[package - main-amd64-default][science/votca] Failed for votca-2021.2.18560 in configure
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Date: Thu, 30 Dec 2021 01:31:31 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: yuri@FreeBSD.org
Log URL: http://beefy18.nyi.freebsd.org/data/main-amd64-default/pb62f24f32e66_sc3a688ef4d/logs/votca-2021.2.18560.log
Build URL: http://beefy18.nyi.freebsd.org/build.html?mastername=main-amd64-default&build=pb62f24f32e66_sc3a688ef4d
Log:
=>> Building science/votca
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
build started at Thu Dec 30 01:30:39 UTC 2021
port directory: /usr/ports/science/votca
package name: votca-2021.2.18560
building for: FreeBSD main-amd64-default-job-05 14.0-CURRENT FreeBSD 14.0-CURRENT 1400045 amd64
maintained by: yuri@FreeBSD.org
Makefile ident:
Poudriere version: 3.2.8-21-g883afb07
Host OSVERSION: 1400042
Jail OSVERSION: 1400045
Job Id: 05
!!! Jail is newer than host. (Jail: 1400045, Host: 1400042) !!!
!!! This is not supported. !!!
!!! Host kernel must be same or newer than jail. !!!
!!! Expect build failures. !!!
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ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
===> The following configuration options are available for votca-2021.2.18560:
APPS=on: Build applications
===> Use 'make config' to modify these settings
---End OPTIONS List---
--MAINTAINER--
yuri@FreeBSD.org
--End MAINTAINER--
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ac_cv_path_PERL=/usr/local/bin/perl ac_cv_path_PERL_PATH=/usr/local/bin/perl PERL_USE_UNSAFE_INC=1 PKG_CONFIG=pkgconf PYTHON="/usr/local/bin/python3.8" XDG_DATA_HOME=/wrkdirs/usr/ports/science/votca/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/votca/work XDG_CACHE_HOME=/wrkdirs/usr/ports/science/votca/work/.cache HOME=/wrkdirs/usr/ports/science/votca/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/science/votca/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh
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NINJA_STATUS="[%p %s/%t] " PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/science/votca/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/votca/work XDG_CACHE_HOME=/wrkdirs/usr/ports/science/votca/work/.cache HOME=/wrkdirs/usr/ports/science/votca/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/science/votca/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES DESTDIR=/wrkdirs/usr/ports/science/votca/work/stage PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 44
4"
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--End PLIST_SUB--
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APPS="" NO_APPS="@comment " PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/votca DOCSDIR=/usr/local/share/doc/votca EXAMPLESDIR=/usr/local/share/examples/votca WWWDIR=/usr/local/www/votca ETCDIR=/usr/local/etc/votca
--End SUB_LIST--
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MAKE_JOBS_NUMBER=2
#### /usr/ports/Mk/Scripts/ports_env.sh ####
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ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
=======================<phase: check-sanity >============================
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
===> License APACHE20 accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
===> votca-2021.2.18560 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.17.5.pkg
[main-amd64-default-job-05] Installing pkg-1.17.5...
[main-amd64-default-job-05] Extracting pkg-1.17.5: .......... done
===> votca-2021.2.18560 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of votca-2021.2.18560
===========================================================================
=======================<phase: fetch-depends >============================
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
===========================================================================
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
=======================<phase: fetch >============================
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
<snip>
[main-amd64-default-job-05] | `-- Extracting py38-cycler-0.11.0: .......... done
[main-amd64-default-job-05] | `-- Installing py38-dateutil-2.8.1...
[main-amd64-default-job-05] | | `-- Installing py38-six-1.16.0...
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[main-amd64-default-job-05] | `-- Extracting py38-dateutil-2.8.1: .......... done
[main-amd64-default-job-05] | `-- Installing py38-kiwisolver-1.1.0,1...
[main-amd64-default-job-05] | `-- Extracting py38-kiwisolver-1.1.0,1: ......... done
[main-amd64-default-job-05] | `-- Installing py38-pillow-8.2.0...
[main-amd64-default-job-05] | | `-- Installing lcms2-2.12...
[main-amd64-default-job-05] | | `-- Installing tiff-4.3.0...
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[main-amd64-default-job-05] | | `-- Extracting tiff-4.3.0: .......... done
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[main-amd64-default-job-05] | | `-- Installing libraqm-0.7.1...
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[main-amd64-default-job-05] | | `-- Installing openjpeg-2.4.0...
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[main-amd64-default-job-05] | | `-- Installing py38-tkinter-3.8.12_6...
[main-amd64-default-job-05] | | `-- Installing tcl86-8.6.12...
[main-amd64-default-job-05] | | `-- Extracting tcl86-8.6.12: .......... done
[main-amd64-default-job-05] | | `-- Installing tk86-8.6.12...
[main-amd64-default-job-05] | | | `-- Installing libXScrnSaver-1.2.3_2...
[main-amd64-default-job-05] | | | `-- Extracting libXScrnSaver-1.2.3_2: .......... done
[main-amd64-default-job-05] | | | `-- Installing libXft-2.3.4...
