I: pbuilder: network access will be disabled during build I: Current time: Sun Jul 11 19:17:37 -12 2021 I: pbuilder-time-stamp: 1626074257 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration 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 [berkeley-express_1.5.3+dfsg-1.dsc] I: copying [./berkeley-express_1.5.3+dfsg.orig.tar.xz] I: copying [./berkeley-express_1.5.3+dfsg-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.BTcU5UPr/trustedkeys.kbx': General error gpgv: Signature made Sun Nov 17 04:19:59 2019 -12 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./berkeley-express_1.5.3+dfsg-1.dsc dpkg-source: info: extracting berkeley-express in berkeley-express-1.5.3+dfsg dpkg-source: info: unpacking berkeley-express_1.5.3+dfsg.orig.tar.xz dpkg-source: info: unpacking berkeley-express_1.5.3+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying spelling-fixes dpkg-source: info: applying fix-bamtools-path dpkg-source: info: applying drop-zlib dpkg-source: info: applying correct-debug-flags.patch dpkg-source: info: applying privacy-breach.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/13522/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=3' DISTRIBUTION='' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='ec30392406404974af2d5c9197d06d22' 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='13522' 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/tmp.AJDoVrcVgH/pbuilderrc_ZleN --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.AJDoVrcVgH/b1 --logfile b1/build.log berkeley-express_1.5.3+dfsg-1.dsc' SUDO_GID='113' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:8000/' I: uname -a Linux virt64c 5.10.0-7-arm64 #1 SMP Debian 5.10.40-1 (2021-05-28) aarch64 GNU/Linux I: ls -l /bin total 3580 -rwxr-xr-x 1 root root 816764 Jun 21 14:26 bash -rwxr-xr-x 3 root root 26052 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 26052 Jul 20 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep -rwxr-xr-x 3 root root 26052 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 9636 Jul 20 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore -rwxr-xr-x 1 root root 26668 Sep 22 2020 cat -rwxr-xr-x 1 root root 43104 Sep 22 2020 chgrp -rwxr-xr-x 1 root root 38984 Sep 22 2020 chmod -rwxr-xr-x 1 root root 43112 Sep 22 2020 chown -rwxr-xr-x 1 root root 92616 Sep 22 2020 cp -rwxr-xr-x 1 root root 75524 Dec 10 2020 dash -rwxr-xr-x 1 root root 75880 Sep 22 2020 date -rwxr-xr-x 1 root root 55436 Sep 22 2020 dd -rwxr-xr-x 1 root root 59912 Sep 22 2020 df -rwxr-xr-x 1 root root 96764 Sep 22 2020 dir -rwxr-xr-x 1 root root 55012 Feb 7 02:38 dmesg lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname -rwxr-xr-x 1 root root 22508 Sep 22 2020 echo -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep -rwxr-xr-x 1 root root 22496 Sep 22 2020 false -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep -rwxr-xr-x 1 root root 47492 Feb 7 02:38 findmnt -rwsr-xr-x 1 root root 26076 Feb 26 04:12 fusermount -rwxr-xr-x 1 root root 124508 Nov 9 2020 grep -rwxr-xr-x 2 root root 2346 Mar 2 11:30 gunzip -rwxr-xr-x 1 root root 6376 Mar 2 11:30 gzexe -rwxr-xr-x 1 root root 64212 Mar 2 11:30 gzip -rwxr-xr-x 1 root root 13784 Nov 6 2019 hostname -rwxr-xr-x 1 root root 43180 Sep 22 2020 ln -rwxr-xr-x 1 root root 35068 Feb 7 2020 login -rwxr-xr-x 1 root root 96764 Sep 22 2020 ls -rwxr-xr-x 1 root root 99940 Feb 7 02:38 lsblk -rwxr-xr-x 1 root root 51408 Sep 22 2020 mkdir -rwxr-xr-x 1 root root 43184 Sep 22 2020 mknod -rwxr-xr-x 1 root root 30780 Sep 22 2020 mktemp -rwxr-xr-x 1 root root 34408 Feb 7 02:38 more -rwsr-xr-x 1 root root 34400 Feb 7 02:38 mount -rwxr-xr-x 1 root root 9824 Feb 7 02:38 mountpoint -rwxr-xr-x 1 root root 88524 Sep 22 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 18 03:38 