[package - 131powerpc64-quarterly][biology/megahit] Failed for megahit-1.2.9_1 in build
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Date: Wed, 25 Jan 2023 22:30:44 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: jwb@FreeBSD.org
Log URL: https://pkg-status.freebsd.org/foul1/data/131powerpc64-quarterly/96225165defd/logs/megahit-1.2.9_1.log
Build URL: https://pkg-status.freebsd.org/foul1/build.html?mastername=131powerpc64-quarterly&build=96225165defd
Log:
=>> Building biology/megahit
build started at Wed Jan 25 22:30:00 UTC 2023
port directory: /usr/ports/biology/megahit
package name: megahit-1.2.9_1
building for: FreeBSD 131powerpc64-quarterly-job-08 13.1-RELEASE FreeBSD 13.1-RELEASE powerpc
maintained by: jwb@FreeBSD.org
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=======================<phase: check-sanity >============================
===> License GPLv3 accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> megahit-1.2.9_1 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.19.0.pkg
[131powerpc64-quarterly-job-08] Installing pkg-1.19.0...
[131powerpc64-quarterly-job-08] Extracting pkg-1.19.0: .......... done
===> megahit-1.2.9_1 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of megahit-1.2.9_1
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License GPLv3 accepted by the user
===> Fetching all distfiles required by megahit-1.2.9_1 for building
===========================================================================
=======================<phase: checksum >============================
===> License GPLv3 accepted by the user
===> Fetching all distfiles required by megahit-1.2.9_1 for building
=> SHA256 Checksum OK for voutcn-megahit-v1.2.9_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract >============================
===> License GPLv3 accepted by the user
===> Fetching all distfiles required by megahit-1.2.9_1 for building
===> Extracting for megahit-1.2.9_1
=> SHA256 Checksum OK for voutcn-megahit-v1.2.9_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===========================================================================
=======================<phase: patch >============================
===> Patching for megahit-1.2.9_1
===> Applying FreeBSD patches for megahit-1.2.9_1 from /usr/ports/biology/megahit/files
===========================================================================
=======================<phase: build-depends >============================
===> megahit-1.2.9_1 depends on file: /usr/local/bin/cmake - not found
===> Installing existing package /packages/All/cmake-core-3.24.3_2.pkg
[131powerpc64-quarterly-job-08] Installing cmake-core-3.24.3_2...
[131powerpc64-quarterly-job-08] `-- Installing expat-2.5.0...
[131powerpc64-quarterly-job-08] `-- Extracting expat-2.5.0: .......... done
[131powerpc64-quarterly-job-08] `-- Installing jsoncpp-1.9.5...
[131powerpc64-quarterly-job-08] `-- Extracting jsoncpp-1.9.5: .......... done
[131powerpc64-quarterly-job-08] `-- Installing libuv-1.44.2...
[131powerpc64-quarterly-job-08] `-- Extracting libuv-1.44.2: .......... done
[131powerpc64-quarterly-job-08] `-- Installing rhash-1.4.3...
[131powerpc64-quarterly-job-08] | `-- Installing gettext-runtime-0.21.1...
[131powerpc64-quarterly-job-08] | | `-- Installing indexinfo-0.3.1...
[131powerpc64-quarterly-job-08] | | `-- Extracting indexinfo-0.3.1: .... done
[131powerpc64-quarterly-job-08] | `-- Extracting gettext-runtime-0.21.1: .......... done
<snip>
py39-gdbm databases/py-gdbm@py39
py39-sqlite3 databases/py-sqlite3@py39
py39-tkinter x11-toolkits/py-tkinter@py39
===> megahit-1.2.9_1 depends on executable: ninja - found
===> Returning to build of megahit-1.2.9_1
===> megahit-1.2.9_1 depends on file: /usr/local/bin/python3.9 - found
===========================================================================
=======================<phase: lib-depends >============================
===========================================================================
=======================<phase: configure >============================
===> Configuring for megahit-1.2.9_1
===> Performing out-of-source build
/bin/mkdir -p /wrkdirs/usr/ports/biology/megahit/work/.build
CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required):
Compatibility with CMake < 2.8.12 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 13.0.0
-- The CXX compiler identification is Clang 13.0.0
-- 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
-- Found ZLIB: /usr/lib/libz.so (found version "1.2.12")
-- Found OpenMP_C: -fopenmp=libomp (found version "5.0")
-- Found OpenMP_CXX: -fopenmp=libomp (found version "5.0")
-- Found OpenMP: TRUE (found version "5.0")
