I: pbuilder: network access will be disabled during build I: Current time: Wed Oct 6 05:30:57 +14 2021 I: pbuilder-time-stamp: 1633447857 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 [mummer_3.23+dfsg-7.dsc] I: copying [./mummer_3.23+dfsg.orig.tar.xz] I: copying [./mummer_3.23+dfsg-7.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.qVakuarx/trustedkeys.kbx': General error gpgv: Signature made Sun Dec 27 08:42:46 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 ./mummer_3.23+dfsg-7.dsc dpkg-source: info: extracting mummer in mummer-3.23+dfsg dpkg-source: info: unpacking mummer_3.23+dfsg.orig.tar.xz dpkg-source: info: unpacking mummer_3.23+dfsg-7.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 10_install_dirs.patch dpkg-source: info: applying 02at_docs_web.diff dpkg-source: info: applying enable_building_with_tetex.patch dpkg-source: info: applying fix_sf_privacy_breach_issue.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying spelling.patch dpkg-source: info: applying addition_from_mugsy.patch dpkg-source: info: applying 0009-improve-performance-of-delta2maf.patch dpkg-source: info: applying mummerplot.patch dpkg-source: info: applying remove-csh-dependency.patch dpkg-source: info: applying remove-csh-from-doc.patch dpkg-source: info: applying reproducible-build.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/9655/tmp/hooks/D01_modify_environment starting debug: Running on codethink12-arm64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash 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/9655/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/9655/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]="aarch64-unknown-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=arm64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=8' DIRSTACK=() DISTRIBUTION= EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/var/lib/jenkins HOSTNAME=i-capture-the-hostname HOSTTYPE=aarch64 HOST_ARCH=arm64 IFS=' ' LANG=C LANGUAGE=nl_BE:nl LC_ALL=C MACHTYPE=aarch64-unknown-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=9655 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.ISC8g3Mt47/pbuilderrc_rW4z --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.ISC8g3Mt47/b2 --logfile b2/build.log mummer_3.23+dfsg-7.dsc' SUDO_GID=117 SUDO_UID=110 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root USERNAME=root _='I: set' http_proxy=http://192.168.101.16:3128 I: uname -a Linux i-capture-the-hostname 4.15.0-159-generic #167-Ubuntu SMP Mon Sep 20 23:06:52 UTC 2021 aarch64 GNU/Linux I: ls -l /bin total 5252 -rwxr-xr-x 1 root root 1282512 Aug 5 10:25 bash -rwxr-xr-x 3 root root 34808 Jul 21 2020 bunzip2 -rwxr-xr-x 3 root root 34808 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 34808 Jul 21 2020 bzip2 -rwxr-xr-x 1 root root 14264 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 39832 Sep 23 2020 cat -rwxr-xr-x 1 root root 64512 Sep 23 2020 chgrp -rwxr-xr-x 1 root root 60368 Sep 23 2020 chmod -rwxr-xr-x 1 root root 64528 Sep 23 2020 chown -rwxr-xr-x 1 root root 138896 Sep 23 2020 cp -rwxr-xr-x 1 root root 129544 Dec 11 2020 dash -rwxr-xr-x 1 root root 101384 Sep 23 2020 date -rwxr-xr-x 1 root root 80984 Sep 23 2020 dd -rwxr-xr-x 1 root root 89824 Sep 23 2020 df -rwxr-xr-x 1 root root 143088 Sep 23 2020 dir -rwxr-xr-x 1 root root 76152 Jul 29 09:09 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 35632 Sep 23 2020 echo -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep -rwxr-xr-x 1 root root 31512 Sep 23 2020 false -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep -rwxr-xr-x 1 root root 64856 Jul 29 09:09 findmnt -rwsr-xr-x 1 root root 34824 Feb 27 2021 fusermount -rwxr-xr-x 1 root root 178400 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 93744 Mar 3 2021 gzip -rwxr-xr-x 1 root root 18440 Nov 8 2019 hostname -rwxr-xr-x 1 root root 68720 Sep 23 2020 ln -rwxr-xr-x 1 root root 52720 Feb 8 2020 login -rwxr-xr-x 1 root root 143088 Sep 23 2020 ls -rwxr-xr-x 1 root root 161960 Jul 29 09:09 lsblk -rwxr-xr-x 1 root root 85200 Sep 23 2020 mkdir -rwxr-xr-x 1 root root 68744 Sep 23 2020 mknod -rwxr-xr-x 1 root root 43976 Sep 23 2020 mktemp -rwxr-xr-x 1 root root 51368 Jul 29 09:09 more -rwsr-xr-x 1 root root 51360 Jul 29 09:09 mount -rwxr-xr-x 1 root root 14496 Jul 29 09:09 mountpoint -rwxr-xr-x 1 root root 134808 Sep 23 2020 mv lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 19 05:38 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 35720 Sep 23 2020 pwd lrwxrwxrwx 1 root root 4 Aug 5 10:25 rbash -> bash -rwxr-xr-x 1 root root 43872 Sep 23 2020 readlink -rwxr-xr-x 1 root root 68592 Sep 23 2020 rm -rwxr-xr-x 1 root root 43880 Sep 23 2020 rmdir -rwxr-xr-x 1 root root 19208 Sep 28 2020 run-parts -rwxr-xr-x 1 root root 114016 Dec 23 2018 sed lrwxrwxrwx 1 root root 4 Oct 6 05:31 sh -> bash lrwxrwxrwx 1 root root 4 Sep 21 23:25 sh.distrib -> dash -rwxr-xr-x 1 root root 35656 Sep 23 2020 sleep -rwxr-xr-x 1 root root 72640 Sep 23 2020 stty -rwsr-xr-x 1 root root 67776 Jul 29 09:09 su -rwxr-xr-x 1 root root 35672 Sep 23 2020 sync -rwxr-xr-x 1 root root 