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 26652 Sep 22 2020 pwd lrwxrwxrwx 1 root root 4 Jun 21 14:26 rbash -> bash -rwxr-xr-x 1 root root 30740 Sep 22 2020 readlink -rwxr-xr-x 1 root root 43104 Sep 22 2020 rm -rwxr-xr-x 1 root root 30732 Sep 22 2020 rmdir -rwxr-xr-x 1 root root 14144 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 76012 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Jul 9 21:26 sh -> dash -rwxr-xr-x 1 root root 22532 Sep 22 2020 sleep -rwxr-xr-x 1 root root 55360 Sep 22 2020 stty -rwsr-xr-x 1 root root 46704 Feb 7 02:38 su -rwxr-xr-x 1 root root 22532 Sep 22 2020 sync -rwxr-xr-x 1 root root 340872 Feb 16 21:55 tar -rwxr-xr-x 1 root root 9808 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 67696 Sep 22 2020 touch -rwxr-xr-x 1 root root 22496 Sep 22 2020 true -rwxr-xr-x 1 root root 9636 Feb 26 04:12 ulockmgr_server -rwsr-xr-x 1 root root 22108 Feb 7 02:38 umount -rwxr-xr-x 1 root root 22520 Sep 22 2020 uname -rwxr-xr-x 2 root root 2346 Mar 2 11:30 uncompress -rwxr-xr-x 1 root root 96764 Sep 22 2020 vdir -rwxr-xr-x 1 root root 38512 Feb 7 02:38 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 2 11:30 zcat -rwxr-xr-x 1 root root 1678 Mar 2 11:30 zcmp -rwxr-xr-x 1 root root 5880 Mar 2 11:30 zdiff -rwxr-xr-x 1 root root 29 Mar 2 11:30 zegrep -rwxr-xr-x 1 root root 29 Mar 2 11:30 zfgrep -rwxr-xr-x 1 root root 2081 Mar 2 11:30 zforce -rwxr-xr-x 1 root root 7585 Mar 2 11:30 zgrep -rwxr-xr-x 1 root root 2206 Mar 2 11:30 zless -rwxr-xr-x 1 root root 1842 Mar 2 11:30 zmore -rwxr-xr-x 1 root root 4553 Mar 2 11:30 znew I: user script /srv/workspace/pbuilder/13522/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: armhf 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 (= 12), libboost-thread-dev, libboost-system-dev, libboost-filesystem-dev, libboost-program-options-dev, libboost-date-time-dev, libbamtools-dev, libboost-tools-dev, libgoogle-perftools-dev, cmake, libprotobuf-dev, protobuf-compiler dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19398 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 (= 12); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on libboost-thread-dev; however: Package libboost-thread-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-system-dev; however: Package libboost-system-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-filesystem-dev; however: Package libboost-filesystem-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-program-options-dev; however: Package libboost-program-options-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-date-time-dev; however: Package libboost-date-time-dev is not installed. pbuilder-satisfydepends-dummy depends on libbamtools-dev; however: Package libbamtools-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-tools-dev; however: Package libboost-tools-dev is not installed. pbuilder-satisfydepends-dummy depends on libgoogle-perftools-dev; however: Package libgoogle-perftools-dev is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on libprotobuf-dev; however: Package libprotobuf-dev is not installed. pbuilder-satisfydepends-dummy depends on protobuf-compiler; however: Package protobuf-compiler 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} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13{a} libbamtools-dev{a} libbamtools2.5.1{a} libboost-atomic1.74-dev{a} libboost-atomic1.74.0{a} libboost-chrono1.74-dev{a} libboost-chrono1.74.0{a} libboost-date-time-dev{a} libboost-date-time1.74-dev{a} libboost-date-time1.74.0{a} libboost-filesystem-dev{a} libboost-filesystem1.74-dev{a} libboost-filesystem1.74.0{a} libboost-program-options-dev{a} libboost-program-options1.74-dev{a} libboost-program-options1.74.0{a} libboost-serialization1.74-dev{a} libboost-serialization1.74.0{a} libboost-system-dev{a} libboost-system