[package - 130arm64-quarterly][biology/canu] Failed for canu-2.1_1 in build

From: <pkg-fallout_at_FreeBSD.org>
Date: Fri, 01 Oct 2021 18:36:25 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/130arm64-quarterly/28d7c589b16a/logs/canu-2.1_1.log
Build URL:      http://ampere1.nyi.freebsd.org/build.html?mastername=130arm64-quarterly&build=28d7c589b16a
Log:

=>> Building biology/canu
build started at Fri Oct  1 18:36:10 UTC 2021
port directory: /usr/ports/biology/canu
package name: canu-2.1_1
building for: FreeBSD 130arm64-quarterly-job-05 13.0-RELEASE-p4 FreeBSD 13.0-RELEASE-p4 arm64
maintained by: jwb@FreeBSD.org
Makefile ident: 
Poudriere version: 3.2.8-21-g883afb07
Host OSVERSION: 1400008
Jail OSVERSION: 1300139
Job Id: 05

---Begin Environment---
SHELL=/bin/csh
OSVERSION=1300139
UNAME_v=FreeBSD 13.0-RELEASE-p4
UNAME_r=13.0-RELEASE-p4
BLOCKSIZE=K
MAIL=/var/mail/root
MM_CHARSET=UTF-8
LANG=C.UTF-8
STATUS=1
HOME=/root
PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin
LOCALBASE=/usr/local
USER=root
LIBEXECPREFIX=/usr/local/libexec/poudriere
POUDRIERE_VERSION=3.2.8-21-g883afb07
MASTERMNT=/usr/local/poudriere/data/.m/130arm64-quarterly/ref
POUDRIERE_BUILD_TYPE=bulk
PACKAGE_BUILDING=yes
SAVED_TERM=
PWD=/usr/local/poudriere/data/.m/130arm64-quarterly/ref/.p/pool
P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS
MASTERNAME=130arm64-quarterly
SCRIPTPREFIX=/usr/local/share/poudriere
OLDPWD=/usr/local/poudriere/data/.m/130arm64-quarterly/ref/.p
SCRIPTPATH=/usr/local/share/poudriere/bulk.sh
POUDRIEREPATH=/usr/local/bin/poudriere
---End Environment---

---Begin Poudriere Port Flags/Env---
PORT_FLAGS=
PKGENV=
FLAVOR=
DEPENDS_ARGS=
MAKE_ARGS=
---End Poudriere Port Flags/Env---

---Begin OPTIONS List---
---End OPTIONS List---

--MAINTAINER--
jwb@FreeBSD.org
--End MAINTAINER--

--CONFIGURE_ARGS--

--End CONFIGURE_ARGS--

--CONFIGURE_ENV--
MAKE=gmake ac_cv_path_PERL=/usr/local/bin/perl ac_cv_path_PERL_PATH=/usr/local/bin/perl  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 SHELL=/bin/sh CONFIG_SHELL=/bin/sh CMAKE_PREFIX_PATH="/usr/local"
--End CONFIGURE_ENV--

--MAKE_ENV--
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
 STALL_DATA="install  -m 0644"  BSD_INSTALL_MAN="install  -m 444"
--End MAKE_ENV--

--PLIST_SUB--
JAVASHAREDIR="share/java"  JAVAJARDIR="share/java/classes" OSREL=13.0 PREFIX=%D LOCALBASE=/usr/local  RESETPREFIX=/usr/local LIB32DIR=lib PERL_VERSION=5.32.1  PERL_VER=5.32  PERL5_MAN1=lib/perl5/site_perl/man/man1  PERL5_MAN3=lib/perl5/site_perl/man/man3  SITE_PERL=lib/perl5/site_perl  SITE_ARCH=lib/perl5/site_perl/mach/5.32 DOCSDIR="share/doc/canu"  EXAMPLESDIR="share/examples/canu"  DATADIR="share/canu"  WWWDIR="www/canu"  ETCDIR="etc/canu"
--End PLIST_SUB--