-- Build type: Release: -O2 -pipe -pthread -fstack-protector-strong -fno-strict-aliasing -fopenmp=libomp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -D__XROOT__='"/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src"'
-- Configuring done
-- Generating done
CMake Warning:
Manually-specified variables were not used by the project:
BOOST_PYTHON_SUFFIX
CMAKE_COLOR_MAKEFILE
CMAKE_C_FLAGS_DEBUG
CMAKE_C_FLAGS_RELEASE
CMAKE_MODULE_LINKER_FLAGS
CMAKE_SHARED_LINKER_FLAGS
FETCHCONTENT_FULLY_DISCONNECTED
Python_ADDITIONAL_VERSIONS
THREADS_HAVE_PTHREAD_ARG
-- Build files have been written to: /wrkdirs/usr/ports/biology/megahit/work/.build
===========================================================================
=======================<phase: build >============================
===> Building for megahit-1.2.9_1
[ 0% 2/110] /usr/bin/c++ -I/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src -O2 -pipe -pthread -fstack-protector-strong -fno-strict-aliasing -fopenmp=libomp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -D__XROOT__='"/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src"' -DNDEBUG -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/main_assemble.cpp.o -MF CMakeFiles/megahit_core.dir/src/main_assemble.cpp.o.d -o CMakeFiles/megahit_core.dir/src/main_assemble.cpp.o -c /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_assemble.cpp
FAILED: CMakeFiles/megahit_core.dir/src/main_assemble.cpp.o
/usr/bin/c++ -I/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src -O2 -pipe -pthread -fstack-protector-strong -fno-strict-aliasing -fopenmp=libomp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -D__XROOT__='"/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src"' -DNDEBUG -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/main_assemble.cpp.o -MF CMakeFiles/megahit_core.dir/src/main_assemble.cpp.o.d -o CMakeFiles/megahit_core.dir/src/main_assemble.cpp.o -c /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_assemble.cpp
c++: warning: argument unused during compilation: '-mbmi2' [-Wunused-command-line-argument]
c++: warning: argument unused during compilation: '-mpopcnt' [-Wunused-command-line-argument]
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_assemble.cpp:29:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/assembly/all_algo.h:8:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/assembly/bubble_remover.h:10:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/assembly/unitig_graph.h:11:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/sdbg/sdbg.h:15:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/kmlib/kmrns.h:11:
In file included from /usr/lib/clang/13.0.0/include/x86intrin.h:13:
/usr/lib/clang/13.0.0/include/ia32intrin.h:200:10: error: use of undeclared identifier '__builtin_ia32_readeflags_u32'
return __builtin_ia32_readeflags_u32();
^
/usr/lib/clang/13.0.0/include/ia32intrin.h:206:3: error: use of undeclared identifier '__builtin_ia32_writeeflags_u32'
__builtin_ia32_writeeflags_u32(__f);
^
/usr/lib/clang/13.0.0/include/ia32intrin.h:288:10: error: use of undeclared identifier '__builtin_ia32_crc32qi'
return __builtin_ia32_crc32qi(__C, __D);
^
/usr/lib/clang/13.0.0/include/ia32intrin.h:309:10: error: use of undeclared identifier '__builtin_ia32_crc32hi'
return __builtin_ia32_crc32hi(__C, __D);
^
/usr/lib/clang/13.0.0/include/ia32intrin.h:330:10: error: use of undeclared identifier '__builtin_ia32_crc32si'
return __builtin_ia32_crc32si(__C, __D);
^
/usr/lib/clang/13.0.0/include/ia32intrin.h:358:10: error: use of undeclared identifier '__builtin_ia32_rdpmc'
return __builtin_ia32_rdpmc(__A);
^
/usr/lib/clang/13.0.0/include/ia32intrin.h:364:10: error: use of undeclared identifier '__builtin_ia32_rdtscp'
return __builtin_ia32_rdtscp(__A);
^
/usr/lib/clang/13.0.0/include/ia32intrin.h:373:3: error: use of undeclared identifier '__builtin_ia32_wbinvd'
__builtin_ia32_wbinvd();
^
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_assemble.cpp:29:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/assembly/all_algo.h:8:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/assembly/bubble_remover.h:10:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/assembly/unitig_graph.h:11:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/sdbg/sdbg.h:15:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/kmlib/kmrns.h:11:
In file included from /usr/lib/clang/13.0.0/include/x86intrin.h:15:
In file included from /usr/lib/clang/13.0.0/include/immintrin.h:17:
/usr/lib/clang/13.0.0/include/mmintrin.h:33:5: error: use of undeclared identifier '__builtin_ia32_emms'; did you mean '__builtin_isless'?
