Running as unit: rb-build-arm64_18-60064.service ==================================================================================== Mon Sep 30 08:45:10 UTC 2024 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_arm64_18) on jenkins, called using "codethink04-arm64 codethink01-arm64" as arguments. Mon Sep 30 08:45:10 UTC 2024 - actually running "reproducible_build.sh" (md5sum 79f74068471242981be9b3b00196cbfb) as "/tmp/jenkins-script-BoTOCYoR" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Mon Sep 30 08:45:10 UTC 2024 - checking /var/lib/jenkins/offline_nodes if codethink04-arm64.debian.net is marked as down. Mon Sep 30 08:45:10 UTC 2024 - checking via ssh if codethink04-arm64.debian.net is up. removed '/tmp/read-only-fs-test-rAs8WY' Mon Sep 30 08:45:11 UTC 2024 - checking /var/lib/jenkins/offline_nodes if codethink01-arm64.debian.net is marked as down. Mon Sep 30 08:45:11 UTC 2024 - checking via ssh if codethink01-arm64.debian.net is up. removed '/tmp/read-only-fs-test-fdtwPT' ok, let's check if vsearch is building anywhere yet… ok, vsearch is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of vsearch in trixie on arm64 on jenkins now. 1st build will be done on codethink04-arm64.debian.net. 2nd build will be done on codethink01-arm64.debian.net. ============================================================================= Mon Sep 30 08:45:29 UTC 2024 I: starting to build vsearch/trixie/arm64 on jenkins on '2024-09-30 08:45' Mon Sep 30 08:45:29 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_18/60064/console.log 1727685929 arm64 trixie vsearch Mon Sep 30 08:45:29 UTC 2024 I: Downloading source for trixie/vsearch=2.29.0-1 --2024-09-30 08:45:29-- http://deb.debian.org/debian/pool/main/v/vsearch/vsearch_2.29.0-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2211 (2.2K) [text/prs.lines.tag] Saving to: ‘vsearch_2.29.0-1.dsc’ 0K .. 100% 328M=0s 2024-09-30 08:45:29 (328 MB/s) - ‘vsearch_2.29.0-1.dsc’ saved [2211/2211] --2024-09-30 08:45:29-- http://deb.debian.org/debian/pool/main/v/vsearch/vsearch_2.29.0-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2211 (2.2K) [text/prs.lines.tag] Saving to: ‘vsearch_2.29.0-1.dsc’ 0K .. 100% 328M=0s 2024-09-30 08:45:29 (328 MB/s) - ‘vsearch_2.29.0-1.dsc’ saved [2211/2211] Mon Sep 30 08:45:29 UTC 2024 I: vsearch_2.29.0-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: vsearch Binary: vsearch, vsearch-examples Architecture: any all Version: 2.29.0-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Homepage: https://github.com/torognes/vsearch/ Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/vsearch Vcs-Git: https://salsa.debian.org/med-team/vsearch.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), architecture-is-64-bit, architecture-is-little-endian, zlib1g-dev, libbz2-dev, libtext-markdown-perl, ghostscript, libsimde-dev [!amd64 !arm64 !ppc64el], time Package-List: vsearch deb science optional arch=any vsearch-examples deb science optional arch=all Checksums-Sha1: c9df7686103eb7f8d944f489c604e31603f6ece1 283459 vsearch_2.29.0.orig.tar.gz 1d51969e22a8d957e39a2a967d83b7a84413d90f 1631760 vsearch_2.29.0-1.debian.tar.xz Checksums-Sha256: 2c5bd0d9b3c2ec8eecd1af06ae11611138d87fdfecfa423ae791d52dccd27e63 283459 vsearch_2.29.0.orig.tar.gz e99f8d7e7badc505834f077a8fb902bfde89aba7df1330f3351a88f40901c4e2 1631760 vsearch_2.29.0-1.debian.tar.xz Files: e51b1c8520bc0fe5b3479d3598a2f48c 283459 vsearch_2.29.0.orig.tar.gz bc21ee9e9774c81a908a85a46a2188d9 1631760 vsearch_2.29.0-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAmb1bxQACgkQPCZ2P2xn 5uKhDg/9FEJmUqUMxvzBjb4kEaXKE5WfDaJAzU1xl9lrdboJsCcXioAnkyG0nyl9 bJepFIwffG94ZN2IE0+m804s3/9s7+j+60SDkw+yhy/C2y7Ru6HJQsUms9LJgTd0 TsBbpEeVCBOGeZ0L93OyEG/SUxvPvY5dTfmWj5n+sZov1WYFlzlZ68RzTAMNKiGa IOxcEPFWfFX4a+gbW7hgmetF4Ie9HP1e6wXwB38Lwfdm+TF74dK+ZMTzBwRgC/fj n3MiWy9jaSg9xLyy4uNPtypmkEuxzHqGcd7rztwkF/TS+po9tRE+/8XTwukqOZim bBLfgrTPd9MeYD1emTSkwObL9H0YnciGyfc72ixtA4xIaYcxYi59T7pSfY77K+pn s7p8mWSUtqZntRqtHBNIIu4YHJejr9wRI74H7AIx2aFwJ5GyMxtgot9eytCCjJKK Mq16wlSHA9qn7GLkqAv4udMQFrVLrGagb+v/zab6aZLhhwbyRjlYbxGeSgOdt6kR zt++IJqodC2muh/+z7wgkR89QYeQI1qQjXAp1rkVah6lGk/l/XRQ3WztcsBdD50l o5MLgSG8TJYNPRcuAHAINJ6qrteqjRoNdEGCHZpESIc4pC5l5bB4+JnZ/X9g+ULd l0OAqhVtB1v3MzsJBslBngvVYuR05IqAjRJLdGCYUsLofhJO9dg= =L/yD -----END PGP SIGNATURE----- Mon Sep 30 08:45:29 UTC 2024 I: Checking whether the package is not for us Mon Sep 30 08:45:29 UTC 2024 I: Starting 1st build on remote node codethink04-arm64.debian.net. Mon Sep 30 08:45:29 UTC 2024 I: Preparing to do remote build '1' on codethink04-arm64.debian.net. Mon Sep 30 08:45:29 UTC 2024 - checking /var/lib/jenkins/offline_nodes if codethink04-arm64.debian.net is marked as down. Mon Sep 30 08:45:29 UTC 2024 - checking via ssh if codethink04-arm64.debian.net is up. removed '/tmp/read-only-fs-test-WnLJHm' ==================================================================================== Mon Sep 30 08:45:31 UTC 2024 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on codethink04-arm64, called using "1 vsearch trixie /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC 2.29.0-1" as arguments. Mon Sep 30 08:45:31 UTC 2024 - actually running "reproducible_build.sh" (md5sum 79f74068471242981be9b3b00196cbfb) as "/tmp/jenkins-script-CfLdx9SY" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Mon Sep 30 08:45:31 UTC 2024 I: Downloading source for trixie/vsearch=2.29.0-1 Reading package lists... NOTICE: 'vsearch' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/vsearch.git Please use: git clone https://salsa.debian.org/med-team/vsearch.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 1917 kB of source archives. Get:1 http://deb.debian.org/debian trixie/main vsearch 2.29.0-1 (dsc) [2211 B] Get:2 http://deb.debian.org/debian trixie/main vsearch 2.29.0-1 (tar) [283 kB] Get:3 http://deb.debian.org/debian trixie/main vsearch 2.29.0-1 (diff) [1632 kB] Fetched 1917 kB in 0s (26.8 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'vsearch' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/vsearch.git Please use: git clone https://salsa.debian.org/med-team/vsearch.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 1917 kB of source archives. Get:1 http://deb.debian.org/debian trixie/main vsearch 2.29.0-1 (dsc) [2211 B] Get:2 http://deb.debian.org/debian trixie/main vsearch 2.29.0-1 (tar) [283 kB] Get:3 http://deb.debian.org/debian trixie/main vsearch 2.29.0-1 (diff) [1632 kB] Fetched 1917 kB in 0s (26.8 MB/s) Download complete and in download only mode ============================================================================= Building vsearch in trixie on arm64 on codethink04-arm64 now. Date: Mon Sep 30 09:45:31 BST 2024 Date UTC: Mon Sep 30 08:45:31 UTC 2024 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Sun Sep 29 20:45:31 -12 2024 I: pbuilder-time-stamp: 1727685931 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [vsearch_2.29.0-1.dsc] I: copying [./vsearch_2.29.0.orig.tar.gz] I: copying [./vsearch_2.29.0-1.debian.tar.xz] I: Extracting source gpgv: Signature made Thu Sep 26 14:26:28 2024 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./vsearch_2.29.0-1.dsc: no acceptable signature found dpkg-source: info: extracting vsearch in vsearch-2.29.0 dpkg-source: info: unpacking vsearch_2.29.0.orig.tar.gz dpkg-source: info: unpacking vsearch_2.29.0-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1315054/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='adcba4fb481a4cdeb694be508f8f3fe1' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='1315054' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/pbuilderrc_xgqr --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/b1 --logfile b1/build.log vsearch_2.29.0-1.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink04-arm64 6.1.0-25-cloud-arm64 #1 SMP Debian 6.1.106-3 (2024-08-26) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1315054/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), architecture-is-64-bit, architecture-is-little-endian, zlib1g-dev, libbz2-dev, libtext-markdown-perl, ghostscript, time dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19895 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on architecture-is-64-bit; however: Package architecture-is-64-bit is not installed. pbuilder-satisfydepends-dummy depends on architecture-is-little-endian; however: Package architecture-is-little-endian is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libbz2-dev; however: Package libbz2-dev is not installed. pbuilder-satisfydepends-dummy depends on libtext-markdown-perl; however: Package libtext-markdown-perl is not installed. pbuilder-satisfydepends-dummy depends on ghostscript; however: Package ghostscript is not installed. pbuilder-satisfydepends-dummy depends on time; however: Package time is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: architecture-properties{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig-config{a} fonts-urw-base35{a} gettext{a} gettext-base{a} ghostscript{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcups2t64{a} libdbus-1-3{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfontenc1{a} libfreetype6{a} libgs-common{a} libgs10{a} libgs10-common{a} libgssapi-krb5-2{a} libice6{a} libicu72{a} libidn12{a} libijs-0.35{a} libjbig0{a} libjbig2dec0{a} libjpeg62-turbo{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblcms2-2{a} liblerc4{a} libmagic-mgc{a} libmagic1t64{a} libopenjp2-7{a} libpaper1{a} libpipeline1{a} libpng16-16t64{a} libsharpyuv0{a} libsm6{a} libtext-markdown-perl{a} libtiff6{a} libtool{a} libuchardet0{a} libwebp7{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxml2{a} libxt6t64{a} m4{a} man-db{a} po-debconf{a} poppler-data{a} sensible-utils{a} time{a} ucf{a} x11-common{a} xfonts-encodings{a} xfonts-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc curl dbus fonts-droid-fallback krb5-locales libarchive-cpio-perl libltdl-dev libmail-sendmail-perl libpaper-utils lynx wget 0 packages upgraded, 83 newly installed, 0 to remove and 0 not upgraded. Need to get 42.9 MB of archives. After unpacking 154 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 poppler-data all 0.4.12-1 [1601 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.45-3 [314 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.45-3 [100 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.45-3 [43.0 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.22.5-2 [198 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b1 [69.0 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-5 [1129 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.40.2-8 [96.6 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 ucf all 3.0043+nmu1 [55.2 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 architecture-properties arm64 0.2.3 [2184 B] Get: 14 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.72-3 [493 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.22.5-2 [723 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.20 [89.7 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 libtool all 2.4.7-7 [517 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 23 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 25 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.191-2 [188 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 27 http://deb.debian.org/debian trixie/main arm64 libicu72 arm64 72.1-5 [9224 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.1 [630 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.22.5-2 [1532 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.20 [915 kB] Get: 33 http://deb.debian.org/debian trixie/main arm64 libfontenc1 arm64 1:1.1.8-1 [22.2 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 libbrotli1 arm64 1.1.0-2+b4 [292 kB] Get: 35 http://deb.debian.org/debian trixie/main arm64 libpng16-16t64 arm64 1.6.44-1 [272 kB] Get: 36 http://deb.debian.org/debian trixie/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB] Get: 37 http://deb.debian.org/debian trixie/main arm64 x11-common all 1:7.7+23.1 [216 kB] Get: 38 http://deb.debian.org/debian trixie/main arm64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get: 39 http://deb.debian.org/debian trixie/main arm64 xfonts-utils arm64 1:7.7+7 [89.3 kB] Get: 40 http://deb.debian.org/debian trixie/main arm64 fonts-urw-base35 all 20200910-8 [10.8 MB] Get: 41 http://deb.debian.org/debian trixie/main arm64 fontconfig-config arm64 2.15.0-1.1 [317 kB] Get: 42 http://deb.debian.org/debian trixie/main arm64 libgs-common all 10.04.0~dfsg-1 [148 kB] Get: 43 http://deb.debian.org/debian trixie/main arm64 libgs10-common all 10.04.0~dfsg-1 [474 kB] Get: 44 http://deb.debian.org/debian trixie/main arm64 libavahi-common-data arm64 0.8-13+b2 [112 kB] Get: 45 http://deb.debian.org/debian trixie/main arm64 libavahi-common3 arm64 0.8-13+b2 [42.4 kB] Get: 46 http://deb.debian.org/debian trixie/main arm64 libdbus-1-3 arm64 1.14.10-4+b1 [195 kB] Get: 47 http://deb.debian.org/debian trixie/main arm64 libavahi-client3 arm64 0.8-13+b2 [45.7 kB] Get: 48 http://deb.debian.org/debian trixie/main arm64 libkrb5support0 arm64 1.21.3-3 [32.1 kB] Get: 49 http://deb.debian.org/debian trixie/main arm64 libcom-err2 arm64 1.47.1-1 [22.8 kB] Get: 50 http://deb.debian.org/debian trixie/main arm64 libk5crypto3 arm64 1.21.3-3 [80.8 kB] Get: 51 http://deb.debian.org/debian trixie/main arm64 libkeyutils1 arm64 1.6.3-3 [9112 B] Get: 52 http://deb.debian.org/debian trixie/main arm64 libkrb5-3 arm64 1.21.3-3 [310 kB] Get: 53 http://deb.debian.org/debian trixie/main arm64 libgssapi-krb5-2 arm64 1.21.3-3 [126 kB] Get: 54 http://deb.debian.org/debian trixie/main arm64 libcups2t64 arm64 2.4.10-1 [233 kB] Get: 55 http://deb.debian.org/debian trixie/main arm64 libexpat1 arm64 2.6.3-1 [90.2 kB] Get: 56 http://deb.debian.org/debian trixie/main arm64 libfontconfig1 arm64 2.15.0-1.1 [385 kB] Get: 57 http://deb.debian.org/debian trixie/main arm64 libidn12 arm64 1.42-2 [79.2 kB] Get: 58 http://deb.debian.org/debian trixie/main arm64 libijs-0.35 arm64 0.35-15.1+b1 [14.9 kB] Get: 59 http://deb.debian.org/debian trixie/main arm64 libjbig2dec0 arm64 0.20-1+b2 [59.6 kB] Get: 60 http://deb.debian.org/debian trixie/main arm64 libjpeg62-turbo arm64 1:2.1.5-3 [172 kB] Get: 61 http://deb.debian.org/debian trixie/main arm64 liblcms2-2 arm64 2.14-2+b1 [144 kB] Get: 62 http://deb.debian.org/debian trixie/main arm64 libopenjp2-7 arm64 2.5.0-2+b3 [177 kB] Get: 63 http://deb.debian.org/debian trixie/main arm64 libpaper1 arm64 1.1.29+b1 [12.9 kB] Get: 64 http://deb.debian.org/debian trixie/main arm64 libdeflate0 arm64 1.21-1 [42.2 kB] Get: 65 http://deb.debian.org/debian trixie/main arm64 libjbig0 arm64 2.1-6.1+b1 [30.4 kB] Get: 66 http://deb.debian.org/debian trixie/main arm64 liblerc4 arm64 4.0.0+ds-4+b1 [142 kB] Get: 67 http://deb.debian.org/debian trixie/main arm64 libsharpyuv0 arm64 1.4.0-0.1 [111 kB] Get: 68 http://deb.debian.org/debian trixie/main arm64 libwebp7 arm64 1.4.0-0.1 [267 kB] Get: 69 http://deb.debian.org/debian trixie/main arm64 libtiff6 arm64 4.5.1+git230720-5 [309 kB] Get: 70 http://deb.debian.org/debian trixie/main arm64 libxau6 arm64 1:1.0.9-1+b1 [18.1 kB] Get: 71 http://deb.debian.org/debian trixie/main arm64 libxdmcp6 arm64 1:1.1.2-3+b1 [24.3 kB] Get: 72 http://deb.debian.org/debian trixie/main arm64 libxcb1 arm64 1.17.0-2 [143 kB] Get: 73 http://deb.debian.org/debian trixie/main arm64 libx11-data all 2:1.8.7-1 [328 kB] Get: 74 http://deb.debian.org/debian trixie/main arm64 libx11-6 arm64 2:1.8.7-1+b1 [775 kB] Get: 75 http://deb.debian.org/debian trixie/main arm64 libice6 arm64 2:1.0.10-1+b1 [53.7 kB] Get: 76 http://deb.debian.org/debian trixie/main arm64 libsm6 arm64 2:1.2.3-1+b1 [32.7 kB] Get: 77 http://deb.debian.org/debian trixie/main arm64 libxt6t64 arm64 1:1.2.1-1.2 [172 kB] Get: 78 http://deb.debian.org/debian trixie/main arm64 libgs10 arm64 10.04.0~dfsg-1 [2351 kB] Get: 79 http://deb.debian.org/debian trixie/main arm64 ghostscript arm64 10.04.0~dfsg-1 [50.5 kB] Get: 80 http://deb.debian.org/debian trixie/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Get: 81 http://deb.debian.org/debian trixie/main arm64 libtext-markdown-perl all 1.000031-5 [31.4 kB] Get: 82 http://deb.debian.org/debian trixie/main arm64 time arm64 1.9-0.2 [50.6 kB] Get: 83 http://deb.debian.org/debian trixie/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1 [916 kB] Fetched 42.9 MB in 0s (143 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package poppler-data. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19895 files and directories currently installed.) Preparing to unpack .../00-poppler-data_0.4.12-1_all.deb ... Unpacking poppler-data (0.4.12-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.45-3_arm64.deb ... 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Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../09-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../10-man-db_2.13.0-1_arm64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package ucf. Preparing to unpack .../11-ucf_3.0043+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0043+nmu1) ... Selecting previously unselected package architecture-properties:arm64. Preparing to unpack .../12-architecture-properties_0.2.3_arm64.deb ... Unpacking architecture-properties:arm64 (0.2.3) ... Selecting previously unselected package m4. Preparing to unpack .../13-m4_1.4.19-4_arm64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../14-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. 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Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../22-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../23-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:arm64. Preparing to unpack .../24-libelf1t64_0.191-2_arm64.deb ... Unpacking libelf1t64:arm64 (0.191-2) ... Selecting previously unselected package dwz. Preparing to unpack .../25-dwz_0.15-1+b1_arm64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../26-libicu72_72.1-5_arm64.deb ... Unpacking libicu72:arm64 (72.1-5) ... Selecting previously unselected package libxml2:arm64. 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Preparing to unpack .../39-fonts-urw-base35_20200910-8_all.deb ... Unpacking fonts-urw-base35 (20200910-8) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../40-fontconfig-config_2.15.0-1.1_arm64.deb ... Unpacking fontconfig-config (2.15.0-1.1) ... Selecting previously unselected package libgs-common. Preparing to unpack .../41-libgs-common_10.04.0~dfsg-1_all.deb ... Unpacking libgs-common (10.04.0~dfsg-1) ... Selecting previously unselected package libgs10-common. Preparing to unpack .../42-libgs10-common_10.04.0~dfsg-1_all.deb ... Unpacking libgs10-common (10.04.0~dfsg-1) ... Selecting previously unselected package libavahi-common-data:arm64. Preparing to unpack .../43-libavahi-common-data_0.8-13+b2_arm64.deb ... Unpacking libavahi-common-data:arm64 (0.8-13+b2) ... Selecting previously unselected package libavahi-common3:arm64. Preparing to unpack .../44-libavahi-common3_0.8-13+b2_arm64.deb ... Unpacking libavahi-common3:arm64 (0.8-13+b2) ... Selecting previously unselected package libdbus-1-3:arm64. Preparing to unpack .../45-libdbus-1-3_1.14.10-4+b1_arm64.deb ... Unpacking libdbus-1-3:arm64 (1.14.10-4+b1) ... Selecting previously unselected package libavahi-client3:arm64. Preparing to unpack .../46-libavahi-client3_0.8-13+b2_arm64.deb ... Unpacking libavahi-client3:arm64 (0.8-13+b2) ... Selecting previously unselected package libkrb5support0:arm64. Preparing to unpack .../47-libkrb5support0_1.21.3-3_arm64.deb ... Unpacking libkrb5support0:arm64 (1.21.3-3) ... Selecting previously unselected package libcom-err2:arm64. Preparing to unpack .../48-libcom-err2_1.47.1-1_arm64.deb ... Unpacking libcom-err2:arm64 (1.47.1-1) ... Selecting previously unselected package libk5crypto3:arm64. Preparing to unpack .../49-libk5crypto3_1.21.3-3_arm64.deb ... Unpacking libk5crypto3:arm64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:arm64. Preparing to unpack .../50-libkeyutils1_1.6.3-3_arm64.deb ... Unpacking libkeyutils1:arm64 (1.6.3-3) ... Selecting previously unselected package libkrb5-3:arm64. Preparing to unpack .../51-libkrb5-3_1.21.3-3_arm64.deb ... Unpacking libkrb5-3:arm64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:arm64. Preparing to unpack .../52-libgssapi-krb5-2_1.21.3-3_arm64.deb ... Unpacking libgssapi-krb5-2:arm64 (1.21.3-3) ... Selecting previously unselected package libcups2t64:arm64. Preparing to unpack .../53-libcups2t64_2.4.10-1_arm64.deb ... Unpacking libcups2t64:arm64 (2.4.10-1) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../54-libexpat1_2.6.3-1_arm64.deb ... Unpacking libexpat1:arm64 (2.6.3-1) ... Selecting previously unselected package libfontconfig1:arm64. Preparing to unpack .../55-libfontconfig1_2.15.0-1.1_arm64.deb ... Unpacking libfontconfig1:arm64 (2.15.0-1.1) ... Selecting previously unselected package libidn12:arm64. Preparing to unpack .../56-libidn12_1.42-2_arm64.deb ... Unpacking libidn12:arm64 (1.42-2) ... Selecting previously unselected package libijs-0.35:arm64. Preparing to unpack .../57-libijs-0.35_0.35-15.1+b1_arm64.deb ... Unpacking libijs-0.35:arm64 (0.35-15.1+b1) ... Selecting previously unselected package libjbig2dec0:arm64. Preparing to unpack .../58-libjbig2dec0_0.20-1+b2_arm64.deb ... Unpacking libjbig2dec0:arm64 (0.20-1+b2) ... Selecting previously unselected package libjpeg62-turbo:arm64. Preparing to unpack .../59-libjpeg62-turbo_1%3a2.1.5-3_arm64.deb ... Unpacking libjpeg62-turbo:arm64 (1:2.1.5-3) ... Selecting previously unselected package liblcms2-2:arm64. Preparing to unpack .../60-liblcms2-2_2.14-2+b1_arm64.deb ... Unpacking liblcms2-2:arm64 (2.14-2+b1) ... Selecting previously unselected package libopenjp2-7:arm64. Preparing to unpack .../61-libopenjp2-7_2.5.0-2+b3_arm64.deb ... Unpacking libopenjp2-7:arm64 (2.5.0-2+b3) ... Selecting previously unselected package libpaper1:arm64. Preparing to unpack .../62-libpaper1_1.1.29+b1_arm64.deb ... Unpacking libpaper1:arm64 (1.1.29+b1) ... Selecting previously unselected package libdeflate0:arm64. Preparing to unpack .../63-libdeflate0_1.21-1_arm64.deb ... Unpacking libdeflate0:arm64 (1.21-1) ... Selecting previously unselected package libjbig0:arm64. Preparing to unpack .../64-libjbig0_2.1-6.1+b1_arm64.deb ... Unpacking libjbig0:arm64 (2.1-6.1+b1) ... Selecting previously unselected package liblerc4:arm64. Preparing to unpack .../65-liblerc4_4.0.0+ds-4+b1_arm64.deb ... Unpacking liblerc4:arm64 (4.0.0+ds-4+b1) ... Selecting previously unselected package libsharpyuv0:arm64. Preparing to unpack .../66-libsharpyuv0_1.4.0-0.1_arm64.deb ... Unpacking libsharpyuv0:arm64 (1.4.0-0.1) ... Selecting previously unselected package libwebp7:arm64. Preparing to unpack .../67-libwebp7_1.4.0-0.1_arm64.deb ... Unpacking libwebp7:arm64 (1.4.0-0.1) ... Selecting previously unselected package libtiff6:arm64. 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Preparing to unpack .../74-libice6_2%3a1.0.10-1+b1_arm64.deb ... Unpacking libice6:arm64 (2:1.0.10-1+b1) ... Selecting previously unselected package libsm6:arm64. Preparing to unpack .../75-libsm6_2%3a1.2.3-1+b1_arm64.deb ... Unpacking libsm6:arm64 (2:1.2.3-1+b1) ... Selecting previously unselected package libxt6t64:arm64. Preparing to unpack .../76-libxt6t64_1%3a1.2.1-1.2_arm64.deb ... Unpacking libxt6t64:arm64 (1:1.2.1-1.2) ... Selecting previously unselected package libgs10:arm64. Preparing to unpack .../77-libgs10_10.04.0~dfsg-1_arm64.deb ... Unpacking libgs10:arm64 (10.04.0~dfsg-1) ... Selecting previously unselected package ghostscript. Preparing to unpack .../78-ghostscript_10.04.0~dfsg-1_arm64.deb ... Unpacking ghostscript (10.04.0~dfsg-1) ... Selecting previously unselected package libbz2-dev:arm64. Preparing to unpack .../79-libbz2-dev_1.0.8-6_arm64.deb ... Unpacking libbz2-dev:arm64 (1.0.8-6) ... Selecting previously unselected package libtext-markdown-perl. 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Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up architecture-properties:arm64 (0.2.3) ... Setting up libijs-0.35:arm64 (0.35-15.1+b1) ... Setting up libdebhelper-perl (13.20) ... Setting up libgs-common (10.04.0~dfsg-1) ... Setting up libbrotli1:arm64 (1.1.0-2+b4) ... Setting up libmagic1t64:arm64 (1:5.45-3) ... Setting up x11-common (1:7.7+23.1) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libdeflate0:arm64 (1.21-1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up libcom-err2:arm64 (1.47.1-1) ... Setting up file (1:5.45-3) ... Setting up libjbig0:arm64 (2.1-6.1+b1) ... Setting up libelf1t64:arm64 (0.191-2) ... Setting up poppler-data (0.4.12-1) ... Setting up libkrb5support0:arm64 (1.21.3-3) ... Setting up libfontenc1:arm64 (1:1.1.8-1) ... Setting up autotools-dev (20220109.1) ... Setting up libjpeg62-turbo:arm64 (1:2.1.5-3) ... Setting up libx11-data (2:1.8.7-1) ... Setting up libjbig2dec0:arm64 (0.20-1+b2) ... Setting up libavahi-common-data:arm64 (0.8-13+b2) ... Setting up libdbus-1-3:arm64 (1.14.10-4+b1) ... Setting up xfonts-encodings (1:1.0.4-2.2) ... Setting up libpng16-16t64:arm64 (1.6.44-1) ... Setting up libidn12:arm64 (1.42-2) ... Setting up autopoint (0.22.5-2) ... Setting up libk5crypto3:arm64 (1.21.3-3) ... Setting up autoconf (2.72-3) ... Setting up libwebp7:arm64 (1.4.0-0.1) ... Setting up zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libtiff6:arm64 (4.5.1+git230720-5) ... Setting up libuchardet0:arm64 (0.0.8-1+b1) ... Setting up libopenjp2-7:arm64 (2.5.0-2+b3) ... Setting up libx11-6:arm64 (2:1.8.7-1+b1) ... Setting up libkrb5-3:arm64 (1.21.3-3) ... Setting up libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.1) ... Setting up libbz2-dev:arm64 (1.0.8-6) ... 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Not building database; man-db/auto-update is not 'true'. Setting up libxt6t64:arm64 (1:1.2.1-1.2) ... Setting up libcups2t64:arm64 (2.4.10-1) ... Setting up debhelper (13.20) ... Setting up fonts-urw-base35 (20200910-8) ... Setting up libgs10-common (10.04.0~dfsg-1) ... Setting up fontconfig-config (2.15.0-1.1) ... Setting up libfontconfig1:arm64 (2.15.0-1.1) ... Setting up libgs10:arm64 (10.04.0~dfsg-1) ... Setting up ghostscript (10.04.0~dfsg-1) ... Processing triggers for libc-bin (2.40-2) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/vsearch-2.29.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../vsearch_2.29.0-1_source.changes dpkg-buildpackage: info: source package vsearch dpkg-buildpackage: info: source version 2.29.0-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_clean debian/rules execute_after_dh_clean make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' if [ -d test ] ; then find test -mindepth 1 -not -name '*.sh' -delete ; fi rm -f *.out make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf configure.ac:107: installing './compile' configure.ac:6: installing './config.guess' configure.ac:6: installing './config.sub' configure.ac:7: installing './install-sh' configure.ac:7: installing './missing' src/Makefile.am: installing './depcomp' dh_auto_configure ./configure --build=aarch64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/aarch64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking checking build system type... aarch64-unknown-linux-gnu checking host system type... aarch64-unknown-linux-gnu checking target system type... aarch64-unknown-linux-gnu checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a race-free mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for g++... g++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking whether make supports the include directive... yes (GNU style) checking dependency style of g++... none checking for ranlib... ranlib checking for pthread_create in -lpthread... yes checking for dlopen in -ldl... yes checking for GetProcessMemoryInfo in -lpsapi... no checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for getopt.h... yes checking for fcntl.h... yes checking for float.h... yes checking for regex.h... yes checking for ctype.h... yes checking for locale.h... yes checking for limits.h... yes checking for string.h... (cached) yes checking for sys/time.h... yes checking for dlfcn.h... yes checking for pthread.h... yes checking for inline... inline checking for size_t... yes checking for uint32_t... yes checking for int64_t... yes checking for uint64_t... yes checking for uint8_t... yes checking for GNU libc compatible malloc... yes checking for working strtod... yes checking for working alloca.h... yes checking for alloca... yes checking for GNU libc compatible realloc... yes checking for memmove... yes checking for memcpy... yes checking for posix_memalign... yes checking for gettimeofday... yes checking for localtime... yes checking for memchr... yes checking for memset... yes checking for pow... yes checking for regcomp... yes checking for strcasecmp... yes checking for strchr... yes checking for strcspn... yes checking for sysinfo... yes checking for bzlib.h... yes checking for zlib.h... yes checking for ps2pdf... yes checking for windows.h... no checking for gcc... gcc checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating man/Makefile config.status: creating config.h config.status: executing depfiles commands dh_auto_build make -j12 make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' make all-recursive make[2]: Entering directory '/build/reproducible-path/vsearch-2.29.0' Making all in src make[3]: Entering directory '/build/reproducible-path/vsearch-2.29.0/src' g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o align_simd.o align_simd.