[package - 111armv6-quarterly][biology/seqan-apps] Failed for seqan-apps-2.2.0_8 in build
pkg-fallout at FreeBSD.org
pkg-fallout at FreeBSD.org
Wed Dec 6 23:36:17 UTC 2017
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: h2+fbsdports at fsfe.org
Last committer: jbeich at FreeBSD.org
Ident: $FreeBSD: branches/2017Q4/biology/seqan-apps/Makefile 450560 2017-09-25 00:08:16Z jbeich $
Log URL: http://beefy15.nyi.freebsd.org/data/111armv6-quarterly/455558/logs/seqan-apps-2.2.0_8.log
Build URL: http://beefy15.nyi.freebsd.org/build.html?mastername=111armv6-quarterly&build=455558
Log:
=>> Building biology/seqan-apps
build started at Wed Dec 6 20:16:05 UTC 2017
port directory: /usr/ports/biology/seqan-apps
package name: seqan-apps-2.2.0_8
building for: FreeBSD 111armv6-quarterly-job-24 11.1-RELEASE-p5 FreeBSD 11.1-RELEASE-p5 1101001 arm
maintained by: h2+fbsdports at fsfe.org
Makefile ident: $FreeBSD: branches/2017Q4/biology/seqan-apps/Makefile 450560 2017-09-25 00:08:16Z jbeich $
Poudriere version: 3.2.2-11-ge1d3bef2
Host OSVERSION: 1200052
Jail OSVERSION: 1101001
Job Id: 24
---Begin Environment---
POUDRIEREPATH=/usr/local/bin/poudriere
LOCALBASE=/usr/local
LIBEXECPREFIX=/usr/local/libexec/poudriere
SCRIPTPATH=/usr/local/share/poudriere/bulk.sh
POUDRIERE_VERSION=3.2.2-11-ge1d3bef2
P_PYTHON_MAJOR_VER=2
HOME=/root
USER=root
SCRIPTPREFIX=/usr/local/share/poudriere
MASTERNAME=111armv6-quarterly
PWD=/usr/local/poudriere/data/.m/111armv6-quarterly/ref/.p/pool
P_PORTS_FEATURES=DEPENDS_ARGS SELECTED_OPTIONS
OLDPWD=/usr/local/poudriere/data/.m/111armv6-quarterly/ref/.p
POUDRIERE_BUILD_TYPE=bulk
PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin
QEMU_EMULATING=1
MASTERMNT=/usr/local/poudriere/data/.m/111armv6-quarterly/ref
SAVED_TERM=
STATUS=1
MAIL=/var/mail/root
BLOCKSIZE=K
UNAME_r=11.1-RELEASE-p5
UNAME_v=FreeBSD 11.1-RELEASE-p5 1101001
OSVERSION=1101001
ABI_FILE=/usr/lib/crt1.o
UNAME_m=arm
UNAME_p=armv6
SHELL=/bin/csh
---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--
h2+fbsdports at fsfe.org
--End MAINTAINER--
--CONFIGURE_ARGS--
--End CONFIGURE_ARGS--
--CONFIGURE_ENV--
XDG_DATA_HOME=/wrkdirs/usr/ports/biology/seqan-apps/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/seqan-apps/work HOME=/wrkdirs/usr/ports/biology/seqan-apps/work TMPDIR="/tmp" SHELL=/bin/sh CONFIG_SHELL=/bin/sh
--End CONFIGURE_ENV--
--MAKE_ENV--
XDG_DATA_HOME=/wrkdirs/usr/ports/biology/seqan-apps/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/seqan-apps/work HOME=/wrkdirs/usr/ports/biology/seqan-apps/work TMPDIR="/tmp" NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES ADDR2LINE="/usr/local/bin/addr2line" AR="/usr/local/bin/ar" AS="/usr/local/bin/as" CPPFILT="/usr/local/bin/c++filt" GPROF="/usr/local/bin/gprof" LD="/usr/local/bin/ld" NM="/usr/local/bin/nm" OBJCOPY="/usr/local/bin/objcopy" OBJDUMP="/usr/local/bin/objdump" RANLIB="/usr/local/bin/ranlib" READELF="/usr/local/bin/readelf" SIZE="/usr/local/bin/size" STRINGS="/usr/local/bin/strings" DESTDIR=/wrkdirs/usr/ports/biology/seqan-apps/work/stage