[main-amd64-default-job-05] | | | `-- Installing libXrender-0.9.10_2...
[main-amd64-default-job-05] | | | `-- Extracting libXrender-0.9.10_2: .......... done
[main-amd64-default-job-05] | | | `-- Extracting libXft-2.3.4: .......... done
[main-amd64-default-job-05] | | `-- Extracting tk86-8.6.12: .......... done
[main-amd64-default-job-05] | | `-- Extracting py38-tkinter-3.8.12_6: ........ done
[main-amd64-default-job-05] | | `-- Installing webp-1.2.1...
[main-amd64-default-job-05] | | `-- Installing giflib-5.2.1...
[main-amd64-default-job-05] | | `-- Extracting giflib-5.2.1: .......... done
[main-amd64-default-job-05] | | `-- Extracting webp-1.2.1: .......... done
[main-amd64-default-job-05] | `-- Extracting py38-pillow-8.2.0: .......... done
[main-amd64-default-job-05] | `-- Installing py38-pluggy-0.13.1...
[main-amd64-default-job-05] | `-- Extracting py38-pluggy-0.13.1: .......... done
[main-amd64-default-job-05] | `-- Installing py38-pyparsing-3.0.6...
[main-amd64-default-job-05] | `-- Extracting py38-pyparsing-3.0.6: .......... done
[main-amd64-default-job-05] | `-- Installing py38-pytz-2021.3,1...
[main-amd64-default-job-05] | `-- Extracting py38-pytz-2021.3,1: .......... done
[main-amd64-default-job-05] | `-- Installing py38-tornado-6.1...
[main-amd64-default-job-05] | `-- Extracting py38-tornado-6.1: .......... done
[main-amd64-default-job-05] | `-- Installing qhull-7.3.2_2,1...
[main-amd64-default-job-05] | `-- Extracting qhull-7.3.2_2,1: .......... done
[main-amd64-default-job-05] `-- Extracting py38-matplotlib-3.4.3: .......... done
[main-amd64-default-job-05] `-- Installing py38-reportlab-3.5.68...
[main-amd64-default-job-05] | `-- Installing adobe-cmaps-20051217_4...
[main-amd64-default-job-05] | | `-- Installing mkfontscale-1.2.1...
[main-amd64-default-job-05] | | `-- Installing libfontenc-1.1.4...
[main-amd64-default-job-05] | | `-- Extracting libfontenc-1.1.4: ......... done
[main-amd64-default-job-05] | | `-- Extracting mkfontscale-1.2.1: ....... done
[main-amd64-default-job-05] | `-- Extracting adobe-cmaps-20051217_4: .......... done
[main-amd64-default-job-05] `-- Extracting py38-reportlab-3.5.68: .......... done
[main-amd64-default-job-05] Extracting rdkit-2021.03.5_1: .......... done
=====
Message from boost-libs-1.72.0_6:
--
You have built the Boost library with thread support.
Don't forget to add -pthread to your linker options when
linking your code.
=====
Message from py38-boost-libs-1.72.0_1:
--
You have built the Boost library with thread support.
Don't forget to add -pthread to your linker options when
linking your code.
===> votca-2021.2.18560 depends on package: rdkit>0 - found
===> Returning to build of votca-2021.2.18560
===> votca-2021.2.18560 depends on file: /usr/local/bin/cmake - not found
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make[1]: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make[1]: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
===> Installing existing package /packages/All/cmake-3.22.1.pkg
[main-amd64-default-job-05] Installing cmake-3.22.1...
[main-amd64-default-job-05] `-- Installing jsoncpp-1.9.5...
[main-amd64-default-job-05] `-- Extracting jsoncpp-1.9.5: .......... done
[main-amd64-default-job-05] `-- Installing libarchive-3.5.2,1...
[main-amd64-default-job-05] | `-- Installing zstd-1.5.0...
[main-amd64-default-job-05] | `-- Extracting zstd-1.5.0: .......... done
[main-amd64-default-job-05] `-- Extracting libarchive-3.5.2,1: .......... done
[main-amd64-default-job-05] `-- Installing libuv-1.42.0...
[main-amd64-default-job-05] `-- Extracting libuv-1.42.0: .......... done
[main-amd64-default-job-05] `-- Installing rhash-1.4.2...
[main-amd64-default-job-05] `-- Extracting rhash-1.4.2: .......... done
[main-amd64-default-job-05] Extracting cmake-3.22.1: .......... done
===> votca-2021.2.18560 depends on file: /usr/local/bin/cmake - found
===> Returning to build of votca-2021.2.18560
===> votca-2021.2.18560 depends on executable: ninja - not found
===> Installing existing package /packages/All/ninja-1.10.2,2.pkg
[main-amd64-default-job-05] Installing ninja-1.10.2,2...
