[package - main-amd64-default][biology/hhsuite] Failed for hhsuite-3.3.0_2 in build
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Date: Tue, 12 Dec 2023 16:38:27 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: https://pkg-status.freebsd.org/beefy18/data/main-amd64-default/pbb504ccec5fc_sae77041e07/logs/hhsuite-3.3.0_2.log
Build URL: https://pkg-status.freebsd.org/beefy18/build.html?mastername=main-amd64-default&build=pbb504ccec5fc_sae77041e07
Log:
=>> Building biology/hhsuite
build started at Tue Dec 12 16:36:51 UTC 2023
port directory: /usr/ports/biology/hhsuite
package name: hhsuite-3.3.0_2
building for: FreeBSD main-amd64-default-job-05 15.0-CURRENT FreeBSD 15.0-CURRENT 1500006 amd64
maintained by: yuri@FreeBSD.org
Makefile datestamp: -rw-r--r-- 1 root wheel 1071 Apr 25 2023 /usr/ports/biology/hhsuite/Makefile
Ports top last git commit: bb504ccec5f
Ports top unclean checkout: no
Port dir last git commit: 8d3e020ed03
Port dir unclean checkout: no
Poudriere version: poudriere-git-3.3.0-1258-gbc38e2e6
Host OSVERSION: 1500006
Jail OSVERSION: 1500006
Job Id: 05
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yuri@FreeBSD.org
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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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pseudo-terminals (-p) unlimited
kqueues (-k) unlimited
umtx shared locks (-o) unlimited
--End resource limits--
=======================<phase: check-sanity >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License GPLv3 accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===> hhsuite-3.3.0_2 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.20.9.pkg
[main-amd64-default-job-05] Installing pkg-1.20.9...
[main-amd64-default-job-05] Extracting pkg-1.20.9: .......... done
===> hhsuite-3.3.0_2 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of hhsuite-3.3.0_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 GPLv3 accepted by the user
===> Fetching all distfiles required by hhsuite-3.3.0_2 for building
===========================================================================
=======================<phase: checksum >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License GPLv3 accepted by the user
===> Fetching all distfiles required by hhsuite-3.3.0_2 for building
=> SHA256 Checksum OK for soedinglab-hh-suite-v3.3.0_GH0.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 GPLv3 accepted by the user
===> Fetching all distfiles required by hhsuite-3.3.0_2 for building
===> Extracting for hhsuite-3.3.0_2
=> SHA256 Checksum OK for soedinglab-hh-suite-v3.3.0_GH0.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 hhsuite-3.3.0_2
===> Applying FreeBSD patches for hhsuite-3.3.0_2 from /usr/ports/biology/hhsuite/files
===========================================================================
=======================<phase: build-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===> hhsuite-3.3.0_2 depends on file: /usr/local/bin/cmake - not found
===> Installing existing package /packages/All/cmake-core-3.27.9.pkg
[main-amd64-default-job-05] Installing cmake-core-3.27.9...
[main-amd64-default-job-05] `-- Installing expat-2.5.0...
[main-amd64-default-job-05] `-- Extracting expat-2.5.0: .......... done
[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 libuv-1.47.0...
[main-amd64-default-job-05] `-- Extracting libuv-1.47.0: .......... done
[main-amd64-default-job-05] `-- Installing rhash-1.4.4...
[main-amd64-default-job-05] | `-- Installing gettext-runtime-0.22.3...
[main-amd64-default-job-05] | | `-- Installing indexinfo-0.3.1...
[main-amd64-default-job-05] | | `-- Extracting indexinfo-0.3.1: .... done
[main-amd64-default-job-05] | `-- Extracting gettext-runtime-0.22.3: .......... done
[main-amd64-default-job-05] `-- Extracting rhash-1.4.4: .......... done
[main-amd64-default-job-05] Extracting cmake-core-3.27.9: .......... done
===> hhsuite-3.3.0_2 depends on file: /usr/local/bin/cmake - found
===> Returning to build of hhsuite-3.3.0_2
===> hhsuite-3.3.0_2 depends on executable: ninja - not found
===> Installing existing package /packages/All/ninja-1.11.1,2.pkg
[main-amd64-default-job-05] Installing ninja-1.11.1,2...
