I: pbuilder: network access will be disabled during build I: Current time: Thu Feb 2 17:47:43 +14 2023 I: pbuilder-time-stamp: 1675309663 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 [ngmlr_0.2.7+dfsg-4.dsc] I: copying [./ngmlr_0.2.7+dfsg.orig.tar.gz] I: copying [./ngmlr_0.2.7+dfsg-4.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.yGpBuw5v/trustedkeys.kbx': General error gpgv: Signature made Mon Dec 7 03:12:41 2020 +14 gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1 gpgv: issuer "npatra974@gmail.com" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./ngmlr_0.2.7+dfsg-4.dsc dpkg-source: info: extracting ngmlr in ngmlr-0.2.7+dfsg dpkg-source: info: unpacking ngmlr_0.2.7+dfsg.orig.tar.gz dpkg-source: info: unpacking ngmlr_0.2.7+dfsg-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use-system-libs.patch dpkg-source: info: applying spellings.patch dpkg-source: info: applying simde.patch dpkg-source: info: applying fix-type-incompatibilities.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/870001/tmp/hooks/D01_modify_environment starting debug: Running on ionos15-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 Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by 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/870001/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/870001/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="1" [2]="4" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='5.1.4(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,-fixfilepath parallel=16' DIRSTACK=() DISTRIBUTION= EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=0a951cefe9b34c26b34fde4382ebc2af 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=870001 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/tmp.S9TRVnRLT8/pbuilderrc_Et5e --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.S9TRVnRLT8/b2 --logfile b2/build.log ngmlr_0.2.7+dfsg-4.dsc' SUDO_GID=111 SUDO_UID=106 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://85.184.249.68:3128 I: uname -a Linux i-capture-the-hostname 5.14.0-0.bpo.2-amd64 #1 SMP Debian 5.14.9-2~bpo11+1 (2021-10-10) x86_64 GNU/Linux I: ls -l /bin total 5476 -rwxr-xr-x 1 root root 1234376 Aug 5 2021 bash -rwxr-xr-x 3 root root 38984 Jul 21 2020 bunzip2 -rwxr-xr-x 3 root root 38984 Jul 21 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 21 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 21 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 21 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 5 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 21 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 21 2020 bzgrep -rwxr-xr-x 3 root root 38984 Jul 21 2020 bzip2 -rwxr-xr-x 1 root root 18424 Jul 21 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 21 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 21 2020 bzmore -rwxr-xr-x 1 root root 43936 Sep 24 2020 cat -rwxr-xr-x 1 root root 72672 Sep 24 2020 chgrp -rwxr-xr-x 1 root root 64448 Sep 24 2020 chmod -rwxr-xr-x 1 root root 72672 Sep 24 2020 chown -rwxr-xr-x 1 root root 151168 Sep 24 2020 cp -rwxr-xr-x 1 root root 125560 Dec 11 2020 dash -rwxr-xr-x 1 root root 113664 Sep 24 2020 date -rwxr-xr-x 1 root root 80968 Sep 24 2020 dd -rwxr-xr-x 1 root root 93936 Sep 24 2020 df -rwxr-xr-x 1 root root 147176 Sep 24 2020 dir -rwxr-xr-x 1 root root 84440 Jul 29 2021 dmesg lrwxrwxrwx 1 root root 8 Nov 8 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 8 2019 domainname -> hostname -rwxr-xr-x 1 root root 39712 Sep 24 2020 echo -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep -rwxr-xr-x 1 root root 39680 Sep 24 2020 false -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep -rwxr-xr-x 1 root root 69032 Jul 29 2021 findmnt -rwsr-xr-x 1 root root 34896 Feb 27 2021 fusermount -rwxr-xr-x 1 root root 203072 Nov 10 2020 grep -rwxr-xr-x 2 root root 2346 