--SUB_LIST--
JAVASHAREDIR="/usr/local/share/java"  JAVAJARDIR="/usr/local/share/java/classes"  JAVALIBDIR="/usr/local/share/java/classes" JAVA_VERSION="1.8+" PREFIX=/usr/local LOCALBASE=/usr/local  DATADIR=/usr/local/share/canu DOCSDIR=/usr/local/share/doc/canu EXAMPLESDIR=/usr/local/share/examples/canu  WWWDIR=/usr/local/www/canu ETCDIR=/usr/local/etc/canu
--End SUB_LIST--

---Begin make.conf---
USE_PACKAGE_DEPENDS=yes
BATCH=yes
WRKDIRPREFIX=/wrkdirs
PORTSDIR=/usr/ports
PACKAGES=/packages
DISTDIR=/distfiles
PACKAGE_BUILDING=yes
PACKAGE_BUILDING_FLAVORS=yes
#### /usr/local/etc/poudriere.d/make.conf ####
# 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 2 jobs
MAKE_JOBS_NUMBER=2
#### /usr/ports/Mk/Scripts/ports_env.sh ####
_CCVERSION_921dbbb2=FreeBSD clang version 11.0.1 (git@github.com:llvm/llvm-project.git llvmorg-11.0.1-0-g43ff75f2c3fe) Target: aarch64-unknown-freebsd13.0 Thread model: posix InstalledDir: /usr/bin
_ALTCCVERSION_921dbbb2=none
_CXXINTERNAL_acaad9ca=FreeBSD clang version 11.0.1 (git@github.com:llvm/llvm-project.git llvmorg-11.0.1-0-g43ff75f2c3fe) Target: aarch64-unknown-freebsd13.0 Thread model: posix InstalledDir: /usr/bin "/usr/bin/ld" "--eh-frame-hdr" "-dynamic-linker" "/libexec/ld-elf.so.1" "--enable-new-dtags" "-o" "a.out" "/usr/lib/crt1.o" "/usr/lib/crti.o" "/usr/lib/crtbegin.o" "-L/usr/lib" "/dev/null" "-lc++" "-lm" "-lgcc" "--as-needed" "-lgcc_s" "--no-as-needed" "-lc" "-lgcc" "--as-needed" "-lgcc_s" "--no-as-needed" "/usr/lib/crtend.o" "/usr/lib/crtn.o"
CC_OUTPUT_921dbbb2_58173849=yes
CC_OUTPUT_921dbbb2_9bdba57c=yes
CC_OUTPUT_921dbbb2_6a4fe7f5=yes
CC_OUTPUT_921dbbb2_6bcac02b=yes
CC_OUTPUT_921dbbb2_67d20829=yes
CC_OUTPUT_921dbbb2_bfa62e83=yes
CC_OUTPUT_921dbbb2_f0b4d593=yes
CC_OUTPUT_921dbbb2_308abb44=yes
CC_OUTPUT_921dbbb2_f00456e5=yes
CC_OUTPUT_921dbbb2_65ad290d=yes
CC_OUTPUT_921dbbb2_f2776b26=yes
CC_OUTPUT_921dbbb2_b2657cc3=yes
CC_OUTPUT_921dbbb2_380987f7=yes
CC_OUTPUT_921dbbb2_160933ec=yes
CC_OUTPUT_921dbbb2_fb62803b=yes
_OBJC_CCVERSION_921dbbb2=FreeBSD clang version 11.0.1 (git@github.com:llvm/llvm-project.git llvmorg-11.0.1-0-g43ff75f2c3fe) Target: aarch64-unknown-freebsd13.0 Thread model: posix InstalledDir: /usr/bin
_OBJC_ALTCCVERSION_921dbbb2=none
ARCH=aarch64
OPSYS=FreeBSD
_OSRELEASE=13.0-RELEASE-p4
OSREL=13.0
OSVERSION=1300139
PYTHONBASE=/usr/local
CONFIGURE_MAX_CMD_LEN=524288
HAVE_PORTS_ENV=1
#### Misc Poudriere ####
GID=0
UID=0
---End make.conf---
--Resource limits--
cpu time               (seconds, -t)  unlimited
file size           (512-blocks, -f)  unlimited
data seg size           (kbytes, -d)  1048576
stack size              (kbytes, -s)  1048576
core file size      (512-blocks, -c)  unlimited
max memory size         (kbytes, -m)  unlimited
locked memory           (kbytes, -l)  unlimited
max user processes              (-u)  89999
open files                      (-n)  1024
virtual mem size        (kbytes, -v)  unlimited
swap limit              (kbytes, -w)  unlimited
socket buffer size       (bytes, -b)  unlimited
pseudo-terminals                (-p)  unlimited
kqueues                         (-k)  unlimited
umtx shared locks               (-o)  unlimited
--End resource limits--
=======================<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
[130arm64-quarterly-job-05] Installing pkg-1.16.3...
[130arm64-quarterly-job-05] 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
[130arm64-quarterly-job-05] Installing gmake-4.3_2...
[130arm64-quarterly-job-05] `-- Installing gettext-runtime-0.21...
[130arm64-quarterly-job-05] |   `-- Installing indexinfo-0.3.1...
[130arm64-quarterly-job-05] |   `-- Extracting indexinfo-0.3.1: .... done
[130arm64-quarterly-job-05] `-- Extracting gettext-runtime-0.21: .......... done
[130arm64-quarterly-job-05] 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
[130arm64-quarterly-job-05] Installing perl5-5.32.1_1...
[130arm64-quarterly-job-05] 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_5.txz
[130arm64-quarterly-job-05] Installing boost-libs-1.72.0_5...
[130arm64-quarterly-job-05] `-- Installing icu-69.1,1...
[130arm64-quarterly-job-05] `-- Extracting icu-69.1,1: .......... done
[130arm64-quarterly-job-05] Extracting boost-libs-1.72.0_5: .......... done
=====
Message from boost-libs-1.72.0_5:

