[package - main-amd64-default][graphics/R-cran-rgdal] Failed for R-cran-rgdal-1.6.7_2 in stage
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Date: Fri, 21 Jun 2024 23:16:44 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: tota@FreeBSD.org
Log URL: https://pkg-status.freebsd.org/beefy18/data/main-amd64-default/pf558721194b8_s42c545c5f8a/logs/R-cran-rgdal-1.6.7_2.log
Build URL: https://pkg-status.freebsd.org/beefy18/build.html?mastername=main-amd64-default&build=pf558721194b8_s42c545c5f8a
Log:
=>> Building graphics/R-cran-rgdal
build started at Fri Jun 21 23:16:21 UTC 2024
port directory: /usr/ports/graphics/R-cran-rgdal
package name: R-cran-rgdal-1.6.7_2
building for: FreeBSD main-amd64-default-job-09 15.0-CURRENT FreeBSD 15.0-CURRENT 1500019 amd64
maintained by: tota@FreeBSD.org
Makefile datestamp: -rw-r--r-- 1 root wheel 532 Apr 16 01:01 /usr/ports/graphics/R-cran-rgdal/Makefile
Ports top last git commit: f558721194b
Ports top unclean checkout: no
Port dir last git commit: e3ecaf6c0a8
Port dir unclean checkout: no
Poudriere version: poudriere-git-3.4.1-30-g79e3edcd
Host OSVERSION: 1500018
Jail OSVERSION: 1500019
Job Id: 09
!!! Jail is newer than host. (Jail: 1500019, Host: 1500018) !!!
!!! This is not supported. !!!
!!! Host kernel must be same or newer than jail. !!!
!!! Expect build failures. !!!
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F77="gfortran13" F90="gfortran13" FC="gfortran13" FFLAGS="-O -Wl,-rpath=/usr/local/lib/gcc13" F90FLAGS="-O -Wl,-rpath=/usr/local/lib/gcc13" FCFLAGS="-Wl,-rpath=/usr/local/lib/gcc13" PKG_CONFIG=pkgconf XDG_DATA_HOME=/wrkdirs/usr/ports/graphics/R-cran-rgdal/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/graphics/R-cran-rgdal/work XDG_CACHE_HOME=/wrkdirs/usr/ports/graphics/R-cran-rgdal/work/.cache HOME=/wrkdirs/usr/ports/graphics/R-cran-rgdal/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/graphics/R-cran-rgdal/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/graphics/R-cran-rgdal/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh
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PACKAGE_BUILDING=yes
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#### ####
# XXX: We really need this but cannot use it while 'make checksum' does not
# try the next mirror on checksum failure. It currently retries the same
# failed mirror and then fails rather then trying another. It *does*
# try the next if the size is mismatched though.
#MASTER_SITE_FREEBSD=yes
# Build ALLOW_MAKE_JOBS_PACKAGES with 3 jobs
MAKE_JOBS_NUMBER=3
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GID=0
UID=0
---End make.conf---
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file size (512-blocks, -f) unlimited
data seg size (kbytes, -d) 33554432
stack size (kbytes, -s) 524288
core file size (512-blocks, -c) unlimited
max memory size (kbytes, -m) unlimited
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--End resource limits--
=======================<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-rgdal-1.6.7_2 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.21.3.pkg
[main-amd64-default-job-09] Installing pkg-1.21.3...
[main-amd64-default-job-09] Extracting pkg-1.21.3: .......... done
===> R-cran-rgdal-1.6.7_2 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of R-cran-rgdal-1.6.7_2
===========================================================================
=======================<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-rgdal-1.6.7_2 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-rgdal-1.6.7_2 for building
=> SHA256 Checksum OK for rgdal_1.6-7.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-rgdal-1.6.7_2 for building
===> Extracting for R-cran-rgdal-1.6.7_2
=> SHA256 Checksum OK for rgdal_1.6-7.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-rgdal-1.6.7_2
===========================================================================
=======================<phase: build-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===> R-cran-rgdal-1.6.7_2 depends on package: R-cran-sp>=1.1.0 - not found
===> Installing existing package /packages/All/R-cran-sp-2.1.4.pkg
[main-amd64-default-job-09] Installing R-cran-sp-2.1.4...
[main-amd64-default-job-09] `-- Installing R-4.4.1...