535768 Feb 17 2021 tar -rwxr-xr-x 1 root root 10568 Sep 28 2020 tempfile -rwxr-xr-x 1 root root 89120 Sep 23 2020 touch -rwxr-xr-x 1 root root 31512 Sep 23 2020 true -rwxr-xr-x 1 root root 14264 Feb 27 2021 ulockmgr_server -rwsr-xr-x 1 root root 30880 Jul 29 09:09 umount -rwxr-xr-x 1 root root 35640 Sep 23 2020 uname -rwxr-xr-x 2 root root 2346 Mar 3 2021 uncompress -rwxr-xr-x 1 root root 143088 Sep 23 2020 vdir -rwxr-xr-x 1 root root 59584 Jul 29 09:09 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/9655/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), texlive-latex-base, texlive-latex-recommended, texlive-fonts-recommended dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19646 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 texlive-latex-base; however: Package texlive-latex-base is not installed. pbuilder-satisfydepends-dummy depends on texlive-latex-recommended; however: Package texlive-latex-recommended is not installed. pbuilder-satisfydepends-dummy depends on texlive-fonts-recommended; however: Package texlive-fonts-recommended is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-lmodern{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libbrotli1{a} libbsd0{a} libcairo2{a} libdebhelper-perl{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libglib2.0-0{a} libgraphite2-3{a} libharfbuzz0b{a} libice6{a} libicu67{a} libkpathsea6{a} libmagic-mgc{a} libmagic1{a} libmd0{a} libpaper-utils{a} libpaper1{a} libpipeline1{a} libpixman-1-0{a} libpng16-16{a} libptexenc1{a} libsigsegv2{a} libsm6{a} libsub-override-perl{a} libsynctex2{a} libteckit0{a} libtexlua53{a} libtool{a} libuchardet0{a} libx11-6{a} libx11-data{a} libxau6{a} libxaw7{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxi6{a} libxml2{a} libxmu6{a} libxpm4{a} libxrender1{a} libxt6{a} libzzip-0-13{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} t1utils{a} tex-common{a} texlive-base{a} texlive-binaries{a} texlive-fonts-recommended{a} texlive-latex-base{a} texlive-latex-recommended{a} ucf{a} x11-common{a} xdg-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl dvisvgm libarchive-cpio-perl libfile-mimeinfo-perl libglib2.0-data libltdl-dev libmail-sendmail-perl libnet-dbus-perl libx11-protocol-perl lmodern lynx shared-mime-info tex-gyre tipa wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 80 newly installed, 0 to remove and 0 not upgraded. Need to get 81.8 MB of archives. After unpacking 243 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main arm64 bsdextrautils arm64 2.36.1-8 [142 kB] Get: 2 http://deb.debian.org/debian bullseye/main arm64 libuchardet0 arm64 0.0.7-1 [67.9 kB] Get: 3 http://deb.debian.org/debian bullseye/main arm64 groff-base arm64 1.22.4-6 [883 kB] Get: 4 http://deb.debian.org/debian bullseye/main arm64 libpipeline1 arm64 1.5.3-1 [33.0 kB] Get: 5 http://deb.debian.org/debian bullseye/main arm64 man-db arm64 2.9.4-2 [1336 kB] Get: 6 http://deb.debian.org/debian bullseye/main arm64 sensible-utils all 0.0.14 [14.8 kB] Get: 7 http://deb.debian.org/debian bullseye/main arm64 ucf all 3.0043 [74.0 kB] Get: 8 http://deb.debian.org/debian bullseye/main arm64 tex-common all 6.16 [53.7 kB] Get: 9 http://deb.debian.org/debian bullseye/main arm64 libmagic-mgc arm64 1:5.39-3 [273 kB] Get: 10 http://deb.debian.org/debian bullseye/main arm64 libmagic1 arm64 1:5.39-3 [121 kB] Get: 11 http://deb.debian.org/debian bullseye/main arm64 file arm64 1:5.39-3 [69.1 kB] Get: 12 http://deb.debian.org/debian bullseye/main arm64 gettext-base arm64 0.21-4 [173 kB] Get: 13 http://deb.debian.org/debian bullseye/main arm64 libsigsegv2 arm64 2.13-1 [34.7 kB] Get: 14 http://deb.debian.org/debian bullseye/main arm64 m4 arm64 1.4.18-5 [199 kB] Get: 15 http://deb.debian.org/debian bullseye/main arm64 autoconf all 2.69-14 [313 kB] Get: 16 http://deb.debian.org/debian bullseye/main arm64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 17 http://deb.debian.org/debian bullseye/main arm64 automake all 1:1.16.3-2 [814 kB] Get: 18 http://deb.debian.org/debian bullseye/main arm64 autopoint all 0.21-4 [510 kB] Get: 19 http://deb.debian.org/debian bullseye/main arm64 libdebhelper-perl all 13.3.4 [189 kB] Get: 20 http://deb.debian.org/debian bullseye/main arm64 libtool all 2.4.6-15 [513 kB] Get: 21 http://deb.debian.org/debian bullseye/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 22 http://deb.debian.org/debian bullseye/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 23 http://deb.debian.org/debian bullseye/main arm64 libsub-override-perl all 0.09-2 [10.2 kB] Get: 24 http://deb.debian.org/debian bullseye/main arm64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 25 http://deb.debian.org/debian bullseye/main arm64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 26 http://deb.debian.org/debian bullseye/main arm64 libelf1 arm64 0.183-1 [164 kB] Get: 27 http://deb.debian.org/debian bullseye/main arm64 dwz arm64 0.13+20210201-1 [155 kB] Get: 28 http://deb.debian.org/debian bullseye/main arm64 libicu67 arm64 67.1-7 [8467 kB] Get: 29 http://deb.debian.org/debian bullseye/main arm64 libxml2 arm64 2.9.10+dfsg-6.7 [629 kB] Get: 30 http://deb.debian.org/debian bullseye/main arm64 gettext arm64 0.21-4 [1261 kB] Get: 31 http://deb.debian.org/debian bullseye/main arm64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 32 http://deb.debian.org/debian bullseye/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 33 http://deb.debian.org/debian bullseye/main arm64 debhelper all 13.3.4 [1049 kB] Get: 34 http://deb.debian.org/debian bullseye/main arm64 fonts-dejavu-core all 2.37-2 [1069 kB] Get: 35 http://deb.debian.org/debian bullseye/main arm64 fontconfig-config all 2.13.1-4.2 [281 kB] Get: 36 http://deb.debian.org/debian bullseye/main arm64 fonts-lmodern all 2.004.5-6.1 [4540 kB] Get: 37 http://deb.debian.org/debian bullseye/main arm64 libbrotli1 arm64 1.0.9-2+b2 [267 kB] Get: 38 http://deb.debian.org/debian bullseye/main arm64 libmd0 arm64 1.0.3-3 [27.9 kB] Get: 39 http://deb.debian.org/debian bullseye/main arm64 libbsd0 arm64 0.11.3-1 [106 kB] Get: 40 http://deb.debian.org/debian bullseye/main arm64 libexpat1 arm64 2.2.10-2 [83.1 kB] Get: 41 http://deb.debian.org/debian bullseye/main arm64 libpng16-16 arm64 1.6.37-3 [289 kB] Get: 42 http://deb.debian.org/debian bullseye/main arm64 libfreetype6 arm64 2.10.4+dfsg-1 [393 kB] Get: 43 http://deb.debian.org/debian bullseye/main arm64 libfontconfig1 arm64 2.13.1-4.2 [344 kB] Get: 44 http://deb.debian.org/debian bullseye/main arm64 libpixman-1-0 arm64 0.40.0-1 [444 kB] Get: 45 http://deb.debian.org/debian bullseye/main arm64 libxau6 arm64 1:1.0.9-1 [19.7 kB] Get: 46 http://deb.debian.org/debian bullseye/main arm64 libxdmcp6 arm64 1:1.1.2-3 [25.4 kB] Get: 47 http://deb.debian.org/debian bullseye/main arm64 libxcb1 arm64 1.14-3 [138 kB] Get: 48 http://deb.debian.org/debian bullseye/main arm64 libx11-data all 2:1.7.2-1 [311 kB] Get: 49 http://deb.debian.org/debian bullseye/main arm64 libx11-6 arm64 2:1.7.2-1 [748 kB] Get: 50 http://deb.debian.org/debian bullseye/main arm64 libxcb-render0 arm64 1.14-3 [111 kB] Get: 51 http://deb.debian.org/debian bullseye/main arm64 libxcb-shm0 arm64 1.14-3 [101 kB] Get: 52 http://deb.debian.org/debian bullseye/main arm64 libxext6 arm64 2:1.3.3-1.1 [51.6 kB] Get: 53 http://deb.debian.org/debian bullseye/main arm64 libxrender1 arm64 1:0.9.10-1 [30.4 kB] Get: 54 http://deb.debian.org/debian bullseye/main arm64 libcairo2 arm64 1.16.0-5 [648 kB] Get: 55 http://deb.debian.org/debian bullseye/main arm64 libglib2.0-0 arm64 2.66.8-1 [1286 kB] Get: 56 http://deb.debian.org/debian bullseye/main arm64 libgraphite2-3 arm64 1.3.14-1 [75.6 kB] Get: 57 http://deb.debian.org/debian bullseye/main arm64 libharfbuzz0b arm64 2.7.4-1 [1445 kB] Get: 58 http://deb.debian.org/debian bullseye/main arm64 x11-common all 1:7.7+22 [252 kB] Get: 59 http://deb.debian.org/debian bullseye/main arm64 libice6 arm64 2:1.0.10-1 [55.6 kB] Get: 60 http://deb.debian.org/debian bullseye/main arm64 libkpathsea6 arm64 2020.20200327.54578-7 [169 kB] Get: 61 http://deb.debian.org/debian bullseye/main arm64 libpaper1 arm64 1.1.28+b1 [21.4 kB] Get: 62 http://deb.debian.org/debian bullseye/main arm64 libpaper-utils arm64 1.1.28+b1 [18.3 kB] Get: 63 http://deb.debian.org/debian bullseye/main arm64 libptexenc1 arm64 2020.20200327.54578-7 [63.5 kB] Get: 64 http://deb.debian.org/debian bullseye/main arm64 libsm6 arm64 2:1.2.3-1 [34.0 kB] Get: 65 http://deb.debian.org/debian bullseye/main arm64 libsynctex2 arm64 2020.20200327.54578-7 [80.4 kB] Get: 66 http://deb.debian.org/debian bullseye/main arm64 libteckit0 arm64 2.5.10+ds1-3 [293 kB] Get: 67 http://deb.debian.org/debian bullseye/main arm64 libtexlua53 arm64 2020.20200327.54578-7 [124 kB] Get: 68 http://deb.debian.org/debian bullseye/main arm64 libxt6 arm64 1:1.2.0-1 [176 kB] Get: 69 http://deb.debian.org/debian bullseye/main arm64 libxmu6 arm64 2:1.1.2-2+b3 [57.8 kB] Get: 70 http://deb.debian.org/debian bullseye/main arm64 libxpm4 arm64 1:3.5.12-1 [43.9 kB] Get: 71 http://deb.debian.org/debian bullseye/main arm64 libxaw7 arm64 2:1.0.13-1.1 [184 kB] Get: 72 http://deb.debian.org/debian bullseye/main arm64 libxi6 arm64 2:1.7.10-1 [81.7 kB] Get: 73 http://deb.debian.org/debian bullseye/main arm64 libzzip-0-13 arm64 0.13.62-3.3 [55.2 kB] Get: 74 http://deb.debian.org/debian bullseye/main arm64 t1utils arm64 1.41-4 [59.8 kB] Get: 75 http://deb.debian.org/debian bullseye/main arm64 texlive-binaries arm64 2020.20200327.54578-7 [7572 kB] Get: 76 http://deb.debian.org/debian bullseye/main arm64 xdg-utils all 1.1.3-4.1 [75.5 kB] Get: 77 http://deb.debian.org/debian bullseye/main arm64 texlive-base all 2020.20210202-3 [20.8 MB] Get: 78 http://deb.debian.org/debian bullseye/main arm64 texlive-fonts-recommended all 2020.20210202-3 [5002 kB] Get: 79 http://deb.debian.org/debian bullseye/main arm64 texlive-latex-base all 2020.20210202-3 [1120 kB] Get: 80 http://deb.debian.org/debian bullseye/main arm64 texlive-latex-recommended all 2020.20210202-3 [14.5 MB] Fetched 81.8 MB in 1s (62.0 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 ... 19646 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-8_arm64.deb ... Unpacking bsdextrautils (2.36.1-8) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../01-libuchardet0_0.0.7-1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_arm64.deb ... 