PREFIX=/usr/local LOCALBASE=/usr/local LIBDIR="/usr/lib" CC="gcc6" CFLAGS="-O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing" CPP="cpp6" CPPFLAGS="" LDFLAGS=" -Wl,-rpath=/usr/local/lib/gcc6 -L/usr/local/lib/gcc6" LIBS="" CXX="g++6" CXXFLAGS="-O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -f
no-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6" 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 444"
--End MAKE_ENV--
--PLIST_SUB--
CMAKE_BUILD_TYPE="release" RM_I386="" OSREL=11.1 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local PORTDOCS="" PORTEXAMPLES="" LIB32DIR=lib DOCSDIR="share/doc/seqan-apps" EXAMPLESDIR="share/examples/seqan-apps" DATADIR="share/seqan-apps" WWWDIR="www/seqan-apps" ETCDIR="etc/seqan-apps"
--End PLIST_SUB--
--SUB_LIST--
PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/seqan-apps DOCSDIR=/usr/local/share/doc/seqan-apps EXAMPLESDIR=/usr/local/share/examples/seqan-apps WWWDIR=/usr/local/www/seqan-apps ETCDIR=/usr/local/etc/seqan-apps
--End SUB_LIST--
---Begin make.conf---
.sinclude "/etc/make.nxb.conf"
USE_PACKAGE_DEPENDS=yes
BATCH=yes
WRKDIRPREFIX=/wrkdirs
PORTSDIR=/usr/ports
PACKAGES=/packages
DISTDIR=/distfiles
PACKAGE_BUILDING=yes
PACKAGE_BUILDING_FLAVORS=yes
MACHINE=arm
MACHINE_ARCH=armv6
ARCH=${MACHINE_ARCH}
#### /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 ####
ARCH=armv6
CONFIGURE_MAX_CMD_LEN=262144
OPSYS=FreeBSD
OSREL=11.1
OSVERSION=1101001
PYTHONBASE=/usr/local
UID=0
_JAVA_OS_LIST_REGEXP=native|linux
_JAVA_VENDOR_LIST_REGEXP=openjdk|oracle|sun
_JAVA_VERSION_LIST_REGEXP=1.6|1.7|1.8|1.6\+|1.7\+|1.8\+
_OSRELEASE=11.1-RELEASE-p5
#### Misc Poudriere ####
GID=0
DISABLE_MAKE_JOBS=poudriere
---End make.conf---
---Begin make.nxb.conf---
CC=/nxb-bin/usr/bin/cc
CPP=/nxb-bin/usr/bin/cpp
CXX=/nxb-bin/usr/bin/c++
AS=/nxb-bin/usr/bin/as
NM=/nxb-bin/usr/bin/nm
LD=/nxb-bin/usr/bin/ld
OBJCOPY=/nxb-bin/usr/bin/objcopy
SIZE=/nxb-bin/usr/bin/size
STRIPBIN=/nxb-bin/usr/bin/strip
SED=/nxb-bin/usr/bin/sed
RANLIB=/nxb-bin/usr/bin/ranlib
YACC=/nxb-bin/usr/bin/yacc
MAKE=/nxb-bin/usr/bin/make
STRINGS=/nxb-bin/usr/bin/strings
AWK=/nxb-bin/usr/bin/awk
FLEX=/nxb-bin/usr/bin/flex
---End make.nxb.conf---
--Resource limits--
cpu time (seconds, -t) unlimited
file size (512-blocks, -f) unlimited
data seg size (kbytes, -d) 33554432
stack size (kbytes, -s) 524288
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 BSD3CLAUSE LGPL3 GPLv3 accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> seqan-apps-2.2.0_8 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.10.1.txz
[111armv6-quarterly-job-24] Installing pkg-1.10.1...
