[package - main-powerpc64-default][biology/mmseqs2] Failed for MMseqs2-13.45111_2 in build
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Date: Sun, 03 Sep 2023 05:51:22 UTC
You are receiving this mail as a port that you maintain
is failing to build on the FreeBSD package build server.
Please investigate the failure and submit a PR to fix
build.
Maintainer: jwb@FreeBSD.org
Log URL: https://pkg-status.freebsd.org/foul1/data/main-powerpc64-default/pd6fe15e0ee7a_s1ec7cb1b5d/logs/MMseqs2-13.45111_2.log
Build URL: https://pkg-status.freebsd.org/foul1/build.html?mastername=main-powerpc64-default&build=pd6fe15e0ee7a_s1ec7cb1b5d
Log:
=>> Building biology/mmseqs2
build started at Sun Sep 3 05:11:09 UTC 2023
port directory: /usr/ports/biology/mmseqs2
package name: MMseqs2-13.45111_2
building for: FreeBSD main-powerpc64-default-job-10 14.0-CURRENT FreeBSD 14.0-CURRENT 1400093 powerpc
maintained by: jwb@FreeBSD.org
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=======================<phase: check-sanity >============================
===> License GPLv3 accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> MMseqs2-13.45111_2 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.20.2.pkg
[main-powerpc64-default-job-10] Installing pkg-1.20.2...
[main-powerpc64-default-job-10] Extracting pkg-1.20.2: .......... done
===> MMseqs2-13.45111_2 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of MMseqs2-13.45111_2
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License GPLv3 accepted by the user
===> Fetching all distfiles required by MMseqs2-13.45111_2 for building
===========================================================================
=======================<phase: checksum >============================
===> License GPLv3 accepted by the user
===> Fetching all distfiles required by MMseqs2-13.45111_2 for building
=> SHA256 Checksum OK for soedinglab-MMseqs2-13-45111_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract >============================
===> License GPLv3 accepted by the user
===> Fetching all distfiles required by MMseqs2-13.45111_2 for building
===> Extracting for MMseqs2-13.45111_2
=> SHA256 Checksum OK for soedinglab-MMseqs2-13-45111_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===========================================================================
=======================<phase: patch >============================
===> Patching for MMseqs2-13.45111_2
===> Applying FreeBSD patches for MMseqs2-13.45111_2 from /usr/ports/biology/mmseqs2/files
===========================================================================
=======================<phase: build-depends >============================
===> MMseqs2-13.45111_2 depends on file: /usr/local/bin/cmake - not found
===> Installing existing package /packages/All/cmake-core-3.26.1_1.pkg
[main-powerpc64-default-job-10] Installing cmake-core-3.26.1_1...
[main-powerpc64-default-job-10] `-- Installing expat-2.5.0...
<snip>
r_.i64 = HEDLEY_STATIC_CAST(__typeof__(r_.i64), (a_.f64 <= b_.f64));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:2022:60: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i8 = HEDLEY_STATIC_CAST(__typeof__(r_.i8), (a_.i8 > b_.i8));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:2055:63: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i16 = HEDLEY_STATIC_CAST(__typeof__(r_.i16), (a_.i16 > b_.i16));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:2088:63: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i32 = HEDLEY_STATIC_CAST(__typeof__(r_.i32), (a_.i32 > b_.i32));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:2115:63: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i64 = HEDLEY_STATIC_CAST(__typeof__(r_.i64), (a_.f64 > b_.f64));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:2171:63: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i64 = HEDLEY_STATIC_CAST(__typeof__(r_.i64), (a_.f64 >= b_.f64));
^
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/commons/Application.cpp:4:
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/alignment/DistanceCalculator.h:8:
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simd/simd.h:321:
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse4.1.h:209:70: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
mask_.i8 = HEDLEY_STATIC_CAST(__typeof__(mask_.i8), mask_.i8 < z);
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse4.1.h:252:31: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
mask_.i16 = mask_.i16 < z;
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse4.1.h:293:73: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
mask_.i32 = HEDLEY_STATIC_CAST(__typeof__(mask_.i32), mask_.i32 < z);
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse4.1.h:336:73: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
mask_.i64 = HEDLEY_STATIC_CAST(__typeof__(mask_.i64), mask_.i64 < z);
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse4.1.h:573:62: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i64 = HEDLEY_STATIC_CAST(__typeof__(r_.i64), a_.i64 == b_.i64);
^
26 warnings generated.