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Unpacking libsm6:arm64 (2:1.2.3-1) ... Selecting previously unselected package libsynctex2:arm64. Preparing to unpack .../64-libsynctex2_2020.20200327.54578-7_arm64.deb ... Unpacking libsynctex2:arm64 (2020.20200327.54578-7) ... Selecting previously unselected package libteckit0:arm64. Preparing to unpack .../65-libteckit0_2.5.10+ds1-3_arm64.deb ... Unpacking libteckit0:arm64 (2.5.10+ds1-3) ... Selecting previously unselected package libtexlua53:arm64. Preparing to unpack .../66-libtexlua53_2020.20200327.54578-7_arm64.deb ... Unpacking libtexlua53:arm64 (2020.20200327.54578-7) ... Selecting previously unselected package libxt6:arm64. Preparing to unpack .../67-libxt6_1%3a1.2.0-1_arm64.deb ... Unpacking libxt6:arm64 (1:1.2.0-1) ... Selecting previously unselected package libxmu6:arm64. Preparing to unpack .../68-libxmu6_2%3a1.1.2-2+b3_arm64.deb ... Unpacking libxmu6:arm64 (2:1.1.2-2+b3) ... Selecting previously unselected package libxpm4:arm64. Preparing to unpack .../69-libxpm4_1%3a3.5.12-1_arm64.deb ... Unpacking libxpm4:arm64 (1:3.5.12-1) ... Selecting previously unselected package libxaw7:arm64. Preparing to unpack .../70-libxaw7_2%3a1.0.13-1.1_arm64.deb ... Unpacking libxaw7:arm64 (2:1.0.13-1.1) ... Selecting previously unselected package libxi6:arm64. Preparing to unpack .../71-libxi6_2%3a1.7.10-1_arm64.deb ... Unpacking libxi6:arm64 (2:1.7.10-1) ... Selecting previously unselected package libzzip-0-13:arm64. Preparing to unpack .../72-libzzip-0-13_0.13.62-3.3_arm64.deb ... Unpacking libzzip-0-13:arm64 (0.13.62-3.3) ... Selecting previously unselected package t1utils. Preparing to unpack .../73-t1utils_1.41-4_arm64.deb ... Unpacking t1utils (1.41-4) ... Selecting previously unselected package texlive-binaries. Preparing to unpack .../74-texlive-binaries_2020.20200327.54578-7_arm64.deb ... Unpacking texlive-binaries (2020.20200327.54578-7) ... Selecting previously unselected package xdg-utils. 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Setting up libpixman-1-0:arm64 (0.40.0-1) ... Setting up libxau6:arm64 (1:1.0.9-1) ... 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:arm64 (67.1-7) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libtexlua53:arm64 (2020.20200327.54578-7) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:arm64 (2.66.8-1) ... No schema files found: doing nothing. Setting up libdebhelper-perl (13.3.4) ... Setting up libbrotli1:arm64 (1.0.9-2+b2) ... Setting up x11-common (1:7.7+22) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libmagic1:arm64 (1:5.39-3) ... Setting up gettext-base (0.21-4) ... Setting up libzzip-0-13:arm64 (0.13.62-3.3) ... Setting up file (1:5.39-3) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libx11-data (2:1.7.2-1) ... Setting up libteckit0:arm64 (2.5.10+ds1-3) ... Setting up libsigsegv2:arm64 (2.13-1) ... Setting up t1utils (1.41-4) ... Setting up libpng16-16:arm64 (1.6.37-3) ... Setting up autopoint (0.21-4) ... Setting up fonts-dejavu-core (2.37-2) ... Setting up libkpathsea6:arm64 (2020.20200327.54578-7) ... Setting up libmd0:arm64 (1.0.3-3) ... Setting up sensible-utils (0.0.14) ... Setting up libuchardet0:arm64 (0.0.7-1) ... Setting up fonts-lmodern (2.004.5-6.1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libbsd0:arm64 (0.11.3-1) ... Setting up libelf1:arm64 (0.183-1) ... Setting up libxml2:arm64 (2.9.10+dfsg-6.7) ... Setting up xdg-utils (1.1.3-4.1) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up libsynctex2:arm64 (2020.20200327.54578-7) ... Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up libice6:arm64 (2:1.0.10-1) ... Setting up libxdmcp6:arm64 (1:1.1.2-3) ... Setting up libxcb1:arm64 (1.14-3) ... Setting up gettext (0.21-4) ... Setting up libtool (2.4.6-15) ... Setting up libxcb-render0:arm64 (1.14-3) ... Setting up m4 (1.4.18-5) ... Setting up libxcb-shm0:arm64 (1.14-3) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libptexenc1:arm64 (2020.20200327.54578-7) ... Setting up libfreetype6:arm64 (2.10.4+dfsg-1) ... Setting up ucf (3.0043) ... 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 libx11-6:arm64 (2:1.7.2-1) ... Setting up libharfbuzz0b:arm64 (2.7.4-1) ... Setting up libsm6:arm64 (2:1.2.3-1) ... 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 libpaper1:arm64 (1.1.28+b1) ... Creating config file /etc/papersize with new version Setting up libxpm4:arm64 (1:3.5.12-1) ... Setting up libxrender1:arm64 (1:0.9.10-1) ... Setting up fontconfig-config (2.13.1-4.2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libxext6:arm64 (2:1.3.3-1.1) ... Setting up libpaper-utils (1.1.28+b1) ... 