[111armv6-quarterly-job-24] Extracting pkg-1.10.1: .......... done
===> seqan-apps-2.2.0_8 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of seqan-apps-2.2.0_8
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License BSD3CLAUSE LGPL3 GPLv3 accepted by the user
===> Fetching all distfiles required by seqan-apps-2.2.0_8 for building
===========================================================================
=======================<phase: checksum >============================
===> License BSD3CLAUSE LGPL3 GPLv3 accepted by the user
===> Fetching all distfiles required by seqan-apps-2.2.0_8 for building
=> SHA256 Checksum OK for seqan-seqan-seqan-v2.2.0_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract >============================
===> License BSD3CLAUSE LGPL3 GPLv3 accepted by the user
===> Fetching all distfiles required by seqan-apps-2.2.0_8 for building
===> Extracting for seqan-apps-2.2.0_8
=> SHA256 Checksum OK for seqan-seqan-seqan-v2.2.0_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===========================================================================
=======================<phase: patch >============================
===> Patching for seqan-apps-2.2.0_8
===========================================================================
=======================<phase: build-depends >============================
===> seqan-apps-2.2.0_8 depends on package: boost-libs>0 - not found
===> Installing existing package /packages/All/boost-libs-1.65.1.txz
[111armv6-quarterly-job-24] Installing boost-libs-1.65.1...
[111armv6-quarterly-job-24] `-- Installing icu-59.1,1...
[111armv6-quarterly-job-24] `-- Extracting icu-59.1,1: .......... done
[111armv6-quarterly-job-24] Extracting boost-libs-1.65.1: .......... done
Message from boost-libs-1.65.1:
You have built the Boost library with thread support.
Don't forget to add -pthread to your linker options when
linking your code.
===> seqan-apps-2.2.0_8 depends on package: boost-libs>0 - found
===> Returning to build of seqan-apps-2.2.0_8
<snip>
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic.h:74,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/sequence.h:74,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/param_chooser/param_chooser.cpp:36:
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning is a GCC extension
#warning "No supported platform for SIMD vectorization!"
^~~~~~~
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning "No supported platform for SIMD vectorization!" [-Wcpp]
[85/133] : && /usr/local/bin/g++6 -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -Wl,-rpath=/usr/local/lib/gcc6 -L/usr/local/lib/gcc6 apps/param_chooser/CMakeFiles/param_chooser.dir/param_chooser.cpp.o -o bin/param_chooser -lpthread -lexecinfo -lelf && :
[86/133] /usr/local/bin/g++6 -DSEQAN_APP_VERSION=\"1.2.6\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/rabema/CMakeFiles/rabema_do_search.dir/do_search.cpp.o -MF apps/rabema/CMakeFiles/rabema_do_search.dir/do_search.cpp.o.d -o apps/rabema/CMakeFiles/rabema_do_search.dir/do_search.cpp.o -c /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/rabema/do_search.cpp
In file included from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_allocator.h:47:0,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic.h:74,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/rabema/do_search.cpp:7:
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning is a GCC extension
#warning "No supported platform for SIMD vectorization!"
^~~~~~~
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning "No supported platform for SIMD vectorization!" [-Wcpp]
[87/133] : && /usr/local/bin/g++6 -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -Wl,-rpath=/usr/local/lib/gcc6 -L/usr/local/lib/gcc6 apps/rabema/CMakeFiles/rabema_do_search.dir/do_search.cpp.o -o bin/rabema_do_search -lpthread -lexecinfo -lelf -lz && :
[88/133] /usr/local/bin/g++6 -DSEQAN_APP_VERSION=\"1.2.6\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/rabema/CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o -MF apps/rabema/CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o.d -o apps/rabema/CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o -c /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/rabema/rabema_evaluate.cpp
In file included from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_allocator.h:47:0,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic.h:74,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/arg_parse.h:44,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/rabema/rabema_evaluate.cpp:28:
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning is a GCC extension
#warning "No supported platform for SIMD vectorization!"