1.74-dev{a} libboost-system1.74.0{a} libboost-thread-dev{a} libboost-thread1.74-dev{a} libboost-thread1.74.0{a} libboost-tools-dev{a} libboost1.74-dev{a} libboost1.74-tools-dev{a} libbrotli1{a} libcurl4{a} libdebhelper-perl{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgoogle-perftools-dev{a} libgoogle-perftools4{a} libicu67{a} libjsoncpp24{a} libldap-2.4-2{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libprocps8{a} libprotobuf-dev{a} libprotobuf-lite23{a} libprotobuf23{a} libprotoc23{a} libpsl5{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libssh2-1{a} libsub-override-perl{a} libtcmalloc-minimal4{a} libtool{a} libuchardet0{a} libuv1{a} libxml2{a} m4{a} man-db{a} po-debconf{a} procps{a} protobuf-compiler{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx psmisc publicsuffix wget 0 packages upgraded, 85 newly installed, 0 to remove and 0 not upgraded. Need to get 45.2 MB of archives. After unpacking 297 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main armhf bsdextrautils armhf 2.36.1-7 [138 kB] Get: 2 http://deb.debian.org/debian bullseye/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB] Get: 3 http://deb.debian.org/debian bullseye/main armhf groff-base armhf 1.22.4-6 [847 kB] Get: 4 http://deb.debian.org/debian bullseye/main armhf libpipeline1 armhf 1.5.3-1 [30.1 kB] Get: 5 http://deb.debian.org/debian bullseye/main armhf man-db armhf 2.9.4-2 [1319 kB] Get: 6 http://deb.debian.org/debian bullseye/main armhf libncurses6 armhf 6.2+20201114-2 [80.5 kB] Get: 7 http://deb.debian.org/debian bullseye/main armhf libprocps8 armhf 2:3.3.17-5 [60.7 kB] Get: 8 http://deb.debian.org/debian bullseye/main armhf procps armhf 2:3.3.17-5 [492 kB] Get: 9 http://deb.debian.org/debian bullseye/main armhf sensible-utils all 0.0.14 [14.8 kB] Get: 10 http://deb.debian.org/debian bullseye/main armhf libmagic-mgc armhf 1:5.39-3 [273 kB] Get: 11 http://deb.debian.org/debian bullseye/main armhf libmagic1 armhf 1:5.39-3 [117 kB] Get: 12 http://deb.debian.org/debian bullseye/main armhf file armhf 1:5.39-3 [68.1 kB] Get: 13 http://deb.debian.org/debian bullseye/main armhf gettext-base armhf 0.21-4 [171 kB] Get: 14 http://deb.debian.org/debian bullseye/main armhf libsigsegv2 armhf 2.13-1 [34.0 kB] Get: 15 http://deb.debian.org/debian bullseye/main armhf m4 armhf 1.4.18-5 [192 kB] Get: 16 http://deb.debian.org/debian bullseye/main armhf autoconf all 2.69-14 [313 kB] Get: 17 http://deb.debian.org/debian bullseye/main armhf autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 18 http://deb.debian.org/debian bullseye/main armhf automake all 1:1.16.3-2 [814 kB] Get: 19 http://deb.debian.org/debian bullseye/main armhf autopoint all 0.21-4 [510 kB] Get: 20 http://deb.debian.org/debian bullseye/main armhf cmake-data all 3.18.4-2 [1725 kB] Get: 21 http://deb.debian.org/debian bullseye/main armhf libicu67 armhf 67.1-7 [8319 kB] Get: 22 http://deb.debian.org/debian bullseye/main armhf libxml2 armhf 2.9.10+dfsg-6.7 [602 kB] Get: 23 http://deb.debian.org/debian bullseye/main armhf libarchive13 armhf 3.4.3-2+b1 [304 kB] Get: 24 http://deb.debian.org/debian bullseye/main armhf libbrotli1 armhf 1.0.9-2+b2 [262 kB] Get: 25 http://deb.debian.org/debian bullseye/main armhf libsasl2-modules-db armhf 2.1.27+dfsg-2.1 [67.6 kB] Get: 26 http://deb.debian.org/debian bullseye/main armhf libsasl2-2 armhf 2.1.27+dfsg-2.1 [99.1 kB] Get: 27 http://deb.debian.org/debian bullseye/main armhf libldap-2.4-2 armhf 2.4.57+dfsg-3 [210 kB] Get: 28 http://deb.debian.org/debian bullseye/main armhf libnghttp2-14 armhf 1.43.0-1 [65.6 kB] Get: 29 http://deb.debian.org/debian bullseye/main armhf libpsl5 armhf 0.21.0-1.2 [56.1 kB] Get: 30 http://deb.debian.org/debian bullseye/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [55.2 kB] Get: 31 http://deb.debian.org/debian