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o allpairs.o allpairs.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o arch.o arch.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o attributes.o attributes.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o bitmap.o bitmap.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o chimera.o chimera.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o cluster.o cluster.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o cut.o cut.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o db.o db.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o dbhash.o dbhash.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o dbindex.o dbindex.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o derep.o derep.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o derep_prefix.o derep_prefix.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o derep_smallmem.o derep_smallmem.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o dynlibs.o dynlibs.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o eestats.o eestats.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fasta2fastq.o fasta2fastq.cc align_simd.cc: In function 'void search16(s16info_s*, unsigned int, unsigned int*, CELL*, short unsigned int*, short unsigned int*, short unsigned int*, short unsigned int*, char**)': align_simd.cc:148:69: warning: ISO C++ forbids compound-literals [-Wpedantic] 148 | #define v_init(a,b,c,d,e,f,g,h) (const VECTOR_SHORT){a,b,c,d,e,f,g,h} | ^ align_simd.cc:1355:8: note: in expansion of macro 'v_init' 1355 | T0 = v_init(-1, 0, 0, 0, 0, 0, 0, 0); | ^~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fasta.o fasta.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fastq.o fastq.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fastq_chars.o fastq_chars.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fastq_join.o fastq_join.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fastqops.o fastqops.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fastx.o fastx.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o filter.o filter.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o getseq.o getseq.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o kmerhash.o kmerhash.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o linmemalign.o linmemalign.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o maps.o maps.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o mask.o mask.cc gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o md5.o md5.c g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o mergepairs.o mergepairs.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o minheap.o minheap.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o msa.o msa.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o orient.o orient.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o otutable.o otutable.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o rereplicate.o rereplicate.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o results.o results.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o search.o search.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o searchcore.o searchcore.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o search_exact.o search_exact.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o sff_convert.o sff_convert.cc gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o sha1.o sha1.c g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o showalign.o showalign.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o shuffle.o shuffle.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o sintax.o sintax.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o sortbylength.o sortbylength.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o sortbysize.o sortbysize.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o subsample.o subsample.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o tax.o tax.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o udb.o udb.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o unique.o unique.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o userfields.o userfields.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o util.o util.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o vsearch.o vsearch.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -Wno-sign-compare -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o libcityhash_a-city.o `test -f 'city.cc' || echo './'`city.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o cpu.o cpu.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o utils/maps.o utils/maps.cpp g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o utils/seqcmp.o utils/seqcmp.cc rm -f libcityhash.a ar cru libcityhash.a libcityhash_a-city.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libcityhash.a rm -f libcpu.a ar cru libcpu.a cpu.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libcpu.a g++ -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -Wl,-z,relro -Wl,-z,now -flto -o ../bin/vsearch align_simd.o allpairs.o arch.o attributes.o bitmap.o chimera.o cluster.o cut.o db.o dbhash.o dbindex.o derep.o derep_prefix.o derep_smallmem.o dynlibs.o eestats.o fasta2fastq.o fasta.o fastq.o fastq_chars.o fastq_join.o fastqops.o fastx.o filter.o getseq.o kmerhash.o linmemalign.o maps.o mask.o md5.o mergepairs.o minheap.o msa.o orient.o otutable.o rereplicate.o results.o search.o searchcore.o search_exact.o sff_convert.o sha1.o showalign.o shuffle.o sintax.o sortbylength.o sortbysize.o subsample.o tax.o udb.o unique.o userfields.o util.o utils/maps.o utils/seqcmp.o vsearch.o libcityhash.a libcpu.a -ldl -lpthread cut.cc:74:8: warning: type 'struct statistics' violates the C++ One Definition Rule [-Wodr] 74 | struct statistics { | ^ fastq_chars.cc:79:8: note: a different type is defined in another translation unit 79 | struct statistics { | ^ cut.cc:75:7: note: the first difference of corresponding definitions is field 'fragment_no' 75 | int fragment_no = 0; | ^ fastq_chars.cc:80:25: note: a field with different name is defined in another translation unit 80 | std::vector sequence_chars; | ^ lto-wrapper: warning: using serial compilation of 6 LTRANS jobs lto-wrapper: note: see the '-flto' option documentation for more information make[3]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/src' Making all in man make[3]: Entering directory '/build/reproducible-path/vsearch-2.29.0/man' sed -e 's/\\-/-/g' vsearch.1 | \ iconv -f UTF-8 -t ISO-8859-1 | \ groff -W space -t -m mandoc -T ps -P -pa4 | ps2pdf - vsearch_manual.pdf troff::3606: warning [p 41, 6.7i]: cannot adjust line make[3]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/man' make[3]: Entering directory '/build/reproducible-path/vsearch-2.29.0' make[3]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' make[2]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' debian/rules execute_after_dh_auto_build make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' markdown README.md > README.html # Remove redundant travis-build URL sed -i 1d README.html make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' if [ -d /usr/share/vsearch/data ] ; then \ mkdir -p ../vsearch-data && \ for datadir in `find /usr/share/vsearch/data -type d | sed -e "s#/usr/share/vsearch/data/*##" -e "/^$/d"` ; do mkdir -p ../vsearch-data/${datadir} ; done && \ for datafile in `find /usr/share/vsearch/data -type f` ; do \ ln -s ${datafile} `echo ${datafile} | sed -e "s#/usr/share/vsearch/data/#../vsearch-data/#"` ; \ done && \ zcat ../vsearch-data/BioMarKs.fsa.gz > ../vsearch-data/BioMarKs.fsa && \ cd test && \ for t in *.sh ; do \ bash $t v ; \ done && \ cd .. && \ rm -rf ../vsearch-data ; \ fi make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install make -j12 install DESTDIR=/build/reproducible-path/vsearch-2.29.0/debian/tmp AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' Making install in src make[2]: Entering directory '/build/reproducible-path/vsearch-2.29.0/src' make[3]: Entering directory '/build/reproducible-path/vsearch-2.29.0/src' /usr/bin/mkdir -p '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/bin' make[3]: Nothing to be done for 'install-data-am'. /usr/bin/install -c ../bin/vsearch '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/bin' make[3]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/src' make[2]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/src' Making install in man make[2]: Entering directory '/build/reproducible-path/vsearch-2.29.0/man' make[3]: Entering directory '/build/reproducible-path/vsearch-2.29.0/man' make[3]: Nothing to be done for 'install-exec-am'. /usr/bin/mkdir -p '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/share/doc/vsearch' /usr/bin/mkdir -p '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/share/man/man1' /usr/bin/install -c -m 644 vsearch_manual.pdf '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/share/doc/vsearch' /usr/bin/install -c -m 644 vsearch.1 '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/share/man/man1' make[3]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/man' make[2]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/man' make[2]: Entering directory '/build/reproducible-path/vsearch-2.29.0' make[3]: Entering directory '/build/reproducible-path/vsearch-2.29.0' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' make[2]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' dh_install debian/rules execute_after_dh_install make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' # tweak path to vsearch binary in test scripts if [ -d test ] ; then \ mkdir -p /build/reproducible-path/vsearch-2.29.0/debian/vsearch/usr/share/doc/vsearch/test ; \ for tst in test/*.sh ; do sed 's?\.\./bin/vsearch?/usr/bin/vsearch?' ${tst} > /build/reproducible-path/vsearch-2.29.0/debian/vsearch/usr/share/doc/vsearch/${tst} ; done ; \ fi make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' dh_installdocs dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb debian/rules override_dh_gencontrol make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' dpkg-query: no packages found matching libsimde-dev dh_gencontrol -- -Vsimde:Built-Using="" dpkg-gencontrol: warning: Depends field of package vsearch-examples: substitution variable ${shlibs:Depends} used, but is not defined make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' dh_md5sums dh_builddeb dpkg-deb: building package 'vsearch' in '../vsearch_2.29.0-1_arm64.deb'. dpkg-deb: building package 'vsearch-dbgsym' in '../vsearch-dbgsym_2.29.0-1_arm64.deb'. dpkg-deb: building package 'vsearch-examples' in '../vsearch-examples_2.29.0-1_all.deb'. dpkg-genbuildinfo --build=binary -O../vsearch_2.29.0-1_arm64.buildinfo dpkg-genchanges --build=binary -O../vsearch_2.29.0-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/1315054 and its subdirectories I: Current time: Sun Sep 29 20:46:44 -12 2024 I: pbuilder-time-stamp: 1727686004 Mon Sep 30 08:46:44 UTC 2024 I: Signing ./b1/vsearch_2.29.0-1_arm64.buildinfo as vsearch_2.29.0-1_arm64.buildinfo.asc Mon Sep 30 08:46:44 UTC 2024 I: Signed ./b1/vsearch_2.29.0-1_arm64.buildinfo as ./b1/vsearch_2.29.0-1_arm64.buildinfo.asc Mon Sep 30 08:46:44 UTC 2024 - build #1 for vsearch/trixie/arm64 on codethink04-arm64 done. Starting cleanup. All cleanup done. Mon Sep 30 08:46:44 UTC 2024 - reproducible_build.sh stopped running as /tmp/jenkins-script-CfLdx9SY, removing. /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Sep 30 08:46 b1 drwxr-xr-x 2 jenkins jenkins 4096 Sep 30 08:45 b2 -rw------- 1 jenkins jenkins 3322 Sep 30 08:45 rbuildlog.Kc3QuUi -rw-r--r-- 1 jenkins jenkins 2211 Sep 26 14:58 vsearch_2.29.0-1.dsc /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/b1: total 6860 -rw-r--r-- 1 jenkins jenkins 69168 Sep 30 08:46 build.log -rw-r--r-- 1 jenkins jenkins 1110536 Sep 30 08:46 vsearch-dbgsym_2.29.0-1_arm64.deb -rw-r--r-- 1 jenkins jenkins 3479512 Sep 30 08:46 vsearch-examples_2.29.0-1_all.deb -rw-r--r-- 1 jenkins jenkins 1631760 Sep 30 08:46 vsearch_2.29.0-1.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2211 Sep 30 08:46 vsearch_2.29.0-1.dsc -rw-r--r-- 1 jenkins jenkins 6952 Sep 30 08:46 vsearch_2.29.0-1_arm64.buildinfo -rw-r--r-- 1 jenkins jenkins 7834 Sep 30 08:46 vsearch_2.29.0-1_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1992 Sep 30 08:46 vsearch_2.29.0-1_arm64.changes -rw-r--r-- 1 jenkins jenkins 409424 Sep 30 08:46 vsearch_2.29.0-1_arm64.deb -rw-r--r-- 1 jenkins jenkins 1733 Sep 30 08:46 vsearch_2.29.0-1_source.changes -rw-r--r-- 1 jenkins jenkins 283459 Sep 30 08:46 vsearch_2.29.0.orig.tar.gz /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/b2: total 0 Mon Sep 30 08:46:45 UTC 2024 I: Deleting $TMPDIR on codethink04-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun Sep 29 20:45:31 -12 2024 I: pbuilder-time-stamp: 1727685931 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [vsearch_2.29.0-1.dsc] I: copying [./vsearch_2.29.0.orig.tar.gz] I: copying [./vsearch_2.29.0-1.debian.tar.xz] I: Extracting source gpgv: Signature made Thu Sep 26 14:26:28 2024 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./vsearch_2.29.0-1.dsc: no acceptable signature found dpkg-source: info: extracting vsearch in vsearch-2.29.0 dpkg-source: info: unpacking vsearch_2.29.0.orig.tar.gz dpkg-source: info: unpacking vsearch_2.29.0-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1315054/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='adcba4fb481a4cdeb694be508f8f3fe1' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='1315054' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/pbuilderrc_xgqr --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/b1 --logfile b1/build.log vsearch_2.29.0-1.