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 tex-common (6.16) ... update-language: texlive-base not installed and configured, doing nothing! Setting up libxt6:arm64 (1:1.2.0-1) ... Setting up libfontconfig1:arm64 (2.13.1-4.2) ... Setting up libxmu6:arm64 (2:1.1.2-2+b3) ... Setting up libxi6:arm64 (2:1.7.10-1) ... Setting up debhelper (13.3.4) ... Setting up libxaw7:arm64 (2:1.0.13-1.1) ... Setting up libcairo2:arm64 (1.16.0-5) ... Setting up texlive-binaries (2020.20200327.54578-7) ... update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode Setting up texlive-base (2020.20210202-3) ... tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex Setting up texlive-latex-base (2020.20210202-3) ... Setting up texlive-latex-recommended (2020.20210202-3) ... Setting up texlive-fonts-recommended (2020.20210202-3) ... Processing triggers for libc-bin (2.31-13) ... Processing triggers for tex-common (6.16) ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Building format(s) --all. This may take some time... done. 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: Temporary failure in name resolution I: Running cd /build/mummer-3.23+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 > ../mummer_3.23+dfsg-7_source.changes dpkg-buildpackage: info: source package mummer dpkg-buildpackage: info: source version 3.23+dfsg-7 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Nilesh Patra dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_auto_clean make -j8 clean make[1]: Entering directory '/build/mummer-3.23+dfsg' rm -f *~ core* cd /build/mummer-3.23+dfsg/src/kurtz; make clean make[2]: Entering directory '/build/mummer-3.23+dfsg/src/kurtz' rm -f *~ cd libbasedir; make clean make[3]: Entering directory '/build/mummer-3.23+dfsg/src/kurtz/libbasedir' rm -f *.splint rm -f *.[oa] *.dbg.o *.inc *.aux *.dvi *.log *~ make[3]: Leaving directory '/build/mummer-3.23+dfsg/src/kurtz/libbasedir' cd streesrc; make clean make[3]: Entering directory '/build/mummer-3.23+dfsg/src/kurtz/streesrc' rm -f *.splint rm -f *.[aox] *~ make[3]: Leaving directory '/build/mummer-3.23+dfsg/src/kurtz/streesrc' cd mm3src; make clean make[3]: Entering directory '/build/mummer-3.23+dfsg/src/kurtz/mm3src' rm -f *.splint rm -f *.[ox] shit[123] *~ cd /build/mummer-3.23+dfsg; rm -f maxmat3.x maxmat3.dbg.x mummer make[3]: Leaving directory '/build/mummer-3.23+dfsg/src/kurtz/mm3src' make[2]: Leaving directory '/build/mummer-3.23+dfsg/src/kurtz' cd /build/mummer-3.23+dfsg/src/tigr; make clean make[2]: Entering directory '/build/mummer-3.23+dfsg/src/tigr' rm -f *.o *~ cd /build/mummer-3.23+dfsg; rm -f annotate combineMUMs delta-filter gaps mgaps postnuc postpro prenuc prepro repeat-match show-aligns show-coords show-tiling show-snps show-diff delta2blocks delta2maf cd /build/mummer-3.23+dfsg/aux_bin; rm -f annotate combineMUMs delta-filter gaps mgaps postnuc postpro prenuc prepro repeat-match show-aligns show-coords show-tiling show-snps show-diff delta2blocks delta2maf make[2]: Leaving directory '/build/mummer-3.23+dfsg/src/tigr' cd /build/mummer-3.23+dfsg/scripts; make clean make[2]: Entering directory '/build/mummer-3.23+dfsg/scripts' rm -f *~ cd /build/mummer-3.23+dfsg; rm -f exact-tandems mapview mummerplot nucmer promer run-mummer1 run-mummer3 nucmer2xfig dnadiff make[2]: Leaving directory '/build/mummer-3.23+dfsg/scripts' cd /build/mummer-3.23+dfsg/docs; make clean make[2]: Entering directory '/build/mummer-3.23+dfsg/docs' rm -f *.dvi *.aux *.log *.out *~ maxmat3man.pdf make[2]: Leaving directory '/build/mummer-3.23+dfsg/docs' make[1]: Leaving directory '/build/mummer-3.23+dfsg' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/mummer-3.23+dfsg' [ -d /build/mummer-3.23+dfsg/debian/tmp/usr/bin ] || mkdir -p /build/mummer-3.23+dfsg/debian/tmp/usr/bin [ -d /build/mummer-3.23+dfsg/debian/tmp/usr/lib/mummer ] || mkdir -p /build/mummer-3.23+dfsg/debian/tmp/usr/lib/mummer dh_auto_build -- BIN_DIR=/build/mummer-3.23+dfsg/debian/tmp/usr/bin AUX_BIN_DIR=/build/mummer-3.23+dfsg/debian/tmp/usr/lib/mummer \ FINAL_BIN_DIR=/usr/bin FINAL_AUX_BIN_DIR=/usr/lib/mummer \ FINAL_SCRIPT_DIR=/usr/share/perl5/ \ CFLAGS="-g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc" CXXFLAGS="-g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make -j8 "INSTALL=install --strip-program=true" BIN_DIR=/build/mummer-3.23\+dfsg/debian/tmp/usr/bin AUX_BIN_DIR=/build/mummer-3.23\+dfsg/debian/tmp/usr/lib/mummer FINAL_BIN_DIR=/usr/bin FINAL_AUX_BIN_DIR=/usr/lib/mummer FINAL_SCRIPT_DIR=/usr/share/perl5/ "CFLAGS=-g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc" "CXXFLAGS=-g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security" "LDFLAGS=-Wl,-z,relro -Wl,-z,now" make[2]: Entering directory '/build/mummer-3.23+dfsg' cd /build/mummer-3.23+dfsg/src/kurtz; make mummer cd /build/mummer-3.23+dfsg/src/tigr; make CFLAGS="-g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc" CXXFLAGS="-g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" all cd /build/mummer-3.23+dfsg/scripts; make all make[3]: Entering directory '/build/mummer-3.23+dfsg/src/kurtz' cd libbasedir; make libbase.a make[3]: Entering directory '/build/mummer-3.23+dfsg/scripts' make[3]: Entering directory '/build/mummer-3.23+dfsg/src/tigr' /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 tigrinc.cc -c -o tigrinc.o /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 delta.cc -c -o delta.o /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 sw_align.cc -c -o sw_align.o cp -a ../debian/sh-replacement-scripts/exact-tandems /build/mummer-3.23+dfsg/debian/tmp/usr/bin make[4]: Entering directory '/build/mummer-3.23+dfsg/src/kurtz/libbasedir' /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -Wdate-time -D_FORTIFY_SOURCE=2 -c -o cleanMUMcand.o cleanMUMcand.c /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 translate.cc -c -o translate.o /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -Wdate-time -D_FORTIFY_SOURCE=2 -c -o clock.o clock.c /bin/sed -e 's?