Mar 3 2021 gunzip -rwxr-xr-x 1 root root 6376 Mar 3 2021 gzexe -rwxr-xr-x 1 root root 98048 Mar 3 2021 gzip -rwxr-xr-x 1 root root 22600 Nov 8 2019 hostname -rwxr-xr-x 1 root root 72840 Sep 24 2020 ln -rwxr-xr-x 1 root root 56952 Feb 8 2020 login -rwxr-xr-x 1 root root 147176 Sep 24 2020 ls -rwxr-xr-x 1 root root 149736 Jul 29 2021 lsblk -rwxr-xr-x 1 root root 85184 Sep 24 2020 mkdir -rwxr-xr-x 1 root root 76896 Sep 24 2020 mknod -rwxr-xr-x 1 root root 48064 Sep 24 2020 mktemp -rwxr-xr-x 1 root root 59632 Jul 29 2021 more -rwsr-xr-x 1 root root 55528 Jul 29 2021 mount -rwxr-xr-x 1 root root 18664 Jul 29 2021 mountpoint -rwxr-xr-x 1 root root 147080 Sep 24 2020 mv lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 19 2021 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 43872 Sep 24 2020 pwd lrwxrwxrwx 1 root root 4 Aug 5 2021 rbash -> bash -rwxr-xr-x 1 root root 52032 Sep 24 2020 readlink -rwxr-xr-x 1 root root 72704 Sep 24 2020 rm -rwxr-xr-x 1 root root 52032 Sep 24 2020 rmdir -rwxr-xr-x 1 root root 27472 Sep 28 2020 run-parts -rwxr-xr-x 1 root root 122224 Dec 23 2018 sed lrwxrwxrwx 1 root root 4 Feb 2 17:47 sh -> bash lrwxrwxrwx 1 root root 4 Jan 24 05:47 sh.distrib -> dash -rwxr-xr-x 1 root root 43808 Sep 24 2020 sleep -rwxr-xr-x 1 root root 84928 Sep 24 2020 stty -rwsr-xr-x 1 root root 71912 Jul 29 2021 su -rwxr-xr-x 1 root root 39744 Sep 24 2020 sync -rwxr-xr-x 1 root root 531928 Feb 17 2021 tar -rwxr-xr-x 1 root root 14456 Sep 28 2020 tempfile -rwxr-xr-x 1 root root 101408 Sep 24 2020 touch -rwxr-xr-x 1 root root 39680 Sep 24 2020 true -rwxr-xr-x 1 root root 14328 Feb 27 2021 ulockmgr_server -rwsr-xr-x 1 root root 35040 Jul 29 2021 umount -rwxr-xr-x 1 root root 39744 Sep 24 2020 uname -rwxr-xr-x 2 root root 2346 Mar 3 2021 uncompress -rwxr-xr-x 1 root root 147176 Sep 24 2020 vdir -rwxr-xr-x 1 root root 63744 Jul 29 2021 wdctl lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 3 2021 zcat -rwxr-xr-x 1 root root 1678 Mar 3 2021 zcmp -rwxr-xr-x 1 root root 5880 Mar 3 2021 zdiff -rwxr-xr-x 1 root root 29 Mar 3 2021 zegrep -rwxr-xr-x 1 root root 29 Mar 3 2021 zfgrep -rwxr-xr-x 1 root root 2081 Mar 3 2021 zforce -rwxr-xr-x 1 root root 7585 Mar 3 2021 zgrep -rwxr-xr-x 1 root root 2206 Mar 3 2021 zless -rwxr-xr-x 1 root root 1842 Mar 3 2021 zmore -rwxr-xr-x 1 root root 4553 Mar 3 2021 znew I: user script /srv/workspace/pbuilder/870001/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), cmake, zlib1g-dev, libssw-dev, libtclap-dev, libhts-dev, libsimde-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19655 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 cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libssw-dev; however: Package libssw-dev is not installed. pbuilder-satisfydepends-dummy depends on libtclap-dev; however: Package libtclap-dev is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-dev is not installed. pbuilder-satisfydepends-dummy depends on libsimde-dev; however: Package libsimde-dev 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} libbrotli1{a} libcurl3-gnutls{a} libcurl4{a} libcurl4-gnutls-dev{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libhts-dev{a} libhts3{a} libicu67{a} libjsoncpp24{a} libldap-2.4-2{a} liblzma-dev{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libprocps8{a} libpsl5{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libsimde-dev{a} libssh2-1{a} libssw-dev{a} libssw0{a} libsub-override-perl{a} libtclap-dev{a} libtool{a} libuchardet0{a} libuv1{a} libxml2{a} m4{a} man-db{a} po-debconf{a} procps{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, 62 newly installed, 0 to remove and 0 not upgraded. Need to get 34.4 MB of archives. After unpacking 123 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main amd64 bsdextrautils amd64 2.36.1-8 [145 kB] Get: 2 http://deb.debian.org/debian