I: pbuilder: network access will be disabled during build I: Current time: Mon Jun 5 23:32:50 +14 2023 I: pbuilder-time-stamp: 1685957570 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-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_2.22.1-1.dsc] I: copying [./vsearch_2.22.1.orig.tar.gz] I: copying [./vsearch_2.22.1-1.debian.tar.xz] I: Extracting source gpgv: Signature made Tue Sep 27 09:12:36 2022 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./vsearch_2.22.1-1.dsc: no acceptable signature found dpkg-source: info: extracting vsearch in vsearch-2.22.1 dpkg-source: info: unpacking vsearch_2.22.1.orig.tar.gz dpkg-source: info: unpacking vsearch_2.22.1-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying sysconf_memory_sizing.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3239429/tmp/hooks/D01_modify_environment starting debug: Running on ionos1-amd64. 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 Jun 5 23:33 /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/3239429/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/3239429/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]="15" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='5.2.15(1)-release' BUILDDIR=/build BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=15 ' DIRSTACK=() DISTRIBUTION=bookworm EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=bb635af5426544daa192bef78ab79fd6 LANG=C LANGUAGE=et_EE:et LC_ALL=C MACHTYPE=x86_64-pc-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=3239429 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.pOOOXIjw/pbuilderrc_abrZ --distribution bookworm --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.pOOOXIjw/b2 --logfile b2/build.log --extrapackages usrmerge vsearch_2.22.1-1.dsc' SUDO_GID=110 SUDO_UID=105 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://78.137.99.97:3128 I: uname -a Linux i-capture-the-hostname 5.10.0-23-amd64 #1 SMP Debian 5.10.179-1 (2023-05-12) x86_64 GNU/Linux I: ls -l /bin total 5632 -rwxr-xr-x 1 root root 1265648 Apr 24 11:23 bash -rwxr-xr-x 3 root root 39224 Sep 19 2022 bunzip2 -rwxr-xr-x 3 root root 39224 Sep 19 2022 bzcat lrwxrwxrwx 1 root root 6 Sep 19 2022 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Sep 19 2022 bzdiff lrwxrwxrwx 1 root root 6 Sep 19 2022 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4893 Nov 28 2021 bzexe lrwxrwxrwx 1 root root 6 Sep 19 2022 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Sep 19 2022 bzgrep -rwxr-xr-x 3 root root 39224 Sep 19 2022 bzip2 -rwxr-xr-x 1 root root 14568 Sep 19 2022 bzip2recover lrwxrwxrwx 1 root root 6 Sep 19 2022 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Sep 19 2022 bzmore -rwxr-xr-x 1 root root 44016 Sep 21 2022 cat -rwxr-xr-x 1 root root 68656 Sep 21 2022 chgrp -rwxr-xr-x 1 root root 64496 Sep 21 2022 chmod -rwxr-xr-x 1 root root 72752 Sep 21 2022 chown -rwxr-xr-x 1 root root 151152 Sep 21 2022 cp -rwxr-xr-x 1 root root 125640 Jan 6 03:20 dash -rwxr-xr-x 1 root root 121904 Sep 21 2022 date -rwxr-xr-x 1 root root 89240 Sep 21 2022 dd -rwxr-xr-x 1 root root 102200 Sep 21 2022 df -rwxr-xr-x 1 root root 151344 Sep 21 2022 dir -rwxr-xr-x 1 root root 88656 Mar 24 00:02 dmesg lrwxrwxrwx 1 root root 8 Dec 20 03:33 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Dec 20 03:33 domainname -> hostname -rwxr-xr-x 1 root root 43856 Sep 21 2022 echo -rwxr-xr-x 1 root root 41 Jan 25 04:43 egrep -rwxr-xr-x 1 root root 35664 Sep 21 2022 false -rwxr-xr-x 1 root root 41 Jan 25 04:43 fgrep -rwxr-xr-x 1 root root 85600 Mar 24 00:02 findmnt -rwsr-xr-x 1 root root 35128 Mar 23 22:35 fusermount -rwxr-xr-x 1 root root 203152 Jan 25 04:43 grep -rwxr-xr-x 2 root root 2346 Apr 10 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 10 2022 gzexe -rwxr-xr-x 1 root root 98136 Apr 10 2022 gzip -rwxr-xr-x 1 root root 22680 Dec 20 03:33 hostname -rwxr-xr-x 1 root root 72824 Sep 21 2022 ln -rwxr-xr-x 1 root root 53024 Mar 24 02:40 login -rwxr-xr-x 1 root root 151344 Sep 21 2022 ls -rwxr-xr-x 1 root root 207168 Mar 24 00:02 lsblk -rwxr-xr-x 1 