[R-SIG-Mac] 4.3.1 fails to load

[Duncan Murdoch]

On 23/07/2023 11:51 a.m., Carl Witthoft wrote:
> Problem fixed but not solved.
> On previous updates to R, I always copied all the packages (that aren't
> part of the base installation) from the previous version's Library
> folder to the new version's Library folder, and then updated when I
> actually use them.
> The fix for my problem was to run "Update All" before trying to load any
> library.

You should run

  update.packages(ask = FALSE, checkBuilt = TRUE)

to make sure all packages are properly installed for 4.3.1.  In general, 
installing a package for x.y.z should let it work in x.y.(z+1), but not 
in x.(y+1).z'.  Errors like that are what "checkBuilt" is looking for. 
I don't know what "Update All" is doing; that's some front end calling R.

Duncan Murdoch


> The problem remains not-solved, because (prior to updating everything),
> any attempt to run
> 
>   >>  library(any_package)
> 
> would cause  failure similar to those I posted previously.  So, while
> I'm reasonably confident that R 4.3.1 doesn't play nicely with 4.2 -
> level libraries, I most definitely cannot point to any particular
> library.  The deepest level of the traceback report for  ggplot2 was
> 
> 1: dyn.load(file, DLLpath = DLLpath, ...)
> 
> but when trying to load gmp, get the traceback quoted below.
> 
> 
> carl
> 
> 
> 
> 
> On 7/22/23 8:09 PM, r-sig-mac-request using r-project.org wrote:
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>> Today's Topics:
>>
>>      1.  R 4.3.1 fails to load (Carl Witthoft)
>>      2. Re:  R 4.3.1 fails to load (David Winsemius)
>>      3. Re:  R 4.3.1 fails to load (David Winsemius)
>>      4. Re:  R 4.3.1 fails to load (Carl Witthoft)
>>      5. Re:  R 4.3.1 fails to load (Duncan Murdoch)
>>
>> ----------------------------------------------------------------------
>>
>> Message: 1
>> Date: Sat, 22 Jul 2023 16:29:59 -0400
>> From: Carl Witthoft <carl using witthoft.com>
>> To: "r-sig-mac using r-project.org" <r-sig-mac using r-project.org>
>> Subject: [R-SIG-Mac] R 4.3.1 fails to load
>> Message-ID: <fddd144b-412b-7907-c3d3-96c83f4cfa02 using witthoft.com>
>> Content-Type: text/plain; charset="utf-8"; Format="flowed"
>>
>> Neither R.app Gui nor R from command line will work.
>> This is 4.3.1 ,  MacOS 13.4  on an x86 (and yes, that's the version I
>> installed).
>>
>>     Heres the error traceback from the command line:
>>
>> *** caught segfault ***
>> address 0x0, cause 'memory not mapped'
>>
>> Traceback:
>>     1: as.bigz(NA)
>>     2: fun(libname, pkgname)
>>     3: doTryCatch(return(expr), name, parentenv, handler)
>>     4: tryCatchOne(expr, names, parentenv, handlers[[1L]])
>>     5: tryCatchList(expr, classes, parentenv, handlers)
>>     6: tryCatch(fun(libname, pkgname), error = identity)
>>     7: runHook(".onLoad", env, package.lib, package)
>>     8: loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck =
>> vI[[j]])
>>     9: asNamespace(ns)
>> 10: namespaceImportFrom(ns, loadNamespace(j <- i[[1L]], c(lib.loc,
>> .libPaths()), versionCheck = vI[[j]]), i[[2L]], from = package)
>> 11: loadNamespace(package, lib.loc)
>> 12: doTryCatch(return(expr), name, parentenv, handler)
>> 13: tryCatchOne(expr, names, parentenv, handlers[[1L]])
>> 14: tryCatchList(expr, classes, parentenv, handlers)
>> 15: tryCatch({    attr(package, "LibPath") <- which.lib.loc    ns <-
>> loadNamespace(package, lib.loc)    env <- attachNamespace(ns, pos = pos,
>> deps, exclude, include.only)}, error = function(e) {    P <- if
>> (!is.null(cc <- conditionCall(e)))         paste(" in", deparse(cc)[1L])
>>       else ""    msg <- gettextf("package or namespace load failed for
>> %s%s:\n %s",         sQuote(package), P, conditionMessage(e))    if
>> (logical.return && !quietly)         message(paste("Error:", msg),
>> domain = NA)    else stop(msg, call. = FALSE, domain = NA)})
>> 16: library(cgwtools)
>>
>> Possible actions:
>> 1: abort (with core dump, if enabled)
>> 2: normal R exit
>> 3: exit R without saving workspace
>> 4: exit R saving workspace
>>
>>
>