[ 35% 83/228] /usr/bin/c++ -DHAVE_BZLIB=1 -DHAVE_POSIX_FADVISE=1 -DHAVE_POSIX_MADVISE=1 -DHAVE_ZLIB=1 -DOPENMP=1 -I/usr/local/include -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/tinyexpr -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/microtar -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simd -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/gzstream -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/alp -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/cacode -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/ksw2 -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/xxhash -I/wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/alignment -I/wrkdirs/usr/ports/biology/mmseqs2/work
/MMseqs2-13-45111/src/clustering -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/commons -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/multihit -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/prefiltering -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/linclust -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/taxonomy -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/util -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/. -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fsigned-char -D_GNU_SOURCE=1 -D_WITH_GETLINE -std=c++1y -stdlib=libc++ -pedantic -Wall -Wextra -Wdisabled-optimization -fno-exceptions -fopenmp=libomp -MD -MT src/CMakeFiles/mmseqs-framework.dir/commons/Command.cpp.o -MF src/CMakeFiles/mmseqs-framework.dir/commons/Command.cpp.o.d -o src/CMakeFiles/mmseqs-framework.dir/commons/Command.cpp.o -
c /wrkdirs/usr/ports/biology/mmseqs2/work/MM!
seqs2-13-45111/src/commons/Command.cpp
[ 36% 84/228] /usr/bin/c++ -DHAVE_BZLIB=1 -DHAVE_POSIX_FADVISE=1 -DHAVE_POSIX_MADVISE=1 -DHAVE_ZLIB=1 -DOPENMP=1 -I/usr/local/include -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/tinyexpr -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/microtar -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simd -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/gzstream -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/alp -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/cacode -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/ksw2 -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/xxhash -I/wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/alignment -I/wrkdirs/usr/ports/biology/mmseqs2/work
/MMseqs2-13-45111/src/clustering -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/commons -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/multihit -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/prefiltering -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/linclust -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/taxonomy -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/util -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/. -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fsigned-char -D_GNU_SOURCE=1 -D_WITH_GETLINE -std=c++1y -stdlib=libc++ -pedantic -Wall -Wextra -Wdisabled-optimization -fno-exceptions -fopenmp=libomp -MD -MT src/CMakeFiles/mmseqs-framework.dir/commons/CommandCaller.cpp.o -MF src/CMakeFiles/mmseqs-framework.dir/commons/CommandCaller.cpp.o.d -o src/CMakeFiles/mmseqs-framework.dir/commons/Com
mandCaller.cpp.o -c /wrkdirs/usr/ports/biolo!
gy/mmseqs2/work/MMseqs2-13-45111/src/commons/CommandCaller.cpp
FAILED: src/CMakeFiles/mmseqs-framework.dir/commons/CommandCaller.cpp.o
/usr/bin/c++ -DHAVE_BZLIB=1 -DHAVE_POSIX_FADVISE=1 -DHAVE_POSIX_MADVISE=1 -DHAVE_ZLIB=1 -DOPENMP=1 -I/usr/local/include -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/tinyexpr -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/microtar -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simd -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/gzstream -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/alp -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/cacode -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/ksw2 -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/xxhash -I/wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/alignment -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45
111/src/clustering -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/commons -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/multihit -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/prefiltering -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/linclust -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/taxonomy -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/util -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/. -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fsigned-char -D_GNU_SOURCE=1 -D_WITH_GETLINE -std=c++1y -stdlib=libc++ -pedantic -Wall -Wextra -Wdisabled-optimization -fno-exceptions -fopenmp=libomp -MD -MT src/CMakeFiles/mmseqs-framework.dir/commons/CommandCaller.cpp.o -MF src/CMakeFiles/mmseqs-framework.dir/commons/CommandCaller.cpp.o.d -o src/CMakeFiles/mmseqs-framework.dir/commons/CommandCaller.cpp
.o -c /wrkdirs/usr/ports/biology/mmseqs2/wor!