root root 97552 Sep 21 2022 mkdir -rwxr-xr-x 1 root root 72912 Sep 21 2022 mknod -rwxr-xr-x 1 root root 43952 Sep 21 2022 mktemp -rwxr-xr-x 1 root root 59712 Mar 24 00:02 more -rwsr-xr-x 1 root root 59704 Mar 24 00:02 mount -rwxr-xr-x 1 root root 18744 Mar 24 00:02 mountpoint -rwxr-xr-x 1 root root 142968 Sep 21 2022 mv lrwxrwxrwx 1 root root 8 Dec 20 03:33 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 3 20:25 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 43952 Sep 21 2022 pwd lrwxrwxrwx 1 root root 4 Apr 24 11:23 rbash -> bash -rwxr-xr-x 1 root root 52112 Sep 21 2022 readlink -rwxr-xr-x 1 root root 72752 Sep 21 2022 rm -rwxr-xr-x 1 root root 56240 Sep 21 2022 rmdir -rwxr-xr-x 1 root root 27560 Nov 3 2022 run-parts -rwxr-xr-x 1 root root 126424 Jan 6 09:55 sed lrwxrwxrwx 1 root root 9 Jun 5 23:33 sh -> /bin/bash -rwxr-xr-x 1 root root 43888 Sep 21 2022 sleep -rwxr-xr-x 1 root root 85008 Sep 21 2022 stty -rwsr-xr-x 1 root root 72000 Mar 24 00:02 su -rwxr-xr-x 1 root root 39824 Sep 21 2022 sync -rwxr-xr-x 1 root root 531984 Apr 7 04:25 tar -rwxr-xr-x 1 root root 14520 Nov 3 2022 tempfile -rwxr-xr-x 1 root root 109616 Sep 21 2022 touch -rwxr-xr-x 1 root root 35664 Sep 21 2022 true -rwxr-xr-x 1 root root 14568 Mar 23 22:35 ulockmgr_server -rwsr-xr-x 1 root root 35128 Mar 24 00:02 umount -rwxr-xr-x 1 root root 43888 Sep 21 2022 uname -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress -rwxr-xr-x 1 root root 151344 Sep 21 2022 vdir -rwxr-xr-x 1 root root 72024 Mar 24 00:02 wdctl lrwxrwxrwx 1 root root 8 Dec 20 03:33 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 10 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 10 2022 zcmp -rwxr-xr-x 1 root root 6460 Apr 10 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 10 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 10 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 10 2022 zforce -rwxr-xr-x 1 root root 8103 Apr 10 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew I: user script /srv/workspace/pbuilder/3239429/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: amd64 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), zlib1g-dev, libbz2-dev, markdown, 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 ... 19591 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 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 markdown; however: Package markdown 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: 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} libbsd0{a} libbz2-dev{a} libcups2{a} libdbus-1-3{a} libdebhelper-perl{a} libdeflate0{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfontenc1{a} libfreetype6{a} libgs-common{a} libgs10{a} libgs10-common{a} libice6{a} libicu72{a} libidn12{a} libijs-0.35{a} libjbig0{a} libjbig2dec0{a} libjpeg62-turbo{a} liblcms2-2{a} liblerc4{a} libmagic-mgc{a} libmagic1{a} libopenjp2-7{a} libpaper1{a} libpipeline1{a} libpng16-16{a} libsm6{a} libsub-override-perl{a} libtiff6{a} libtool{a} libuchardet0{a} libwebp7{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxml2{a} libxt6{a} m4{a} man-db{a} markdown{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 libarchive-cpio-perl libltdl-dev libmail-sendmail-perl libpaper-utils lynx wget 0 packages upgraded, 77 newly installed, 0 to remove and 0 not upgraded. Need to get 42.0 MB of archives. After unpacking 146 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main amd64 poppler-data all 0.4.12-1 [1601 kB] Get: 2 http://deb.debian.org/debian bookworm/main amd64 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 3 http://deb.debian.org/debian bookworm/main amd64 libmagic-mgc amd64 1:5.44-3 [305 kB] Get: 4 http://deb.debian.org/debian bookworm/main amd64 libmagic1 amd64 1:5.44-3 [104 kB] Get: 5 http://deb.debian.org/debian bookworm/main amd64 file amd64 1:5.44-3 [42.5 kB] Get: 6 http://deb.debian.org/debian bookworm/main amd64 gettext-base amd64 0.21-12 [160 kB] Get: 7 http://deb.debian.org/debian bookworm/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 8 http://deb.debian.org/debian