bullseye/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 3 http://deb.debian.org/debian bullseye/main amd64 groff-base amd64 1.22.4-6 [936 kB] Get: 4 http://deb.debian.org/debian bullseye/main amd64 libpipeline1 amd64 1.5.3-1 [34.3 kB] Get: 5 http://deb.debian.org/debian bullseye/main amd64 man-db amd64 2.9.4-2 [1354 kB] Get: 6 http://deb.debian.org/debian bullseye/main amd64 libncurses6 amd64 6.2+20201114-2 [102 kB] Get: 7 http://deb.debian.org/debian bullseye/main amd64 libprocps8 amd64 2:3.3.17-5 [63.9 kB] Get: 8 http://deb.debian.org/debian bullseye/main amd64 procps amd64 2:3.3.17-5 [502 kB] Get: 9 http://deb.debian.org/debian bullseye/main amd64 sensible-utils all 0.0.14 [14.8 kB] Get: 10 http://deb.debian.org/debian bullseye/main amd64 libmagic-mgc amd64 1:5.39-3 [273 kB] Get: 11 http://deb.debian.org/debian bullseye/main amd64 libmagic1 amd64 1:5.39-3 [126 kB] Get: 12 http://deb.debian.org/debian bullseye/main amd64 file amd64 1:5.39-3 [69.1 kB] Get: 13 http://deb.debian.org/debian bullseye/main amd64 gettext-base amd64 0.21-4 [175 kB] Get: 14 http://deb.debian.org/debian bullseye/main amd64 libsigsegv2 amd64 2.13-1 [34.8 kB] Get: 15 http://deb.debian.org/debian bullseye/main amd64 m4 amd64 1.4.18-5 [204 kB] Get: 16 http://deb.debian.org/debian bullseye/main amd64 autoconf all 2.69-14 [313 kB] Get: 17 http://deb.debian.org/debian bullseye/main amd64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 18 http://deb.debian.org/debian bullseye/main amd64 automake all 1:1.16.3-2 [814 kB] Get: 19 http://deb.debian.org/debian bullseye/main amd64 autopoint all 0.21-4 [510 kB] Get: 20 http://deb.debian.org/debian bullseye/main amd64 cmake-data all 3.18.4-2+deb11u1 [1725 kB] Get: 21 http://deb.debian.org/debian bullseye/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get: 22 http://deb.debian.org/debian bullseye/main amd64 libxml2 amd64 2.9.10+dfsg-6.7 [693 kB] Get: 23 http://deb.debian.org/debian bullseye/main amd64 libarchive13 amd64 3.4.3-2+b1 [343 kB] Get: 24 http://deb.debian.org/debian bullseye/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB] Get: 25 http://deb.debian.org/debian bullseye/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.1 [69.1 kB] Get: 26 http://deb.debian.org/debian bullseye/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.1 [106 kB] Get: 27 http://deb.debian.org/debian bullseye/main amd64 libldap-2.4-2 amd64 2.4.57+dfsg-3 [232 kB] Get: 28 http://deb.debian.org/debian bullseye/main amd64 libnghttp2-14 amd64 1.43.0-1 [77.1 kB] Get: 29 http://deb.debian.org/debian bullseye/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get: 30 http://deb.debian.org/debian bullseye/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get: 31 http://deb.debian.org/debian bullseye/main amd64 libssh2-1 amd64 1.9.0-2 [156 kB] Get: 32 http://deb.debian.org/debian bullseye/main amd64 libcurl4 amd64 7.74.0-1.3+deb11u1 [341 kB] Get: 33 http://deb.debian.org/debian bullseye/main amd64 libexpat1 amd64 2.2.10-2 [96.9 kB] Get: 34 http://deb.debian.org/debian bullseye/main amd64 libjsoncpp24 amd64 1.9.4-4 [78.9 kB] Get: 35 http://deb.debian.org/debian bullseye/main amd64 librhash0 amd64 1.4.1-2 [129 kB] Get: 36 http://deb.debian.org/debian bullseye/main amd64 libuv1 amd64 1.40.0-2 [132 kB] Get: 37 http://deb.debian.org/debian bullseye/main amd64 cmake amd64 3.18.4-2+deb11u1 [5593 kB] Get: 38 http://deb.debian.org/debian bullseye/main amd64 libdebhelper-perl all 13.3.4 [189 kB] Get: 39 http://deb.debian.org/debian bullseye/main amd64 libtool all 2.4.6-15 [513 kB] Get: 40 http://deb.debian.org/debian bullseye/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 41 http://deb.debian.org/debian bullseye/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 42 http://deb.debian.org/debian bullseye/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get: 43 http://deb.debian.org/debian bullseye/main