bullseye/main armhf libssh2-1 armhf 1.9.0-2 [143 kB] Get: 32 http://deb.debian.org/debian bullseye/main armhf libcurl4 armhf 7.74.0-1.3+b1 [310 kB] Get: 33 http://deb.debian.org/debian bullseye/main armhf libexpat1 armhf 2.2.10-2 [76.3 kB] Get: 34 http://deb.debian.org/debian bullseye/main armhf libjsoncpp24 armhf 1.9.4-4 [68.5 kB] Get: 35 http://deb.debian.org/debian bullseye/main armhf librhash0 armhf 1.4.1-2 [144 kB] Get: 36 http://deb.debian.org/debian bullseye/main armhf libuv1 armhf 1.40.0-2 [120 kB] Get: 37 http://deb.debian.org/debian bullseye/main armhf cmake armhf 3.18.4-2 [3534 kB] Get: 38 http://deb.debian.org/debian bullseye/main armhf libdebhelper-perl all 13.3.4 [189 kB] Get: 39 http://deb.debian.org/debian bullseye/main armhf libtool all 2.4.6-15 [513 kB] Get: 40 http://deb.debian.org/debian bullseye/main armhf dh-autoreconf all 20 [17.1 kB] Get: 41 http://deb.debian.org/debian bullseye/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 42 http://deb.debian.org/debian bullseye/main armhf libsub-override-perl all 0.09-2 [10.2 kB] Get: 43 http://deb.debian.org/debian bullseye/main armhf libfile-stripnondeterminism-perl all 1.11.0-1 [25.6 kB] Get: 44 http://deb.debian.org/debian bullseye/main armhf dh-strip-nondeterminism all 1.11.0-1 [15.3 kB] Get: 45 http://deb.debian.org/debian bullseye/main armhf libelf1 armhf 0.183-1 [161 kB] Get: 46 http://deb.debian.org/debian bullseye/main armhf dwz armhf 0.13+20210201-1 [179 kB] Get: 47 http://deb.debian.org/debian bullseye/main armhf gettext armhf 0.21-4 [1243 kB] Get: 48 http://deb.debian.org/debian bullseye/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 49 http://deb.debian.org/debian bullseye/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 50 http://deb.debian.org/debian bullseye/main armhf debhelper all 13.3.4 [1049 kB] Get: 51 http://deb.debian.org/debian bullseye/main armhf libbamtools2.5.1 armhf 2.5.1+dfsg-9 [141 kB] Get: 52 http://deb.debian.org/debian bullseye/main armhf libbamtools-dev armhf 2.5.1+dfsg-9 [195 kB] Get: 53 http://deb.debian.org/debian bullseye/main armhf libboost1.74-dev armhf 1.74.0-9 [9534 kB] Get: 54 http://deb.debian.org/debian bullseye/main armhf libboost-atomic1.74.0 armhf 1.74.0-9 [244 kB] Get: 55 http://deb.debian.org/debian bullseye/main armhf libboost-atomic1.74-dev armhf 1.74.0-9 [245 kB] Get: 56 http://deb.debian.org/debian bullseye/main armhf libboost-chrono1.74.0 armhf 1.74.0-9 [248 kB] Get: 57 http://deb.debian.org/debian bullseye/main armhf libboost-chrono1.74-dev armhf 1.74.0-9 [255 kB] Get: 58 http://deb.debian.org/debian bullseye/main armhf libboost-date-time1.74.0 armhf 1.74.0-9 [241 kB] Get: 59 http://deb.debian.org/debian bullseye/main armhf libboost-serialization1.74.0 armhf 1.74.0-9 [321 kB] Get: 60 http://deb.debian.org/debian bullseye/main armhf libboost-serialization1.74-dev armhf 1.74.0-9 [394 kB] Get: 61 http://deb.debian.org/debian bullseye/main armhf libboost-date-time1.74-dev armhf 1.74.0-9 [250 kB] Get: 62 http://deb.debian.org/debian bullseye/main armhf libboost-date-time-dev armhf 1.74.0.3 [4332 B] Get: 63 http://deb.debian.org/debian bullseye/main armhf libboost-filesystem1.74.0 armhf 1.74.0-9 [275 kB] Get: 64 http://deb.debian.org/debian bullseye/main armhf libboost-system1.74.0 armhf 1.74.0-9 [242 kB] Get: 65 http://deb.debian.org/debian bullseye/main armhf libboost-system1.74-dev armhf 1.74.0-9 [243 kB] Get: 66 http://deb.debian.org/debian bullseye/main armhf libboost-filesystem1.74-dev armhf 1.74.0-9 [289 kB] Get: 67 http://deb.debian.org/debian bullseye/main armhf libboost-filesystem-dev armhf 1.74.0.3 [4368 B] Get: 68 http://deb.debian.org/debian bullseye/main armhf libboost-program-options1.74.0 armhf 1.74.0-9 [339 kB] Get: 69 http://deb.debian.org/debian bullseye/main armhf libboost-program-options1.74-dev