[package - 122arm64-quarterly][biology/canu] Failed for canu-2.1_1 in build
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Date: Thu, 17 Jun 2021 22:27:59 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: http://ampere1.nyi.freebsd.org/data/122arm64-quarterly/932f023d54e7/logs/canu-2.1_1.log
Build URL: http://ampere1.nyi.freebsd.org/build.html?mastername=122arm64-quarterly&build=932f023d54e7
Log:
=>> Building biology/canu
build started at Thu Jun 17 22:27:45 UTC 2021
port directory: /usr/ports/biology/canu
package name: canu-2.1_1
building for: FreeBSD 122arm64-quarterly-job-08 12.2-RELEASE FreeBSD 12.2-RELEASE arm64
maintained by: jwb@FreeBSD.org
Makefile ident:
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Jail OSVERSION: 1202000
Job Id: 08
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jwb@FreeBSD.org
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DESTDIR=/wrkdirs/usr/ports/biology/canu/work/canu-2.1/src CANU_BUILD_ENV=ports PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/biology/canu/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/canu/work HOME=/wrkdirs/usr/ports/biology/canu/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/canu/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 PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing " CPP="cpp" CPPFLAGS="-isystem /usr/local/include" LDFLAGS=" -fstack-protector-strong " LIBS="-L/usr/local/lib" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include " MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_IN
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=======================<phase: check-sanity >============================
===> License GPLv2 accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> canu-2.1_1 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.16.3.txz
[122arm64-quarterly-job-08] Installing pkg-1.16.3...
[122arm64-quarterly-job-08] Extracting pkg-1.16.3: .......... done
===> canu-2.1_1 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of canu-2.1_1
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License GPLv2 accepted by the user
===> Fetching all distfiles required by canu-2.1_1 for building
===========================================================================
=======================<phase: checksum >============================
===> License GPLv2 accepted by the user
===> Fetching all distfiles required by canu-2.1_1 for building
=> SHA256 Checksum OK for canu-2.1.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract >============================
===> License GPLv2 accepted by the user
===> Fetching all distfiles required by canu-2.1_1 for building
===> Extracting for canu-2.1_1
=> SHA256 Checksum OK for canu-2.1.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===========================================================================
=======================<phase: patch >============================
===> Patching for canu-2.1_1
===> Applying FreeBSD patches for canu-2.1_1 from /usr/ports/biology/canu/files
===========================================================================
=======================<phase: build-depends >============================
===> canu-2.1_1 depends on package: gmake>=4.3 - not found
===> Installing existing package /packages/All/gmake-4.3_2.txz
[122arm64-quarterly-job-08] Installing gmake-4.3_2...
[122arm64-quarterly-job-08] `-- Installing gettext-runtime-0.21...
[122arm64-quarterly-job-08] | `-- Installing indexinfo-0.3.1...
[122arm64-quarterly-job-08] | `-- Extracting indexinfo-0.3.1: .... done
[122arm64-quarterly-job-08] `-- Extracting gettext-runtime-0.21: .......... done
[122arm64-quarterly-job-08] Extracting gmake-4.3_2: .......... done
===> canu-2.1_1 depends on package: gmake>=4.3 - found
===> Returning to build of canu-2.1_1
===> canu-2.1_1 depends on package: perl5>=5.32.r0<5.33 - not found
===> Installing existing package /packages/All/perl5-5.32.1_1.txz
[122arm64-quarterly-job-08] Installing perl5-5.32.1_1...
[122arm64-quarterly-job-08] Extracting perl5-5.32.1_1: .......... done
===> canu-2.1_1 depends on package: perl5>=5.32.r0<5.33 - found
===> Returning to build of canu-2.1_1
===========================================================================
=======================<phase: lib-depends >============================
===> canu-2.1_1 depends on shared library: libboost_regex.so - not found
===> Installing existing package /packages/All/boost-libs-1.72.0_4.txz
[122arm64-quarterly-job-08] Installing boost-libs-1.72.0_4...
[122arm64-quarterly-job-08] `-- Installing icu-68.2,1...
[122arm64-quarterly-job-08] `-- Extracting icu-68.2,1: .......... done
[122arm64-quarterly-job-08] Extracting boost-libs-1.72.0_4: .......... done
=====
Message from boost-libs-1.72.0_4:
--
You have built the Boost library with thread support.
Don't forget to add -pthread to your linker options when
linking your code.
===> canu-2.1_1 depends on shared library: libboost_regex.so - found (/usr/local/lib/libboost_regex.so)
===> Returning to build of canu-2.1_1
===========================================================================
=======================<phase: configure >============================
===> Configuring for canu-2.1_1
===========================================================================
=======================<phase: build >============================
===> Building for canu-2.1_1
gmake[1]: Entering directory '/wrkdirs/usr/ports/biology/canu/work/canu-2.1/src'
/bin/sh: git: not found
Building release v2.1
For 'FreeBSD' '1202000' as 'aarch64' into '/wrkdirs/usr/ports/biology/canu/work/canu-2.1/src//build/{bin,obj}'.
Using '/usr/bin/c++' version '10.0.1'.