[main-amd64-default-job-05] `-- Installing python39-3.9.18...
[main-amd64-default-job-05] | `-- Installing libffi-3.4.4...
[main-amd64-default-job-05] | `-- Extracting libffi-3.4.4: .......... done
[main-amd64-default-job-05] | `-- Installing mpdecimal-2.5.1...
[main-amd64-default-job-05] | `-- Extracting mpdecimal-2.5.1: .......... done
[main-amd64-default-job-05] | `-- Installing readline-8.2.1...
<snip>
https://bugs.freebsd.org/bugzilla
More information about port maintainership is available at:
https://docs.freebsd.org/en/articles/contributing/#ports-contributing
=====
Message from openmpi-4.1.5_1:
--
===> NOTICE:
The openmpi 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
===> hhsuite-3.3.0_2 depends on shared library: libmpi.so - found (/usr/local/mpi/openmpi/lib/libmpi.so)
===> Returning to build of hhsuite-3.3.0_2
===========================================================================
=======================<phase: configure >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> Configuring for hhsuite-3.3.0_2
===> Performing out-of-source build
/bin/mkdir -p /wrkdirs/usr/ports/biology/hhsuite/work/.build
CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required):
Compatibility with CMake < 3.5 will be removed from a future version of
CMake.
Update the VERSION argument <min> value or use a ...<max> suffix to tell
CMake that the project does not need compatibility with older versions.
-- The C compiler identification is Clang 17.0.6
-- The CXX compiler identification is Clang 17.0.6
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Compiler is clang(++)
CMake Deprecation Warning at lib/ffindex/CMakeLists.txt:1 (cmake_minimum_required):
Compatibility with CMake < 3.5 will be removed from a future version of
CMake.
Update the VERSION argument <min> value or use a ...<max> suffix to tell
CMake that the project does not need compatibility with older versions.
-- Looking for fmemopen
-- Looking for fmemopen - found
-- Found MPI_C: /usr/local/mpi/openmpi/lib/libmpi.so (found version "3.1")
-- Found MPI_CXX: /usr/local/mpi/openmpi/lib/libmpi_cxx.so (found version "3.1")
-- Found MPI: TRUE (found version "3.1")
-- xxd not found, using xxdi.pl instead
-- Found OpenMP_C: -fopenmp=libomp (found version "5.1")
-- Found OpenMP_CXX: -fopenmp=libomp (found version "5.1")
-- Found OpenMP: TRUE (found version "5.1")
-- Found OpenMP
-- Configuring done (10.4s)
-- Generating done (0.0s)
CMake Warning:
Manually-specified variables were not used by the project:
BOOST_PYTHON_SUFFIX
CMAKE_COLOR_MAKEFILE
CMAKE_CXX_FLAGS_DEBUG
CMAKE_C_FLAGS_DEBUG
CMAKE_MODULE_LINKER_FLAGS
CMAKE_SHARED_LINKER_FLAGS
CMAKE_VERBOSE_MAKEFILE
FETCHCONTENT_FULLY_DISCONNECTED
Python3_EXECUTABLE
Python_ADDITIONAL_VERSIONS
Python_EXECUTABLE
THREADS_HAVE_PTHREAD_ARG
-- Build files have been written to: /wrkdirs/usr/ports/biology/hhsuite/work/.build
===========================================================================
=======================<phase: build >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> Building for hhsuite-3.3.0_2
[ 0% 3/114] /usr/bin/cc -I/wrkdirs/usr/ports/biology/hhsuite/work/.build/generated -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/ffindex/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/simde -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/simd -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/ffindex/src/ext -std=c99 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -MD -MT lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o -MF lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o.d -o lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o -c /wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/ffindex/src/ffutil.c
[ 1% 4/114] /usr/bin/cc -I/wrkdirs/usr/ports/biology/hhsuite/work/.build/generated -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/ffindex/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/simde -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/simd -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/ffindex/src/ext -std=c99 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -UHAVE_MPI -MD -MT lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -MF lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o.d -o lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -c /wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/ffindex/src/ffindex_apply_mpi.c
/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/ffindex/src/ffindex_apply_mpi.c:172:106: warning: format specifies type 'long long' but the argument has type 'int64_t' (aka 'long') [-Wformat]
172 | fprintf(log_file_out, "%s\t%ld\t%ld\t%lld\t%d\n", entry->name, entry->offset, entry->length, end - start, WEXITSTATUS(status));
| ~~~~ ^~~~~~~~~~~
| %ld
1 warning generated.