armhf 1.74.0-9 [384 kB] Get: 70 http://deb.debian.org/debian bullseye/main armhf libboost-program-options-dev armhf 1.74.0.3 [4340 B] Get: 71 http://deb.debian.org/debian bullseye/main armhf libboost-system-dev armhf 1.74.0.3 [4468 B] Get: 72 http://deb.debian.org/debian bullseye/main armhf libboost-thread1.74.0 armhf 1.74.0-9 [271 kB] Get: 73 http://deb.debian.org/debian bullseye/main armhf libboost-thread1.74-dev armhf 1.74.0-9 [286 kB] Get: 74 http://deb.debian.org/debian bullseye/main armhf libboost-thread-dev armhf 1.74.0.3 [4356 B] Get: 75 http://deb.debian.org/debian bullseye/main armhf libboost1.74-tools-dev armhf 1.74.0-9 [1322 kB] Get: 76 http://deb.debian.org/debian bullseye/main armhf libboost-tools-dev armhf 1.74.0.3 [4508 B] Get: 77 http://deb.debian.org/debian bullseye/main armhf libtcmalloc-minimal4 armhf 2.8.1-1 [82.7 kB] Get: 78 http://deb.debian.org/debian bullseye/main armhf libgoogle-perftools4 armhf 2.8.1-1 [169 kB] Get: 79 http://deb.debian.org/debian bullseye/main armhf libgoogle-perftools-dev armhf 2.8.1-1 [447 kB] Get: 80 http://deb.debian.org/debian bullseye/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [185 kB] Get: 81 http://deb.debian.org/debian bullseye/main armhf libprotobuf23 armhf 3.12.4-1 [777 kB] Get: 82 http://deb.debian.org/debian bullseye/main armhf libprotobuf-lite23 armhf 3.12.4-1 [217 kB] Get: 83 http://deb.debian.org/debian bullseye/main armhf libprotobuf-dev armhf 3.12.4-1 [1192 kB] Get: 84 http://deb.debian.org/debian bullseye/main armhf libprotoc23 armhf 3.12.4-1 [704 kB] Get: 85 http://deb.debian.org/debian bullseye/main armhf protobuf-compiler armhf 3.12.4-1 [74.7 kB] Fetched 45.2 MB in 4s (10.9 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (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 ... 19398 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-7_armhf.deb ... Unpacking bsdextrautils (2.36.1-7) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../01-libuchardet0_0.0.7-1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_armhf.deb ... 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Setting up libboost-tools-dev (1.74.0.3) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libprotobuf-dev:armhf (3.12.4-1) ... Setting up libbamtools-dev:armhf (2.5.1+dfsg-9) ... Setting up autoconf (2.69-14) ... Setting up libboost-serialization1.74-dev:armhf (1.74.0-9) ... Setting up dh-strip-nondeterminism (1.11.0-1) ... Setting up dwz (0.13+20210201-1) ... Setting up groff-base (1.22.4-6) ... Setting up procps (2:3.3.17-5) ... Setting up libcurl4:armhf (7.74.0-1.3+b1) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up dh-autoreconf (20) ... Setting up libboost-date-time1.74-dev:armhf (1.74.0-9) ... Setting up libboost-date-time-dev:armhf (1.74.0.3) ... Setting up cmake (3.18.4-2) ... Setting up libboost-thread1.74-dev:armhf (1.74.0-9) ... Setting up libboost-thread-dev:armhf (1.74.0.3) ... Setting up debhelper (13.3.4) ... Processing triggers for libc-bin (2.31-12) ... 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... fakeroot is already the newest version (1.25.3-1.1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/berkeley-express-1.5.3+dfsg/ && 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 > ../berkeley-express_1.5.3+dfsg-1_source.changes dpkg-buildpackage: info: source package berkeley-express dpkg-buildpackage: info: source version 1.5.3+dfsg-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 armhf fakeroot debian/rules clean dh clean debian/rules override_dh_clean make[1]: Entering directory '/build/berkeley-express-1.5.3+dfsg' dh_clean src/config.h make[1]: Leaving directory '/build/berkeley-express-1.5.3+dfsg' debian/rules build dh build dh_update_autotools_config dh_autoreconf dh_auto_configure cd obj-arm-linux-gnueabihf && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/arm-linux-gnueabihf .. -- The C compiler identification is GNU 10.2.1 -- The CXX compiler identification is GNU 10.2.1 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found Boost: /usr/lib/arm-linux-gnueabihf/cmake/Boost-1.74.0/BoostConfig.cmake (found suitable version "1.74.0", minimum required is "1.39") found components: thread system filesystem program_options date_time -- Found GPERFTOOLS_TCMALLOC: /usr/lib/arm-linux-gnueabihf/libtcmalloc.so -- Found Protobuf: /usr/lib/arm-linux-gnueabihf/libprotobuf.so;-lpthread (found version "3.12.4") -- Do not try to find libbamtools.a -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- Build files have been written to: /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf dh_auto_build cd obj-arm-linux-gnueabihf && make -j3 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/berkeley-express-1.5.3+dfsg -B/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/CMakeFiles /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf' make -f src/CMakeFiles/express.dir/build.make src/CMakeFiles/express.dir/depend make[3]: Entering directory '/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf' [ 5%] Running cpp protocol buffer compiler on /build/berkeley-express-1.5.3+dfsg/src/targets.proto cd /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/protoc --cpp_out /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src -I /build/berkeley-express-1.5.3+dfsg/src /build/berkeley-express-1.5.3+dfsg/src/targets.proto [ 11%] Running cpp protocol buffer compiler on /build/berkeley-express-1.5.3+dfsg/src/alignments.proto cd /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/protoc --cpp_out /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src -I /build/berkeley-express-1.5.3+dfsg/src /build/berkeley-express-1.5.3+dfsg/src/alignments.proto [libprotobuf WARNING google/protobuf/compiler/parser.cc:648] No syntax specified for the proto file: alignments.proto. Please use 'syntax = "proto2";' or 'syntax = "proto3";' to specify a syntax version. (Defaulted to proto2 syntax.) [libprotobuf WARNING google/protobuf/compiler/parser.cc:648] No syntax specified for the proto file: targets.proto. Please use 'syntax = "proto2";' or 'syntax = "proto3";' to specify a syntax version. (Defaulted to proto2 syntax.) cd /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/berkeley-express-1.5.3+dfsg /build/berkeley-express-1.5.3+dfsg/src /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src/CMakeFiles/express.dir/DependInfo.cmake --color= Dependee "/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src/CMakeFiles/express.dir/DependInfo.cmake" is newer than depender "/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src/CMakeFiles/express.dir/depend.internal". Dependee "/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src/CMakeFiles/express.dir/depend.internal". Scanning dependencies of target express make[3]: Leaving directory '/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf' make -f src/CMakeFiles/express.dir/build.make src/CMakeFiles/express.dir/build make[3]: Entering directory '/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf' [ 16%] Building CXX object src/CMakeFiles/express.dir/biascorrection.cpp.o cd /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/build/berkeley-express-1.5.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/biascorrection.cpp.o -c /build/berkeley-express-1.5.3+dfsg/src/biascorrection.cpp [ 22%] Building CXX object src/CMakeFiles/express.dir/bundles.cpp.o cd /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/build/berkeley-express-1.5.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/bundles.cpp.o -c /build/berkeley-express-1.5.3+dfsg/src/bundles.cpp [ 27%] Building CXX object src/CMakeFiles/express.dir/directiondetector.cpp.o cd /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/build/berkeley-express-1.5.