[main-amd64-default-job-09] | `-- Installing cairo-1.17.4_2,3...
[main-amd64-default-job-09] | | `-- Installing fontconfig-2.15.0_2,1...
[main-amd64-default-job-09] | | `-- Installing expat-2.6.2...
[main-amd64-default-job-09] | | `-- Extracting expat-2.6.2: .......... done
[main-amd64-default-job-09] | | `-- Installing freetype2-2.13.2...
[main-amd64-default-job-09] | | | `-- Installing brotli-1.1.0,1...
<snip>
* installing *source* package 'rgdal' ...
** package 'rgdal' successfully unpacked and MD5 sums checked
** using staged installation
configure: R_HOME: /usr/local/lib/R
configure: CC: cc
configure: CXX: c++
configure: CFLAGS: -O2 -pipe -fstack-protector-strong -fno-strict-aliasing
configure: CPPFLAGS: -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include
configure: CXXFLAGS: -O2 -pipe -fstack-protector-strong -fno-strict-aliasing
configure: LDFLAGS: -Wl,-rpath=/usr/local/lib/gcc13 -L/usr/local/lib/gcc13 -fstack-protector-strong
configure: LDFLAGS: -Wl,-rpath=/usr/local/lib/gcc13 -L/usr/local/lib/gcc13 -fstack-protector-strong
configure: CXX17 is: c++, CXX17STD is: -std=gnu++17
configure: CXX is: c++ -std=gnu++17
configure: C++17 support available
configure: rgdal: 1.6-7
checking for /usr/bin/svnversion... no
configure: svn revision: 1203
checking for gdal-config... /usr/local/bin/gdal-config
checking gdal-config usability... yes
configure: GDAL: 3.9.0
checking GDAL version != 3.6.0... yes
checking GDAL version >= 1.11.4... yes
checking GDAL version <= 2.5 or >= 3.0... yes
checking GDAL: linking with --libs only... yes
checking GDAL: gdal-config data directory readable... yes
checking GDAL: /usr/local/share/gdal/stateplane.csv readable... yes
configure: pkg-config proj exists, will use it
configure: PROJ version: 9.4.0
configure: PROJ CPP flags: -DPROJ_H_API -I/usr/local/include
configure: PROJ LIBS: -L/usr/local/lib -lproj
checking PROJ header API:... yes
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 proj.h... yes
checking for proj_context_create in -lproj... yes
checking Using GDAL < 3 with PROJ >= 6... no
checking PROJ version >= 4.8.0... yes
checking PROJ: proj.db found and readable... yes
configure: Package CPP flags: -I/usr/local/include -I/usr/local/include -DPROJ_H_API
configure: Package LIBS: -L/usr/local/lib -lgdal -L/usr/local/lib -lproj
configure: creating ./config.status
config.status: creating src/Makevars
** libs
using C compiler: 'FreeBSD clang version 18.1.6 (https://github.com/llvm/llvm-project.git llvmorg-18.1.6-0-g1118c2e05e67)'
using C++ compiler: 'FreeBSD clang version 18.1.6 (https://github.com/llvm/llvm-project.git llvmorg-18.1.6-0-g1118c2e05e67)'
using C++17
gmake[1]: Entering directory '/wrkdirs/usr/ports/graphics/R-cran-rgdal/work/rgdal/src'
c++ -std=gnu++17 -I"/usr/local/lib/R/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DPROJ_H_API -I'/usr/local/lib/R/library/sp/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 OGR_write.cpp -o OGR_write.o
c++ -std=gnu++17 -I"/usr/local/lib/R/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DPROJ_H_API -I'/usr/local/lib/R/library/sp/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 gdal-bindings.cpp -o gdal-bindings.o
cc -I"/usr/local/lib/R/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DPROJ_H_API -I'/usr/local/lib/R/library/sp/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 -c init.c -o init.o
cc -I"/usr/local/lib/R/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DPROJ_H_API -I'/usr/local/lib/R/library/sp/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 -c inverser.c -o inverser.o
cc -I"/usr/local/lib/R/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DPROJ_H_API -I'/usr/local/lib/R/library/sp/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 -c local_stubs.c -o local_stubs.o