Using user-supplied CXXFLAGS '-O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include '.
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-2.1/src//build/obj/lib/libcanu.a/utility/src/utility/runtime.o -c -MD -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -pthread -fopenmp -fPIC -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-2.1/src -Iutility/src/utility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/runtime.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-2.1/src//build/obj/lib/libcanu.a/utility/src/utility/align-ssw.o -c -MD -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -pthread -fopenmp -fPIC -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-2.1/src -Iutility/src/utility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/align-ssw.C
In file included from utility/src/utility/align-ssw.C:36:
In file included from /usr/lib/clang/10.0.1/include/emmintrin.h:13:
In file included from /usr/lib/clang/10.0.1/include/xmmintrin.h:13:
/usr/lib/clang/10.0.1/include/mmintrin.h:33:5: error: use of undeclared identifier '__builtin_ia32_emms'; did you mean '__builtin_isless'?
__builtin_ia32_emms();
^
/usr/lib/clang/10.0.1/include/mmintrin.h:33:5: note: '__builtin_isless' declared here
/usr/lib/clang/10.0.1/include/mmintrin.h:33:25: error: too few arguments to function call, expected 2, have 0
__builtin_ia32_emms();
^
/usr/lib/clang/10.0.1/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/10.0.1/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/10.0.1/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/10.0.1/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/10.0.1/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/10.0.1/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/10.0.1/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/10.0.1/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/10.0.1/include/mmintrin.h:287:19: error: use of undeclared identifier '__builtin_ia32_punpcklbw'
return (__m64)__builtin_ia32_punpcklbw((__v8qi)__m1, (__v8qi)__m2);
^
/usr/lib/clang/10.0.1/include/mmintrin.h:310:19: error: use of undeclared identifier '__builtin_ia32_punpcklwd'
return (__m64)__builtin_ia32_punpcklwd((__v4hi)__m1, (__v4hi)__m2);
^
/usr/lib/clang/10.0.1/include/mmintrin.h:331:19: error: use of undeclared identifier '__builtin_ia32_punpckldq'
return (__m64)__builtin_ia32_punpckldq((__v2si)__m1, (__v2si)__m2);
^
/usr/lib/clang/10.0.1/include/mmintrin.h:352:19: error: use of undeclared identifier '__builtin_ia32_paddb'; did you mean '__builtin_arm_addg'?
return (__m64)__builtin_ia32_paddb((__v8qi)__m1, (__v8qi)__m2);
^
/usr/lib/clang/10.0.1/include/mmintrin.h:352:19: note: '__builtin_arm_addg' declared here
/usr/lib/clang/10.0.1/include/mmintrin.h:352:19: error: first argument of MTE builtin function must be a pointer ('__v8qi' (vector of 8 'char' values) invalid)
return (__m64)__builtin_ia32_paddb((__v8qi)__m1, (__v8qi)__m2);
^ ~~~~~~~~~~~~
/usr/lib/clang/10.0.1/include/mmintrin.h:373:19: error: use of undeclared identifier '__builtin_ia32_paddw'; did you mean '__builtin_arm_addg'?
return (__m64)__builtin_ia32_paddw((__v4hi)__m1, (__v4hi)__m2);
^
/usr/lib/clang/10.0.1/include/mmintrin.h:352:19: note: '__builtin_arm_addg' declared here
return (__m64)__builtin_ia32_paddb((__v8qi)__m1, (__v8qi)__m2);
^
/usr/lib/clang/10.0.1/include/mmintrin.h:373:19: error: first argument of MTE builtin function must be a pointer ('__v4hi' (vector of 4 'short' values) invalid)
return (__m64)__builtin_ia32_paddw((__v4hi)__m1, (__v4hi)__m2);
^ ~~~~~~~~~~~~
/usr/lib/clang/10.0.1/include/mmintrin.h:394:19: error: use of undeclared identifier '__builtin_ia32_paddd'; did you mean '__builtin_arm_addg'?
return (__m64)__builtin_ia32_paddd((__v2si)__m1, (__v2si)__m2);
^
/usr/lib/clang/10.0.1/include/mmintrin.h:352:19: note: '__builtin_arm_addg' declared here
return (__m64)__builtin_ia32_paddb((__v8qi)__m1, (__v8qi)__m2);
^
/usr/lib/clang/10.0.1/include/mmintrin.h:394:19: error: first argument of MTE builtin function must be a pointer ('__v2si' (vector of 2 'int' values) invalid)
return (__m64)__builtin_ia32_paddd((__v2si)__m1, (__v2si)__m2);
^ ~~~~~~~~~~~~
fatal error: too many errors emitted, stopping now [-ferror-limit=]
20 errors generated.
gmake[1]: *** [Makefile:763: /wrkdirs/usr/ports/biology/canu/work/canu-2.1/src//build/obj/lib/libcanu.a/utility/src/utility/align-ssw.o] Error 1
gmake[1]: *** Waiting for unfinished jobs....
gmake[1]: Leaving directory '/wrkdirs/usr/ports/biology/canu/work/canu-2.1/src'
===> 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/canu