bookworm/main amd64 groff-base amd64 1.22.4-10 [916 kB] Get: 9 http://deb.debian.org/debian bookworm/main amd64 bsdextrautils amd64 2.38.1-5+b1 [86.6 kB] Get: 10 http://deb.debian.org/debian bookworm/main amd64 libpipeline1 amd64 1.5.7-1 [38.5 kB] Get: 11 http://deb.debian.org/debian bookworm/main amd64 man-db amd64 2.11.2-2 [1386 kB] Get: 12 http://deb.debian.org/debian bookworm/main amd64 ucf all 3.0043+nmu1 [55.2 kB] Get: 13 http://deb.debian.org/debian bookworm/main amd64 m4 amd64 1.4.19-3 [287 kB] Get: 14 http://deb.debian.org/debian bookworm/main amd64 autoconf all 2.71-3 [332 kB] Get: 15 http://deb.debian.org/debian bookworm/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 16 http://deb.debian.org/debian bookworm/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 17 http://deb.debian.org/debian bookworm/main amd64 autopoint all 0.21-12 [495 kB] Get: 18 http://deb.debian.org/debian bookworm/main amd64 libdebhelper-perl all 13.11.4 [81.2 kB] Get: 19 http://deb.debian.org/debian bookworm/main amd64 libtool all 2.4.7-5 [517 kB] Get: 20 http://deb.debian.org/debian bookworm/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 21 http://deb.debian.org/debian bookworm/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 22 http://deb.debian.org/debian bookworm/main amd64 libsub-override-perl all 0.09-4 [9304 B] Get: 23 http://deb.debian.org/debian bookworm/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 24 http://deb.debian.org/debian bookworm/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 25 http://deb.debian.org/debian bookworm/main amd64 libelf1 amd64 0.188-2.1 [174 kB] Get: 26 http://deb.debian.org/debian bookworm/main amd64 dwz amd64 0.15-1 [109 kB] Get: 27 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get: 28 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.2 [687 kB] Get: 29 http://deb.debian.org/debian bookworm/main amd64 gettext amd64 0.21-12 [1300 kB] Get: 30 http://deb.debian.org/debian bookworm/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 31 http://deb.debian.org/debian bookworm/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 32 http://deb.debian.org/debian bookworm/main amd64 debhelper all 13.11.4 [942 kB] Get: 33 http://deb.debian.org/debian bookworm/main amd64 libfontenc1 amd64 1:1.1.4-1 [24.3 kB] Get: 34 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get: 35 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB] Get: 36 http://deb.debian.org/debian bookworm/main amd64 libfreetype6 amd64 2.12.1+dfsg-5 [399 kB] Get: 37 http://deb.debian.org/debian bookworm/main amd64 x11-common all 1:7.7+23 [252 kB] Get: 38 http://deb.debian.org/debian bookworm/main amd64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get: 39 http://deb.debian.org/debian bookworm/main amd64 xfonts-utils amd64 1:7.7+6 [93.0 kB] Get: 40 http://deb.debian.org/debian bookworm/main amd64 fonts-urw-base35 all 20200910-7 [10.8 MB] Get: 41 http://deb.debian.org/debian bookworm/main amd64 fontconfig-config amd64 2.14.1-4 [315 kB] Get: 42 http://deb.debian.org/debian bookworm/main amd64 libgs-common all 10.0.0~dfsg-11 [148 kB] Get: 43 http://deb.debian.org/debian bookworm/main amd64 libgs10-common all 10.0.0~dfsg-11 [586 kB] Get: 44 http://deb.debian.org/debian bookworm/main amd64 libavahi-common-data amd64 0.8-10 [107 kB] Get: 45 http://deb.debian.org/debian bookworm/main amd64 libavahi-common3 amd64 0.8-10 [41.6 kB] Get: 46 http://deb.debian.org/debian bookworm/main amd64 libdbus-1-3 amd64 1.14.6-1 [200 kB] Get: 47 http://deb.debian.org/debian bookworm/main amd64 libavahi-client3 amd64 0.8-10 [45.5 kB] Get: 48 http://deb.debian.org/debian bookworm/main amd64 libcups2 amd64 2.4.2-3 [244 kB] Get: 49 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get: 50 http://deb.debian.org/debian bookworm/main amd64 libfontconfig1 amd64 2.14.1-4 [386 kB] Get: 51 http://deb.debian.org/debian bookworm/main amd64 libidn12 amd64 1.41-1 [83.8 kB] Get: 52 http://deb.debian.org/debian bookworm/main amd64 libijs-0.35 amd64 0.35-15 [16.4 kB] Get: 53 http://deb.debian.org/debian