[package - 132releng-armv6-quarterly][biology/smithwaterman] Failed for smithwaterman-g20160702 in build

From: <pkg-fallout_at_FreeBSD.org>
Date: Sat, 09 Sep 2023 03:26:42 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/beefy8/data/132releng-armv6-quarterly/c49faaf4fd33/logs/smithwaterman-g20160702.log
Build URL:      https://pkg-status.freebsd.org/beefy8/build.html?mastername=132releng-armv6-quarterly&build=c49faaf4fd33
Log:

=>> Building biology/smithwaterman
build started at Sat Sep  9 03:26:24 UTC 2023
port directory: /usr/ports/biology/smithwaterman
package name: smithwaterman-g20160702
building for: FreeBSD 132releng-armv6-quarterly-job-03 13.2-RELEASE-p3 FreeBSD 13.2-RELEASE-p3 1302001 arm
maintained by: jwb@FreeBSD.org
Makefile ident: 
Poudriere version: 3.2.8-23-ga7f8d188
Host OSVERSION: 1500000
Jail OSVERSION: 1302001
Job Id: 03

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MAKE=gmake XDG_DATA_HOME=/wrkdirs/usr/ports/biology/smithwaterman/work  XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/smithwaterman/work  XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/smithwaterman/work/.cache  HOME=/wrkdirs/usr/ports/biology/smithwaterman/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/smithwaterman/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/smithwaterman/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh
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OSREL=13.2 PREFIX=%D LOCALBASE=/usr/local  RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/smithwaterman"  EXAMPLESDIR="share/examples/smithwaterman"  DATADIR="share/smithwaterman"  WWWDIR="www/smithwaterman"  ETCDIR="etc/smithwaterman"
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PREFIX=/usr/local LOCALBASE=/usr/local  DATADIR=/usr/local/share/smithwaterman DOCSDIR=/usr/local/share/doc/smithwaterman EXAMPLESDIR=/usr/local/share/examples/smithwaterman  WWWDIR=/usr/local/www/smithwaterman ETCDIR=/usr/local/etc/smithwaterman
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=======================<phase: check-sanity   >============================
===>  License GPLv2 accepted by the user
===========================================================================
=======================<phase: pkg-depends    >============================
===>   smithwaterman-g20160702 depends on file: /usr/local/sbin/pkg - not found
===>   Installing existing package /packages/All/pkg-1.19.2.pkg
[132releng-armv6-quarterly-job-03] Installing pkg-1.19.2...
[132releng-armv6-quarterly-job-03] Extracting pkg-1.19.2: .......... done
===>   smithwaterman-g20160702 depends on file: /usr/local/sbin/pkg - found
===>   Returning to build of smithwaterman-g20160702
===========================================================================
=======================<phase: fetch-depends  >============================
===========================================================================
=======================<phase: fetch          >============================
===>  License GPLv2 accepted by the user
===> Fetching all distfiles required by smithwaterman-g20160702 for building
===========================================================================
=======================<phase: checksum       >============================
===>  License GPLv2 accepted by the user
===> Fetching all distfiles required by smithwaterman-g20160702 for building
=> SHA256 Checksum OK for ekg-smithwaterman-g20160702-2610e259611ae4cde8f03c72499d28f03f6d38a7_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract        >============================
===>  License GPLv2 accepted by the user
===> Fetching all distfiles required by smithwaterman-g20160702 for building
===>  Extracting for smithwaterman-g20160702
=> SHA256 Checksum OK for ekg-smithwaterman-g20160702-2610e259611ae4cde8f03c72499d28f03f6d38a7_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends  >============================
===========================================================================
=======================<phase: patch          >============================
===>  Patching for smithwaterman-g20160702
===========================================================================
=======================<phase: build-depends  >============================
===>   smithwaterman-g20160702 depends on package: gmake>=4.3 - not found
===>   Installing existing package /packages/All/gmake-4.3_2.pkg
[132releng-armv6-quarterly-job-03] Installing gmake-4.3_2...
[132releng-armv6-quarterly-job-03] `-- Installing gettext-runtime-0.21.1...
[132releng-armv6-quarterly-job-03] |   `-- Installing indexinfo-0.3.1...
[132releng-armv6-quarterly-job-03] |   `-- Extracting indexinfo-0.3.1: .... done
[132releng-armv6-quarterly-job-03] `-- Extracting gettext-runtime-0.21.1: .......... done
[132releng-armv6-quarterly-job-03] Extracting gmake-4.3_2: .......... done
===>   smithwaterman-g20160702 depends on package: gmake>=4.3 - found
===>   Returning to build of smithwaterman-g20160702
===========================================================================
=======================<phase: lib-depends    >============================
===========================================================================
=======================<phase: configure      >============================
===>  Configuring for smithwaterman-g20160702
===========================================================================
=======================<phase: build          >============================
===>  Building for smithwaterman-g20160702
gmake[1]: Entering directory '/wrkdirs/usr/ports/biology/smithwaterman/work/smithwaterman-2610e259611ae4cde8f03c72499d28f03f6d38a7'
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing   -fPIC -c -o disorder.o disorder.cpp -I.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing   -fPIC -c -o smithwaterman.o smithwaterman.cpp -I.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing   -fPIC -c -o BandedSmithWaterman.o BandedSmithWaterman.cpp -I.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing   -fPIC -c -o SmithWatermanGotoh.o SmithWatermanGotoh.cpp -I.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing   -fPIC -c -o Repeats.o Repeats.cpp -I.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing   -fPIC -c -o LeftAlign.o LeftAlign.cpp -I.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing   -fPIC -c -o IndelAllele.o IndelAllele.cpp -I.
/nxb-bin/usr/bin/c++ -O2 -pipe  -fstack-protector-strong -fno-strict-aliasing  smithwaterman.o BandedSmithWaterman.o SmithWatermanGotoh.o Repeats.o LeftAlign.o IndelAllele.o disorder.o -I. -o smithwaterman
ar rs libsw.a disorder.o BandedSmithWaterman.o SmithWatermanGotoh.o Repeats.o LeftAlign.o IndelAllele.o
ar: warning: creating libsw.a
/nxb-bin/usr/bin/c++ -shared -Wl,-soname,libsw.so.1 -o libsw.so.1 disorder.o BandedSmithWaterman.o SmithWatermanGotoh.o Repeats.o LeftAlign.o IndelAllele.o
ld -r disorder.o BandedSmithWaterman.o SmithWatermanGotoh.o Repeats.o LeftAlign.o IndelAllele.o -o sw.o -L.
qemu: uncaught target signal 6 (Abort trap) - core dumped
gmake[1]: *** [/usr/ports/biology/smithwaterman/files/Makefile:54: sw.o] Abort trap
gmake[1]: Leaving directory '/wrkdirs/usr/ports/biology/smithwaterman/work/smithwaterman-2610e259611ae4cde8f03c72499d28f03f6d38a7'
*** Error code 1

Stop.
make: stopped in /usr/ports/biology/smithwaterman