[ 2% 5/114] /usr/bin/cc -I/wrkdirs/usr/ports/biology/hhsuite/work/.build/generated -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/ffindex/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/simde -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/simd -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/ffindex/src/ext -std=c99 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -MD -MT lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -MF lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o.d -o lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -c /wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/ffindex/src/ffindex_reduce.c
[ 3% 6/114] /usr/bin/cc -I/wrkdirs/usr/ports/biology/hhsuite/work/.build/generated -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/ffindex/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/simde -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/simd -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/ffindex/src/ext -I/usr/local/mpi/openmpi/include -std=c99 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -DHAVE_MPI=1 -fexceptions -pthread -MD -MT lib/ffindex/src/CMakeFiles/ffindex_apply_mpi.dir/ffindex_apply_mpi.c.o -MF lib/ffindex/src/CMakeFiles/ffindex_apply_mpi.dir/ffindex_apply_mpi.c.o.d -o lib/ffindex/src/CMakeFiles/ffindex_apply_mpi.dir/ffindex_apply_mpi.c.o -c /wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/ffindex/src/ffindex_apply_mpi.c
/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/ffindex/src/ffindex_apply_mpi.c:172:106: warning: format specifies type 'long long' but the argument has type 'int64_t' (aka 'long') [-Wformat]
172 | fprintf(log_file_out, "%s\t%ld\t%ld\t%lld\t%d\n", entry->name, entry->offset, entry->length, end - start, WEXITSTATUS(status));
| ~~~~ ^~~~~~~~~~~
| %ld
1 warning generated.
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[ 5% 8/114] : && /usr/local/bin/cmake -E rm -f lib/ffindex/src/libffindex.a && /usr/bin/llvm-ar qc lib/ffindex/src/libffindex.a lib/ffindex/src/CMakeFiles/ffindex.dir/ffindex.c.o lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o && /usr/bin/llvm-ranlib lib/ffindex/src/libffindex.a && :
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cc: warning: -Wl,-rpath=-Wl,-rpath=/usr/local/lib/gcc12: 'linker' input unused [-Wunused-command-line-argument]
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[ 22% 28/114] cd /wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/data && mkdir -p /wrkdirs/usr/ports/biology/hhsuite/work/.build/generated && /wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/cmake/xxdi.pl cs219.lib > /wrkdirs/usr/ports/biology/hhsuite/work/.build/generated/cs219.lib.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/hhsuite/work/.build/generated/cs219.lib.h > /wrkdirs/usr/ports/biology/hhsuite/work/.build/generated/cs219.lib.h.tmp && mv -f /wrkdirs/usr/ports/biology/hhsuite/work/.build/generated/cs219.lib.h.tmp /wrkdirs/usr/ports/biology/hhsuite/work/.build/generated/cs219.lib.h
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[ 24% 30/114] cd /wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/data && mkdir -p /wrkdirs/usr/ports/biology/hhsuite/work/.build/generated && /wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/cmake/xxdi.pl context_data.crf > /wrkdirs/usr/ports/biology/hhsuite/work/.build/generated/context_data.crf.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/hhsuite/work/.build/generated/context_data.crf.h > /wrkdirs/usr/ports/biology/hhsuite/work/.build/generated/context_data.crf.h.tmp && mv -f /wrkdirs/usr/ports/biology/hhsuite/work/.build/generated/context_data.crf.h.tmp /wrkdirs/usr/ports/biology/hhsuite/work/.build/generated/context_data.crf.h
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ts/biology/hhsuite/work/hh-suite-3.3.0/src/hhviterbialgorithm.cpp