^~~~~~~
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning "No supported platform for SIMD vectorization!" [-Wcpp]
[89/133] : && /usr/local/bin/g++6 -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -Wl,-rpath=/usr/local/lib/gcc6 -L/usr/local/lib/gcc6 apps/rabema/CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o -o bin/rabema_evaluate -lpthread -lexecinfo -lelf -lz && :
[90/133] /usr/local/bin/g++6 -DSEQAN_APP_VERSION=\"1.2.6\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -MF apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o.d -o apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -c /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/rabema/rabema_build_gold_standard.cpp
In file included from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_allocator.h:47:0,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic.h:74,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/arg_parse.h:44,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/rabema/rabema_build_gold_standard.cpp:35:
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning is a GCC extension
#warning "No supported platform for SIMD vectorization!"
^~~~~~~
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning "No supported platform for SIMD vectorization!" [-Wcpp]
[91/133] : && /usr/local/bin/g++6 -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -Wl,-rpath=/usr/local/lib/gcc6 -L/usr/local/lib/gcc6 apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -o bin/rabema_build_gold_standard -lpthread -lexecinfo -lelf -lz && :
[92/133] /usr/local/bin/g++6 -DSEQAN_APP_VERSION=\"1.2.6\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/rabema/CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o -MF apps/rabema/CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o.d -o apps/rabema/CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o -c /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/rabema/prepare_sam.cpp
In file included from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_allocator.h:47:0,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic.h:74,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/bam_io.h:45,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/rabema/prepare_sam.cpp:29:
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning is a GCC extension
#warning "No supported platform for SIMD vectorization!"
^~~~~~~
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning "No supported platform for SIMD vectorization!" [-Wcpp]
[93/133] : && /usr/local/bin/g++6 -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -Wl,-rpath=/usr/local/lib/gcc6 -L/usr/local/lib/gcc6 apps/rabema/CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o -o bin/rabema_prepare_sam -lpthread -lexecinfo -lelf -lz && :
[94/133] /usr/local/bin/g++6 -DSEQAN_APP_VERSION=\"1.5.4\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/razers/CMakeFiles/razers.dir/razers.cpp.o -MF apps/razers/CMakeFiles/razers.dir/razers.cpp.o.d -o apps/razers/CMakeFiles/razers.dir/razers.cpp.o -c /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/razers/razers.cpp
In file included from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_allocator.h:47:0,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic.h:74,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/arg_parse.h:44,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/razers/razers.cpp:49:
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning is a GCC extension
#warning "No supported platform for SIMD vectorization!"
^~~~~~~
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning "No supported platform for SIMD vectorization!" [-Wcpp]
[95/133] /usr/local/bin/g++6 -DSEQAN_APP_VERSION=\"1.5.4\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/razers/CMakeFiles/razers.dir/param_tabs.cpp.o -MF apps/razers/CMakeFiles/razers.dir/param_tabs.cpp.o.d -o apps/razers/CMakeFiles/razers.dir/param_tabs.cpp.o -c /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/razers/param_tabs.cpp
In file included from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_allocator.h:47:0,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic.h:74,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/sequence.h:74,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/razers/param_tabs.h:30,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/razers/param_tabs.cpp:24:
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning is a GCC extension
#warning "No supported platform for SIMD vectorization!"
^~~~~~~
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning "No supported platform for SIMD vectorization!" [-Wcpp]
[96/133] : && /usr/local/bin/g++6 -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -Wl,-rpath=/usr/local/lib/gcc6 -L/usr/local/lib/gcc6 apps/razers/CMakeFiles/razers.dir/razers.cpp.o apps/razers/CMakeFiles/razers.dir/param_tabs.cpp.o -o bin/razers -lpthread -lexecinfo -lelf && :
[97/133] /usr/local/bin/g++6 -DSEQAN_APP_VERSION=\"3.5.4\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -fopenmp -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/razers3/CMakeFiles/razers3.dir/razers.cpp.o -MF apps/razers3/CMakeFiles/razers3.dir/razers.cpp.o.d -o apps/razers3/CMakeFiles/razers3.dir/razers.cpp.o -c /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/razers3/razers.cpp
In file included from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_allocator.h:47:0,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic.h:74,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/razers3/razers.cpp:60:
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning is a GCC extension
#warning "No supported platform for SIMD vectorization!"
