
> b.func(3)
Error in b.func(3) : object 'nonsense' not found
Enter a frame number, or 0 to exit
1: b.func(3)
Selection: 0
>
which is what you wanted.
To put this into your .Rprofile, you need to use utils::recover (the
utils package hasn't been attached yet). That also works for me.
There have been changes to recover in R-devel (to become 2.10.0), and
will likely be more, but what you did shouldn't appear much different
than what I showed from 2.9.0 above. If you had sourced the code from a
file, 2.10.0 should tell you which line of the file contained the error.
Duncan Murdoch
b.func <- function(x) {y <- x + 2; nonsense; y}
b.func(3)
Error in b.func(3) : object 'nonsense' not found ## in the past this would
be a menu with numbers for what level I want to go to (in this case just 1)
This help page states:
'error': either a function or an expression governing the handling
of non-catastrophic errors such as those generated by 'stop'
as well as by signals and internally detected errors... The
functions 'dump.frames' and 'recover' provide alternatives
that allow post-mortem debugging. Note that these need to
specified as e.g. 'options=utils::recover' in startup files
such as '.Rprofile'.
sessionInfo()
R version 2.9.0 (2009-04-17) x86_64-unknown-linux-gnu locale: LC_CTYPE=en_US.UTF-8;LC_NUMERIC=C;LC_TIME=en_US.UTF-8;LC_COLLATE=en_US.UTF-8;LC_MONETARY=C;LC_MESSAGES=en_US.UTF-8;LC_PAPER=en_US.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.UTF-8;LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices datasets utils methods base ------------------------------------------------------------ Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 399-1219 Home Skype: mkimpel "The real problem is not whether machines think but whether men do." -- B. F. Skinner ****************************************************************** [[alternative HTML version deleted]]
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