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink04-arm64 6.1.0-25-cloud-arm64 #1 SMP Debian 6.1.106-3 (2024-08-26) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1315054/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), architecture-is-64-bit, architecture-is-little-endian, zlib1g-dev, libbz2-dev, libtext-markdown-perl, ghostscript, time dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19895 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on architecture-is-64-bit; however: Package architecture-is-64-bit is not installed. pbuilder-satisfydepends-dummy depends on architecture-is-little-endian; however: Package architecture-is-little-endian is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libbz2-dev; however: Package libbz2-dev is not installed. pbuilder-satisfydepends-dummy depends on libtext-markdown-perl; however: Package libtext-markdown-perl is not installed. pbuilder-satisfydepends-dummy depends on ghostscript; however: Package ghostscript is not installed. pbuilder-satisfydepends-dummy depends on time; however: Package time is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: architecture-properties{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig-config{a} fonts-urw-base35{a} gettext{a} gettext-base{a} ghostscript{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcups2t64{a} libdbus-1-3{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfontenc1{a} libfreetype6{a} libgs-common{a} libgs10{a} libgs10-common{a} libgssapi-krb5-2{a} libice6{a} libicu72{a} libidn12{a} libijs-0.35{a} libjbig0{a} libjbig2dec0{a} libjpeg62-turbo{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblcms2-2{a} liblerc4{a} libmagic-mgc{a} libmagic1t64{a} libopenjp2-7{a} libpaper1{a} libpipeline1{a} libpng16-16t64{a} libsharpyuv0{a} libsm6{a} libtext-markdown-perl{a} libtiff6{a} libtool{a} libuchardet0{a} libwebp7{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxml2{a} libxt6t64{a} m4{a} man-db{a} po-debconf{a} poppler-data{a} sensible-utils{a} time{a} ucf{a} x11-common{a} xfonts-encodings{a} xfonts-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc curl dbus fonts-droid-fallback krb5-locales libarchive-cpio-perl libltdl-dev libmail-sendmail-perl libpaper-utils lynx wget 0 packages upgraded, 83 newly installed, 0 to remove and 0 not upgraded. Need to get 42.9 MB of archives. After unpacking 154 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 poppler-data all 0.4.12-1 [1601 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.45-3 [314 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.45-3 [100 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.45-3 [43.0 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.22.5-2 [198 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b1 [69.0 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-5 [1129 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.40.2-8 [96.6 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 ucf all 3.0043+nmu1 [55.2 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 architecture-properties arm64 0.2.3 [2184 B] Get: 14 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.72-3 [493 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.22.5-2 [723 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.20 [89.7 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 libtool all 2.4.7-7 [517 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 23 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 25 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.191-2 [188 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 27 http://deb.debian.org/debian trixie/main arm64 libicu72 arm64 72.1-5 [9224 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.1 [630 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.22.5-2 [1532 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.20 [915 kB] Get: 33 http://deb.debian.org/debian trixie/main arm64 libfontenc1 arm64 1:1.1.8-1 [22.2 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 libbrotli1 arm64 1.1.0-2+b4 [292 kB] Get: 35 http://deb.debian.org/debian trixie/main arm64 libpng16-16t64 arm64 1.6.44-1 [272 kB] Get: 36 http://deb.debian.org/debian trixie/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB] Get: 37 http://deb.debian.org/debian trixie/main arm64 x11-common all 1:7.7+23.1 [216 kB] Get: 38 http://deb.debian.org/debian trixie/main arm64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get: 39 http://deb.debian.org/debian trixie/main arm64 xfonts-utils arm64 1:7.7+7 [89.3 kB] Get: 40 http://deb.debian.org/debian trixie/main arm64 fonts-urw-base35 all 20200910-8 [10.8 MB] Get: 41 http://deb.debian.org/debian trixie/main arm64 fontconfig-config arm64 2.15.0-1.1 [317 kB] Get: 42 http://deb.debian.org/debian trixie/main arm64 libgs-common all 10.04.0~dfsg-1 [148 kB] Get: 43 http://deb.debian.org/debian trixie/main arm64 libgs10-common all 10.04.0~dfsg-1 [474 kB] Get: 44 http://deb.debian.org/debian trixie/main arm64 libavahi-common-data arm64 0.8-13+b2 [112 kB] Get: 45 http://deb.debian.org/debian trixie/main arm64 libavahi-common3 arm64 0.8-13+b2 [42.4 kB] Get: 46 http://deb.debian.org/debian trixie/main arm64 libdbus-1-3 arm64 1.14.10-4+b1 [195 kB] Get: 47 http://deb.debian.org/debian trixie/main arm64 libavahi-client3 arm64 0.8-13+b2 [45.7 kB] Get: 48 http://deb.debian.org/debian trixie/main arm64 libkrb5support0 arm64 1.21.3-3 [32.1 kB] Get: 49 http://deb.debian.org/debian trixie/main arm64 libcom-err2 arm64 1.47.1-1 [22.8 kB] Get: 50 http://deb.debian.org/debian trixie/main arm64 libk5crypto3 arm64 1.21.3-3 [80.8 kB] Get: 51 http://deb.debian.org/debian trixie/main arm64 libkeyutils1 arm64 1.6.3-3 [9112 B] Get: 52 http://deb.debian.org/debian trixie/main arm64 libkrb5-3 arm64 1.21.3-3 [310 kB] Get: 53 http://deb.debian.org/debian trixie/main arm64 libgssapi-krb5-2 arm64 1.21.3-3 [126 kB] Get: 54 http://deb.debian.org/debian trixie/main arm64 libcups2t64 arm64 2.4.10-1 [233 kB] Get: 55 http://deb.debian.org/debian trixie/main arm64 libexpat1 arm64 2.6.3-1 [90.2 kB] Get: 56 http://deb.debian.org/debian trixie/main arm64 libfontconfig1 arm64 2.15.0-1.1 [385 kB] Get: 57 http://deb.debian.org/debian trixie/main arm64 libidn12 arm64 1.42-2 [79.2 kB] Get: 58 http://deb.debian.org/debian trixie/main arm64 libijs-0.35 arm64 0.35-15.1+b1 [14.9 kB] Get: 59 http://deb.debian.org/debian trixie/main arm64 libjbig2dec0 arm64 0.20-1+b2 [59.6 kB] Get: 60 http://deb.debian.org/debian trixie/main arm64 libjpeg62-turbo arm64 1:2.1.5-3 [172 kB] Get: 61 http://deb.debian.org/debian trixie/main arm64 liblcms2-2 arm64 2.14-2+b1 [144 kB] Get: 62 http://deb.debian.org/debian trixie/main arm64 libopenjp2-7 arm64 2.5.0-2+b3 [177 kB] Get: 63 http://deb.debian.org/debian trixie/main arm64 libpaper1 arm64 1.1.29+b1 [12.9 kB] Get: 64 http://deb.debian.org/debian trixie/main arm64 libdeflate0 arm64 1.21-1 [42.2 kB] Get: 65 http://deb.debian.org/debian trixie/main arm64 libjbig0 arm64 2.1-6.1+b1 [30.4 kB] Get: 66 http://deb.debian.org/debian trixie/main arm64 liblerc4 arm64 4.0.0+ds-4+b1 [142 kB] Get: 67 http://deb.debian.org/debian trixie/main arm64 libsharpyuv0 arm64 1.4.0-0.1 [111 kB] Get: 68 http://deb.debian.org/debian trixie/main arm64 libwebp7 arm64 1.4.0-0.1 [267 kB] Get: 69 http://deb.debian.org/debian trixie/main arm64 libtiff6 arm64 4.5.1+git230720-5 [309 kB] Get: 70 http://deb.debian.org/debian trixie/main arm64 libxau6 arm64 1:1.0.9-1+b1 [18.1 kB] Get: 71 http://deb.debian.org/debian trixie/main arm64 libxdmcp6 arm64 1:1.1.2-3+b1 [24.3 kB] Get: 72 http://deb.debian.org/debian trixie/main arm64 libxcb1 arm64 1.17.0-2 [143 kB] Get: 73 http://deb.debian.org/debian trixie/main arm64 libx11-data all 2:1.8.7-1 [328 kB] Get: 74 http://deb.debian.org/debian trixie/main arm64 libx11-6 arm64 2:1.8.7-1+b1 [775 kB] Get: 75 http://deb.debian.org/debian trixie/main arm64 libice6 arm64 2:1.0.10-1+b1 [53.7 kB] Get: 76 http://deb.debian.org/debian trixie/main arm64 libsm6 arm64 2:1.2.3-1+b1 [32.7 kB] Get: 77 http://deb.debian.org/debian trixie/main arm64 libxt6t64 arm64 1:1.2.1-1.2 [172 kB] Get: 78 http://deb.debian.org/debian trixie/main arm64 libgs10 arm64 10.04.0~dfsg-1 [2351 kB] Get: 79 http://deb.debian.org/debian trixie/main arm64 ghostscript arm64 10.04.0~dfsg-1 [50.5 kB] Get: 80 http://deb.debian.org/debian trixie/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Get: 81 http://deb.debian.org/debian trixie/main arm64 libtext-markdown-perl all 1.000031-5 [31.4 kB] Get: 82 http://deb.debian.org/debian trixie/main arm64 time arm64 1.9-0.2 [50.6 kB] Get: 83 http://deb.debian.org/debian trixie/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1 [916 kB] Fetched 42.9 MB in 0s (143 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package poppler-data. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19895 files and directories currently installed.) Preparing to unpack .../00-poppler-data_0.4.12-1_all.deb ... Unpacking poppler-data (0.4.12-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.45-3_arm64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../03-libmagic1t64_1%3a5.45-3_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.45-3_arm64.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.22.5-2_arm64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../06-libuchardet0_0.0.8-1+b1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../07-groff-base_1.23.0-5_arm64.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../08-bsdextrautils_2.40.2-8_arm64.deb ... Unpacking bsdextrautils (2.40.2-8) ... 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/vsearch-2.29.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../vsearch_2.29.0-1_source.changes dpkg-buildpackage: info: source package vsearch dpkg-buildpackage: info: source version 2.29.0-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_clean debian/rules execute_after_dh_clean make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' if [ -d test ] ; then find test -mindepth 1 -not -name '*.sh' -delete ; fi rm -f *.out make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf configure.ac:107: installing './compile' configure.ac:6: installing './config.guess' configure.ac:6: installing './config.sub' configure.ac:7: installing './install-sh' configure.ac:7: installing './missing' src/Makefile.am: installing './depcomp' dh_auto_configure ./configure --build=aarch64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/aarch64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking checking build system type... aarch64-unknown-linux-gnu checking host system type... aarch64-unknown-linux-gnu checking target system type... aarch64-unknown-linux-gnu checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a race-free mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for g++... g++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking whether make supports the include directive... yes (GNU style) checking dependency style of g++... none checking for ranlib... ranlib checking for pthread_create in -lpthread... yes checking for dlopen in -ldl... yes checking for GetProcessMemoryInfo in -lpsapi... no checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for getopt.h... yes checking for fcntl.h... yes checking for float.h... yes checking for regex.h... yes checking for ctype.h... yes checking for locale.h... yes checking for limits.h... yes checking for string.h... (cached) yes checking for sys/time.h... yes checking for dlfcn.h... yes checking for pthread.h... yes checking for inline... inline checking for size_t... yes checking for uint32_t... yes checking for int64_t... yes checking for uint64_t... yes checking for uint8_t... yes checking for GNU libc compatible malloc... yes checking for working strtod... yes checking for working alloca.h... yes checking for alloca... yes checking for GNU libc compatible realloc... yes checking for memmove... yes checking for memcpy... yes checking for posix_memalign... yes checking for gettimeofday... yes checking for localtime... yes checking for memchr... yes checking for memset... yes checking for pow... yes checking for regcomp... yes checking for strcasecmp... yes checking for strchr... yes checking for strcspn... yes checking for sysinfo... yes checking for bzlib.h... yes checking for zlib.h... yes checking for ps2pdf... yes checking for windows.h... no checking for gcc... gcc checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating man/Makefile config.status: creating config.h config.status: executing depfiles commands dh_auto_build make -j12 make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' make all-recursive make[2]: Entering directory '/build/reproducible-path/vsearch-2.29.0' Making all in src make[3]: Entering directory '/build/reproducible-path/vsearch-2.29.0/src' g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o align_simd.o align_simd.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o allpairs.o allpairs.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o arch.o arch.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o attributes.o attributes.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o bitmap.o bitmap.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o chimera.o chimera.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o cluster.o cluster.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o cut.o cut.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o db.o db.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o dbhash.o dbhash.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o dbindex.o dbindex.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o derep.o derep.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o derep_prefix.o derep_prefix.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o derep_smallmem.o derep_smallmem.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o dynlibs.o dynlibs.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o eestats.o eestats.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fasta2fastq.o fasta2fastq.cc align_simd.cc: In function 'void search16(s16info_s*, unsigned int, unsigned int*, CELL*, short unsigned int*, short unsigned int*, short unsigned int*, short unsigned int*, char**)': align_simd.cc:148:69: warning: ISO C++ forbids compound-literals [-Wpedantic] 148 | #define v_init(a,b,c,d,e,f,g,h) (const VECTOR_SHORT){a,b,c,d,e,f,g,h} | ^ align_simd.cc:1355:8: note: in expansion of macro 'v_init' 1355 | T0 = v_init(-1, 0, 0, 0, 0, 0, 0, 0); | ^~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fasta.o fasta.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fastq.o fastq.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fastq_chars.o fastq_chars.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fastq_join.o fastq_join.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fastqops.o fastqops.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fastx.o fastx.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o filter.o filter.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o getseq.o getseq.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o kmerhash.o kmerhash.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o linmemalign.o linmemalign.