bookworm/main amd64 libjbig2dec0 amd64 0.19-3 [67.2 kB] Get: 54 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.5-2 [166 kB] Get: 55 http://deb.debian.org/debian bookworm/main amd64 liblcms2-2 amd64 2.14-2 [154 kB] Get: 56 http://deb.debian.org/debian bookworm/main amd64 libopenjp2-7 amd64 2.5.0-2 [189 kB] Get: 57 http://deb.debian.org/debian bookworm/main amd64 libpaper1 amd64 1.1.29 [12.5 kB] Get: 58 http://deb.debian.org/debian bookworm/main amd64 libdeflate0 amd64 1.14-1 [61.4 kB] Get: 59 http://deb.debian.org/debian bookworm/main amd64 libjbig0 amd64 2.1-6.1 [31.7 kB] Get: 60 http://deb.debian.org/debian bookworm/main amd64 liblerc4 amd64 4.0.0+ds-2 [170 kB] Get: 61 http://deb.debian.org/debian bookworm/main amd64 libwebp7 amd64 1.2.4-0.2 [285 kB] Get: 62 http://deb.debian.org/debian bookworm/main amd64 libtiff6 amd64 4.5.0-6 [316 kB] Get: 63 http://deb.debian.org/debian bookworm/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get: 64 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.7-2 [117 kB] Get: 65 http://deb.debian.org/debian bookworm/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get: 66 http://deb.debian.org/debian bookworm/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get: 67 http://deb.debian.org/debian bookworm/main amd64 libx11-data all 2:1.8.4-2 [292 kB] Get: 68 http://deb.debian.org/debian bookworm/main amd64 libx11-6 amd64 2:1.8.4-2 [759 kB] Get: 69 http://deb.debian.org/debian bookworm/main amd64 libice6 amd64 2:1.0.10-1 [58.5 kB] Get: 70 http://deb.debian.org/debian bookworm/main amd64 libsm6 amd64 2:1.2.3-1 [35.1 kB] Get: 71 http://deb.debian.org/debian bookworm/main amd64 libxt6 amd64 1:1.2.1-1.1 [186 kB] Get: 72 http://deb.debian.org/debian bookworm/main amd64 libgs10 amd64 10.0.0~dfsg-11 [2465 kB] Get: 73 http://deb.debian.org/debian bookworm/main amd64 ghostscript amd64 10.0.0~dfsg-11 [56.6 kB] Get: 74 http://deb.debian.org/debian bookworm/main amd64 libbz2-dev amd64 1.0.8-5+b1 [30.9 kB] Get: 75 http://deb.debian.org/debian bookworm/main amd64 markdown all 1.0.1-12 [17.7 kB] Get: 76 http://deb.debian.org/debian bookworm/main amd64 time amd64 1.9-0.2 [50.8 kB] Get: 77 http://deb.debian.org/debian bookworm/main amd64 zlib1g-dev amd64 1:1.2.13.dfsg-1 [916 kB] Fetched 42.0 MB in 1s (29.5 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 ... 19591 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_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.44-3_amd64.deb ... 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Setting up libjbig0:amd64 (2.1-6.1) ... Setting up poppler-data (0.4.12-1) ... Setting up libfontenc1:amd64 (1:1.1.4-1) ... Setting up autotools-dev (20220109.1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-2) ... Setting up libx11-data (2:1.8.4-2) ... Setting up libjbig2dec0:amd64 (0.19-3) ... Setting up libavahi-common-data:amd64 (0.8-10) ... Setting up libdbus-1-3:amd64 (1.14.6-1) ... Setting up xfonts-encodings (1:1.0.4-2.2) ... Setting up libpng16-16:amd64 (1.6.39-2) ... Setting up libidn12:amd64 (1.41-1) ... Setting up autopoint (0.21-12) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:amd64 (1.2.4-0.2) ... Setting up zlib1g-dev:amd64 (1:1.2.13.dfsg-1) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up libtiff6:amd64 (4.5.0-6) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libopenjp2-7:amd64 (2.5.0-2) ... Setting up libsub-override-perl (0.09-4) ... Setting up libbsd0:amd64 (0.11.7-2) ... Setting up libelf1:amd64 (0.188-2.1) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.2) ... Setting up markdown (1.0.1-12) ... Setting up libbz2-dev:amd64 (1.0.8-5+b1) ... 