c++ -std=gnu++17 -I"/usr/local/lib/R/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DPROJ_H_API -I'/usr/local/lib/R/library/sp/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 ogr_geom.cpp -o ogr_geom.o
In file included from ogr_geom.cpp:14:
In file included from ./rgdal.h:5:
In file included from /usr/local/include/cpl_string.h:296:
In file included from /usr/include/c++/v1/vector:325:
In file included from /usr/include/c++/v1/__format/formatter_bool.h:20:
In file included from /usr/include/c++/v1/__format/formatter_integral.h:35:
In file included from /usr/include/c++/v1/locale:202:
/usr/include/c++/v1/__locale:804:28: error: too many arguments provided to function-like macro invocation
804 | length(state_type& __st, const extern_type* __frm, const extern_type* __end, size_t __mx) const {
| ^
/usr/local/lib/R/include/Rinternals.h:977:9: note: macro 'length' defined here
977 | #define length(x) Rf_length(x)
| ^
In file included from ogr_geom.cpp:14:
In file included from ./rgdal.h:5:
In file included from /usr/local/include/cpl_string.h:296:
In file included from /usr/include/c++/v1/vector:325:
In file included from /usr/include/c++/v1/__format/formatter_bool.h:20:
In file included from /usr/include/c++/v1/__format/formatter_integral.h:35:
In file included from /usr/include/c++/v1/locale:202:
/usr/include/c++/v1/__locale:803:3: error: '__abi_tag__' attribute only applies to structs, variables, functions, and namespaces
803 | _LIBCPP_HIDE_FROM_ABI int
| ^
/usr/include/c++/v1/__config:860:26: note: expanded from macro '_LIBCPP_HIDE_FROM_ABI'
860 | __attribute__((__abi_tag__(_LIBCPP_TOSTRING(_LIBCPP_ODR_SIGNATURE))))
| ^
In file included from ogr_geom.cpp:14:
In file included from ./rgdal.h:5:
In file included from /usr/local/include/cpl_string.h:296:
In file included from /usr/include/c++/v1/vector:325:
In file included from /usr/include/c++/v1/__format/formatter_bool.h:20:
In file included from /usr/include/c++/v1/__format/formatter_integral.h:35:
In file included from /usr/include/c++/v1/locale:202:
/usr/include/c++/v1/__locale:804:9: error: expected ';' at end of declaration list
804 | length(state_type& __st, const extern_type* __frm, const extern_type* __end, size_t __mx) const {
| ^
/usr/include/c++/v1/__locale:886:28: error: too many arguments provided to function-like macro invocation
886 | length(state_type& __st, const extern_type* __frm, const extern_type* __end, size_t __mx) const {
| ^
/usr/local/lib/R/include/Rinternals.h:977:9: note: macro 'length' defined here
977 | #define length(x) Rf_length(x)
| ^
In file included from ogr_geom.cpp:14:
In file included from ./rgdal.h:5:
In file included from /usr/local/include/cpl_string.h:296:
In file included from /usr/include/c++/v1/vector:325:
In file included from /usr/include/c++/v1/__format/formatter_bool.h:20:
In file included from /usr/include/c++/v1/__format/formatter_integral.h:35:
In file included from /usr/include/c++/v1/locale:202:
/usr/include/c++/v1/__locale:885:3: error: '__abi_tag__' attribute only applies to structs, variables, functions, and namespaces
885 | _LIBCPP_HIDE_FROM_ABI int
| ^
/usr/include/c++/v1/__config:860:26: note: expanded from macro '_LIBCPP_HIDE_FROM_ABI'
860 | __attribute__((__abi_tag__(_LIBCPP_TOSTRING(_LIBCPP_ODR_SIGNATURE))))
| ^
In file included from ogr_geom.cpp:14:
In file included from ./rgdal.h:5:
In file included from /usr/local/include/cpl_string.h:296:
In file included from /usr/include/c++/v1/vector:325:
In file included from /usr/include/c++/v1/__format/formatter_bool.h:20:
In file included from /usr/include/c++/v1/__format/formatter_integral.h:35:
In file included from /usr/include/c++/v1/locale:202:
/usr/include/c++/v1/__locale:886:9: error: expected ';' at end of declaration list