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o maps.o maps.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o mask.o mask.cc gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o md5.o md5.c g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o mergepairs.o mergepairs.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o minheap.o minheap.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o msa.o msa.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o orient.o orient.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o otutable.o otutable.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o rereplicate.o rereplicate.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o results.o results.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o search.o search.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o searchcore.o searchcore.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o search_exact.o search_exact.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o sff_convert.o sff_convert.cc gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o sha1.o sha1.c g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o showalign.o showalign.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o shuffle.o shuffle.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o sintax.o sintax.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o sortbylength.o sortbylength.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o sortbysize.o sortbysize.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o subsample.o subsample.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o tax.o tax.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o udb.o udb.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o unique.o unique.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o userfields.o userfields.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o util.o util.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o vsearch.o vsearch.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -Wno-sign-compare -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o libcityhash_a-city.o `test -f 'city.cc' || echo './'`city.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o cpu.o cpu.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o utils/maps.o utils/maps.cpp g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o utils/seqcmp.o utils/seqcmp.cc rm -f libcityhash.a ar cru libcityhash.a libcityhash_a-city.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libcityhash.a rm -f libcpu.a ar cru libcpu.a cpu.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libcpu.a g++ -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -Wl,-z,relro -Wl,-z,now -flto -o ../bin/vsearch align_simd.o allpairs.o arch.o attributes.o bitmap.o chimera.o cluster.o cut.o db.o dbhash.o dbindex.o derep.o derep_prefix.o derep_smallmem.o dynlibs.o eestats.o fasta2fastq.o fasta.o fastq.o fastq_chars.o fastq_join.o fastqops.o fastx.o filter.o getseq.o kmerhash.o linmemalign.o maps.o mask.o md5.o mergepairs.o minheap.o msa.o orient.o otutable.o rereplicate.o results.o search.o searchcore.o search_exact.o sff_convert.o sha1.o showalign.o shuffle.o sintax.o sortbylength.o sortbysize.o subsample.o tax.o udb.o unique.o userfields.o util.o utils/maps.o utils/seqcmp.o vsearch.o libcityhash.a libcpu.a -ldl -lpthread cut.cc:74:8: warning: type 'struct statistics' violates the C++ One Definition Rule [-Wodr] 74 | struct statistics { | ^ fastq_chars.cc:79:8: note: a different type is defined in another translation unit 79 | struct statistics { | ^ cut.cc:75:7: note: the first difference of corresponding definitions is field 'fragment_no' 75 | int fragment_no = 0; | ^ fastq_chars.cc:80:25: note: a field with different name is defined in another translation unit 80 | std::vector sequence_chars; | ^ lto-wrapper: warning: using serial compilation of 6 LTRANS jobs lto-wrapper: note: see the '-flto' option documentation for more information make[3]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/src' Making all in man make[3]: Entering directory '/build/reproducible-path/vsearch-2.29.0/man' sed -e 's/\\-/-/g' vsearch.1 | \ iconv -f UTF-8 -t ISO-8859-1 | \ groff -W space -t -m mandoc -T ps -P -pa4 | ps2pdf - vsearch_manual.pdf troff::3606: warning [p 41, 6.7i]: cannot adjust line make[3]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/man' make[3]: Entering directory '/build/reproducible-path/vsearch-2.29.0' make[3]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' make[2]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' debian/rules execute_after_dh_auto_build make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' markdown README.md > README.html # Remove redundant travis-build URL sed -i 1d README.html make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' if [ -d /usr/share/vsearch/data ] ; then \ mkdir -p ../vsearch-data && \ for datadir in `find /usr/share/vsearch/data -type d | sed -e "s#/usr/share/vsearch/data/*##" -e "/^$/d"` ; do mkdir -p ../vsearch-data/${datadir} ; done && \ for datafile in `find /usr/share/vsearch/data -type f` ; do \ ln -s ${datafile} `echo ${datafile} | sed -e "s#/usr/share/vsearch/data/#../vsearch-data/#"` ; \ done && \ zcat ../vsearch-data/BioMarKs.fsa.gz > ../vsearch-data/BioMarKs.fsa && \ cd test && \ for t in *.sh ; do \ bash $t v ; \ done && \ cd .. && \ rm -rf ../vsearch-data ; \ fi make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install make -j12 install DESTDIR=/build/reproducible-path/vsearch-2.29.0/debian/tmp AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' Making install in src make[2]: Entering directory '/build/reproducible-path/vsearch-2.29.0/src' make[3]: Entering directory '/build/reproducible-path/vsearch-2.29.0/src' /usr/bin/mkdir -p '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/bin' make[3]: Nothing to be done for 'install-data-am'. /usr/bin/install -c ../bin/vsearch '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/bin' make[3]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/src' make[2]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/src' Making install in man make[2]: Entering directory '/build/reproducible-path/vsearch-2.29.0/man' make[3]: Entering directory '/build/reproducible-path/vsearch-2.29.0/man' make[3]: Nothing to be done for 'install-exec-am'. /usr/bin/mkdir -p '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/share/doc/vsearch' /usr/bin/mkdir -p '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/share/man/man1' /usr/bin/install -c -m 644 vsearch_manual.pdf '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/share/doc/vsearch' /usr/bin/install -c -m 644 vsearch.1 '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/share/man/man1' make[3]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/man' make[2]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/man' make[2]: Entering directory '/build/reproducible-path/vsearch-2.29.0' make[3]: Entering directory '/build/reproducible-path/vsearch-2.29.0' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' make[2]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' dh_install debian/rules execute_after_dh_install make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' # tweak path to vsearch binary in test scripts if [ -d test ] ; then \ mkdir -p /build/reproducible-path/vsearch-2.29.0/debian/vsearch/usr/share/doc/vsearch/test ; \ for tst in test/*.sh ; do sed 's?\.\./bin/vsearch?/usr/bin/vsearch?' ${tst} > /build/reproducible-path/vsearch-2.29.0/debian/vsearch/usr/share/doc/vsearch/${tst} ; done ; \ fi make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' dh_installdocs dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb debian/rules override_dh_gencontrol make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' dpkg-query: no packages found matching libsimde-dev dh_gencontrol -- -Vsimde:Built-Using="" dpkg-gencontrol: warning: Depends field of package vsearch-examples: substitution variable ${shlibs:Depends} used, but is not defined make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' dh_md5sums dh_builddeb dpkg-deb: building package 'vsearch' in '../vsearch_2.29.0-1_arm64.deb'. dpkg-deb: building package 'vsearch-dbgsym' in '../vsearch-dbgsym_2.29.0-1_arm64.deb'. dpkg-deb: building package 'vsearch-examples' in '../vsearch-examples_2.29.0-1_all.deb'. dpkg-genbuildinfo --build=binary -O../vsearch_2.29.0-1_arm64.buildinfo dpkg-genchanges --build=binary -O../vsearch_2.29.0-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/1315054 and its subdirectories I: Current time: Sun Sep 29 20:46:44 -12 2024 I: pbuilder-time-stamp: 1727686004 Mon Sep 30 08:46:46 UTC 2024 I: 1st build successful. Starting 2nd build on remote node codethink01-arm64.debian.net. Mon Sep 30 08:46:46 UTC 2024 I: Preparing to do remote build '2' on codethink01-arm64.debian.net. Mon Sep 30 08:46:46 UTC 2024 - checking /var/lib/jenkins/offline_nodes if codethink01-arm64.debian.net is marked as down. Mon Sep 30 08:46:46 UTC 2024 - checking via ssh if codethink01-arm64.debian.net is up. removed '/tmp/read-only-fs-test-3XlUzz' ==================================================================================== Sun Nov 2 15:09:47 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on codethink01-arm64, called using "2 vsearch trixie /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC 2.29.0-1" as arguments. Sun Nov 2 15:09:47 UTC 2025 - actually running "reproducible_build.sh" (md5sum 79f74068471242981be9b3b00196cbfb) as "/tmp/jenkins-script-J1pMubq2" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sun Nov 2 15:09:47 UTC 2025 I: Downloading source for trixie/vsearch=2.29.0-1 Reading package lists... NOTICE: 'vsearch' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/vsearch.git Please use: git clone https://salsa.debian.org/med-team/vsearch.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 1917 kB of source archives. Get:1 http://deb.debian.org/debian trixie/main vsearch 2.29.0-1 (dsc) [2211 B] Get:2 http://deb.debian.org/debian trixie/main vsearch 2.29.0-1 (tar) [283 kB] Get:3 http://deb.debian.org/debian trixie/main vsearch 2.29.0-1 (diff) [1632 kB] Fetched 1917 kB in 0s (51.4 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'vsearch' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/vsearch.git Please use: git clone https://salsa.debian.org/med-team/vsearch.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 1917 kB of source archives. Get:1 http://deb.debian.org/debian trixie/main vsearch 2.29.0-1 (dsc) [2211 B] Get:2 http://deb.debian.org/debian trixie/main vsearch 2.29.0-1 (tar) [283 kB] Get:3 http://deb.debian.org/debian trixie/main vsearch 2.29.0-1 (diff) [1632 kB] Fetched 1917 kB in 0s (51.4 MB/s) Download complete and in download only mode ============================================================================= Re-Building vsearch in trixie on arm64 on codethink01-arm64 now. Date: Sun Nov 2 15:09:47 GMT 2025 Date UTC: Sun Nov 2 15:09:47 UTC 2025 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/pbuilderrc_0RzB + case ${ARCH} in + case $ARCH in + locale=nl_BE + language=nl + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' vsearch = debian-installer -o vsearch = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' vsearch = u-boot ']' + case "${SRCPACKAGE}" in + PBUILDERTIMEOUT=24 + local PRESULT=0 + sudo timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/pbuilderrc_0RzB --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/b2 --logfile b2/build.log vsearch_2.29.0-1.dsc W: /root/.pbuilderrc does not exist I: Logging to b2/build.log I: pbuilder: network access will be disabled during build I: Current time: Mon Nov 3 05:09:48 +14 2025 I: pbuilder-time-stamp: 1762096188 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [vsearch_2.29.0-1.dsc] I: copying [./vsearch_2.29.0.orig.tar.gz] I: copying [./vsearch_2.29.0-1.debian.tar.xz] I: Extracting source gpgv: Signature made Thu Sep 26 14:26:28 2024 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./vsearch_2.29.0-1.dsc: no acceptable signature found dpkg-source: info: extracting vsearch in vsearch-2.29.0 dpkg-source: info: unpacking vsearch_2.29.0.orig.tar.gz dpkg-source: info: unpacking vsearch_2.29.0-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3431261/tmp/hooks/D01_modify_environment starting debug: Running on codethink01-arm64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Nov 2 15:09 /bin/sh -> /bin/bash I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/3431261/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/3431261/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="32" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") BASH_VERSION='5.2.32(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=arm64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DIRSTACK=() DISTRIBUTION=trixie EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=aarch64 HOST_ARCH=arm64 IFS=' ' INVOCATION_ID=82f0e0e6680d4f02a2b5c41c56ae8d46 LANG=C LANGUAGE=nl_BE:nl LC_ALL=C MACHTYPE=aarch64-unknown-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=3431261 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/pbuilderrc_0RzB --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/b2 --logfile b2/build.log vsearch_2.29.0-1.dsc' SUDO_GID=109 SUDO_UID=104 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://192.168.101.4:3128 I: uname -a Linux i-capture-the-hostname 6.1.0-25-cloud-arm64 #1 SMP Debian 6.1.106-3 (2024-08-26) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3431261/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), architecture-is-64-bit, architecture-is-little-endian, zlib1g-dev, libbz2-dev, libtext-markdown-perl, ghostscript, time dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19895 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on architecture-is-64-bit; however: Package architecture-is-64-bit is not installed. pbuilder-satisfydepends-dummy depends on architecture-is-little-endian; however: Package architecture-is-little-endian is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libbz2-dev; however: Package libbz2-dev is not installed. pbuilder-satisfydepends-dummy depends on libtext-markdown-perl; however: Package libtext-markdown-perl is not installed. pbuilder-satisfydepends-dummy depends on ghostscript; however: Package ghostscript is not installed. pbuilder-satisfydepends-dummy depends on time; however: Package time is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: architecture-properties{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig-config{a} fonts-urw-base35{a} gettext{a} gettext-base{a} ghostscript{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcups2t64{a} libdbus-1-3{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfontenc1{a} libfreetype6{a} libgs-common{a} libgs10{a} libgs10-common{a} libgssapi-krb5-2{a} libice6{a} libicu72{a} libidn12{a} libijs-0.35{a} libjbig0{a} libjbig2dec0{a} libjpeg62-turbo{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblcms2-2{a} liblerc4{a} libmagic-mgc{a} libmagic1t64{a} libopenjp2-7{a} libpaper1{a} libpipeline1{a} libpng16-16t64{a} libsharpyuv0{a} libsm6{a} libtext-markdown-perl{a} libtiff6{a} libtool{a} libuchardet0{a} libwebp7{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxml2{a} libxt6t64{a} m4{a} man-db{a} po-debconf{a} poppler-data{a} sensible-utils{a} time{a} ucf{a} x11-common{a} xfonts-encodings{a} xfonts-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc curl dbus fonts-droid-fallback krb5-locales libarchive-cpio-perl libltdl-dev libmail-sendmail-perl libpaper-utils lynx wget 0 packages upgraded, 83 newly installed, 0 to remove and 0 not upgraded. Need to get 42.9 MB of archives. After unpacking 154 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 poppler-data all 0.4.12-1 [1601 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.45-3 [314 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.45-3 [100 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.45-3 [43.0 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.22.5-2 [198 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b1 [69.0 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-5 [1129 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.40.2-8 [96.6 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 ucf all 3.0043+nmu1 [55.2 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 architecture-properties arm64 0.2.3 [2184 B] Get: 14 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.72-3 [493 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.22.5-2 [723 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.20 [89.7 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 libtool all 2.4.7-7 [517 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 23 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 25 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.191-2 [188 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 27 http://deb.debian.org/debian trixie/main arm64 libicu72 arm64 72.1-5 [9224 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.1 [630 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.22.5-2 [1532 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.20 [915 kB] Get: 33 http://deb.debian.org/debian trixie/main arm64 libfontenc1 arm64 1:1.1.8-1 [22.2 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 libbrotli1 arm64 1.1.0-2+b4 [292 kB] Get: 35 http://deb.debian.org/debian trixie/main arm64 libpng16-16t64 arm64 1.6.44-1 [272 kB] Get: 36 http://deb.debian.org/debian trixie/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB] Get: 37 http://deb.debian.org/debian trixie/main arm64 x11-common all 1:7.7+23.1 [216 kB] Get: 38 http://deb.debian.org/debian trixie/main arm64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get: 39 http://deb.debian.org/debian trixie/main arm64 xfonts-utils arm64 1:7.7+7 [89.3 kB] Get: 40 http://deb.debian.org/debian trixie/main arm64 fonts-urw-base35 all 20200910-8 [10.8 MB] Get: 41 http://deb.debian.org/debian trixie/main arm64 fontconfig-config arm64 2.15.0-1.1 [317 kB] Get: 42 http://deb.debian.org/debian trixie/main arm64 libgs-common all 10.04.0~dfsg-1 [148 kB] Get: 43 http://deb.debian.org/debian trixie/main arm64 libgs10-common all 10.04.0~dfsg-1 [474 kB] Get: 44 http://deb.debian.org/debian trixie/main arm64 libavahi-common-data arm64 0.8-13+b2 [112 kB] Get: 45 http://deb.debian.org/debian trixie/main arm64 libavahi-common3 arm64 0.8-13+b2 [42.4 kB] Get: 46 http://deb.debian.org/debian trixie/main arm64 libdbus-1-3 arm64 1.14.10-4+b1 [195 kB] Get: 47 http://deb.debian.org/debian trixie/main arm64 libavahi-client3 arm64 0.8-13+b2 [45.7 kB] Get: 48 http://deb.debian.org/debian trixie/main arm64 libkrb5support0 arm64 1.21.3-3 [32.1 kB] Get: 49 http://deb.debian.org/debian trixie/main arm64 libcom-err2 arm64 1.47.1-1 [22.8 kB] Get: 50 http://deb.debian.org/debian trixie/main arm64 libk5crypto3 arm64 1.21.3-3 [80.8 kB] Get: 51 http://deb.debian.org/debian trixie/main arm64 libkeyutils1 arm64 1.6.3-3 [9112 B] Get: 52 http://deb.debian.org/debian trixie/main arm64 libkrb5-3 arm64 1.21.3-3 [310 kB] Get: 53 http://deb.debian.org/debian trixie/main arm64 libgssapi-krb5-2 arm64 1.21.3-3 [126 kB] Get: 54 http://deb.debian.org/debian trixie/main arm64 libcups2t64 arm64 2.4.10-1 [233 kB] Get: 55 http://deb.debian.org/debian trixie/main arm64 libexpat1 arm64 2.6.3-1 [90.2 kB] Get: 56 http://deb.debian.org/debian trixie/main arm64 libfontconfig1 arm64 2.15.0-1.1 [385 kB] Get: 57 http://deb.debian.org/debian trixie/main arm64 libidn12 arm64 1.42-2 [79.2 kB] Get: 58 http://deb.debian.org/debian trixie/main arm64 libijs-0.35 arm64 0.35-15.1+b1 [14.9 kB] Get: 59 http://deb.debian.org/debian trixie/main arm64 libjbig2dec0 arm64 0.20-1+b2 [59.6 kB] Get: 60 http://deb.debian.org/debian trixie/main arm64 libjpeg62-turbo arm64 1:2.1.5-3 [172 kB] Get: 61 http://deb.debian.org/debian trixie/main arm64 liblcms2-2 arm64 2.14-2+b1 [144 kB] Get: 62 http://deb.debian.org/debian trixie/main arm64 libopenjp2-7 arm64 2.5.0-2+b3 [177 kB] Get: 63 http://deb.debian.org/debian trixie/main arm64 libpaper1 arm64 1.1.29+b1 [12.9 kB] Get: 64 http://deb.debian.org/debian trixie/main arm64 libdeflate0 arm64 1.21-1 [42.2 kB] Get: 65 http://deb.debian.org/debian trixie/main arm64 libjbig0 arm64 2.1-6.1+b1 [30.4 kB] Get: 66 http://deb.debian.org/debian trixie/main arm64 liblerc4 arm64 4.0.0+ds-4+b1 [142 kB] Get: 67 http://deb.debian.org/debian trixie/main arm64 libsharpyuv0 arm64 1.4.0-0.1 [111 kB] Get: 68 http://deb.debian.org/debian trixie/main arm64 libwebp7 arm64 1.4.0-0.1 [267 kB] Get: 69 http://deb.debian.org/debian trixie/main arm64 libtiff6 arm64 4.5.1+git230720-5 [309 kB] Get: 70 http://deb.debian.org/debian trixie/main arm64 libxau6 arm64 1:1.0.9-1+b1 [18.1 kB] Get: 71 http://deb.debian.org/debian trixie/main arm64 libxdmcp6 arm64 1:1.1.2-3+b1 [24.3 kB] Get: 72 http://deb.debian.org/debian trixie/main arm64 libxcb1 arm64 1.17.0-2 [143 kB] Get: 73 http://deb.debian.org/debian trixie/main arm64 libx11-data all 2:1.8.7-1 [328 kB] Get: 74 http://deb.debian.org/debian trixie/main arm64 libx11-6 arm64 2:1.8.7-1+b1 [775 kB] Get: 75 http://deb.debian.org/debian trixie/main arm64 libice6 arm64 2:1.0.10-1+b1 [53.7 kB] Get: 76 http://deb.debian.org/debian trixie/main arm64 libsm6 arm64 2:1.2.3-1+b1 [32.7 kB] Get: 77 http://deb.debian.org/debian trixie/main arm64 libxt6t64 arm64 1:1.2.1-1.2 [172 kB] Get: 78 http://deb.debian.org/debian trixie/main arm64 libgs10 arm64 10.04.0~dfsg-1 [2351 kB] Get: 79 http://deb.debian.org/debian trixie/main arm64 ghostscript arm64 10.04.0~dfsg-1 [50.5 kB] Get: 80 http://deb.debian.org/debian trixie/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Get: 81 http://deb.debian.org/debian trixie/main arm64 libtext-markdown-perl all 1.000031-5 [31.4 kB] Get: 82 http://deb.debian.org/debian trixie/main arm64 time arm64 1.9-0.2 [50.6 kB] Get: 83 http://deb.debian.org/debian trixie/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1 [916 kB] Fetched 42.9 MB in 0s (94.5 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package poppler-data. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19895 files and directories currently installed.) Preparing to unpack .../00-poppler-data_0.4.12-1_all.deb ... Unpacking poppler-data (0.4.12-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.45-3_arm64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../03-libmagic1t64_1%3a5.45-3_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.45-3_arm64.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.22.5-2_arm64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../06-libuchardet0_0.0.8-1+b1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../07-groff-base_1.23.0-5_arm64.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../08-bsdextrautils_2.40.2-8_arm64.deb ... Unpacking bsdextrautils (2.40.2-8) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../09-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../10-man-db_2.13.0-1_arm64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package ucf. Preparing to unpack .../11-ucf_3.0043+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0043+nmu1) ... Selecting previously unselected package architecture-properties:arm64. Preparing to unpack .../12-architecture-properties_0.2.3_arm64.deb ... Unpacking architecture-properties:arm64 (0.2.3) ... Selecting previously unselected package m4. Preparing to unpack .../13-m4_1.4.19-4_arm64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../14-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. 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Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up libice6:arm64 (2:1.0.10-1+b1) ... Setting up gettext (0.22.5-2) ... Setting up libtool (2.4.7-7) ... Setting up libavahi-common3:arm64 (0.8-13+b2) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libfreetype6:arm64 (2.13.3+dfsg-1) ... Setting up libgssapi-krb5-2:arm64 (1.21.3-3) ... Setting up ucf (3.0043+nmu1) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-5) ... Setting up libsm6:arm64 (2:1.2.3-1+b1) ... Setting up libavahi-client3:arm64 (0.8-13+b2) ... Setting up libpaper1:arm64 (1.1.29+b1) ... Creating config file /etc/papersize with new version Setting up po-debconf (1.0.21+nmu1) ... Setting up xfonts-utils (1:7.7+7) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libxt6t64:arm64 (1:1.2.1-1.2) ... Setting up libcups2t64:arm64 (2.4.10-1) ... Setting up debhelper (13.20) ... Setting up fonts-urw-base35 (20200910-8) ... Setting up libgs10-common (10.04.0~dfsg-1) ... Setting up fontconfig-config (2.15.0-1.1) ... Setting up libfontconfig1:arm64 (2.15.0-1.1) ... Setting up libgs10:arm64 (10.04.0~dfsg-1) ... Setting up ghostscript (10.04.0~dfsg-1) ... Processing triggers for libc-bin (2.40-2) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/3431261/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for trixie I: user script /srv/workspace/pbuilder/3431261/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/vsearch-2.29.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../vsearch_2.29.0-1_source.changes dpkg-buildpackage: info: source package vsearch dpkg-buildpackage: info: source version 2.29.0-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_clean debian/rules execute_after_dh_clean make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' if [ -d test ] ; then find test -mindepth 1 -not -name '*.sh' -delete ; fi rm -f *.out make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf configure.ac:107: installing './compile' configure.ac:6: installing './config.guess' configure.ac:6: installing './config.sub' configure.ac:7: installing './install-sh' configure.ac:7: installing './missing' src/Makefile.am: installing './depcomp' dh_auto_configure ./configure --build=aarch64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/aarch64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking checking build system type... aarch64-unknown-linux-gnu checking host system type... aarch64-unknown-linux-gnu checking target system type... aarch64-unknown-linux-gnu checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a race-free mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for g++... g++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking whether make supports the include directive... yes (GNU style) checking dependency style of g++... none checking for ranlib... ranlib checking for pthread_create in -lpthread... yes checking for dlopen in -ldl... yes checking for GetProcessMemoryInfo in -lpsapi... no checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for getopt.h... yes checking for fcntl.h... yes checking for float.h... yes checking for regex.h... yes checking for ctype.h... yes checking for locale.h... yes checking for limits.h... yes checking for string.h... (cached) yes checking for sys/time.h... yes checking for dlfcn.h... yes checking for pthread.h... yes checking for inline... inline checking for size_t... yes checking for uint32_t... yes checking for int64_t... yes checking for uint64_t... yes checking for uint8_t... yes checking for GNU libc compatible malloc... yes checking for working strtod... yes checking for working alloca.h... yes checking for alloca... yes checking for GNU libc compatible realloc... yes checking for memmove... yes checking for memcpy... yes checking for posix_memalign... yes checking for gettimeofday... yes checking for localtime... yes checking for memchr... yes checking for memset... yes checking for pow... yes checking for regcomp... yes checking for strcasecmp... yes checking for strchr... yes checking for strcspn... yes checking for sysinfo... yes checking for bzlib.h... yes checking for zlib.h... yes checking for ps2pdf... yes checking for windows.h... no checking for gcc... gcc checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating man/Makefile config.status: creating config.h config.status: executing depfiles commands dh_auto_build make -j12 make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' make all-recursive make[2]: Entering directory '/build/reproducible-path/vsearch-2.29.0' Making all in src make[3]: Entering directory '/build/reproducible-path/vsearch-2.29.0/src' g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o align_simd.o align_simd.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o allpairs.o allpairs.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o arch.o arch.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o attributes.o attributes.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o bitmap.o bitmap.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o chimera.o chimera.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o cluster.o cluster.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o cut.o cut.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o db.o db.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o dbhash.o dbhash.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o dbindex.o dbindex.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o derep.o derep.