__builtin_ia32_emms();
^
/usr/include/c++/v1/math.h:670:12: note: '__builtin_isless' declared here
return isless(__lcpp_x, __lcpp_y);
^
/usr/include/math.h:119:23: note: expanded from macro 'isless'
#define isless(x, y) __builtin_isless((x), (y))
^
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_assemble.cpp:29:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/assembly/all_algo.h:8:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/assembly/bubble_remover.h:10:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/assembly/unitig_graph.h:11:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/sdbg/sdbg.h:15:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/kmlib/kmrns.h:11:
In file included from /usr/lib/clang/13.0.0/include/x86intrin.h:15:
In file included from /usr/lib/clang/13.0.0/include/immintrin.h:17:
/usr/lib/clang/13.0.0/include/mmintrin.h:33:25: error: too few arguments to function call, expected 2, have 0
__builtin_ia32_emms();
~~~~~~~~~~~~~~~~~~~~^
/usr/lib/clang/13.0.0/include/mmintrin.h:50:19: error: use of undeclared identifier '__builtin_ia32_vec_init_v2si'
return (__m64)__builtin_ia32_vec_init_v2si(__i, 0);
^
/usr/lib/clang/13.0.0/include/mmintrin.h:67:12: error: use of undeclared identifier '__builtin_ia32_vec_ext_v2si'
return __builtin_ia32_vec_ext_v2si((__v2si)__m, 0);
^
/usr/lib/clang/13.0.0/include/mmintrin.h:129:19: error: use of undeclared identifier '__builtin_ia32_packsswb'
return (__m64)__builtin_ia32_packsswb((__v4hi)__m1, (__v4hi)__m2);
^
/usr/lib/clang/13.0.0/include/mmintrin.h:159:19: error: use of undeclared identifier '__builtin_ia32_packssdw'
return (__m64)__builtin_ia32_packssdw((__v2si)__m1, (__v2si)__m2);
^
/usr/lib/clang/13.0.0/include/mmintrin.h:189:19: error: use of undeclared identifier '__builtin_ia32_packuswb'
return (__m64)__builtin_ia32_packuswb((__v4hi)__m1, (__v4hi)__m2);
^
/usr/lib/clang/13.0.0/include/mmintrin.h:216:19: error: use of undeclared identifier '__builtin_ia32_punpckhbw'
return (__m64)__builtin_ia32_punpckhbw((__v8qi)__m1, (__v8qi)__m2);
^
/usr/lib/clang/13.0.0/include/mmintrin.h:239:19: error: use of undeclared identifier '__builtin_ia32_punpckhwd'
return (__m64)__builtin_ia32_punpckhwd((__v4hi)__m1, (__v4hi)__m2);
^
/usr/lib/clang/13.0.0/include/mmintrin.h:260:19: error: use of undeclared identifier '__builtin_ia32_punpckhdq'
return (__m64)__builtin_ia32_punpckhdq((__v2si)__m1, (__v2si)__m2);
^
/usr/lib/clang/13.0.0/include/mmintrin.h:287:19: error: use of undeclared identifier '__builtin_ia32_punpcklbw'
return (__m64)__builtin_ia32_punpcklbw((__v8qi)__m1, (__v8qi)__m2);
^
fatal error: too many errors emitted, stopping now [-ferror-limit=]
20 errors generated.
[ 1% 2/110] /usr/bin/c++ -I/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src -O2 -pipe -pthread -fstack-protector-strong -fno-strict-aliasing -fopenmp=libomp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -D__XROOT__='"/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src"' -DNDEBUG -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/main.cpp.o -MF CMakeFiles/megahit_core.dir/src/main.cpp.o.d -o CMakeFiles/megahit_core.dir/src/main.cpp.o -c /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main.cpp
FAILED: CMakeFiles/megahit_core.dir/src/main.cpp.o
/usr/bin/c++ -I/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src -O2 -pipe -pthread -fstack-protector-strong -fno-strict-aliasing -fopenmp=libomp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -D__XROOT__='"/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src"' -DNDEBUG -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/main.cpp.o -MF CMakeFiles/megahit_core.dir/src/main.cpp.o.d -o CMakeFiles/megahit_core.dir/src/main.cpp.o -c /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main.cpp
c++: warning: argument unused during compilation: '-mbmi2' [-Wunused-command-line-argument]
c++: warning: argument unused during compilation: '-mpopcnt' [-Wunused-command-line-argument]
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main.cpp:27:
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/utils/cpu_dispatch.h:16:18: error: invalid output constraint '=a' in asm
: "=a"(eax), "=b"(ebx), "=c"(ecx), "=d"(edx)
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/utils/cpu_dispatch.h:30:18: error: invalid output constraint '=a' in asm
: "=a"(eax), "=b"(ebx), "=c"(ecx), "=d"(edx)
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/utils/cpu_dispatch.h:16:18: error: invalid output constraint '=a' in asm
: "=a"(eax), "=b"(ebx), "=c"(ecx), "=d"(edx)
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main.cpp:95:21: note: called by 'main'
pprintf("{}\n", HasPopcnt() && HasBmi2());
^
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main.cpp:27:
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/utils/cpu_dispatch.h:30:18: error: invalid output constraint '=a' in asm
: "=a"(eax), "=b"(ebx), "=c"(ecx), "=d"(edx)
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main.cpp:95:36: note: called by 'main'
pprintf("{}\n", HasPopcnt() && HasBmi2());
^
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main.cpp:27:
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/utils/cpu_dispatch.h:16:18: error: invalid output constraint '=a' in asm
: "=a"(eax), "=b"(ebx), "=c"(ecx), "=d"(edx)
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main.cpp:97:21: note: called by 'main'
pprintf("{}\n", HasPopcnt());
^
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main.cpp:27:
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/utils/cpu_dispatch.h:30:18: error: invalid output constraint '=a' in asm
: "=a"(eax), "=b"(ebx), "=c"(ecx), "=d"(edx)
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main.cpp:99:21: note: called by 'main'
pprintf("{}\n", HasBmi2());
^
6 errors generated.
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/megahit