k/MMseqs2-13-45111/src/commons/CommandCaller.cpp
Attributes 'zeroext and signext' are incompatible!
ptr @omp_get_proc_bind
fatal error: error in backend: Broken module found, compilation aborted!
PLEASE submit a bug report to https://bugs.freebsd.org/submit/ and include the crash backtrace, preprocessed source, and associated run script.
Stack dump:
0. Program arguments: /usr/bin/c++ -DHAVE_BZLIB=1 -DHAVE_POSIX_FADVISE=1 -DHAVE_POSIX_MADVISE=1 -DHAVE_ZLIB=1 -DOPENMP=1 -I/usr/local/include -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/tinyexpr -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/microtar -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simd -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/gzstream -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/alp -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/cacode -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/ksw2 -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/xxhash -I/wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/alignment -I/wrkdirs/usr/ports/biology/mmse
qs2/work/MMseqs2-13-45111/src/clustering -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/commons -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/multihit -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/prefiltering -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/linclust -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/taxonomy -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/util -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/. -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fsigned-char -D_GNU_SOURCE=1 -D_WITH_GETLINE -std=c++1y -stdlib=libc++ -pedantic -Wall -Wextra -Wdisabled-optimization -fno-exceptions -fopenmp=libomp -MD -MT src/CMakeFiles/mmseqs-framework.dir/commons/CommandCaller.cpp.o -MF src/CMakeFiles/mmseqs-framework.dir/commons/CommandCaller.cpp.o.d -o src/CMakeFiles/mmseqs-framework.dir/common
s/CommandCaller.cpp.o -c /wrkdirs/usr/ports/!
biology/mmseqs2/work/MMseqs2-13-45111/src/commons/CommandCaller.cpp
1. <eof> parser at end of file
2. Code generation
#0 0x000000001596cb10 (/usr/bin/c+++0x1596cb10)
#1 0x000000001596a2e8 (/usr/bin/c+++0x1596a2e8)
#2 0x00000000158fa3fc (/usr/bin/c+++0x158fa3fc)
#3 0x00000000158fa370 (/usr/bin/c+++0x158fa370)
#4 0x0000000015952218 (/usr/bin/c+++0x15952218)
#5 0x0000000011bcd7d0 (/usr/bin/c+++0x11bcd7d0)
#6 0x000000001590564c (/usr/bin/c+++0x1590564c)
#7 0x00000000159054f4 (/usr/bin/c+++0x159054f4)
#8 0x0000000015442924 (/usr/bin/c+++0x15442924)
#9 0x00000000153a74f8 (/usr/bin/c+++0x153a74f8)
#10 0x00000000153a00a4 (/usr/bin/c+++0x153a00a4)
#11 0x00000000127551c4 (/usr/bin/c+++0x127551c4)
#12 0x0000000012b18534 (/usr/bin/c+++0x12b18534)
#13 0x00000000132d33c8 (/usr/bin/c+++0x132d33c8)
#14 0x0000000012a0e60c (/usr/bin/c+++0x12a0e60c)
#15 0x0000000012b15d50 (/usr/bin/c+++0x12b15d50)
#16 0x0000000012a0dbc0 (/usr/bin/c+++0x12a0dbc0)