[main-amd64-default-job-05] Extracting ninja-1.10.2,2: ........ done
===> votca-2021.2.18560 depends on executable: ninja - found
===> Returning to build of votca-2021.2.18560
===> votca-2021.2.18560 depends on file: /usr/local/libdata/pkgconfig/eigen3.pc - not found
===> Installing existing package /packages/All/eigen-3.3.9_1.pkg
[main-amd64-default-job-05] Installing eigen-3.3.9_1...
[main-amd64-default-job-05] `-- Installing blas-3.10.0...
[main-amd64-default-job-05] `-- Extracting blas-3.10.0: ........ done
[main-amd64-default-job-05] `-- Installing lapack-3.10.0_1...
[main-amd64-default-job-05] `-- Extracting lapack-3.10.0_1: .......... done
[main-amd64-default-job-05] Extracting eigen-3.3.9_1: .......... done
===> votca-2021.2.18560 depends on file: /usr/local/libdata/pkgconfig/eigen3.pc - found
===> Returning to build of votca-2021.2.18560
===> votca-2021.2.18560 depends on package: pkgconf>=1.3.0_1 - not found
===> Installing existing package /packages/All/pkgconf-1.8.0,1.pkg
[main-amd64-default-job-05] Installing pkgconf-1.8.0,1...
[main-amd64-default-job-05] Extracting pkgconf-1.8.0,1: .......... done
===> votca-2021.2.18560 depends on package: pkgconf>=1.3.0_1 - found
===> Returning to build of votca-2021.2.18560
===> votca-2021.2.18560 depends on package: perl5>=5.32.r0<5.33 - found
===========================================================================
=======================<phase: lib-depends >============================
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
===> votca-2021.2.18560 depends on shared library: libboost_program_options.so - found (/usr/local/lib/libboost_program_options.so)
===> votca-2021.2.18560 depends on shared library: libecpint.so - not found
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make[1]: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make[1]: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
===> Installing existing package /packages/All/libecpint-1.0.7.pkg
[main-amd64-default-job-05] Installing libecpint-1.0.7...
[main-amd64-default-job-05] `-- Installing pugixml-1.11.4...
[main-amd64-default-job-05] `-- Extracting pugixml-1.11.4: .......... done
[main-amd64-default-job-05] Extracting libecpint-1.0.7: .......... done
=====
Message from pugixml-1.11.4:
--
===> NOTICE:
The pugixml 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
===> votca-2021.2.18560 depends on shared library: libecpint.so - found (/usr/local/lib/libecpint.so)
===> Returning to build of votca-2021.2.18560
===> votca-2021.2.18560 depends on shared library: libexpat.so - found (/usr/local/lib/libexpat.so)
===> votca-2021.2.18560 depends on shared library: libfftw3.so - found (/usr/local/lib/libfftw3.so)
===> votca-2021.2.18560 depends on shared library: libgromacs_d.so - not found
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make[1]: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make[1]: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
===> Installing existing package /packages/All/gromacs-2021.4.pkg
[main-amd64-default-job-05] Installing gromacs-2021.4...
[main-amd64-default-job-05] `-- Installing libICE-1.0.10,1...
[main-amd64-default-job-05] `-- Extracting libICE-1.0.10,1: .......... done
[main-amd64-default-job-05] `-- Installing libSM-1.2.3,1...
[main-amd64-default-job-05] `-- Extracting libSM-1.2.3,1: .......... done
[main-amd64-default-job-05] Extracting gromacs-2021.4: .......... done
===> votca-2021.2.18560 depends on shared library: libgromacs_d.so - found (/usr/local/lib/libgromacs_d.so)
===> Returning to build of votca-2021.2.18560
===> votca-2021.2.18560 depends on shared library: libhdf5.so - found (/usr/local/lib/libhdf5.so)
===> votca-2021.2.18560 depends on shared library: libint2.so - not found
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make[1]: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make[1]: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
===> Installing existing package /packages/All/libint2-2.7.1.pkg
[main-amd64-default-job-05] Installing libint2-2.7.1...
[main-amd64-default-job-05] Extracting libint2-2.7.1: .......... done
===> votca-2021.2.18560 depends on shared library: libint2.so - found (/usr/local/lib/libint2.so)
===> Returning to build of votca-2021.2.18560
===> votca-2021.2.18560 depends on shared library: libsz.so - found (/usr/local/lib/libsz.so)
===> votca-2021.2.18560 depends on shared library: libxc.so - not found
===> Installing existing package /packages/All/libxc-5.0.0.pkg
[main-amd64-default-job-05] Installing libxc-5.0.0...
[main-amd64-default-job-05] Extracting libxc-5.0.0: .......... done
===> votca-2021.2.18560 depends on shared library: libxc.so - found (/usr/local/lib/libxc.so)
===> Returning to build of votca-2021.2.18560
===========================================================================
=======================<phase: configure >============================
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
===> Configuring for votca-2021.2.18560
===> Performing out-of-source build
/bin/mkdir -p /wrkdirs/usr/ports/science/votca/work/.build
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cmake"
*** Error code 1
Stop.
make: stopped in /usr/ports/science/votca