^~~~~~~
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning "No supported platform for SIMD vectorization!" [-Wcpp]
[98/133] /usr/local/bin/g++6 -DSEQAN_APP_VERSION=\"3.5.4\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -fopenmp -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/razers3/CMakeFiles/razers3.dir/param_tabs.cpp.o -MF apps/razers3/CMakeFiles/razers3.dir/param_tabs.cpp.o.d -o apps/razers3/CMakeFiles/razers3.dir/param_tabs.cpp.o -c /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/razers3/param_tabs.cpp
In file included from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_allocator.h:47:0,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic.h:74,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/sequence.h:74,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/razers3/param_tabs.h:30,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/razers3/param_tabs.cpp:24:
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning is a GCC extension
#warning "No supported platform for SIMD vectorization!"
^~~~~~~
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning "No supported platform for SIMD vectorization!" [-Wcpp]
[99/133] : && /usr/local/bin/g++6 -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -fopenmp -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -Wl,-rpath=/usr/local/lib/gcc6 -L/usr/local/lib/gcc6 apps/razers3/CMakeFiles/razers3.dir/razers.cpp.o apps/razers3/CMakeFiles/razers3.dir/param_tabs.cpp.o -o bin/razers3 -lpthread -lexecinfo -lelf -lz -lbz2 && :
[100/133] /usr/local/bin/g++6 -DSEQAN_APP_VERSION=\"3.5.4\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -fopenmp -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/razers3/CMakeFiles/razers3_quality2prob.dir/quality2prob.cpp.o -MF apps/razers3/CMakeFiles/razers3_quality2prob.dir/quality2prob.cpp.o.d -o apps/razers3/CMakeFiles/razers3_quality2prob.dir/quality2prob.cpp.o -c /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/razers3/quality2prob.cpp
In file included from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_allocator.h:47:0,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic.h:74,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/arg_parse.h:44,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/razers3/quality2prob.cpp:5:
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning is a GCC extension
#warning "No supported platform for SIMD vectorization!"
^~~~~~~
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning "No supported platform for SIMD vectorization!" [-Wcpp]
[101/133] : && /usr/local/bin/g++6 -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -fopenmp -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -Wl,-rpath=/usr/local/lib/gcc6 -L/usr/local/lib/gcc6 apps/razers3/CMakeFiles/razers3_quality2prob.dir/quality2prob.cpp.o -o bin/razers3_quality2prob -lpthread -lexecinfo -lelf -lz -lbz2 && :
[102/133] /usr/local/bin/g++6 -DSEQAN_APP_VERSION=\"3.5.4\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -fopenmp -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/razers3/CMakeFiles/razers3_simulate_reads.dir/simulate_reads.cpp.o -MF apps/razers3/CMakeFiles/razers3_simulate_reads.dir/simulate_reads.cpp.o.d -o apps/razers3/CMakeFiles/razers3_simulate_reads.dir/simulate_reads.cpp.o -c /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/razers3/simulate_reads.cpp
In file included from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_allocator.h:47:0,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic.h:74,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/arg_parse.h:44,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/razers3/simulate_reads.cpp:6:
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning is a GCC extension
#warning "No supported platform for SIMD vectorization!"
^~~~~~~
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning "No supported platform for SIMD vectorization!" [-Wcpp]
[103/133] : && /usr/local/bin/g++6 -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -fopenmp -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -Wl,-rpath=/usr/local/lib/gcc6 -L/usr/local/lib/gcc6 apps/razers3/CMakeFiles/razers3_simulate_reads.dir/simulate_reads.cpp.o -o bin/razers3_simulate_reads -lpthread -lexecinfo -lelf -lz -lbz2 && :
[104/133] /usr/local/bin/g++6 -DSEQAN_APP_VERSION=\"0.1.7\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/rep_sep/CMakeFiles/rep_sep.dir/rep_sep.cpp.o -MF apps/rep_sep/CMakeFiles/rep_sep.dir/rep_sep.cpp.o.d -o apps/rep_sep/CMakeFiles/rep_sep.dir/rep_sep.cpp.o -c /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/rep_sep/rep_sep.cpp
In file included from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_allocator.h:47:0,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic.h:74,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/arg_parse.h:44,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/rep_sep/rep_sep.cpp:27:
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning is a GCC extension
#warning "No supported platform for SIMD vectorization!"