#17 0x0000000012986208 (/usr/bin/c+++0x12986208)
#18 0x0000000012b0f444 (/usr/bin/c+++0x12b0f444)
#19 0x0000000011bcceb4 (/usr/bin/c+++0x11bcceb4)
#20 0x0000000011bddbf8 (/usr/bin/c+++0x11bddbf8)
#21 0x00000000127fb1dc (/usr/bin/c+++0x127fb1dc)
#22 0x00000000158fa2cc (/usr/bin/c+++0x158fa2cc)
#23 0x00000000127fa7ac (/usr/bin/c+++0x127fa7ac)
#24 0x00000000127b69bc (/usr/bin/c+++0x127b69bc)
#25 0x00000000127b6d74 (/usr/bin/c+++0x127b6d74)
#26 0x00000000127d44e4 (/usr/bin/c+++0x127d44e4)
#27 0x0000000011bdd170 (/usr/bin/c+++0x11bdd170)
#28 0x000000081824f774 __libc_start1 (/lib/libc.so.7+0x99774)
#29 0x0000000011bcc590 (/usr/bin/c+++0x11bcc590)
c++: error: clang frontend command failed with exit code 70 (use -v to see invocation)
FreeBSD clang version 16.0.6 (https://github.com/llvm/llvm-project.git llvmorg-16.0.6-0-g7cbf1a259152)
Target: powerpc64-unknown-freebsd14.0
Thread model: posix
InstalledDir: /usr/bin
c++: note: diagnostic msg:
********************
PLEASE ATTACH THE FOLLOWING FILES TO THE BUG REPORT:
Preprocessed source(s) and associated run script(s) are located at:
c++: note: diagnostic msg: /tmp/CommandCaller-fe63d5.cpp
c++: note: diagnostic msg: /tmp/CommandCaller-fe63d5.sh
c++: note: diagnostic msg:
********************
[ 36% 84/228] /usr/bin/c++ -DHAVE_BZLIB=1 -DHAVE_POSIX_FADVISE=1 -DHAVE_POSIX_MADVISE=1 -DHAVE_ZLIB=1 -DOPENMP=1 -I/usr/local/include -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/tinyexpr -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/microtar -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simd -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/gzstream -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/alp -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/cacode -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/ksw2 -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/xxhash -I/wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/alignment -I/wrkdirs/usr/ports/biology/mmseqs2/work
/MMseqs2-13-45111/src/clustering -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/commons -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/multihit -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/prefiltering -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/linclust -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/taxonomy -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/util -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/. -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fsigned-char -D_GNU_SOURCE=1 -D_WITH_GETLINE -std=c++1y -stdlib=libc++ -pedantic -Wall -Wextra -Wdisabled-optimization -fno-exceptions -fopenmp=libomp -MD -MT src/CMakeFiles/mmseqs-framework.dir/commons/DBConcat.cpp.o -MF src/CMakeFiles/mmseqs-framework.dir/commons/DBConcat.cpp.o.d -o src/CMakeFiles/mmseqs-framework.dir/commons/DBConcat.cpp.
o -c /wrkdirs/usr/ports/biology/mmseqs2/work!
