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+fbsdpo...@fsfe.org
Last committer: lini...@freebsd.org
Ident:          $FreeBSD: head/biology/seqan-apps/Makefile 441431 2017-05-21 
23:37:34Z linimon $
Log URL:        
http://beefy8.nyi.freebsd.org/data/head-armv6-default/p447380_s322073/logs/seqan-apps-2.2.0_4.log
Build URL:      
http://beefy8.nyi.freebsd.org/build.html?mastername=head-armv6-default&build=p447380_s322073
Log:

====>> Building biology/seqan-apps
build started at Sat Aug  5 07:56:55 UTC 2017
port directory: /usr/ports/biology/seqan-apps
building for: FreeBSD head-armv6-default-job-03 12.0-CURRENT FreeBSD 
12.0-CURRENT 1200040 arm
maintained by: h2+fbsdpo...@fsfe.org
Makefile ident:      $FreeBSD: head/biology/seqan-apps/Makefile 441431 
2017-05-21 23:37:34Z linimon $
Poudriere version: 3.1.19-61-ga8829ba9
Host OSVERSION: 1200033
Jail OSVERSION: 1200040
Job Id: 03




!!! Jail is newer than host. (Jail: 1200040, Host: 1200033) !!!
!!! This is not supported. !!!
!!! Host kernel must be same or newer than jail. !!!
!!! Expect build failures. !!!



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---End Poudriere Port Flags/Env---

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

--CONFIGURE_ARGS--

--End CONFIGURE_ARGS--

--CONFIGURE_ENV--
XDG_DATA_HOME=/wrkdirs/usr/ports/biology/seqan-apps/work  
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CONFIG_SHELL=/bin/sh
--End CONFIGURE_ENV--

--MAKE_ENV--
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CXX="g++5" CXXFLAGS="-O2 -pipe -Wl,-rpath=/usr/local/lib/gcc5 -f
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---Begin make.conf---
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PORTSDIR=/usr/ports
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PACKAGE_BUILDING=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 ####
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--Resource limits--
cpu time               (seconds, -t)  unlimited
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data seg size           (kbytes, -d)  33554432
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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_4 depends on file: /usr/local/sbin/pkg - not found
===>   Installing existing package /packages/All/pkg-1.10.1.txz
[head-armv6-default-job-03] Installing pkg-1.10.1...
[head-armv6-default-job-03] Extracting pkg-1.10.1: .......... done
===>   seqan-apps-2.2.0_4 depends on file: /usr/local/sbin/pkg - found
===>   Returning to build of seqan-apps-2.2.0_4
===========================================================================
=======================<phase: fetch-depends  >============================
===========================================================================
=======================<phase: fetch          >============================
===>  License BSD3CLAUSE LGPL3 GPLv3 accepted by the user
===> Fetching all distfiles required by seqan-apps-2.2.0_4 for building
===========================================================================
=======================<phase: checksum       >============================
===>  License BSD3CLAUSE LGPL3 GPLv3 accepted by the user
===> Fetching all distfiles required by seqan-apps-2.2.0_4 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_4 for building
===>  Extracting for seqan-apps-2.2.0_4
=> SHA256 Checksum OK for seqan-seqan-seqan-v2.2.0_GH0.tar.gz.
<snip>

*********************************** NOTE **********************************

This package installs symlinks to support root certificates discovery by
default for software that uses OpenSSL.

This enables SSL Certificate Verification by client software without manual
intervention.

If you prefer to do this manually, replace the following symlinks with
either an empty file or your site-local certificate bundle.

  * /etc/ssl/cert.pem
  * /usr/local/etc/ssl/cert.pem
  * /usr/local/openssl/cert.pem

***************************************************************************
===>   seqan-apps-2.2.0_4 depends on file: /usr/local/bin/cmake - found
===>   Returning to build of seqan-apps-2.2.0_4
===>   seqan-apps-2.2.0_4 depends on executable: ninja - not found
===>   Installing existing package /packages/All/ninja-1.7.2,2.txz
[head-armv6-default-job-03] Installing ninja-1.7.2,2...
[head-armv6-default-job-03] `-- Installing python27-2.7.13_7...
[head-armv6-default-job-03] |   `-- Installing gettext-runtime-0.19.8.1_1...
[head-armv6-default-job-03] |   | `-- Installing indexinfo-0.2.6...
[head-armv6-default-job-03] |   | `-- Extracting indexinfo-0.2.6: .... done
[head-armv6-default-job-03] |   `-- Extracting gettext-runtime-0.19.8.1_1: 
.......... done
[head-armv6-default-job-03] |   `-- Installing libffi-3.2.1...
[head-armv6-default-job-03] |   `-- Extracting libffi-3.2.1: .......... done
[head-armv6-default-job-03] |   `-- Installing readline-7.0.3...
[head-armv6-default-job-03] |   `-- Extracting readline-7.0.3: .......... done
[head-armv6-default-job-03] `-- Extracting python27-2.7.13_7: .......... done
[head-armv6-default-job-03] Extracting ninja-1.7.2,2: ....... done
Message from python27-2.7.13_7:
===========================================================================