amd64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 44 http://deb.debian.org/debian bullseye/main amd64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 45 http://deb.debian.org/debian bullseye/main amd64 libelf1 amd64 0.183-1 [165 kB] Get: 46 http://deb.debian.org/debian bullseye/main amd64 dwz amd64 0.13+20210201-1 [175 kB] Get: 47 http://deb.debian.org/debian bullseye/main amd64 gettext amd64 0.21-4 [1311 kB] Get: 48 http://deb.debian.org/debian bullseye/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 49 http://deb.debian.org/debian bullseye/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 50 http://deb.debian.org/debian bullseye/main amd64 debhelper all 13.3.4 [1049 kB] Get: 51 http://deb.debian.org/debian bullseye/main amd64 libcurl3-gnutls amd64 7.74.0-1.3+deb11u1 [338 kB] Get: 52 http://deb.debian.org/debian bullseye/main amd64 libcurl4-gnutls-dev amd64 7.74.0-1.3+deb11u1 [429 kB] Get: 53 http://deb.debian.org/debian bullseye/main amd64 libdeflate0 amd64 1.7-1 [53.1 kB] Get: 54 http://deb.debian.org/debian bullseye/main amd64 libdeflate-dev amd64 1.7-1 [46.9 kB] Get: 55 http://deb.debian.org/debian bullseye/main amd64 libhts3 amd64 1.11-4 [378 kB] Get: 56 http://deb.debian.org/debian bullseye/main amd64 liblzma-dev amd64 5.2.5-2 [229 kB] Get: 57 http://deb.debian.org/debian bullseye/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2 [190 kB] Get: 58 http://deb.debian.org/debian bullseye/main amd64 libhts-dev amd64 1.11-4 [3858 kB] Get: 59 http://deb.debian.org/debian bullseye/main amd64 libsimde-dev all 0.7.2-4 [259 kB] Get: 60 http://deb.debian.org/debian bullseye/main amd64 libssw0 amd64 1.1-13 [19.7 kB] Get: 61 http://deb.debian.org/debian bullseye/main amd64 libssw-dev amd64 1.1-13 [22.4 kB] Get: 62 http://deb.debian.org/debian bullseye/main amd64 libtclap-dev amd64 1.2.3-1 [143 kB] Fetched 34.4 MB in 0s (94.1 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 ... 19655 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-8_amd64.deb ... Unpacking bsdextrautils (2.36.1-8) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../01-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_amd64.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../03-libpipeline1_1.5.3-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.4-2_amd64.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../05-libncurses6_6.2+20201114-2_amd64.deb ... Unpacking libncurses6:amd64 (6.2+20201114-2) ... Selecting previously unselected package libprocps8:amd64. Preparing to unpack .../06-libprocps8_2%3a3.3.17-5_amd64.deb ... Unpacking libprocps8:amd64 (2:3.3.17-5) ... Selecting previously unselected package procps. Preparing to unpack .../07-procps_2%3a3.3.17-5_amd64.deb ... Unpacking procps (2:3.3.17-5) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../08-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... 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Setting up bsdextrautils (2.36.1-8) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:amd64 (67.1-7) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.3.4) ... Setting up libbrotli1:amd64 (1.0.9-2+b2) ... Setting up libnghttp2-14:amd64 (1.43.0-1) ... Setting up libmagic1:amd64 (1:5.39-3) ... Setting up libdeflate0:amd64 (1.7-1) ... Setting up gettext-base (0.21-4) ... Setting up file (1:5.39-3) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libuv1:amd64 (1.40.0-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libncurses6:amd64 (6.2+20201114-2) ... Setting up libsigsegv2:amd64 (2.13-1) ... Setting up autopoint (0.21-4) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2.1) ... Setting up libtclap-dev (1.2.3-1) ... Setting up libjsoncpp24:amd64 (1.9.4-4) ... Setting up liblzma-dev:amd64 (5.2.5-2) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-2) ... Setting up sensible-utils (0.0.14) ... Setting up librhash0:amd64 (1.4.1-2) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libssh2-1:amd64 (1.9.0-2) ... Setting up cmake-data (3.18.4-2+deb11u1) ... Setting up libdeflate-dev:amd64 (1.7-1) ... Setting up libelf1:amd64 (0.183-1) ... Setting up libssw0:amd64 (1.1-13) ... Setting up libxml2:amd64 (2.9.10+dfsg-6.7) ... Setting up libprocps8:amd64 (2:3.3.17-5) ... Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up gettext (0.21-4) ... Setting up libssw-dev:amd64 (1.1-13) ... Setting up libtool (2.4.6-15) ... Setting up libarchive13:amd64 (3.4.3-2+b1) ... Setting up libldap-2.4-2:amd64 (2.4.57+dfsg-3) ... Setting up m4 (1.4.18-5) ... Setting up libcurl3-gnutls:amd64 (7.74.0-1.3+deb11u1) ... Setting up libcurl4-gnutls-dev:amd64 (7.74.0-1.3+deb11u1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... 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:amd64 (7.74.0-1.3+deb11u1) ... 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 libhts3:amd64 (1.11-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhts-dev:amd64 (1.11-4) ... 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 cmake (3.18.4-2+deb11u1) ... Setting up debhelper (13.3.4) ... Processing triggers for libc-bin (2.31-13+deb11u2) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package hostname: Name or service not known I: Running cd /build/ngmlr-0.2.7+dfsg/ && 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 > ../ngmlr_0.2.7+dfsg-4_source.changes dpkg-buildpackage: info: source package ngmlr dpkg-buildpackage: info: source version 0.2.7+dfsg-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Nilesh Patra dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem cmake dh_auto_clean -O--buildsystem=cmake dh_autoreconf_clean -O--buildsystem=cmake dh_clean -O--buildsystem=cmake debian/rules binary dh binary --buildsystem cmake dh_update_autotools_config -O--buildsystem=cmake dh_autoreconf -O--buildsystem=cmake dh_auto_configure -O--buildsystem=cmake cd obj-x86_64-linux-gnu && 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 -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu .. -- 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 ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11") -- Looking for pthread.h -- Looking for pthread.h - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed -- Looking for pthread_create in pthreads -- Looking for pthread_create in pthreads - not found -- Looking for pthread_create in pthread -- Looking for pthread_create in pthread - found -- Found Threads: TRUE -- Performing Test COMPILER_SUPPORTS_CXX11 -- Performing Test COMPILER_SUPPORTS_CXX11 - Success -- 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/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu dh_auto_build -O--buildsystem=cmake cd obj-x86_64-linux-gnu && make -j16 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/ngmlr-0.2.7+dfsg -B/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/CMakeFiles /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/recompile_always.dir/build.make src/CMakeFiles/recompile_always.dir/depend make[3]: Entering directory '/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu' cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/ngmlr-0.2.7+dfsg /build/ngmlr-0.2.7+dfsg/src /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/recompile_always.dir/DependInfo.cmake --color= make -f src/CMakeFiles/ngmlr.dir/build.make src/CMakeFiles/ngmlr.dir/depend make[3]: Entering directory '/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu' cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/ngmlr-0.2.7+dfsg /build/ngmlr-0.2.7+dfsg/src /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/ngmlr.dir/DependInfo.cmake --color= Dependee "/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/recompile_always.dir/DependInfo.cmake" is newer than depender "/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/recompile_always.dir/depend.internal". Dependee "/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/recompile_always.dir/depend.internal". Dependee "/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/ngmlr.dir/DependInfo.cmake" is newer than depender "/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/ngmlr.dir/depend.internal". Dependee "/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/ngmlr.dir/depend.internal". Scanning dependencies of target recompile_always make[3]: Leaving directory '/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/recompile_always.dir/build.make src/CMakeFiles/recompile_always.dir/build make[3]: Entering directory '/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu' cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && touch /build/ngmlr-0.2.7+dfsg/src/main.cpp Scanning dependencies of target ngmlr make[3]: Leaving directory '/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/ngmlr.dir/build.make src/CMakeFiles/ngmlr.dir/build [ 0%] Built target recompile_always make[3]: Entering directory '/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu' [ 4%] Building CXX object src/CMakeFiles/ngmlr.dir/AlignmentMatrix.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/AlignmentMatrix.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/AlignmentMatrix.cpp [ 8%] Building CXX object src/CMakeFiles/ngmlr.dir/AlignmentMatrixFast.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/AlignmentMatrixFast.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/AlignmentMatrixFast.cpp [ 12%] Building CXX object src/CMakeFiles/ngmlr.dir/ArgParser.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/ArgParser.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/ArgParser.cpp [ 16%] Building CXX object src/CMakeFiles/ngmlr.dir/CS.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/CS.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/CS.cpp [ 20%] Building CXX object src/CMakeFiles/ngmlr.dir/CSstatic.cpp.o [ 24%] Building CXX object src/CMakeFiles/ngmlr.dir/ConvexAlign.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/CSstatic.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/CSstatic.cpp [ 28%] Building CXX object src/CMakeFiles/ngmlr.dir/ConvexAlignFast.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/ConvexAlign.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/ConvexAlign.cpp [ 32%] Building CXX object src/CMakeFiles/ngmlr.dir/LinearRegression.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/ConvexAlignFast.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/ConvexAlignFast.cpp cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/LinearRegression.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/LinearRegression.cpp [ 36%] Building CXX object src/CMakeFiles/ngmlr.dir/Logging.cpp.o [ 40%] Building CXX object src/CMakeFiles/ngmlr.dir/MappedRead.cpp.o [ 44%] Building CXX object src/CMakeFiles/ngmlr.dir/main.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/Logging.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/Logging.cpp [ 48%] Building CXX object src/CMakeFiles/ngmlr.dir/NGM.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/MappedRead.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/MappedRead.cpp cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/main.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/main.cpp [ 52%] Building CXX object src/CMakeFiles/ngmlr.dir/NGMTask.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/NGM.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/NGM.cpp cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/NGMTask.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/NGMTask.cpp [ 56%] Building CXX object src/CMakeFiles/ngmlr.dir/AlignmentBuffer.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/AlignmentBuffer.