I'm having a strange problem compiling R4.4.0 on an AlmaLinux9 box. I've
compiled previous versions OK on the same hardware/software (last was R4.3.2)
but 4.4.0 is repeatedly failing.
Configuration works OK.
./configure --prefix=/bi/apps/R/4.4.0 --enable-R-shlib
R is now configured for x86_64-pc-linux-gnu
Source directory: .
Installation directory: /bi/apps/R/4.4.0
C compiler: gcc -g -O2
Fortran fixed-form compiler: gfortran -g -O2
Default C++ compiler: g++ -std=gnu++17 -g -O2
C++11 compiler: g++ -std=gnu++11 -g -O2
C++14 compiler: g++ -std=gnu++14 -g -O2
C++17 compiler: g++ -std=gnu++17 -g -O2
C++20 compiler: g++ -std=gnu++20 -g -O2
C++23 compiler: g++ -std=gnu++23 -g -O2
Fortran free-form compiler: gfortran -g -O2
Obj-C compiler:
Interfaces supported: X11
External libraries: pcre2, readline, LAPACK(generic), curl
Additional capabilities: PNG, JPEG, TIFF, NLS, cairo, ICU
Options enabled: shared R library, shared BLAS, R profiling
Capabilities skipped:
Options not enabled: memory profiling
Recommended packages: yes
configure: WARNING: neither inconsolata.sty nor zi4.sty found: PDF vignettes
and package manuals will not be rendered optimally
configure: WARNING: I could not determine a browser
configure: WARNING: I could not determine a PDF viewer
..but after running make it gets though most of it then dies with:
make[4]: Entering directory '/bi/apps/R/R-4.4.0/src/library/grDevices'
byte-compiling package 'grDevices'
*** caught segfault ***
address 0x18017a8110, 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
I can reproduce the error directly by running make in
/bi/apps/R/R-4.4.0/src/library/grDevices. Nothing strange is in my
environment, I'm using the stock version of make and gcc
$ which make
/usr/bin/make
$ which gcc
/usr/bin/gcc
$ make --version
GNU Make 4.3
Built for x86_64-redhat-linux-gnu
$ gcc --version
gcc (GCC) 11.4.1 20230605 (Red Hat 11.4.1-2)
I can't find any other instances of others hitting the same problem.
Any suggestions for what this could be?
Thanks
Simon.
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