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/directiondetector.cpp.o -c /build/berkeley-express-1.5.3+dfsg/src/directiondetector.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 33%] Building CXX object src/CMakeFiles/express.dir/fragments.cpp.o cd /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/build/berkeley-express-1.5.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/fragments.cpp.o -c /build/berkeley-express-1.5.3+dfsg/src/fragments.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 38%] Building CXX object src/CMakeFiles/express.dir/lengthdistribution.cpp.o cd /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/build/berkeley-express-1.5.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/lengthdistribution.cpp.o -c /build/berkeley-express-1.5.3+dfsg/src/lengthdistribution.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 44%] Building CXX object src/CMakeFiles/express.dir/main.cpp.o cd /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/build/berkeley-express-1.5.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/main.cpp.o -c /build/berkeley-express-1.5.3+dfsg/src/main.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 50%] Building CXX object src/CMakeFiles/express.dir/mapparser.cpp.o cd /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 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[with _Args = {double}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/vector.tcc: In constructor 'LengthDistribution::LengthDistribution(std::string, std::string)': /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 55%] Building CXX object src/CMakeFiles/express.dir/markovmodel.cpp.o cd /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/build/berkeley-express-1.5.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/markovmodel.cpp.o -c /build/berkeley-express-1.5.3+dfsg/src/markovmodel.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 61%] Building CXX object src/CMakeFiles/express.dir/mismatchmodel.cpp.o cd /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/build/berkeley-express-1.5.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/mismatchmodel.cpp.o -c /build/berkeley-express-1.5.3+dfsg/src/mismatchmodel.cpp : warning: 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-std=gnu++11 -o CMakeFiles/express.dir/targets.cpp.o -c /build/berkeley-express-1.5.3+dfsg/src/targets.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 83%] Building CXX object src/CMakeFiles/express.dir/threadsafety.cpp.o cd /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/build/berkeley-express-1.5.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/threadsafety.cpp.o -c /build/berkeley-express-1.5.3+dfsg/src/threadsafety.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 88%] Building CXX object src/CMakeFiles/express.dir/alignments.pb.cc.o cd /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/build/berkeley-express-1.5.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/alignments.pb.cc.o -c /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src/alignments.pb.cc : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 94%] Building CXX object src/CMakeFiles/express.dir/targets.pb.cc.o cd /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/build/berkeley-express-1.5.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/targets.pb.cc.o -c /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src/targets.pb.cc : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [100%] Linking CXX executable express cd /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/express.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/berkeley-express-1.5.