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/AlignmentBuffer.cpp [ 60%] Building CXX object src/CMakeFiles/ngmlr.dir/PrefixTable.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/PrefixTable.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/PrefixTable.cpp [ 64%] Building CXX object src/CMakeFiles/ngmlr.dir/ReadProvider.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/ReadProvider.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/ReadProvider.cpp /build/ngmlr-0.2.7+dfsg/src/main.cpp:56:146: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 56 | Log.Message("ngmlr %s%s (build: %s %s, start: %s)", version.str().c_str(), cDebug ? " debug" : "", __DATE__, __TIME__, currentDateTime().c_str()); | ^ In file included from /build/ngmlr-0.2.7+dfsg/src/Log.h:8, from /build/ngmlr-0.2.7+dfsg/src/NGM.h:11, from /build/ngmlr-0.2.7+dfsg/src/main.cpp:5: /build/ngmlr-0.2.7+dfsg/src/main.cpp:56:101: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 56 | Log.Message("ngmlr %s%s (build: %s %s, start: %s)", version.str().c_str(), cDebug ? " debug" : "", __DATE__, __TIME__, currentDateTime().c_str()); | ^~~~~~~~ /build/ngmlr-0.2.7+dfsg/src/ILog.h:44:56: note: in definition of macro ‘Message’ 44 | #define Message(s, ...) _Message(0, module_name, s , ##__VA_ARGS__) | ^~~~~~~~~~~ [ 68%] Building CXX object src/CMakeFiles/ngmlr.dir/SamParser.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/SamParser.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/SamParser.cpp [ 72%] Building CXX object src/CMakeFiles/ngmlr.dir/SAMWriter.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/SAMWriter.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/SAMWriter.cpp /build/ngmlr-0.2.7+dfsg/src/Logging.cpp: In function ‘void __Log::LogToConsole(bool, int, const char*, const char*, ...)’: /build/ngmlr-0.2.7+dfsg/src/Logging.cpp:100:2: warning: second parameter of ‘va_start’ not last named argument [-Wvarargs] 100 | va_start(args, count); | ^~~~~~~~ [ 76%] Building CXX object src/CMakeFiles/ngmlr.dir/SequenceProvider.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/SequenceProvider.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/SequenceProvider.cpp /build/ngmlr-0.2.7+dfsg/src/Logging.cpp: In function ‘std::string add_timestamp(std::string)’: /build/ngmlr-0.2.7+dfsg/src/Logging.cpp:125:27: warning: ‘%02i’ directive writing between 2 and 11 bytes into a region of size between 8 and 15 [-Wformat-overflow=] 125 | sprintf(timestamp, "%4i-%02i-%02i_%02i-%02i-%02i", tm->tm_year + 1900, tm->tm_mon + 1, tm->tm_mday, tm->tm_hour, tm->tm_min, | ^~~~ /build/ngmlr-0.2.7+dfsg/src/Logging.cpp:125:22: note: directive argument in the range [-2147483647, 2147483647] 125 | sprintf(timestamp, "%4i-%02i-%02i_%02i-%02i-%02i", tm->tm_year + 1900, tm->tm_mon + 1, tm->tm_mday, tm->tm_hour, tm->tm_min, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:867, from /build/ngmlr-0.2.7+dfsg/src/Logging.cpp:7: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output between 20 and 72 bytes into a destination of size 20 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 80%] Building CXX object src/CMakeFiles/ngmlr.dir/OutputReadBuffer.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/OutputReadBuffer.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/OutputReadBuffer.cpp [ 84%] Building CXX object src/CMakeFiles/ngmlr.dir/ScoreBuffer.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/ScoreBuffer.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/ScoreBuffer.cpp [ 88%] Building CXX object src/CMakeFiles/ngmlr.dir/StrippedSW.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/StrippedSW.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/StrippedSW.cpp [ 92%] Building CXX object src/CMakeFiles/ngmlr.dir/unix.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/unix.