[package - main-powerpc64le-default][math/R-cran-units] Failed for R-cran-units-0.8.5 in stage
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Date: Mon, 12 Feb 2024 07:52:33 UTC
You are receiving this mail as a port that you maintain
is failing to build on the FreeBSD package build server.
Please investigate the failure and submit a PR to fix
build.
Maintainer: eduardo@FreeBSD.org
Log URL: https://pkg-status.freebsd.org/foul2/data/main-powerpc64le-default/p2577ea660d37_s4347ef6050/logs/R-cran-units-0.8.5.log
Build URL: https://pkg-status.freebsd.org/foul2/build.html?mastername=main-powerpc64le-default&build=p2577ea660d37_s4347ef6050
Log:
=>> Building math/R-cran-units
build started at Mon Feb 12 07:49:33 UTC 2024
port directory: /usr/ports/math/R-cran-units
package name: R-cran-units-0.8.5
building for: FreeBSD main-powerpc64le-default-job-06 15.0-CURRENT FreeBSD 15.0-CURRENT 1500008 powerpc
maintained by: eduardo@FreeBSD.org
Makefile datestamp: -rw-r--r-- 1 root wheel 597 Dec 14 01:03 /usr/ports/math/R-cran-units/Makefile
Ports top last git commit: 2577ea660d
Ports top unclean checkout: no
Port dir last git commit: d7f44e950a
Port dir unclean checkout: no
Poudriere version: poudriere-git-3.4.1
Host OSVERSION: 1500000
Jail OSVERSION: 1500008
Job Id: 06
!!! Jail is newer than host. (Jail: 1500008, Host: 1500000) !!!
!!! This is not supported. !!!
!!! Host kernel must be same or newer than jail. !!!
!!! Expect build failures. !!!
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--CONFIGURE_ENV--
F77="gfortran12" F90="gfortran12" FC="gfortran12" FFLAGS="-O -Wl,-rpath=/usr/local/lib/gcc12" F90FLAGS="-O -Wl,-rpath=/usr/local/lib/gcc12" FCFLAGS="-Wl,-rpath=/usr/local/lib/gcc12" XDG_DATA_HOME=/wrkdirs/usr/ports/math/R-cran-units/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/math/R-cran-units/work XDG_CACHE_HOME=/wrkdirs/usr/ports/math/R-cran-units/work/.cache HOME=/wrkdirs/usr/ports/math/R-cran-units/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/math/R-cran-units/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/math/R-cran-units/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh
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--PLIST_SUB--
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#### ####
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kqueues (-k) unlimited
umtx shared locks (-o) unlimited
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=======================<phase: check-sanity >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License GPLv2 accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===> R-cran-units-0.8.5 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.20.9_1.pkg
[main-powerpc64le-default-job-06] Installing pkg-1.20.9_1...
[main-powerpc64le-default-job-06] Extracting pkg-1.20.9_1: .......... done
===> R-cran-units-0.8.5 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of R-cran-units-0.8.5
===========================================================================
=======================<phase: fetch-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: fetch >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License GPLv2 accepted by the user
===> Fetching all distfiles required by R-cran-units-0.8.5 for building
===========================================================================
=======================<phase: checksum >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License GPLv2 accepted by the user
===> Fetching all distfiles required by R-cran-units-0.8.5 for building
=> SHA256 Checksum OK for units_0.8-5.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: extract >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License GPLv2 accepted by the user
===> Fetching all distfiles required by R-cran-units-0.8.5 for building
===> Extracting for R-cran-units-0.8.5
=> SHA256 Checksum OK for units_0.8-5.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: patch >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> Patching for R-cran-units-0.8.5
===========================================================================
=======================<phase: build-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===> R-cran-units-0.8.5 depends on package: R-cran-Rcpp>=0.12.10 - not found
===> Installing existing package /packages/All/R-cran-Rcpp-1.0.12.pkg
[main-powerpc64le-default-job-06] Installing R-cran-Rcpp-1.0.12...
[main-powerpc64le-default-job-06] `-- Installing R-4.3.2_2...
[main-powerpc64le-default-job-06] | `-- Installing cairo-1.17.4_2,3...
[main-powerpc64le-default-job-06] | | `-- Installing fontconfig-2.15.0_2,1...
[main-powerpc64le-default-job-06] | | `-- Installing expat-2.5.0_1...
[main-powerpc64le-default-job-06] | | `-- Extracting expat-2.5.0_1: .......... done
[main-powerpc64le-default-job-06] | | `-- Installing freetype2-2.13.2...
[main-powerpc64le-default-job-06] | | | `-- Installing brotli-1.1.0,1...
[main-powerpc64le-default-job-06] | | | `-- Extracting brotli-1.1.0,1: .......... done
[main-powerpc64le-default-job-06] | | | `-- Installing png-1.6.40...