__PERL_PATH?/usr/bin/perl?g' \ -e 's?__SCRIPT_DIR?/usr/share/perl5/?g' \ mapview.pl > /build/mummer-3.23+dfsg/debian/tmp/usr/bin/mapview chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/exact-tandems /bin/sed -e 's?__PERL_PATH?/usr/bin/perl?g' \ -e 's?__SCRIPT_DIR?/usr/share/perl5/?g' \ -e 's?__BIN_DIR?/usr/bin?g' \ mummerplot.pl > /build/mummer-3.23+dfsg/debian/tmp/usr/bin/mummerplot chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/mummerplot chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/mapview /bin/sed -e 's?__PERL_PATH?/usr/bin/perl?g' \ -e 's?__SCRIPT_DIR?/usr/share/perl5/?g' \ -e 's?__AUX_BIN_DIR?/usr/lib/mummer?g' \ -e 's?__BIN_DIR?/usr/bin?g' \ nucmer.pl > /build/mummer-3.23+dfsg/debian/tmp/usr/bin/nucmer /bin/sed -e 's?__PERL_PATH?/usr/bin/perl?g' \ -e 's?__SCRIPT_DIR?/usr/share/perl5/?g' \ -e 's?__AUX_BIN_DIR?/usr/lib/mummer?g' \ -e 's?__BIN_DIR?/usr/bin?g' \ promer.pl > /build/mummer-3.23+dfsg/debian/tmp/usr/bin/promer chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/nucmer chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/promer cp -a ../debian/sh-replacement-scripts/run-mummer1 /build/mummer-3.23+dfsg/debian/tmp/usr/bin cp -a ../debian/sh-replacement-scripts/run-mummer3 /build/mummer-3.23+dfsg/debian/tmp/usr/bin chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/run-mummer1 /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -Wdate-time -D_FORTIFY_SOURCE=2 -c -o mapfile.o mapfile.c chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/run-mummer3 /bin/sed -e 's?__PERL_PATH?/usr/bin/perl?g' \ nucmer2xfig.pl > /build/mummer-3.23+dfsg/debian/tmp/usr/bin/nucmer2xfig /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -Wdate-time -D_FORTIFY_SOURCE=2 -c -o multiseq.o multiseq.c chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/nucmer2xfig /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -Wdate-time -D_FORTIFY_SOURCE=2 -c -o procopt.o procopt.c /bin/sed -e 's?__PERL_PATH?/usr/bin/perl?g' \ -e 's?__SCRIPT_DIR?/usr/share/perl5/?g' \ -e 's?__BIN_DIR?/usr/bin?g' \ dnadiff.pl > /build/mummer-3.23+dfsg/debian/tmp/usr/bin/dnadiff chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/dnadiff make[3]: Leaving directory '/build/mummer-3.23+dfsg/scripts' /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -Wdate-time -D_FORTIFY_SOURCE=2 -c -o safescpy.o safescpy.c /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -Wdate-time -D_FORTIFY_SOURCE=2 -c -o seterror.o seterror.c /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -Wdate-time -D_FORTIFY_SOURCE=2 -c -o space.o space.c ar sruv libbase.a cleanMUMcand.o clock.o mapfile.o multiseq.o procopt.o safescpy.o seterror.o space.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating libbase.a a - cleanMUMcand.o a - clock.o a - mapfile.o a - multiseq.o a - procopt.o a - safescpy.o a - seterror.o a - space.o make[4]: Leaving directory '/build/mummer-3.23+dfsg/src/kurtz/libbasedir' cd streesrc; make libstree.a make[4]: Entering directory '/build/mummer-3.23+dfsg/src/kurtz/streesrc' /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -I../libbasedir -DSTREEHUGE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o construct.o construct.c /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -I../libbasedir -DSTREEHUGE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o access.o access.c /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -I../libbasedir -DSTREEHUGE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o scanpref.o scanpref.c /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -I../libbasedir -DSTREEHUGE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o linkloc.o linkloc.c /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -I../libbasedir -DSTREEHUGE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o depthtab.o depthtab.c /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -I../libbasedir -DSTREEHUGE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o ex2leav.o ex2leav.c tigrinc.cc: In function 'int Read_String(FILE*, char*&, long int&, char*, int)': tigrinc.cc:335:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 335 | fgets (Line, MAX_LINE, fp); | ~~~~~~^~~~~~~~~~~~~~~~~~~~ tigrinc.cc: In function 'int Read_File(FILE*, long int&, std::map, char*>&, int)': tigrinc.cc:452:9: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 452 | fgets (Line, MAX_LINE, fp); | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -I../libbasedir -DSTREEHUGE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o dfs.o dfs.c /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -I../libbasedir -DSTREEHUGE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o overmax.o overmax.c /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -I../libbasedir -DSTREEHUGE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o oversucc.o oversucc.c /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -I../libbasedir -DSTREEHUGE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o addleafcount.o addleafcount.c /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -I../libbasedir -DSTREEHUGE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o iterator.o iterator.c ar sruv libstree.a construct.o access.o scanpref.o linkloc.o depthtab.o ex2leav.o dfs.o overmax.o oversucc.o addleafcount.o iterator.