[R-pkg-devel] How to debug segfault when running build -> document in Rstudio that includes TMB module

[Serguei Sokol]

Le 24/01/2024 à 04:22, Carl Schwarz a écrit :
> I'm trying to update my SPAS package to respond to a CRAN check. Before
> starting the changes, I tried to rebuild my package, but now get a segfault
> when I try to do a devtools::document() or devtools::check(args =
> c('--as-cran')). See below for output from the Rstudio "Build" window.
> 
> I've
> - reinstalled ALL packages
> - reinstalled R (4.3.2 on MacOS Intel Chip)
> - reinstalled Rstudio
> 
> When I try a rebuild/document on a sister package it runs fine, so I
> suspect that the problem is related to using a TMB module that is part of
> the SPAS package written in Cpp.
> 
> How do I start to "debug" this to identify the problem?
Why not simply run devtools::document() from 'R -d gdb' ?

Best,
Serguei.

> 
> Thanks
> Carl Schwarz
> 
> 
> 
> 
> ==> devtools::document(roclets = c('rd', 'collate', 'namespace', 'vignette'))
> ℹ Updating SPAS documentationℹ Loading SPAS
> 
>   *** caught segfault ***
> address 0x54e40, cause 'memory not mapped'
> 
> Traceback:
>   1: dyn.load(dll_copy_file)
>   2: library.dynam2(path, lib)
>   3: load_dll(path)
>   4: pkgload::load_all(path, helpers = FALSE, attach_testthat = FALSE)
>   5: load_code(base_path)
>   6: roxygen2::roxygenise(pkg$path, roclets)
>   7: devtools::document(roclets = c("rd", "collate", "namespace",
> "vignette"))
>   8: withCallingHandlers(expr, packageStartupMessage = function(c)
> tryInvokeRestart("muffleMessage"))
>   9: suppressPackageStartupMessages({    oldLC <-
> Sys.getlocale(category = "LC_COLLATE")    Sys.setlocale(category =
> "LC_COLLATE", locale = "C")    on.exit(Sys.setlocale(category =
> "LC_COLLATE", locale = oldLC))    devtools::document(roclets = c("rd",
> "collate", "namespace",         "vignette"))})
> An irrecoverable exception occurred. R is aborting now ...
> 
> Exited with status 139.
> 
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> 
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