886 | length(state_type& __st, const extern_type* __frm, const extern_type* __end, size_t __mx) const {
| ^
/usr/include/c++/v1/__locale:967:28: error: too many arguments provided to function-like macro invocation
967 | length(state_type& __st, const extern_type* __frm, const extern_type* __end, size_t __mx) const {
| ^
/usr/local/lib/R/include/Rinternals.h:977:9: note: macro 'length' defined here
977 | #define length(x) Rf_length(x)
| ^
In file included from ogr_geom.cpp:14:
In file included from ./rgdal.h:5:
In file included from /usr/local/include/cpl_string.h:296:
In file included from /usr/include/c++/v1/vector:325:
In file included from /usr/include/c++/v1/__format/formatter_bool.h:20:
In file included from /usr/include/c++/v1/__format/formatter_integral.h:35:
In file included from /usr/include/c++/v1/locale:202:
/usr/include/c++/v1/__locale:966:3: error: '__abi_tag__' attribute only applies to structs, variables, functions, and namespaces
966 | _LIBCPP_HIDE_FROM_ABI int
| ^
/usr/include/c++/v1/__config:860:26: note: expanded from macro '_LIBCPP_HIDE_FROM_ABI'
860 | __attribute__((__abi_tag__(_LIBCPP_TOSTRING(_LIBCPP_ODR_SIGNATURE))))
| ^
In file included from ogr_geom.cpp:14:
In file included from ./rgdal.h:5:
In file included from /usr/local/include/cpl_string.h:296:
In file included from /usr/include/c++/v1/vector:325:
In file included from /usr/include/c++/v1/__format/formatter_bool.h:20:
In file included from /usr/include/c++/v1/__format/formatter_integral.h:35:
In file included from /usr/include/c++/v1/locale:202:
/usr/include/c++/v1/__locale:967:9: error: expected ';' at end of declaration list
967 | length(state_type& __st, const extern_type* __frm, const extern_type* __end, size_t __mx) const {
| ^
/usr/include/c++/v1/__locale:1130:28: error: too many arguments provided to function-like macro invocation
1130 | length(state_type& __st, const extern_type* __frm, const extern_type* __end, size_t __mx) const {
| ^
/usr/local/lib/R/include/Rinternals.h:977:9: note: macro 'length' defined here
977 | #define length(x) Rf_length(x)
| ^
In file included from ogr_geom.cpp:14:
In file included from ./rgdal.h:5:
In file included from /usr/local/include/cpl_string.h:296:
In file included from /usr/include/c++/v1/vector:325:
In file included from /usr/include/c++/v1/__format/formatter_bool.h:20:
In file included from /usr/include/c++/v1/__format/formatter_integral.h:35:
In file included from /usr/include/c++/v1/locale:202:
/usr/include/c++/v1/__locale:1129:3: error: '__abi_tag__' attribute only applies to structs, variables, functions, and namespaces
1129 | _LIBCPP_HIDE_FROM_ABI int
| ^
/usr/include/c++/v1/__config:860:26: note: expanded from macro '_LIBCPP_HIDE_FROM_ABI'
860 | __attribute__((__abi_tag__(_LIBCPP_TOSTRING(_LIBCPP_ODR_SIGNATURE))))
| ^
In file included from ogr_geom.cpp:14:
In file included from ./rgdal.h:5:
In file included from /usr/local/include/cpl_string.h:296:
In file included from /usr/include/c++/v1/vector:325:
In file included from /usr/include/c++/v1/__format/formatter_bool.h:20:
In file included from /usr/include/c++/v1/__format/formatter_integral.h:35:
In file included from /usr/include/c++/v1/locale:202:
/usr/include/c++/v1/__locale:1130:9: error: expected ';' at end of declaration list
1130 | length(state_type& __st, const extern_type* __frm, const extern_type* __end, size_t __mx) const {
| ^
12 errors generated.
gmake[1]: *** [/usr/local/lib/R/etc/Makeconf:202: ogr_geom.o] Error 1
gmake[1]: Leaving directory '/wrkdirs/usr/ports/graphics/R-cran-rgdal/work/rgdal/src'
ERROR: compilation failed for package 'rgdal'
* removing '/wrkdirs/usr/ports/graphics/R-cran-rgdal/work/stage/usr/local/lib/R/library/rgdal'
*** Error code 1
Stop.
make: stopped in /usr/ports/graphics/R-cran-rgdal