[main-powerpc64le-default-job-06] | | | `-- Extracting png-1.6.40: .......... done
[main-powerpc64le-default-job-06] | | `-- Extracting freetype2-2.13.2: .......... done
[main-powerpc64le-default-job-06] | | `-- Extracting fontconfig-2.15.0_2,1: .......... done
[main-powerpc64le-default-job-06] | | `-- Installing gettext-runtime-0.22.3_1...
[main-powerpc64le-default-job-06] | | `-- Installing indexinfo-0.3.1...
<snip>
For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens
transparently.
=====
Message from ghostscript10-10.02.1_2:
--
This package installs a script named dvipdf that depends on dvips. If you
want to use this script you need to install print/tex-dvipsk.
=====
Message from libthai-0.1.29:
--
===> NOTICE:
The libthai port currently does not have a maintainer. As a result, it is
more likely to have unresolved issues, not be up-to-date, or even be removed in
the future. To volunteer to maintain this port, please create an issue at:
https://bugs.freebsd.org/bugzilla
More information about port maintainership is available at:
https://docs.freebsd.org/en/articles/contributing/#ports-contributing
=====
Message from dejavu-2.37_3:
--
Make sure that the freetype module is loaded. If it is not, add the following
line to the "Modules" section of your X Windows configuration file:
Load "freetype"
Add the following line to the "Files" section of X Windows configuration file:
FontPath "/usr/local/share/fonts/dejavu/"
Note: your X Windows configuration file is typically /etc/X11/XF86Config
if you are using XFree86, and /etc/X11/xorg.conf if you are using X.Org.
===> R-cran-units-0.8.5 depends on package: R-cran-Rcpp>=0.12.10 - found
===> Returning to build of R-cran-units-0.8.5
===> R-cran-units-0.8.5 depends on file: /usr/local/bin/R - found
===> R-cran-units-0.8.5 depends on executable: gfortran12 - found
===> R-cran-units-0.8.5 depends on file: /usr/local/bin/as - found
===========================================================================
=======================<phase: lib-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===> R-cran-units-0.8.5 depends on shared library: libexpat.so - found (/usr/local/lib/libexpat.so)
===> R-cran-units-0.8.5 depends on shared library: libudunits2.so - not found
===> Installing existing package /packages/All/udunits-2.2.28.pkg
[main-powerpc64le-default-job-06] Installing udunits-2.2.28...
[main-powerpc64le-default-job-06] Extracting udunits-2.2.28: .......... done
===> R-cran-units-0.8.5 depends on shared library: libudunits2.so - found (/usr/local/lib/libudunits2.so)
===> Returning to build of R-cran-units-0.8.5
===========================================================================
=======================<phase: configure >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> Configuring for R-cran-units-0.8.5
===========================================================================
=======================<phase: build >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===========================================================================
=======================<phase: run-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===> R-cran-units-0.8.5 depends on package: R-cran-Rcpp>=0.12.10 - found
===> R-cran-units-0.8.5 depends on file: /usr/local/bin/R - found
===> R-cran-units-0.8.5 depends on executable: gfortran12 - found
===========================================================================
=======================<phase: stage >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> Staging for R-cran-units-0.8.5
===> Generating temporary packing list
* installing *source* package 'units' ...
** package 'units' successfully unpacked and MD5 sums checked
** using staged installation
configure: units: 0.8-5
checking whether the C++ compiler works... yes
checking for C++ compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether the compiler supports GNU C++... yes
checking whether c++ -std=gnu++17 accepts -g... yes
checking for c++ -std=gnu++17 option to enable C++11 features... none needed
checking for stdio.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for strings.h... yes
checking for sys/stat.h... yes
checking for sys/types.h... yes
checking for unistd.h... yes
checking for _Bool... no
checking for stdbool.h that conforms to C99... yes
checking for error_at_line... no
checking for gcc... cc
checking whether the compiler supports GNU C... yes
checking whether cc accepts -g... yes
checking for cc option to enable C11 features... none needed
checking for XML_ParserCreate in -lexpat... yes
checking for udunits2.h... yes
checking for ut_read_xml in -ludunits2... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
using C++ compiler: 'FreeBSD clang version 17.0.6 (https://github.com/llvm/llvm-project.git llvmorg-17.0.6-0-g6009708b4367)'
gmake[1]: Entering directory '/wrkdirs/usr/ports/math/R-cran-units/work/units/src'