Note that some standard Python modules are provided as separate ports
as they require additional dependencies. They are available as:

bsddb           databases/py-bsddb
gdbm            databases/py-gdbm
sqlite3         databases/py-sqlite3
tkinter         x11-toolkits/py-tkinter

===========================================================================
===>   seqan-apps-2.2.0_4 depends on executable: ninja - found
===>   Returning to build of seqan-apps-2.2.0_4
===>   seqan-apps-2.2.0_4 depends on executable: gcc5 - not found
===>   Installing existing package /packages/All/gcc5-5.4.0_3.txz
[head-armv6-default-job-03] Installing gcc5-5.4.0_3...
[head-armv6-default-job-03] `-- Installing binutils-2.28,1...
[head-armv6-default-job-03] `-- Extracting binutils-2.28,1: .......... done
[head-armv6-default-job-03] `-- Installing gmp-6.1.2...
[head-armv6-default-job-03] `-- Extracting gmp-6.1.2: .......... done
[head-armv6-default-job-03] `-- Installing mpc-1.0.3...
[head-armv6-default-job-03] |   `-- Installing mpfr-3.1.5_1...
[head-armv6-default-job-03] |   `-- Extracting mpfr-3.1.5_1: .......... done
[head-armv6-default-job-03] `-- Extracting mpc-1.0.3: ...... done
[head-armv6-default-job-03] Extracting gcc5-5.4.0_3: .......... done
Message from gcc5-5.4.0_3:
To ensure binaries built with this toolchain find appropriate versions
of the necessary run-time libraries, you may want to link using

  -Wl,-rpath=/usr/local/lib/gcc5

For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens
transparently.
===>   seqan-apps-2.2.0_4 depends on executable: gcc5 - found
===>   Returning to build of seqan-apps-2.2.0_4
===>   seqan-apps-2.2.0_4 depends on file: /usr/local/bin/as - found
===========================================================================
=======================<phase: lib-depends    >============================
===========================================================================
=======================<phase: configure      >============================
===>  Configuring for seqan-apps-2.2.0_4
===>  Performing out-of-source build
/bin/mkdir -p /wrkdirs/usr/ports/biology/seqan-apps/work/.build
-- The CXX compiler identification is GNU 5.4.0
-- Check for working CXX compiler: /usr/local/bin/g++5
-- Check for working CXX compiler: /usr/local/bin/g++5 -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Initializing SeqAn Build System...
--   Selected repository dir: 
/wrkdirs/usr/ports/biology/seqan-apps/work/seqan-seqan-v2.2.0
-- No revision system found.
--   Repository date not determined.
--   Repository revision not determined.
-- Configuring apps
-- Configuring apps/alf
-- Performing Test CXX14_BUILTIN
-- Performing Test CXX14_BUILTIN - Failed
-- Performing Test CXX14_FLAG
-- Performing Test CXX14_FLAG - Success
-- Looking for C++ include execinfo.h
-- Looking for C++ include execinfo.h - found
-- Configuring apps/bs_tools
-- Found ZLIB: /usr/lib/libz.so (found version "1.2.11") 
-- Boost version: 1.64.0
-- Found PythonInterp: /usr/local/bin/python2.7 (found version "2.7.13") 
-- Configuring apps/dfi
-- Configuring apps/fiona
-- Try OpenMP CXX flag = [-fopenmp]
-- Performing Test OpenMP_FLAG_DETECTED
-- Performing Test OpenMP_FLAG_DETECTED - Success
-- Found OpenMP: -fopenmp  
-- Boost version: 1.64.0
--   Not building fiona on 32bit architectures.
-- Configuring apps/fx_tools
-- Configuring apps/gustaf
-- Configuring apps/insegt
-- Configuring apps/mason2
-- Configuring apps/micro_razers
-- Configuring apps/ngs_roi
-- Configuring apps/pair_align
-- Configuring apps/param_chooser
-- Configuring apps/rabema
-- Configuring apps/razers
-- Configuring apps/razers3
-- Found BZip2: /usr/lib/libbz2.so (found version "1.0.6") 
-- Looking for BZ2_bzCompressInit
-- Looking for BZ2_bzCompressInit - found
-- Configuring apps/rep_sep
-- Configuring apps/sak
-- Configuring apps/sam2matrix
-- Configuring apps/samcat
-- Configuring apps/searchjoin
-- Configuring apps/seqan_tcoffee
-- Configuring apps/seqcons2
-- Configuring apps/sgip
-- Configuring apps/snp_store
-- Boost version: 1.64.0
-- Configuring apps/splazers
--   Not building splazers on 32bit architectures.
-- Configuring apps/stellar
-- Configuring apps/tree_recon
-- Configuring apps/yara
-- Unsupported platform FreeBSD, disabling CTD support.
-- Configuring done
-- Generating done
CMake Warning:
  Manually-specified variables were not used by the project:

