"Prof Brian Ripley" <[EMAIL PROTECTED]> wrote in message
news:[EMAIL PROTECTED]
> Here is a reasonable shot:
>
> findfuns <- function(x) {
> if(require(x, character.only=TRUE)) {
> env <- paste("package", x, sep=":")
> nm <- ls(env, all=TRUE)
> nm[unlist(lapply(nm, function(n) exists(n, where=env,
> mode="function",
> inherits=FALSE)))]
> } else character(0)
> }
> pkgs <- dir(.Library)
> z <- lapply(pkgs, findfuns)
> names(z) <- pkgs
Any recommendations on how to trap problems with "require" when using
findfuns? One bad package and the lapply above doesn't return anything.
For example:
> findfuns("bcp")
Loading required package: bcp
Loading required package: DNAcopy
Error: package 'DNAcopy' could not be loaded
In addition: Warning message:
there is no package called 'DNAcopy' in: library(pkg, character.only = TRUE,
logical = TRUE, lib.loc = lib.loc)
> require("bcp", character.only=TRUE)
Loading required package: bcp
Loading required package: DNAcopy
Error: package 'DNAcopy' could not be loaded
In addition: Warning message:
there is no package called 'DNAcopy' in: library(pkg, character.only = TRUE,
logical = TRUE, lib.loc = lib.loc)
I used "try" around the "require" call with "options(error=recover)" with
"recover" defined to be a do nothing function to avoid the stop, but then
there were other problems (e.g., "unable to load shared library ...
LoadLibrary Failure: The specified module could not be found" and "Maximal
number of DLLs reached")
Besides "bcp" I saw problems with other packages, e.g., cairoDevice,
caMassClass, ... several others.
I'm using R 2.4.1with all CRAN packages installed that existed last week and
at least several Bioconductor packages installed by the biocLite procedure.
FWIW:
> length(pkgs)
[1] 957
Thanks for any suggestions.
efg
Earl F. Glynn
Scientific Programmer
Stower Institute
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