^~~~~~~
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning "No supported platform for SIMD vectorization!" [-Wcpp]
[105/133] : && /usr/local/bin/g++6 -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -Wl,-rpath=/usr/local/lib/gcc6 -L/usr/local/lib/gcc6 apps/rep_sep/CMakeFiles/rep_sep.dir/rep_sep.cpp.o -o bin/rep_sep -lpthread -lexecinfo -lelf && :
[106/133] /usr/local/bin/g++6 -DSEQAN_APP_VERSION=\"0.4.4\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/sak/CMakeFiles/sak.dir/sak.cpp.o -MF apps/sak/CMakeFiles/sak.dir/sak.cpp.o.d -o apps/sak/CMakeFiles/sak.dir/sak.cpp.o -c /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/sak/sak.cpp
In file included from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_allocator.h:47:0,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic.h:74,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/arg_parse.h:44,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/sak/sak.cpp:42:
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning is a GCC extension
#warning "No supported platform for SIMD vectorization!"
^~~~~~~
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning "No supported platform for SIMD vectorization!" [-Wcpp]
[107/133] : && /usr/local/bin/g++6 -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -Wl,-rpath=/usr/local/lib/gcc6 -L/usr/local/lib/gcc6 apps/sak/CMakeFiles/sak.dir/sak.cpp.o -o bin/sak -lpthread -lexecinfo -lelf && :
[108/133] /usr/local/bin/g++6 -DSEQAN_APP_VERSION=\"0.3.4\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/sam2matrix/CMakeFiles/sam2matrix.dir/sam2matrix.cpp.o -MF apps/sam2matrix/CMakeFiles/sam2matrix.dir/sam2matrix.cpp.o.d -o apps/sam2matrix/CMakeFiles/sam2matrix.dir/sam2matrix.cpp.o -c /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/sam2matrix/sam2matrix.cpp
In file included from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_allocator.h:47:0,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic.h:74,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/sam2matrix/sam2matrix.cpp:41:
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning is a GCC extension
#warning "No supported platform for SIMD vectorization!"
^~~~~~~
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning "No supported platform for SIMD vectorization!" [-Wcpp]
[109/133] : && /usr/local/bin/g++6 -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -Wl,-rpath=/usr/local/lib/gcc6 -L/usr/local/lib/gcc6 apps/sam2matrix/CMakeFiles/sam2matrix.dir/sam2matrix.cpp.o -o bin/sam2matrix -lpthread -lexecinfo -lelf && :
[110/133] /usr/local/bin/g++6 -DSEQAN_APP_VERSION=\"0.3.4\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -fopenmp -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/samcat/CMakeFiles/samcat.dir/samcat.cpp.o -MF apps/samcat/CMakeFiles/samcat.dir/samcat.cpp.o.d -o apps/samcat/CMakeFiles/samcat.dir/samcat.cpp.o -c /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/samcat/samcat.cpp
In file included from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_allocator.h:47:0,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic.h:74,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/samcat/samcat.cpp:35:
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning is a GCC extension
#warning "No supported platform for SIMD vectorization!"