c++ -std=gnu++17 -I"/usr/local/lib/R/include" -DNDEBUG -DUDUNITS2_DIR=0 -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -I'/usr/local/lib/R/library/Rcpp/include' -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -fPIC -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DLIBICONV_PLUG -isystem /usr/local/include -c RcppExports.cpp -o RcppExports.o
c++ -std=gnu++17 -I"/usr/local/lib/R/include" -DNDEBUG -DUDUNITS2_DIR=0 -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -I'/usr/local/lib/R/library/Rcpp/include' -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -fPIC -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DLIBICONV_PLUG -isystem /usr/local/include -c udunits.cpp -o udunits.o
c++ -std=gnu++17 -shared -L/usr/local/lib/R/lib -Wl,-rpath=/usr/local/lib/gcc12 -L/usr/local/lib/gcc12 -L/usr/local/lib -fstack-protector-strong -o units.so RcppExports.o udunits.o -lexpat -lexpat -ludunits2 -L/usr/local/lib/R/lib -lR
gmake[1]: Leaving directory '/wrkdirs/usr/ports/math/R-cran-units/work/units/src'
installing to /wrkdirs/usr/ports/math/R-cran-units/work/stage/usr/local/lib/R/library/00LOCK-units/00new/units/libs
** R
** demo
** inst
** tests
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
*** caught segfault ***
address 0x0, cause 'memory not mapped'
Traceback:
1: R_ut_parse(u)
2: doTryCatch(return(expr), name, parentenv, handler)
3: tryCatchOne(expr, names, parentenv, handlers[[1L]])
4: tryCatchList(expr, classes, parentenv, handlers)
5: 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))})
6: try(R_ut_parse(u), silent = TRUE)
7: ud_is_parseable("B")
8: fun(libname, pkgname)
9: doTryCatch(return(expr), name, parentenv, handler)
10: tryCatchOne(expr, names, parentenv, handlers[[1L]])
11: tryCatchList(expr, classes, parentenv, handlers)
12: tryCatch(fun(libname, pkgname), error = identity)
13: runHook(".onLoad", env, package.lib, package)
14: loadNamespace(package, lib.loc)
15: doTryCatch(return(expr), name, parentenv, handler)
16: tryCatchOne(expr, names, parentenv, handlers[[1L]])
17: tryCatchList(expr, classes, parentenv, handlers)
18: 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)})
19: library(pkg_name, lib.loc = lib, character.only = TRUE, logical.return = TRUE)
20: withCallingHandlers(expr, packageStartupMessage = function(c) tryInvokeRestart("muffleMessage"))
21: suppressPackageStartupMessages(library(pkg_name, lib.loc = lib, character.only = TRUE, logical.return = TRUE))
22: doTryCatch(return(expr), name, parentenv, handler)
23: tryCatchOne(expr, names, parentenv, handlers[[1L]])
24: tryCatchList(expr, classes, parentenv, handlers)
25: 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))})
26: try(suppressPackageStartupMessages(library(pkg_name, lib.loc = lib, character.only = TRUE, logical.return = TRUE)))
27: tools:::.test_load_package("units", "/wrkdirs/usr/ports/math/R-cran-units/work/stage/usr/local/lib/R/library/00LOCK-units/00new")
An irrecoverable exception occurred. R is aborting now ...
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
*** caught segfault ***
address 0x0, cause 'memory not mapped'
Traceback:
1: R_ut_parse(u)
2: doTryCatch(return(expr), name, parentenv, handler)
3: tryCatchOne(expr, names, parentenv, handlers[[1L]])
4: tryCatchList(expr, classes, parentenv, handlers)
5: 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))})
6: try(R_ut_parse(u), silent = TRUE)
7: ud_is_parseable("B")
8: fun(libname, pkgname)
9: doTryCatch(return(expr), name, parentenv, handler)
10: tryCatchOne(expr, names, parentenv, handlers[[1L]])
11: tryCatchList(expr, classes, parentenv, handlers)
12: tryCatch(fun(libname, pkgname), error = identity)
13: runHook(".onLoad", env, package.lib, package)
14: loadNamespace(package, lib.loc)
15: doTryCatch(return(expr), name, parentenv, handler)
16: tryCatchOne(expr, names, parentenv, handlers[[1L]])
17: tryCatchList(expr, classes, parentenv, handlers)
18: 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)})
19: library(pkg_name, lib.loc = lib, character.only = TRUE, logical.return = TRUE)
20: withCallingHandlers(expr, packageStartupMessage = function(c) tryInvokeRestart("muffleMessage"))
21: suppressPackageStartupMessages(library(pkg_name, lib.loc = lib, character.only = TRUE, logical.return = TRUE))
22: doTryCatch(return(expr), name, parentenv, handler)
23: tryCatchOne(expr, names, parentenv, handlers[[1L]])
24: tryCatchList(expr, classes, parentenv, handlers)
25: 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))})
26: try(suppressPackageStartupMessages(library(pkg_name, lib.loc = lib, character.only = TRUE, logical.return = TRUE)))
27: tools:::.test_load_package("units", "/wrkdirs/usr/ports/math/R-cran-units/work/stage/usr/local/lib/R/library")
An irrecoverable exception occurred. R is aborting now ...
** testing if installed package keeps a record of temporary installation path
Warning in file(con, "rb") :
cannot open file '/tmp/RtmpsF3DhN/filee52c1c3f24ae': No such file or directory
Error in file(con, "rb") : cannot open the connection
* removing '/wrkdirs/usr/ports/math/R-cran-units/work/stage/usr/local/lib/R/library/units'
*** Error code 1
Stop.
make: stopped in /usr/ports/math/R-cran-units