[R] grDevices segfault when building R4.4.0 on RHEL 9.1.

[Miguel Esteva]

Hi all,

I seem to be getting segfaults when attempting to build R 4.4.0 on RHEL 9.1 (5.14.0-162.23.1.el9_1.x86_64). Interestingly, it seems to build ok on Rocky 9.1 and 9.3. This is the trace:


make[3]: Entering directory '/home/esteva.m/R/R-4.4.0/src/library/grDevices'

building package 'grDevices'

make[4]: Entering directory '/home/esteva.m/R/R-4.4.0/src/library/grDevices'

all.R is unchanged

make[4]: Leaving directory '/home/esteva.m/R/R-4.4.0/src/library/grDevices'

make[4]: Entering directory '/home/esteva.m/R/R-4.4.0/src/library/grDevices'

make[5]: Entering directory '/home/esteva.m/R/R-4.4.0/src/library/grDevices/src'

make[6]: Entering directory '/home/esteva.m/R/R-4.4.0/src/library/grDevices/src'

../../../../library/grDevices/libs/grDevices.so is unchanged

make[7]: Entering directory '/home/esteva.m/R/R-4.4.0/src/library/grDevices/src/cairo'

make[8]: Entering directory '/home/esteva.m/R/R-4.4.0/src/library/grDevices/src/cairo'

make[9]: Entering directory '/home/esteva.m/R/R-4.4.0/src/library/grDevices/src/cairo'

make[9]: 'cairo.so' is up to date.

make[9]: Leaving directory '/home/esteva.m/R/R-4.4.0/src/library/grDevices/src/cairo'

make[8]: Leaving directory '/home/esteva.m/R/R-4.4.0/src/library/grDevices/src/cairo'

make[7]: Leaving directory '/home/esteva.m/R/R-4.4.0/src/library/grDevices/src/cairo'

make[6]: Leaving directory '/home/esteva.m/R/R-4.4.0/src/library/grDevices/src'

make[5]: Leaving directory '/home/esteva.m/R/R-4.4.0/src/library/grDevices/src'

make[4]: Leaving directory '/home/esteva.m/R/R-4.4.0/src/library/grDevices'

make[4]: Entering directory '/home/esteva.m/R/R-4.4.0/src/library/grDevices'
byte-compiling package 'grDevices'


 *** caught segfault ***

address 0x1801fa8f70, cause 'memory not mapped'


Traceback:

 1: solve.default(rgb)

 2: solve(rgb)

 3: drop(whitexyz %*% solve(rgb))

 4: make.rgb(red = c(0.625, 0.34), green = c(0.28, 0.595), blue = c(0.155,     0.07), gamma = 1.8, white = "D65", name = "Apple RGB")

 5: eval(exprs[i], envir)

 6: eval(exprs[i], envir)

 7: sys.source(codeFile, env, keep.source = keep.source, keep.parse.data = keep.parse.data)

 8: doTryCatch(return(expr), name, parentenv, handler)

 9: tryCatchOne(expr, names, parentenv, handlers[[1L]])

10: tryCatchList(expr, classes, parentenv, handlers)

11: tryCatch(expr, error = function(e) {    call <- conditionCall(e)    if (!is.null(call)) {        if (identical(call[[1L]], quote(doTryCatch)))             call <- sys.call(-4L)        dcall <- deparse(call, nlines = 1L)        prefix <- paste("Error in", dcall, ": ")        LONG <- 75L        sm <- strsplit(conditionMessage(e), "\n")[[1L]]        w <- 14L + nchar(dcall, type = "w") + nchar(sm[1L], type = "w")        if (is.na(w))             w <- 14L + nchar(dcall, type = "b") + nchar(sm[1L],                 type = "b")        if (w > LONG)             prefix <- paste0(prefix, "\n  ")    }    else prefix <- "Error : "    msg <- paste0(prefix, conditionMessage(e), "\n")    .Internal(seterrmessage(msg[1L]))    if (!silent && isTRUE(getOption("show.error.messages"))) {        cat(msg, file = outFile)        .Internal(printDeferredWarnings())    }    invisible(structure(msg, class = "try-error", condition = e))})

12: try(sys.source(codeFile, env, keep.source = keep.source, keep.parse.data = keep.parse.data))

13: loadNamespace(package = package, lib.loc = lib.loc, keep.source = keep.source,     keep.parse.data = keep.parse.data, partial = TRUE)

14: withCallingHandlers(expr, packageStartupMessage = function(c) tryInvokeRestart("muffleMessage"))

15: suppressPackageStartupMessages(loadNamespace(package = package,     lib.loc = lib.loc, keep.source = keep.source, keep.parse.data = keep.parse.data,     partial = TRUE))

16: code2LazyLoadDB(package, lib.loc = lib.loc, keep.source = keep.source,     keep.parse.data = keep.parse.data, compress = compress, set.install.dir = set.install.dir)

17: tools:::makeLazyLoading("grDevices")

An irrecoverable exception occurred. R is aborting now ...

make[4]: *** [../../../share/make/lazycomp.mk:9: ../../../library/grDevices/R/grDevices.rdb] Error 139

make[4]: Leaving directory '/home/esteva.m/R/R-4.4.0/src/library/grDevices'

make[3]: *** [Makefile:28: all] Error 2

make[3]: Leaving directory '/home/esteva.m/R/R-4.4.0/src/library/grDevices'

make[2]: *** [Makefile:39: R] Error 1

make[2]: Leaving directory '/home/esteva.m/R/R-4.4.0/src/library'

make[1]: *** [Makefile:28: R] Error 1

make[1]: Leaving directory '/home/esteva.m/R/R-4.4.0/src'

make: *** [Makefile:62: R] Error 1


Has anyone run into this?

cairo-1.17.4-7.el9.x86_64
cairo-gobject-1.17.4-7.el9.x86_64
cairo-devel-1.17.4-7.el9.x86_64
cairo-gobject-devel-1.17.4-7.el9.x86_64
pango-1.48.7-3.el9.x86_64
pango-devel-1.48.7-3.el9.x86_64

Cheers,


Miguel Esteva


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