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 (1.13.1-1) ... Setting up libice6:amd64 (2:1.0.10-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libxcb1:amd64 (1.15-1) ... Setting up gettext (0.21-12) ... Setting up libtool (2.4.7-5) ... Setting up libavahi-common3:amd64 (0.8-10) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libfreetype6:amd64 (2.12.1+dfsg-5) ... Setting up ucf (3.0043+nmu1) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.22.4-10) ... Setting up libx11-6:amd64 (2:1.8.4-2) ... Setting up libsm6:amd64 (2:1.2.3-1) ... Setting up libavahi-client3:amd64 (0.8-10) ... Setting up libpaper1:amd64 (1.1.29) ... Creating config file /etc/papersize with new version Setting up po-debconf (1.0.21+nmu1) ... Setting up xfonts-utils (1:7.7+6) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libxt6:amd64 (1:1.2.1-1.1) ... Setting up libcups2:amd64 (2.4.2-3) ... Setting up debhelper (13.11.4) ... Setting up fonts-urw-base35 (20200910-7) ... Setting up libgs10-common (10.0.0~dfsg-11) ... Setting up fontconfig-config (2.14.1-4) ... Setting up libfontconfig1:amd64 (2.14.1-4) ... Setting up libgs10:amd64 (10.0.0~dfsg-11) ... Setting up ghostscript (10.0.0~dfsg-11) ... Processing triggers for libc-bin (2.36-9) ... 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 Reading package lists... Building dependency tree... Reading state information... usrmerge is already the newest version (35). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: user script /srv/workspace/pbuilder/3239429/tmp/hooks/A99_set_merged_usr starting Re-configuring usrmerge... removed '/etc/unsupported-skip-usrmerge-conversion' The system has been successfully converted. I: user script /srv/workspace/pbuilder/3239429/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/vsearch-2.22.1/ && 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_2.22.1-1_source.changes dpkg-buildpackage: info: source package vsearch dpkg-buildpackage: info: source version 2.22.1-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean debian/rules override_dh_clean make[1]: Entering directory '/build/vsearch-2.22.1' dh_clean rm -rf data/simm if [ -d test ] ; then find test -mindepth 1 -not -name '*.sh' -delete ; fi rm -f README.html data/README.html rm -f *.out make[1]: Leaving directory '/build/vsearch-2.22.1' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf configure.ac:85: 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=x86_64-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/x86_64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu checking target system type... x86_64-pc-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 debian/rules override_dh_auto_build make[1]: Entering directory '/build/vsearch-2.22.1' dh_auto_build make -j15 make[2]: Entering directory '/build/vsearch-2.22.1' make all-recursive make[3]: Entering directory '/build/vsearch-2.22.1' Making all in src make[4]: Entering directory '/build/vsearch-2.22.1/src' g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o align.o align.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -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 -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o allpairs.o allpairs.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o arch.o arch.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o attributes.o attributes.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o bitmap.o bitmap.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o chimera.o chimera.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o cluster.o cluster.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o cut.o cut.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o db.o db.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o dbhash.o dbhash.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o dbindex.o dbindex.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o derep.o derep.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o derepsmallmem.o derepsmallmem.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o dynlibs.o dynlibs.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o eestats.o eestats.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o fa2fq.o fa2fq.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o fasta.o fasta.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o fastq.o fastq.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o fastqjoin.o fastqjoin.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o fastqops.o fastqops.