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o derep_prefix.o derep_prefix.cc align_simd.cc: In function 'void search16(s16info_s*, unsigned int, unsigned int*, CELL*, short unsigned int*, short unsigned int*, short unsigned int*, short unsigned int*, char**)': align_simd.cc:148:69: warning: ISO C++ forbids compound-literals [-Wpedantic] 148 | #define v_init(a,b,c,d,e,f,g,h) (const VECTOR_SHORT){a,b,c,d,e,f,g,h} | ^ align_simd.cc:1355:8: note: in expansion of macro 'v_init' 1355 | T0 = v_init(-1, 0, 0, 0, 0, 0, 0, 0); | ^~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o derep_smallmem.o derep_smallmem.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o dynlibs.o dynlibs.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o eestats.o eestats.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fasta2fastq.o fasta2fastq.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fasta.o fasta.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fastq.o fastq.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fastq_chars.o fastq_chars.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fastq_join.o fastq_join.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fastqops.o fastqops.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fastx.o fastx.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o filter.o filter.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o getseq.o getseq.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o kmerhash.o kmerhash.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o linmemalign.o linmemalign.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o maps.o maps.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o mask.o mask.cc gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o md5.o md5.c g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o mergepairs.o mergepairs.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o minheap.o minheap.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o msa.o msa.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o orient.o orient.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o otutable.o otutable.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o rereplicate.o rereplicate.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o results.o results.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o search.o search.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o searchcore.o searchcore.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o search_exact.o search_exact.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o sff_convert.o sff_convert.cc gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o sha1.o sha1.c g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o showalign.o showalign.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o shuffle.o shuffle.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o sintax.o sintax.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o sortbylength.o sortbylength.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o sortbysize.o sortbysize.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o subsample.o subsample.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o tax.o tax.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o udb.o udb.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o unique.o unique.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o userfields.o userfields.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o util.o util.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o vsearch.o vsearch.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -Wno-sign-compare -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o libcityhash_a-city.o `test -f 'city.cc' || echo './'`city.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o cpu.o cpu.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o utils/maps.o utils/maps.cpp g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o utils/seqcmp.o utils/seqcmp.cc rm -f libcityhash.a ar cru libcityhash.a libcityhash_a-city.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libcityhash.a rm -f libcpu.a ar cru libcpu.a cpu.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libcpu.a g++ -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -Wl,-z,relro -Wl,-z,now -flto -o ../bin/vsearch align_simd.o allpairs.o arch.o attributes.o bitmap.o chimera.o cluster.o cut.o db.o dbhash.o dbindex.o derep.o derep_prefix.o derep_smallmem.o dynlibs.o eestats.o fasta2fastq.o fasta.o fastq.o fastq_chars.o fastq_join.o fastqops.o fastx.o filter.o getseq.o kmerhash.o linmemalign.o maps.o mask.o md5.o mergepairs.o minheap.o msa.o orient.o otutable.o rereplicate.o results.o search.o searchcore.o search_exact.o sff_convert.o sha1.o showalign.o shuffle.o sintax.o sortbylength.o sortbysize.o subsample.o tax.o udb.o unique.o userfields.o util.o utils/maps.o utils/seqcmp.o vsearch.o libcityhash.a libcpu.a -ldl -lpthread cut.cc:74:8: warning: type 'struct statistics' violates the C++ One Definition Rule [-Wodr] 74 | struct statistics { | ^ fastq_chars.cc:79:8: note: a different type is defined in another translation unit 79 | struct statistics { | ^ cut.cc:75:7: note: the first difference of corresponding definitions is field 'fragment_no' 75 | int fragment_no = 0; | ^ fastq_chars.cc:80:25: note: a field with different name is defined in another translation unit 80 | std::vector sequence_chars; | ^ lto-wrapper: warning: using serial compilation of 6 LTRANS jobs lto-wrapper: note: see the '-flto' option documentation for more information make[3]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/src' Making all in man make[3]: Entering directory '/build/reproducible-path/vsearch-2.29.0/man' sed -e 's/\\-/-/g' vsearch.1 | \ iconv -f UTF-8 -t ISO-8859-1 | \ groff -W space -t -m mandoc -T ps -P -pa4 | ps2pdf - vsearch_manual.pdf troff::3606: warning [p 41, 6.7i]: cannot adjust line make[3]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/man' make[3]: Entering directory '/build/reproducible-path/vsearch-2.29.0' make[3]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' make[2]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' debian/rules execute_after_dh_auto_build make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' markdown README.md > README.html # Remove redundant travis-build URL sed -i 1d README.html make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' if [ -d /usr/share/vsearch/data ] ; then \ mkdir -p ../vsearch-data && \ for datadir in `find /usr/share/vsearch/data -type d | sed -e "s#/usr/share/vsearch/data/*##" -e "/^$/d"` ; do mkdir -p ../vsearch-data/${datadir} ; done && \ for datafile in `find /usr/share/vsearch/data -type f` ; do \ ln -s ${datafile} `echo ${datafile} | sed -e "s#/usr/share/vsearch/data/#../vsearch-data/#"` ; \ done && \ zcat ../vsearch-data/BioMarKs.fsa.gz > ../vsearch-data/BioMarKs.fsa && \ cd test && \ for t in *.sh ; do \ bash $t v ; \ done && \ cd .. && \ rm -rf ../vsearch-data ; \ fi make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install make -j12 install DESTDIR=/build/reproducible-path/vsearch-2.29.0/debian/tmp AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' Making install in src make[2]: Entering directory '/build/reproducible-path/vsearch-2.29.0/src' make[3]: Entering directory '/build/reproducible-path/vsearch-2.29.0/src' make[3]: Nothing to be done for 'install-data-am'. /usr/bin/mkdir -p '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/bin' /usr/bin/install -c ../bin/vsearch '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/bin' make[3]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/src' make[2]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/src' Making install in man make[2]: Entering directory '/build/reproducible-path/vsearch-2.29.0/man' make[3]: Entering directory '/build/reproducible-path/vsearch-2.29.0/man' make[3]: Nothing to be done for 'install-exec-am'. /usr/bin/mkdir -p '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/share/doc/vsearch' /usr/bin/mkdir -p '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/share/man/man1' /usr/bin/install -c -m 644 vsearch_manual.pdf '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/share/doc/vsearch' /usr/bin/install -c -m 644 vsearch.1 '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/share/man/man1' make[3]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/man' make[2]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/man' make[2]: Entering directory '/build/reproducible-path/vsearch-2.29.0' make[3]: Entering directory '/build/reproducible-path/vsearch-2.29.0' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' make[2]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' dh_install debian/rules execute_after_dh_install make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' # tweak path to vsearch binary in test scripts if [ -d test ] ; then \ mkdir -p /build/reproducible-path/vsearch-2.29.0/debian/vsearch/usr/share/doc/vsearch/test ; \ for tst in test/*.sh ; do sed 's?\.\./bin/vsearch?/usr/bin/vsearch?' ${tst} > /build/reproducible-path/vsearch-2.29.0/debian/vsearch/usr/share/doc/vsearch/${tst} ; done ; \ fi make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' dh_installdocs dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb debian/rules override_dh_gencontrol make[1]: Entering directory '/build/reproducible-path/vsearch-2.29.0' dpkg-query: no packages found matching libsimde-dev dh_gencontrol -- -Vsimde:Built-Using="" dpkg-gencontrol: warning: Depends field of package vsearch-examples: substitution variable ${shlibs:Depends} used, but is not defined make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' dh_md5sums dh_builddeb dpkg-deb: building package 'vsearch-examples' in '../vsearch-examples_2.29.0-1_all.deb'. dpkg-deb: building package 'vsearch-dbgsym' in '../vsearch-dbgsym_2.29.0-1_arm64.deb'. dpkg-deb: building package 'vsearch' in '../vsearch_2.29.0-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../vsearch_2.29.0-1_arm64.buildinfo dpkg-genchanges --build=binary -O../vsearch_2.29.0-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/3431261/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/3431261/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/3431261 and its subdirectories I: Current time: Mon Nov 3 05:11:23 +14 2025 I: pbuilder-time-stamp: 1762096283 + false + set +x Sun Nov 2 15:11:23 UTC 2025 I: Signing ./b2/vsearch_2.29.0-1_arm64.buildinfo as vsearch_2.29.0-1_arm64.buildinfo.asc Sun Nov 2 15:11:24 UTC 2025 I: Signed ./b2/vsearch_2.29.0-1_arm64.buildinfo as ./b2/vsearch_2.29.0-1_arm64.buildinfo.asc Sun Nov 2 15:11:24 UTC 2025 - build #2 for vsearch/trixie/arm64 on codethink01-arm64 done. Starting cleanup. All cleanup done. Sun Nov 2 15:11:24 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-J1pMubq2, removing. /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC: total 88 drwxr-xr-x 2 jenkins jenkins 4096 Sep 30 08:46 b1 drwxr-xr-x 2 jenkins jenkins 4096 Sep 30 08:48 b2 -rw------- 1 jenkins jenkins 72791 Sep 30 08:46 rbuildlog.Kc3QuUi -rw-r--r-- 1 jenkins jenkins 2211 Sep 26 14:58 vsearch_2.29.0-1.dsc /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/b1: total 6884 -rw-r--r-- 1 jenkins jenkins 69168 Sep 30 08:46 build.log -rw-r--r-- 1 jenkins jenkins 1110536 Sep 30 08:46 vsearch-dbgsym_2.29.0-1_arm64.deb -rw-r--r-- 1 jenkins jenkins 3479512 Sep 30 08:46 vsearch-examples_2.29.0-1_all.deb -rw-r--r-- 1 jenkins jenkins 1631760 Sep 30 08:46 vsearch_2.29.0-1.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2211 Sep 30 08:46 vsearch_2.29.0-1.dsc -rw-r--r-- 1 jenkins jenkins 6952 Sep 30 08:46 vsearch_2.29.0-1_arm64.buildinfo -rw-r--r-- 1 jenkins jenkins 7834 Sep 30 08:46 vsearch_2.29.0-1_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1992 Sep 30 08:46 vsearch_2.29.0-1_arm64.changes -rw-r--r-- 1 jenkins jenkins 409424 Sep 30 08:46 vsearch_2.29.0-1_arm64.deb -rw-r--r-- 1 jenkins jenkins 1733 Sep 30 08:46 vsearch_2.29.0-1_source.changes -rw-r--r-- 1 jenkins jenkins 283459 Sep 30 08:46 vsearch_2.29.0.orig.tar.gz /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/b2: total 6864 -rw-r--r-- 1 jenkins jenkins 71112 Sep 30 08:48 build.log -rw-r--r-- 1 jenkins jenkins 1110536 Sep 30 08:48 vsearch-dbgsym_2.29.0-1_arm64.deb -rw-r--r-- 1 jenkins jenkins 3479512 Sep 30 08:48 vsearch-examples_2.29.0-1_all.deb -rw-r--r-- 1 jenkins jenkins 1631760 Sep 30 08:48 vsearch_2.29.0-1.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2211 Sep 30 08:48 vsearch_2.29.0-1.dsc -rw-r--r-- 1 jenkins jenkins 6952 Sep 30 08:48 vsearch_2.29.0-1_arm64.buildinfo -rw-r--r-- 1 jenkins jenkins 7834 Sep 30 08:48 vsearch_2.29.0-1_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1992 Sep 30 08:48 vsearch_2.29.0-1_arm64.changes -rw-r--r-- 1 jenkins jenkins 409424 Sep 30 08:48 vsearch_2.29.0-1_arm64.deb -rw-r--r-- 1 jenkins jenkins 1733 Sep 30 08:48 vsearch_2.29.0-1_source.changes -rw-r--r-- 1 jenkins jenkins 283459 Sep 30 08:48 vsearch_2.29.0.orig.tar.gz Mon Sep 30 08:48:26 UTC 2024 I: Deleting $TMPDIR on codethink01-arm64.debian.net. Mon Sep 30 08:48:27 UTC 2024 I: vsearch_2.29.0-1_arm64.changes: Format: 1.8 Date: Thu, 26 Sep 2024 16:12:55 +0200 Source: vsearch Binary: vsearch vsearch-dbgsym vsearch-examples Architecture: arm64 all Version: 2.29.0-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Michael R. Crusoe Description: vsearch - tool for processing metagenomic sequences vsearch-examples - Test Data for vsearch tool for processing metagenomic sequences Changes: vsearch (2.29.0-1) unstable; urgency=medium . * Team upload. . [ Andreas Tille ] * Remove Tim Booth since address is bouncing (Thank you for your work on this package, Tim) . [ Michael R. Crusoe ] * Standards-Version: 4.6.2 (routine-update) * New upstream release. * Remove all patches, they were upstreamed Checksums-Sha1: e305dbafdfd6255bc9bee0d3dd6468123b626cf8 1110536 vsearch-dbgsym_2.29.0-1_arm64.deb 6bd9ab811dd695367615575215211e7150d23741 3479512 vsearch-examples_2.29.0-1_all.deb a9374ab6bfe739a2430654a440717e27319f315a 6952 vsearch_2.29.0-1_arm64.buildinfo 49f549badb025197ea1c614d54656213614205e2 409424 vsearch_2.29.0-1_arm64.deb Checksums-Sha256: 5c2e59e6eac9cbb65ba5750136e27cda19dd745531e7cea5ade73f2c1c20e2e0 1110536 vsearch-dbgsym_2.29.0-1_arm64.deb b6f793f5035a30ed639a8ee66c1ef75f61912c102be2b0c7f378ff13fa3e431e 3479512 vsearch-examples_2.29.0-1_all.deb ea9ac4855a8895eb8b3344184a6891dc3e25729da2580af0710720c5b0b860c7 6952 vsearch_2.29.0-1_arm64.buildinfo 5cb216137c3d596140d58dc846c585fa896893871926e0fa08ac4e5b30c5afe6 409424 vsearch_2.29.0-1_arm64.deb Files: 04dbcc9d7e290e9c2149e06f7873737d 1110536 debug optional vsearch-dbgsym_2.29.0-1_arm64.deb 6c55dc9a766ef87f66305f3ad629d137 3479512 science optional vsearch-examples_2.29.0-1_all.deb b944944ff71bdce51195dbe89d049989 6952 science optional vsearch_2.29.0-1_arm64.buildinfo 81a622ed38772938f9c6285330df6b60 409424 science optional vsearch_2.29.0-1_arm64.deb removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/arm64/vsearch_2.29.0-1.