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/unix.cpp [ 96%] Building CXX object src/CMakeFiles/ngmlr.dir/unix_threads.cpp.o cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/ngmlr-0.2.7+dfsg/src/../lib -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ngmlr.dir/unix_threads.cpp.o -c /build/ngmlr-0.2.7+dfsg/src/unix_threads.cpp /build/ngmlr-0.2.7+dfsg/src/OutputReadBuffer.cpp: In destructor ‘OutputReadBuffer::~OutputReadBuffer()’: /build/ngmlr-0.2.7+dfsg/src/OutputReadBuffer.cpp:17:3: warning: ‘throw’ will always call ‘terminate’ [-Wterminate] 17 | throw "Elements left in buffer!"; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/ngmlr-0.2.7+dfsg/src/OutputReadBuffer.cpp:17:3: note: in C++11 destructors default to ‘noexcept’ [100%] Linking CXX executable ../../bin/ngmlr-0.2.7/ngmlr cd /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngmlr.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/ngmlr-0.2.7+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ngmlr.dir/AlignmentMatrix.cpp.o CMakeFiles/ngmlr.dir/AlignmentMatrixFast.cpp.o CMakeFiles/ngmlr.dir/ArgParser.cpp.o CMakeFiles/ngmlr.dir/CS.cpp.o CMakeFiles/ngmlr.dir/CSstatic.cpp.o CMakeFiles/ngmlr.dir/ConvexAlign.cpp.o CMakeFiles/ngmlr.dir/ConvexAlignFast.cpp.o CMakeFiles/ngmlr.dir/LinearRegression.cpp.o CMakeFiles/ngmlr.dir/Logging.cpp.o CMakeFiles/ngmlr.dir/MappedRead.cpp.o CMakeFiles/ngmlr.dir/main.cpp.o CMakeFiles/ngmlr.dir/NGM.cpp.o CMakeFiles/ngmlr.dir/NGMTask.cpp.o CMakeFiles/ngmlr.dir/AlignmentBuffer.cpp.o CMakeFiles/ngmlr.dir/PrefixTable.cpp.o CMakeFiles/ngmlr.dir/ReadProvider.cpp.o CMakeFiles/ngmlr.dir/SamParser.cpp.o CMakeFiles/ngmlr.dir/SAMWriter.cpp.o CMakeFiles/ngmlr.dir/SequenceProvider.cpp.o CMakeFiles/ngmlr.dir/OutputReadBuffer.cpp.o CMakeFiles/ngmlr.dir/ScoreBuffer.cpp.o CMakeFiles/ngmlr.dir/StrippedSW.cpp.o CMakeFiles/ngmlr.dir/unix.cpp.o CMakeFiles/ngmlr.dir/unix_threads.cpp.o -o ../../bin/ngmlr-0.2.7/ngmlr -lz -lpthread -lssw make[3]: Leaving directory '/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu' [100%] Built target ngmlr make[2]: Leaving directory '/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu' dh_auto_test -O--buildsystem=cmake create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=cmake dh_prep -O--buildsystem=cmake dh_auto_install -O--buildsystem=cmake cd obj-x86_64-linux-gnu && make -j16 install DESTDIR=/build/ngmlr-0.2.7\+dfsg/debian/ngmlr AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/ngmlr-0.2.7+dfsg -B/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/ngmlr-0.2.7+dfsg/debian/ngmlr/usr/bin/ngmlr make[1]: Leaving directory '/build/ngmlr-0.2.7+dfsg/obj-x86_64-linux-gnu' dh_installdocs -O--buildsystem=cmake dh_installchangelogs -O--buildsystem=cmake dh_installexamples -O--buildsystem=cmake dh_installman -O--buildsystem=cmake dh_installsystemduser -O--buildsystem=cmake dh_perl -O--buildsystem=cmake dh_link -O--buildsystem=cmake dh_strip_nondeterminism -O--buildsystem=cmake dh_compress -O--buildsystem=cmake dh_fixperms -O--buildsystem=cmake dh_missing -O--buildsystem=cmake dh_dwz -a -O--buildsystem=cmake dh_strip -a -O--buildsystem=cmake dh_makeshlibs -a -O--buildsystem=cmake dh_shlibdeps -a -O--buildsystem=cmake dh_installdeb -O--buildsystem=cmake dh_gencontrol -O--buildsystem=cmake dh_md5sums -O--buildsystem=cmake dh_builddeb -O--buildsystem=cmake dpkg-deb: building package 'ngmlr-dbgsym' in '../ngmlr-dbgsym_0.2.7+dfsg-4_amd64.deb'. dpkg-deb: building package 'ngmlr' in '../ngmlr_0.2.7+dfsg-4_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../ngmlr_0.2.7+dfsg-4_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: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/870001/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/870001/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/870001 and its subdirectories I: Current time: Thu Feb 2 17:48:39 +14 2023 I: pbuilder-time-stamp: 1675309719