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o fastx.o fastx.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o filter.o filter.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o getseq.o getseq.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o kmerhash.o kmerhash.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o linmemalign.o linmemalign.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o maps.o maps.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o mask.o mask.cc gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -c -o md5.o md5.c g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o mergepairs.o mergepairs.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o minheap.o minheap.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o msa.o msa.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o orient.o orient.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o otutable.o otutable.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o rerep.o rerep.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o results.o results.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o search.o search.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o searchcore.o searchcore.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o searchexact.o searchexact.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o sffconvert.o sffconvert.cc gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sha1.o sha1.c g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o showalign.o showalign.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o shuffle.o shuffle.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o sintax.o sintax.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o sortbylength.o sortbylength.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o sortbysize.o sortbysize.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o subsample.o subsample.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o tax.o tax.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o udb.o udb.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o unique.o unique.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o userfields.o userfields.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o util.o util.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o vsearch.o vsearch.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -Wno-sign-compare -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -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 -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -mssse3 -DSSSE3 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o libcpu_ssse3_a-cpu.o `test -f 'cpu.cc' || echo './'`cpu.cc g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -msse2 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -c -o libcpu_sse2_a-cpu.o `test -f 'cpu.cc' || echo './'`cpu.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_sse2.a ar cru libcpu_sse2.a libcpu_sse2_a-cpu.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libcpu_sse2.a rm -f libcpu_ssse3.a ar cru libcpu_ssse3.a libcpu_ssse3_a-cpu.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libcpu_ssse3.a g++ -Wall -Wsign-compare -march=x86-64 -mtune=generic -std=c++11 -g -O2 -ffile-prefix-map=/build/vsearch-2.22.1=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -Wl,-z,relro -Wl,-z,now -flto -o ../bin/vsearch align.o 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 derepsmallmem.o dynlibs.o eestats.o fa2fq.o fasta.o fastq.o fastqjoin.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 rerep.o results.o search.o searchcore.o searchexact.o sffconvert.