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[ 60% 71/114] /usr/bin/c++ -DOPENMP -I/wrkdirs/usr/ports/biology/hhsuite/work/.build/generated -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/ffindex/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/simde -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/simd -I/wrkdirs/usr/ports/biology/hhsuite/work/.build/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src/cs -I/usr/local/mpi/openmpi/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -std=c++0x -fsigned-char -msse2 -fopenmp=libomp -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -MD -MT src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o -MF src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o.d -o src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o -c /wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src/a3m_compress.cpp
FAILED: src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o
/usr/bin/c++ -DOPENMP -I/wrkdirs/usr/ports/biology/hhsuite/work/.build/generated -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/ffindex/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/simde -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/simd -I/wrkdirs/usr/ports/biology/hhsuite/work/.build/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src/cs -I/usr/local/mpi/openmpi/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -std=c++0x -fsigned-char -msse2 -fopenmp=libomp -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -MD -MT src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o -MF src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o.d -o src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o -c /wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src/a3m_compress.cpp
/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src/a3m_compress.cpp:504:26: error: no member named 'ptr_fun' in namespace 'std'
504 | std::not1(std::ptr_fun<int, int>(std::isspace))).base(), s.end());
| ~~~~~^
/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src/a3m_compress.cpp:504:37: error: expected '(' for function-style cast or type construction
504 | std::not1(std::ptr_fun<int, int>(std::isspace))).base(), s.end());
| ~~~^
/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src/a3m_compress.cpp:504:42: error: expected '(' for function-style cast or type construction
504 | std::not1(std::ptr_fun<int, int>(std::isspace))).base(), s.end());
| ~~~^
/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src/a3m_compress.cpp:504:16: error: no member named 'not1' in namespace 'std'
504 | std::not1(std::ptr_fun<int, int>(std::isspace))).base(), s.end());
| ~~~~~^
4 errors generated.
[ 61% 71/114] /usr/bin/c++ -DOPENMP -I/wrkdirs/usr/ports/biology/hhsuite/work/.build/generated -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/ffindex/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/simde -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/simd -I/wrkdirs/usr/ports/biology/hhsuite/work/.build/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src/cs -I/usr/local/mpi/openmpi/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -std=c++0x -fsigned-char -msse2 -fopenmp=libomp -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -MD -MT src/CMakeFiles/a3m_extract.dir/a3m_extract.cpp.o -MF src/CMakeFiles/a3m_extract.dir/a3m_extract.cpp.o.d -o src/CMakeFiles/a3m_extract.dir/a3m_extract.cpp.o -c /wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src/a3m_extract.cpp
[ 62% 71/114] /usr/bin/c++ -DOPENMP -I/wrkdirs/usr/ports/biology/hhsuite/work/.build/generated -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/ffindex/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/simde -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/lib/simd -I/wrkdirs/usr/ports/biology/hhsuite/work/.build/src -I/wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src/cs -I/usr/local/mpi/openmpi/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -std=c++0x -fsigned-char -msse2 -fopenmp=libomp -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o -MF src/CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o.d -o src/CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o -c /wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src/hhfunc.cpp
ninja: build stopped: subcommand failed.
===> Compilation failed unexpectedly.
Try to set MAKE_JOBS_UNSAFE=yes and rebuild before reporting the failure to
the maintainer.
*** Error code 1
Stop.
make: stopped in /usr/ports/biology/hhsuite