    CMAKE_COLOR_MAKEFILE
    CMAKE_C_FLAGS
    CMAKE_C_FLAGS_DEBUG
    CMAKE_C_FLAGS_RELEASE
    CMAKE_MODULE_LINKER_FLAGS
    CMAKE_SHARED_LINKER_FLAGS
    CMAKE_VERBOSE_MAKEFILE
    THREADS_HAVE_PTHREAD_ARG


-- Build files have been written to: 
/wrkdirs/usr/ports/biology/seqan-apps/work/.build
===========================================================================
=======================<phase: build          >============================
===>  Building for seqan-apps-2.2.0_4
[1/133] /usr/local/bin/g++5  -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/gcc5 -fno-strict-aliasing  
-Wl,-rpath=/usr/local/lib/gcc5 -std=c++14  -W -Wall -pedantic -fstrict-aliasing 
-Wstrict-aliasing -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc5 -fno-strict-aliasing 
 -Wl,-rpath=/usr/local/lib/gcc5    -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]
[2/133] : && /usr/local/bin/g++5  -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc5 
-fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc5 -std=c++14  -W -Wall 
-pedantic -fstrict-aliasing -Wstrict-aliasing -O2 -pipe 
-Wl,-rpath=/usr/local/lib/gcc5 -fno-strict-aliasing  
-Wl,-rpath=/usr/local/lib/gcc5  -Wl,-rpath=/usr/local/lib/gcc5 
-L/usr/local/lib/gcc5 
apps/sam2matrix/CMakeFiles/sam2matrix.dir/sam2matrix.cpp.o  -o bin/sam2matrix  
-lpthread -lexecinfo -lelf && :
[3/133] /usr/local/bin/g++5  -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/gcc5 -fno-strict-aliasing  
-Wl,-rpath=/usr/local/lib/gcc5 -std=c++14  -W -Wall -pedantic -fstrict-aliasing 
-Wstrict-aliasing -fopenmp -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc5 
-fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc5    
-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]
[4/133] : && /usr/local/bin/g++5  -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc5 
-fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc5 -std=c++14  -W -Wall 
-pedantic -fstrict-aliasing -Wstrict-aliasing -fopenmp -O2 -pipe 
-Wl,-rpath=/usr/local/lib/gcc5 -fno-strict-aliasing  
-Wl,-rpath=/usr/local/lib/gcc5  -Wl,-rpath=/usr/local/lib/gcc5 
-L/usr/local/lib/gcc5 apps/samcat/CMakeFiles/samcat.dir/samcat.cpp.o  -o 
bin/samcat  -lpthread -lexecinfo -lelf -lz && :
[5/133] /usr/local/bin/g++5  -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/gcc5 -fno-strict-aliasing  
-Wl,-rpath=/usr/local/lib/gcc5 -std=c++14  -W -Wall -pedantic -fstrict-aliasing 
-Wstrict-aliasing -fopenmp -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc5 
-fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc5    
-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++5  -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/gcc5 -fno-strict-aliasing  
-Wl,-rpath=/usr/local/lib/gcc5 -std=c++14  -W -Wall -pedantic -fstrict-aliasing 
-Wstrict-aliasing -fopenmp -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc5 
-fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc5    
-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}:20920: Error: bad instruction `rep'
{standard input}:20936: Error: bad instruction `rep'
{standard input}:21064: Error: bad instruction `rep'
{standard input}:21080: Error: bad instruction `rep'
{standard input}:21233: Error: bad instruction `rep'
{standard input}:21249: Error: bad instruction `rep'
{standard input}:21426: Error: bad instruction `rep'
{standard input}:21442: Error: bad instruction `rep'
ninja: build stopped: subcommand failed.
*** Error code 1

Stop.
make: stopped in /usr/ports/biology/seqan-apps
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