/MMseqs2-13-45111/src/commons/DBConcat.cpp
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/commons/DBConcat.cpp:2:
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/commons/DBReader.h:13:
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/commons/Sequence.h:11:
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/commons/ScoreMatrix.h:7:
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simd/simd.h:321:
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse4.1.h:27:
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse.h:978:62: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i32 = HEDLEY_STATIC_CAST(__typeof__(r_.i32), a_.f32 == b_.f32);
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse.h:1037:63: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i32 = HEDLEY_STATIC_CAST(__typeof__(r_.i32), (a_.f32 >= b_.f32));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse.h:1096:63: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i32 = HEDLEY_STATIC_CAST(__typeof__(r_.i32), (a_.f32 > b_.f32));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse.h:1155:63: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i32 = HEDLEY_STATIC_CAST(__typeof__(r_.i32), (a_.f32 <= b_.f32));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse.h:1214:63: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i32 = HEDLEY_STATIC_CAST(__typeof__(r_.i32), (a_.f32 < b_.f32));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse.h:1281:63: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i32 = HEDLEY_STATIC_CAST(__typeof__(r_.i32), (a_.f32 != b_.f32));
^
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/commons/DBConcat.cpp:2:
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/commons/DBReader.h:13:
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/commons/Sequence.h:11:
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/commons/ScoreMatrix.h:7:
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simd/simd.h:321:
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse4.1.h:31:
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/ssse3.h:30:
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse3.h:30:
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:1603:60: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i8 = HEDLEY_STATIC_CAST(__typeof__(r_.i8), (a_.i8 == b_.i8));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:1636:24: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i16 = (a_.i16 == b_.i16);
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:1669:62: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i32 = HEDLEY_STATIC_CAST(__typeof__(r_.i32), a_.i32 == b_.i32);
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:1702:63: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i64 = HEDLEY_STATIC_CAST(__typeof__(r_.i64), (a_.f64 == b_.f64));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:1756:63: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i64 = HEDLEY_STATIC_CAST(__typeof__(r_.i64), (a_.f64 != b_.f64));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:1813:60: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i8 = HEDLEY_STATIC_CAST(__typeof__(r_.i8), (a_.i8 < b_.i8));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:1846:63: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i16 = HEDLEY_STATIC_CAST(__typeof__(r_.i16), (a_.i16 < b_.i16));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:1879:63: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i32 = HEDLEY_STATIC_CAST(__typeof__(r_.i32), (a_.i32 < b_.i32));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:1906:63: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i64 = HEDLEY_STATIC_CAST(__typeof__(r_.i64), (a_.f64 < b_.f64));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:1960:63: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i64 = HEDLEY_STATIC_CAST(__typeof__(r_.i64), (a_.f64 <= b_.f64));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:2022:60: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i8 = HEDLEY_STATIC_CAST(__typeof__(r_.i8), (a_.i8 > b_.i8));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:2055:63: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i16 = HEDLEY_STATIC_CAST(__typeof__(r_.i16), (a_.i16 > b_.i16));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:2088:63: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i32 = HEDLEY_STATIC_CAST(__typeof__(r_.i32), (a_.i32 > b_.i32));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:2115:63: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i64 = HEDLEY_STATIC_CAST(__typeof__(r_.i64), (a_.f64 > b_.f64));
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse2.h:2171:63: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i64 = HEDLEY_STATIC_CAST(__typeof__(r_.i64), (a_.f64 >= b_.f64));
^
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/commons/DBConcat.cpp:2:
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/commons/DBReader.h:13:
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/commons/Sequence.h:11:
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/src/commons/ScoreMatrix.h:7:
In file included from /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simd/simd.h:321:
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse4.1.h:209:70: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
mask_.i8 = HEDLEY_STATIC_CAST(__typeof__(mask_.i8), mask_.i8 < z);
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse4.1.h:252:31: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
mask_.i16 = mask_.i16 < z;
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse4.1.h:293:73: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
mask_.i32 = HEDLEY_STATIC_CAST(__typeof__(mask_.i32), mask_.i32 < z);
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse4.1.h:336:73: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
mask_.i64 = HEDLEY_STATIC_CAST(__typeof__(mask_.i64), mask_.i64 < z);
^
/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-13-45111/lib/simde/simde/x86/sse4.1.h:573:62: warning: Current handling of vector bool and vector pixel types in this context are deprecated. The default behaviour will soon change to that implied by the '-altivec-compat=xl' option [-Wdeprecated-altivec-src-compat]
r_.i64 = HEDLEY_STATIC_CAST(__typeof__(r_.i64), a_.i64 == b_.i64);
^
26 warnings generated.
ninja: build stopped: subcommand failed.
===> Compilation failed unexpectedly.
Try to set MAKE_JOBS_UNSAFE=yes and rebuild before reporting the failure to
the maintainer.
*** Error code 1
Stop.
make: stopped in /usr/ports/biology/mmseqs2