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 vsearch.o libcityhash.a libcpu_ssse3.a libcpu_sse2.a -ldl -lpthread derep.cc:65:8: warning: type 'struct bucket' violates the C++ One Definition Rule [-Wodr] 65 | struct bucket | ^ derepsmallmem.cc:65:8: note: a different type is defined in another translation unit 65 | struct bucket | ^ derep.cc:67:12: note: the first difference of corresponding definitions is field 'hash' 67 | uint64_t hash; | ^ derepsmallmem.cc:67:11: note: a field of same name but different type is defined in another translation unit 67 | uint128 hash; | ^ derep.cc:65:8: note: type 'uint64_t' should match type 'struct uint128' 65 | struct bucket | ^ lto-wrapper: warning: using serial compilation of 5 LTRANS jobs lto-wrapper: note: see the '-flto' option documentation for more information make[4]: Leaving directory '/build/vsearch-2.22.1/src' Making all in man make[4]: Entering directory '/build/vsearch-2.22.1/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 make[4]: Leaving directory '/build/vsearch-2.22.1/man' make[4]: Entering directory '/build/vsearch-2.22.1' make[4]: Leaving directory '/build/vsearch-2.22.1' make[3]: Leaving directory '/build/vsearch-2.22.1' make[2]: Leaving directory '/build/vsearch-2.22.1' markdown README.md > README.html # Remove redundant travis-build URL sed -i 1d README.html make[1]: Leaving directory '/build/vsearch-2.22.1' debian/rules override_dh_auto_test make[1]: Entering directory '/build/vsearch-2.22.1' 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/vsearch-2.22.1' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install make -j15 install DESTDIR=/build/vsearch-2.22.1/debian/tmp AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/vsearch-2.22.1' Making install in src make[2]: Entering directory '/build/vsearch-2.22.1/src' make[3]: Entering directory '/build/vsearch-2.22.1/src' /usr/bin/mkdir -p '/build/vsearch-2.22.1/debian/tmp/usr/bin' make[3]: Nothing to be done for 'install-data-am'. /usr/bin/install -c ../bin/vsearch '/build/vsearch-2.22.1/debian/tmp/usr/bin' make[3]: Leaving directory '/build/vsearch-2.22.1/src' make[2]: Leaving directory '/build/vsearch-2.22.1/src' Making install in man make[2]: Entering directory '/build/vsearch-2.22.1/man' make[3]: Entering directory '/build/vsearch-2.22.1/man' make[3]: Nothing to be done for 'install-exec-am'. /usr/bin/mkdir -p '/build/vsearch-2.22.1/debian/tmp/usr/share/doc/vsearch' /usr/bin/mkdir -p '/build/vsearch-2.22.1/debian/tmp/usr/share/man/man1' /usr/bin/install -c -m 644 vsearch_manual.pdf '/build/vsearch-2.22.1/debian/tmp/usr/share/doc/vsearch' /usr/bin/install -c -m 644 vsearch.1 '/build/vsearch-2.22.1/debian/tmp/usr/share/man/man1' make[3]: Leaving directory '/build/vsearch-2.22.1/man' make[2]: Leaving directory '/build/vsearch-2.22.1/man' make[2]: Entering directory '/build/vsearch-2.22.1' make[3]: Entering directory '/build/vsearch-2.22.1' 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/vsearch-2.22.1' make[2]: Leaving directory '/build/vsearch-2.22.1' make[1]: Leaving directory '/build/vsearch-2.22.1' debian/rules override_dh_install make[1]: Entering directory '/build/vsearch-2.22.1' dh_install if [ -d test ] ; then \ # tweak path tp vsearch binary in test scripts \ mkdir -p /build/vsearch-2.22.1/debian/vsearch/usr/share/doc/vsearch/test ; \ for tst in test/*.sh ; do sed 's?\.\./bin/vsearch?/usr/bin/vsearch?' ${tst} > /build/vsearch-2.22.1/debian/vsearch/usr/share/doc/vsearch/${tst} ; done ; \ fi make[1]: Leaving directory '/build/vsearch-2.22.1' 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 dh_installdeb dh_gencontrol dpkg-gencontrol: warning: Depends field of package vsearch-examples: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums dh_builddeb dpkg-deb: building package 'vsearch-dbgsym' in '../vsearch-dbgsym_2.22.1-1_amd64.deb'. dpkg-deb: building package 'vsearch-examples' in '../vsearch-examples_2.22.1-1_amd64.deb'. dpkg-deb: building package 'vsearch' in '../vsearch_2.22.1-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../vsearch_2.22.1-1_amd64.buildinfo dpkg-genchanges --build=binary -O../vsearch_2.22.1-1_amd64.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/3239429/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/3239429/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/3239429 and its subdirectories I: Current time: Mon Jun 5 23:37:24 +14 2023 I: pbuilder-time-stamp: 1685957844