--
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' '1300139' as 'aarch64' into '/wrkdirs/usr/ports/biology/canu/work/canu-2.1/src//build/{bin,obj}'.
Using '/usr/bin/c++' version '11.0.1'.
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/11.0.1/include/emmintrin.h:13:
In file included from /usr/lib/clang/11.0.1/include/xmmintrin.h:13:
/usr/lib/clang/11.0.1/include/mmintrin.h:33:5: error: use of undeclared identifier '__builtin_ia32_emms'; did you mean '__builtin_isless'?
    __builtin_ia32_emms();
    ^
/usr/lib/clang/11.0.1/include/mmintrin.h:33:5: note: '__builtin_isless' declared here
/usr/lib/clang/11.0.1/include/mmintrin.h:33:25: error: too few arguments to function call, expected 2, have 0
    __builtin_ia32_emms();
                        ^
/usr/lib/clang/11.0.1/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/11.0.1/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/11.0.1/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/11.0.1/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/11.0.1/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/11.0.1/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/11.0.1/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/11.0.1/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/11.0.1/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/11.0.1/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/11.0.1/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/11.0.1/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/11.0.1/include/mmintrin.h:352:19: note: '__builtin_arm_addg' declared here
/usr/lib/clang/11.0.1/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/11.0.1/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/11.0.1/include/mmintrin.h:352:19: note: '__builtin_arm_addg' declared here
    return (__m64)__builtin_ia32_paddb((__v8qi)__m1, (__v8qi)__m2);
                  ^
/usr/lib/clang/11.0.1/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/11.0.1/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/11.0.1/include/mmintrin.h:352:19: note: '__builtin_arm_addg' declared here
    return (__m64)__builtin_ia32_paddb((__v8qi)__m1, (__v8qi)__m2);
                  ^
/usr/lib/clang/11.0.1/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