On 19/07/2012 12:46, Duncan Murdoch wrote:
I don't see this in R-patched; I don't have 2.15.1 installed on this
machine. But the problem appears to be that XML exports a function
called source() (a generic), and you're using it -- but not the current
version, which doesn't give the warning.
Whenever you upgrade your R you need to re-install your packages. And
this is particularly true of noisome packages (mainly using the
'methods' package) which make copies of code from R itself. XML is a
known example.
conflicts()
update.packages(checkBuilt=TRUE)
are your friends. E.g.
> library(XML)
> conflicts(, TRUE)
$`package:XML`
[1] "coerce" "show" "source"
$`package:methods`
[1] "coerce" "show" "body<-" "kronecker"
$`package:base`
[1] "body<-" "kronecker" "source"
Duncan Murdoch
On 12-07-18 1:36 PM, David Hastie wrote:
Hi
I have recently upgraded to R 2.15.1. Since the upgrade, I am getting
some odd behaviour that I don't understand. If I source a file which
has a function with a require (or library) statement in it, then the
first time I source it behaves as expected. If I then call the
function (so that the require statement is evaluated) the function
also runs ok. However, if I then subsequently try to source the file
again I get an .Internal(eval.with.vis) warning.
At first I obviously thought it must be an error of mine in the file
containing the functions I had written. However, subsequent tests show
that even if the following code
foo<-function(){
require(XML)
cat("This is a test fn\n")
}
is put in the file foo.R, then running the following code gives the
warning.
source('foo.R')
foo()
Loading required package: XML
This is a test fn
source('foo.R')
Warning message:
In eval.with.vis(ei, envir) :
.Internal(eval.with.vis) should not be used and will be removed soon
The key part to this is the inclusion of the require statement. If the
require statement was not in the function, then there are no warnings.
I experience this behaviour on my desktop running Ubuntu 12.04 and on
my Mac running OSX. From looking at the change log of 2.15.1 I notice
that the way files are sourced has changed (and seems to relate to
this warning), but it is not clear to me what if anything this means I
should change.
I would be grateful for any tips.
Kind regards
Dave
--
David Hastie, Ph.D.
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Brian D. Ripley, rip...@stats.ox.ac.uk
Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/
University of Oxford, Tel: +44 1865 272861 (self)
1 South Parks Road, +44 1865 272866 (PA)
Oxford OX1 3TG, UK Fax: +44 1865 272595
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