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating libstree.a a - construct.o a - access.o a - scanpref.o a - linkloc.o a - depthtab.o a - ex2leav.o a - dfs.o a - overmax.o a - oversucc.o a - addleafcount.o a - iterator.o make[4]: Leaving directory '/build/mummer-3.23+dfsg/src/kurtz/streesrc' cd mm3src; make mummer make[4]: Entering directory '/build/mummer-3.23+dfsg/src/kurtz/mm3src' /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -I../libbasedir -I../streesrc -Wdate-time -D_FORTIFY_SOURCE=2 -c -o maxmat3.o maxmat3.c /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -I../libbasedir -I../streesrc -Wdate-time -D_FORTIFY_SOURCE=2 -c -o maxmatopt.o maxmatopt.c /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -I../libbasedir -I../streesrc -Wdate-time -D_FORTIFY_SOURCE=2 -c -o maxmatinp.o maxmatinp.c /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -I../libbasedir -I../streesrc -Wdate-time -D_FORTIFY_SOURCE=2 -c -o findmumcand.o findmumcand.c /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -I../libbasedir -I../streesrc -Wdate-time -D_FORTIFY_SOURCE=2 -c -o findmaxmat.o findmaxmat.c /usr/bin/gcc -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSTREEHUGE -I/build/mummer-3.23+dfsg/src/kurtz/libbasedir -I/build/mummer-3.23+dfsg/src/kurtz/streesrc -I../libbasedir -I../streesrc -Wdate-time -D_FORTIFY_SOURCE=2 -c -o procmaxmat.o procmaxmat.c /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now annotate.cc tigrinc.o -o /build/mummer-3.23+dfsg/debian/tmp/usr/bin/annotate; chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/annotate /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now combineMUMs.cc tigrinc.o -o /build/mummer-3.23+dfsg/debian/tmp/usr/bin/combineMUMs; chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/combineMUMs /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now gaps.cc tigrinc.o -o /build/mummer-3.23+dfsg/debian/tmp/usr/bin/gaps; chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/gaps /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now mgaps.cc tigrinc.o -o /build/mummer-3.23+dfsg/debian/tmp/usr/bin/mgaps; chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/mgaps /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now postnuc.cc tigrinc.o sw_align.o -o /build/mummer-3.23+dfsg/debian/tmp/usr/lib/mummer/postnuc; chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/lib/mummer/postnuc /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now postpro.cc tigrinc.o sw_align.o translate.o -o /build/mummer-3.23+dfsg/debian/tmp/usr/lib/mummer/postpro; chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/lib/mummer/postpro /usr/bin/gcc -Wl,-z,relro -Wl,-z,now maxmat3.o maxmatopt.o maxmatinp.o findmumcand.o findmaxmat.o procmaxmat.o ../streesrc/libstree.a ../libbasedir/libbase.a \ -o /build/mummer-3.23+dfsg/debian/tmp/usr/bin/mummer; chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/mummer make[4]: Leaving directory '/build/mummer-3.23+dfsg/src/kurtz/mm3src' make[3]: Leaving directory '/build/mummer-3.23+dfsg/src/kurtz' /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now prenuc.cc tigrinc.o -o /build/mummer-3.23+dfsg/debian/tmp/usr/lib/mummer/prenuc; chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/lib/mummer/prenuc combineMUMs.cc:26:38: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 26 | #define DEFAULT_ERROR_FILE_NAME "witherrors.gaps" | ^~~~~~~~~~~~~~~~~ combineMUMs.cc:109:27: note: in expansion of macro 'DEFAULT_ERROR_FILE_NAME' 109 | char * Error_File_Name = DEFAULT_ERROR_FILE_NAME; | ^~~~~~~~~~~~~~~~~~~~~~~ combineMUMs.cc:135:24: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 135 | char * Query_Suffix = "Query"; | ^~~~~~~ combineMUMs.cc:145:22: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 145 | char * Ref_Suffix = "Ref"; | ^~~~~ mgaps.cc: In function 'int Process_Cluster(Match_t*, int, char*)': mgaps.cc:533:20: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 533 | label = "#\n"; | ^~~~~ mgaps.cc: In function 'void Process_Matches(Match_t*, int, char*)': mgaps.cc:620:19: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 620 | label = "#\n"; | ^~~~~ combineMUMs.cc: In function 'int Read_String(FILE*, char**, long int*, char*)': combineMUMs.cc:1481:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 1481 | fgets (Line, MAX_LINE, fp); | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now