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/arm64/vsearch_2.29.0-1.rbuild.log.gz' Diff of the two buildlogs: -- --- b1/build.log 2024-09-30 08:46:45.020065373 +0000 +++ b2/build.log 2024-09-30 08:48:25.255798509 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sun Sep 29 20:45:31 -12 2024 -I: pbuilder-time-stamp: 1727685931 +I: Current time: Mon Nov 3 05:09:48 +14 2025 +I: pbuilder-time-stamp: 1762096188 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -25,52 +25,84 @@ dpkg-source: info: unpacking vsearch_2.29.0-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/1315054/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3431261/tmp/hooks/D01_modify_environment starting +debug: Running on codethink01-arm64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Nov 2 15:09 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/3431261/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3431261/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='arm64' - DEBIAN_FRONTEND='noninteractive' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="32" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.2.32(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='adcba4fb481a4cdeb694be508f8f3fe1' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='1315054' - PS1='# ' - PS2='> ' + INVOCATION_ID=82f0e0e6680d4f02a2b5c41c56ae8d46 + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=3431261 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/pbuilderrc_xgqr --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/b1 --logfile b1/build.log vsearch_2.29.0-1.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/pbuilderrc_0RzB --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/b2 --logfile b2/build.log vsearch_2.29.0-1.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink04-arm64 6.1.0-25-cloud-arm64 #1 SMP Debian 6.1.106-3 (2024-08-26) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-25-cloud-arm64 #1 SMP Debian 6.1.106-3 (2024-08-26) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/1315054/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/3431261/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -203,7 +235,7 @@ Get: 81 http://deb.debian.org/debian trixie/main arm64 libtext-markdown-perl all 1.000031-5 [31.4 kB] Get: 82 http://deb.debian.org/debian trixie/main arm64 time arm64 1.9-0.2 [50.6 kB] Get: 83 http://deb.debian.org/debian trixie/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1 [916 kB] -Fetched 42.9 MB in 0s (143 MB/s) +Fetched 42.9 MB in 0s (94.5 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package poppler-data. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19895 files and directories currently installed.) @@ -555,7 +587,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/vsearch-2.29.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../vsearch_2.29.0-1_source.changes +I: user script /srv/workspace/pbuilder/3431261/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/3431261/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/vsearch-2.29.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../vsearch_2.29.0-1_source.changes dpkg-buildpackage: info: source package vsearch dpkg-buildpackage: info: source version 2.29.0-1 dpkg-buildpackage: info: source distribution unstable @@ -688,10 +724,6 @@ g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o dbindex.o dbindex.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o derep.o derep.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o derep_prefix.o derep_prefix.cc -g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o derep_smallmem.o derep_smallmem.cc -g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o dynlibs.o dynlibs.cc -g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o eestats.o eestats.cc -g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fasta2fastq.o fasta2fastq.cc align_simd.cc: In function 'void search16(s16info_s*, unsigned int, unsigned int*, CELL*, short unsigned int*, short unsigned int*, short unsigned int*, short unsigned int*, char**)': align_simd.cc:148:69: warning: ISO C++ forbids compound-literals [-Wpedantic] 148 | #define v_init(a,b,c,d,e,f,g,h) (const VECTOR_SHORT){a,b,c,d,e,f,g,h} @@ -699,6 +731,10 @@ align_simd.cc:1355:8: note: in expansion of macro 'v_init' 1355 | T0 = v_init(-1, 0, 0, 0, 0, 0, 0, 0); | ^~~~~~ +g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o derep_smallmem.o derep_smallmem.cc +g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o dynlibs.o dynlibs.cc +g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o eestats.o eestats.cc +g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fasta2fastq.o fasta2fastq.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fasta.o fasta.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fastq.o fastq.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wpedantic -march=armv8-a+simd -mtune=generic -DNDEBUG -std=c++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/vsearch-2.29.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -std=c++11 -c -o fastq_chars.o fastq_chars.cc @@ -806,8 +842,8 @@ Making install in src make[2]: Entering directory '/build/reproducible-path/vsearch-2.29.0/src' make[3]: Entering directory '/build/reproducible-path/vsearch-2.29.0/src' - /usr/bin/mkdir -p '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/bin' make[3]: Nothing to be done for 'install-data-am'. + /usr/bin/mkdir -p '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/bin' /usr/bin/install -c ../bin/vsearch '/build/reproducible-path/vsearch-2.29.0/debian/tmp/usr/bin' make[3]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/src' make[2]: Leaving directory '/build/reproducible-path/vsearch-2.29.0/src' @@ -863,9 +899,9 @@ make[1]: Leaving directory '/build/reproducible-path/vsearch-2.29.0' dh_md5sums dh_builddeb -dpkg-deb: building package 'vsearch' in '../vsearch_2.29.0-1_arm64.deb'. -dpkg-deb: building package 'vsearch-dbgsym' in '../vsearch-dbgsym_2.29.0-1_arm64.deb'. dpkg-deb: building package 'vsearch-examples' in '../vsearch-examples_2.29.0-1_all.deb'. +dpkg-deb: building package 'vsearch-dbgsym' in '../vsearch-dbgsym_2.29.0-1_arm64.deb'. +dpkg-deb: building package 'vsearch' in '../vsearch_2.29.0-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../vsearch_2.29.0-1_arm64.buildinfo dpkg-genchanges --build=binary -O../vsearch_2.29.0-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -873,12 +909,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/3431261/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3431261/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/1315054 and its subdirectories -I: Current time: Sun Sep 29 20:46:44 -12 2024 -I: pbuilder-time-stamp: 1727686004 +I: removing directory /srv/workspace/pbuilder/3431261 and its subdirectories +I: Current time: Mon Nov 3 05:11:23 +14 2025 +I: pbuilder-time-stamp: 1762096283 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/arm64/vsearch_2.29.0-1.diff: 75.9% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/arm64/vsearch_2.29.0-1.diff.gz b2/build.log: 82.9% -- replaced with stdout Compressing the 1st log... b1/build.log: 83.5% -- replaced with stdout Mon Sep 30 08:48:28 UTC 2024 I: diffoscope 278 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_vsearch_trixie_arm64_1727686108 + touch /var/log/reproducible-builds/diffoscope_stamp_vsearch_trixie_arm64_1727686108 + RESULT=0 + systemd-run '--description=diffoscope on vsearch/2.29.0-1 in trixie/arm64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-arm64_18-60064 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC --run-session -c jenkins-reproducible-trixie-diffoscope-59e4e7de-1b76-4696-9c29-5211af946d7b -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/dbd-tmp-2IPke62 ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/vsearch_2.29.0-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/vsearch_2.29.0-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/vsearch_2.29.0-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/b1/vsearch_2.29.0-1_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/b2/vsearch_2.29.0-1_arm64.changes' + false + set +x Running as unit: rb-diffoscope-arm64_18-60064.service Warning: program compiled against libxml 212 using older 209 # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/vsearch_2.29.0-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/vsearch_2.29.0-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/vsearch_2.29.0-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/b1/vsearch_2.29.0-1_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.qGPt7MqC/b2/vsearch_2.29.0-1_arm64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.434s) 0.434s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.068s) 0.068s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 766ms CPU time consumed: 761ms _ __ _____ ___ __ _ _ __ ___| |__ \ \ / / __|/ _ \/ _` | '__/ __| '_ \ \ V /\__ \ __/ (_| | | | (__| | | | \_/ |___/\___|\__,_|_| \___|_| |_| Mon Sep 30 08:48:29 UTC 2024 I: diffoscope 278 found no differences in the changes files, and a .buildinfo file also exists. Mon Sep 30 08:48:29 UTC 2024 I: vsearch from trixie built successfully and reproducibly on arm64. INSERT 0 1 INSERT 0 1 DELETE 1 [2024-09-30 08:48:30] INFO: Starting at 2024-09-30 08:48:30.287262 [2024-09-30 08:48:30] INFO: Generating the pages of 1 package(s) [2024-09-30 08:48:30] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/armhf/vsearch_2.28.1-3.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/armhf/vsearch_2.28.1-3.diff.gz is missing [2024-09-30 08:48:30] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/i386/vsearch_2.29.0-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/i386/vsearch_2.29.0-1.diff.gz is missing [2024-09-30 08:48:30] CRITICAL: https://tests.reproducible-builds.org/debian/trixie/arm64/vsearch didn't produce a buildlog, even though it has been built. [2024-09-30 08:48:30] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/armhf/vsearch_2.28.1-3.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/armhf/vsearch_2.28.1-3.diff.gz is missing [2024-09-30 08:48:30] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/i386/vsearch_2.29.0-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/i386/vsearch_2.29.0-1.diff.gz is missing [2024-09-30 08:48:30] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bookworm/armhf/vsearch_2.22.1-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bookworm/armhf/vsearch_2.22.1-1.diff.gz is missing [2024-09-30 08:48:30] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bookworm/i386/vsearch_2.22.1-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bookworm/i386/vsearch_2.22.1-1.diff.gz is missing [2024-09-30 08:48:30] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/armhf/vsearch_2.15.2-3.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bullseye/armhf/vsearch_2.15.2-3.diff.gz is missing [2024-09-30 08:48:30] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/i386/vsearch_2.15.2-3.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bullseye/i386/vsearch_2.15.2-3.diff.gz is missing [2024-09-30 08:48:30] INFO: Finished at 2024-09-30 08:48:30.865928, took: 0:00:00.578671 Mon Sep 30 08:48:30 UTC 2024 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/trixie/arm64/vsearch.html Mon Sep 30 08:48:30 UTC 2024 I: Submitting .buildinfo files to external archives: Mon Sep 30 08:48:30 UTC 2024 I: Submitting 8.0K b1/vsearch_2.29.0-1_arm64.buildinfo.asc https://buildinfo.debian.net/a9374ab6bfe739a2430654a440717e27319f315a/vsearch_2.29.0-1_all Mon Sep 30 08:48:31 UTC 2024 I: Submitting 8.0K b2/vsearch_2.29.0-1_arm64.buildinfo.asc https://buildinfo.debian.net/46c153afe97115f6aef3dd812638445235e13e1e/vsearch_2.29.0-1_all Mon Sep 30 08:48:32 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Mon Sep 30 08:48:32 UTC 2024 I: Done submitting .buildinfo files. Mon Sep 30 08:48:32 UTC 2024 I: Removing signed vsearch_2.29.0-1_arm64.buildinfo.asc files: removed './b1/vsearch_2.29.0-1_arm64.buildinfo.asc' removed './b2/vsearch_2.29.0-1_arm64.buildinfo.asc' 1727686112 arm64 trixie vsearch Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/arm64/vsearch_2.29.0-1.rbuild.log: 80.7% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/arm64/vsearch_2.29.0-1.rbuild.log.gz [2024-09-30 08:48:32] INFO: Starting at 2024-09-30 08:48:32.812469 [2024-09-30 08:48:32] INFO: Generating the pages of 1 package(s) [2024-09-30 08:48:33] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/armhf/vsearch_2.28.1-3.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/armhf/vsearch_2.28.1-3.diff.gz is missing [2024-09-30 08:48:33] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/i386/vsearch_2.29.0-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/i386/vsearch_2.29.0-1.diff.gz is missing [2024-09-30 08:48:33] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/armhf/vsearch_2.28.1-3.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/armhf/vsearch_2.28.1-3.diff.gz is missing [2024-09-30 08:48:33] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/i386/vsearch_2.29.0-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/i386/vsearch_2.29.0-1.diff.gz is missing [2024-09-30 08:48:33] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bookworm/armhf/vsearch_2.22.1-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bookworm/armhf/vsearch_2.22.1-1.diff.gz is missing [2024-09-30 08:48:33] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bookworm/i386/vsearch_2.22.1-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bookworm/i386/vsearch_2.22.1-1.diff.gz is missing [2024-09-30 08:48:33] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/armhf/vsearch_2.15.2-3.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bullseye/armhf/vsearch_2.15.2-3.diff.gz is missing [2024-09-30 08:48:33] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/i386/vsearch_2.15.2-3.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bullseye/i386/vsearch_2.15.2-3.diff.gz is missing [2024-09-30 08:48:33] INFO: Finished at 2024-09-30 08:48:33.351337, took: 0:00:00.538873 All cleanup done. Mon Sep 30 08:48:33 UTC 2024 - total duration: 0h 3m 19s. Mon Sep 30 08:48:33 UTC 2024 - reproducible_build.sh stopped running as /tmp/jenkins-script-BoTOCYoR, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 3min 23.140s CPU time consumed: 8.422s