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/express.dir/biascorrection.cpp.o CMakeFiles/express.dir/bundles.cpp.o CMakeFiles/express.dir/directiondetector.cpp.o CMakeFiles/express.dir/fragments.cpp.o CMakeFiles/express.dir/lengthdistribution.cpp.o CMakeFiles/express.dir/main.cpp.o CMakeFiles/express.dir/mapparser.cpp.o CMakeFiles/express.dir/markovmodel.cpp.o CMakeFiles/express.dir/mismatchmodel.cpp.o CMakeFiles/express.dir/robertsfilter.cpp.o CMakeFiles/express.dir/sequence.cpp.o CMakeFiles/express.dir/targets.cpp.o CMakeFiles/express.dir/threadsafety.cpp.o CMakeFiles/express.dir/alignments.pb.cc.o CMakeFiles/express.dir/targets.pb.cc.o -o express /usr/lib/arm-linux-gnueabihf/libboost_thread.so.1.74.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.74.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.74.0 /usr/lib/arm-linux-gnueabihf/libboost_program_options.so.1.74.0 /usr/lib/arm-linux-gnueabihf/libboost_date_time.so.1.74.0 -lbamtools -lprotobuf -lpthread -lrt /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.74.0 -lpthread make[3]: Leaving directory '/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf' [100%] Built target express make[2]: Leaving directory '/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/CMakeFiles 0 make[1]: Leaving directory '/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf' dh_auto_test create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary dh_testroot dh_prep dh_installdirs dh_auto_install cd obj-arm-linux-gnueabihf && make -j3 install DESTDIR=/build/berkeley-express-1.5.3\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/berkeley-express-1.5.3+dfsg -B/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/CMakeFiles /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf' make -f src/CMakeFiles/express.dir/build.make src/CMakeFiles/express.dir/depend make[3]: Entering directory '/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf' cd /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/berkeley-express-1.5.3+dfsg /build/berkeley-express-1.5.3+dfsg/src /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/src/CMakeFiles/express.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf' make -f src/CMakeFiles/express.dir/build.make src/CMakeFiles/express.dir/build make[3]: Entering directory '/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf' make[3]: Nothing to be done for 'src/CMakeFiles/express.dir/build'. make[3]: Leaving directory '/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf' [100%] Built target express make[2]: Leaving directory '/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/berkeley-express-1.5.3+dfsg/debian/tmp/usr/bin/express make[1]: Leaving directory '/build/berkeley-express-1.5.3+dfsg/obj-arm-linux-gnueabihf' dh_install dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl dh_link dh_strip_nondeterminism debian/rules override_dh_compress make[1]: Entering directory '/build/berkeley-express-1.5.3+dfsg' dh_compress --exclude=express-doc.pdf make[1]: Leaving directory '/build/berkeley-express-1.5.3+dfsg' dh_fixperms dh_missing dh_dwz dh_strip dh_makeshlibs dh_shlibdeps dpkg-shlibdeps: warning: debian/berkeley-express/usr/lib/debian-med/bin/express contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'berkeley-express' in '../berkeley-express_1.5.3+dfsg-1_armhf.deb'. dpkg-deb: building package 'berkeley-express-dbgsym' in '../berkeley-express-dbgsym_1.5.3+dfsg-1_armhf.deb'. dpkg-deb: building package 'berkeley-express-doc' in '../berkeley-express-doc_1.5.3+dfsg-1_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../berkeley-express_1.5.3+dfsg-1_armhf.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/13522 and its subdirectories I: Current time: Sun Jul 11 19:24:06 -12 2021 I: pbuilder-time-stamp: 1626074646