^~~~~~~
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning "No supported platform for SIMD vectorization!" [-Wcpp]
[111/133] : && /usr/local/bin/g++6 -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -fopenmp -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -Wl,-rpath=/usr/local/lib/gcc6 -L/usr/local/lib/gcc6 apps/samcat/CMakeFiles/samcat.dir/samcat.cpp.o -o bin/samcat -lpthread -lexecinfo -lelf -lz && :
[112/133] /usr/local/bin/g++6 -DSEARCHJOIN_HUGEDB=TRUE -DSEQAN_APP_VERSION=\"0.5.4\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -fopenmp -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/searchjoin/CMakeFiles/s4_join.dir/join.cpp.o -MF apps/searchjoin/CMakeFiles/s4_join.dir/join.cpp.o.d -o apps/searchjoin/CMakeFiles/s4_join.dir/join.cpp.o -c /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/searchjoin/join.cpp
FAILED: apps/searchjoin/CMakeFiles/s4_join.dir/join.cpp.o
/usr/local/bin/g++6 -DSEARCHJOIN_HUGEDB=TRUE -DSEQAN_APP_VERSION=\"0.5.4\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -W -Wall -pedantic -fstrict-aliasing -Wstrict-aliasing -fopenmp -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc6 -fno-strict-aliasing -Wl,-rpath=/usr/local/lib/gcc6 -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/searchjoin/CMakeFiles/s4_join.dir/join.cpp.o -MF apps/searchjoin/CMakeFiles/s4_join.dir/join.cpp.o.d -o apps/searchjoin/CMakeFiles/s4_join.dir/join.cpp.o -c /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/searchjoin/join.cpp
In file included from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_allocator.h:47:0,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic.h:74,
from /wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/apps/searchjoin/join.cpp:59:
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning is a GCC extension
#warning "No supported platform for SIMD vectorization!"
^~~~~~~
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0/include/seqan/basic/basic_simd_vector.h:53:3: warning: #warning "No supported platform for SIMD vectorization!" [-Wcpp]
{standard input}: Assembler messages:
{standard input}:6335: Error: bad instruction `rep'
{standard input}:6352: Error: bad instruction `rep'
{standard input}:6459: Error: bad instruction `rep'
{standard input}:6476: Error: bad instruction `rep'
{standard input}:6813: Error: bad instruction `rep'
{standard input}:6830: Error: bad instruction `rep'
{standard input}:6944: Error: bad instruction `rep'
{standard input}:6961: Error: bad instruction `rep'
{standard input}:7739: Error: bad instruction `rep'
{standard input}:7756: Error: bad instruction `rep'
{standard input}:7866: Error: bad instruction `rep'
{standard input}:7883: Error: bad instruction `rep'
{standard input}:8220: Error: bad instruction `rep'
{standard input}:8237: Error: bad instruction `rep'
{standard input}:8351: Error: bad instruction `rep'
{standard input}:8368: Error: bad instruction `rep'
{standard input}:9140: Error: bad instruction `rep'
{standard input}:9157: Error: bad instruction `rep'
{standard input}:9264: Error: bad instruction `rep'
{standard input}:9281: Error: bad instruction `rep'
{standard input}:9618: Error: bad instruction `rep'
{standard input}:9635: Error: bad instruction `rep'
{standard input}:9749: Error: bad instruction `rep'
{standard input}:9766: Error: bad instruction `rep'
{standard input}:10544: Error: bad instruction `rep'
{standard input}:10561: Error: bad instruction `rep'
{standard input}:10671: Error: bad instruction `rep'
{standard input}:10688: Error: bad instruction `rep'
{standard input}:11025: Error: bad instruction `rep'
{standard input}:11042: Error: bad instruction `rep'
{standard input}:11156: Error: bad instruction `rep'
{standard input}:11173: Error: bad instruction `rep'
{standard input}:29968: Error: bad instruction `rep'
{standard input}:29984: Error: bad instruction `rep'
{standard input}:30115: Error: bad instruction `rep'
{standard input}:30131: Error: bad instruction `rep'
{standard input}:30288: Error: bad instruction `rep'
{standard input}:30304: Error: bad instruction `rep'
{standard input}:30484: Error: bad instruction `rep'
{standard input}:30500: Error: bad instruction `rep'
ninja: build stopped: subcommand failed.
*** Error code 1
Stop.
make: stopped in /usr/ports/biology/seqan-apps
More information about the freebsd-pkg-fallout
mailing list