prepro.cc tigrinc.o translate.o -o /build/mummer-3.23+dfsg/debian/tmp/usr/lib/mummer/prepro; chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/lib/mummer/prepro /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now repeat-match.cc tigrinc.o -o /build/mummer-3.23+dfsg/debian/tmp/usr/bin/repeat-match; chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/repeat-match /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now delta-filter.cc tigrinc.o delta.o -o /build/mummer-3.23+dfsg/debian/tmp/usr/bin/delta-filter; chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/delta-filter /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now show-aligns.cc tigrinc.o translate.o delta.o -o /build/mummer-3.23+dfsg/debian/tmp/usr/bin/show-aligns; chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/show-aligns /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now show-coords.cc tigrinc.o delta.o -o /build/mummer-3.23+dfsg/debian/tmp/usr/bin/show-coords; chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/show-coords /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now show-tiling.cc tigrinc.o delta.o -o /build/mummer-3.23+dfsg/debian/tmp/usr/bin/show-tiling; chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/show-tiling /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now show-snps.cc tigrinc.o translate.o delta.o -o /build/mummer-3.23+dfsg/debian/tmp/usr/bin/show-snps; chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/show-snps /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now show-diff.cc tigrinc.o delta.o -o /build/mummer-3.23+dfsg/debian/tmp/usr/bin/show-diff; chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/show-diff /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now delta2blocks.cc tigrinc.o translate.o delta.o -o /build/mummer-3.23+dfsg/debian/tmp/usr/bin/delta2blocks; chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/delta2blocks /usr/bin/g++ -g -O2 -fdebug-prefix-map=/build/mummer-3.23+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now delta2maf.cc tigrinc.o translate.o delta.o -o /build/mummer-3.23+dfsg/debian/tmp/usr/bin/delta2maf; chmod 755 /build/mummer-3.23+dfsg/debian/tmp/usr/bin/delta2maf show-coords.cc: In function 'void printBtab(std::vector)': show-coords.cc:799:12: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 799 | type = "NUCMER"; | ^~~~~~~~ show-coords.cc:801:12: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 801 | type = "PROMER"; | ^~~~~~~~ show-coords.cc:803:12: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 803 | type = "NULL"; | ^~~~~~ delta2blocks.cc: In function 'void printAlignments(std::vector, char*, char*, char*, char*)': delta2blocks.cc:408:23: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=] 408 | printf ("%s %s %d %d %d %d ",IdR,IdQ, Ap->sR,Ap->eR,Ap->sQ,Ap->eQ); | ~^ ~~~~~~ | | | | int long int | %ld delta2blocks.cc:408:26: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=] 408 | printf ("%s %s %d %d %d %d ",IdR,IdQ, Ap->sR,Ap->eR,Ap->sQ,Ap->eQ); | ~^ ~~~~~~ | | | | int long int | %ld delta2blocks.cc:408:29: warning: format '%d' expects argument of type 'int', but argument 6 has type 'long int' [-Wformat=] 408 | printf ("%s %s %d %d %d %d ",IdR,IdQ, Ap->sR,Ap->eR,Ap->sQ,Ap->eQ); | ~^ ~~~~~~ | | | | int long int | %ld delta2blocks.cc:408:32: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=] 408 | printf ("%s %s %d %d %d %d ",IdR,IdQ, Ap->sR,Ap->eR,Ap->sQ,Ap->eQ); | ~^ ~~~~~~ | | | | int long int | %ld delta2maf.cc: In function 'void printAlignments(std::vector, char*, char*, std::map, char*>&)': delta2maf.cc:547:24: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=] 547 | printf("a score=%d\n",abs(Ap->eR - Ap->sR)); | ~^ ~~~~~~~~~~~~~~~~~~~~ | | | | int long int | %ld delta2maf.cc:587:20: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=] 587 | printf("s %s %d %d %s %d ", IdQ, sQ-1, eQ-sQ+1, "-",SeqLenQ); | ~^ ~~~~ | | | | int long int | %ld delta2maf.cc:587:23: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=] 587 | printf("s %s %d %d %s %d ", IdQ, sQ-1, eQ-sQ+1, "-",SeqLenQ); | ~^ ~~~~~~~ | | | | int long int | %ld delta2maf.cc:587:29: warning: format '%d' expects argument of type 'int', but argument 6 has type 'long int' [-Wformat=] 587 | printf("s %s %d %d %s %d ", IdQ, sQ-1, eQ-sQ+1, "-",SeqLenQ); | ~^ ~~~~~~~ | | | | int long int | %ld delta2maf.cc:590:20: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=] 590 | printf("s %s %d %d %s %d ", IdQ, sQ-1, eQ-sQ+1, "+",SeqLenQ); | ~^ ~~~~ | | | | int long int | %ld delta2maf.cc:590:23: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=] 590 | printf("s %s %d %d %s %d ", IdQ, sQ-1, eQ-sQ+1, "+",SeqLenQ); | ~^ ~~~~~~~ | | | | int long int | %ld delta2maf.cc:590:29: warning: format '%d' expects argument of type 'int', but argument 6 has type 'long int' [-Wformat=] 590 | printf("s %s %d %d %s %d ", IdQ, sQ-1, eQ-sQ+1, "+",SeqLenQ); | ~^ ~~~~~~~ | | | | int long int | %ld delta2maf.cc:597:20: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=] 597 | printf("s %s %d %d %s %d ", IdR, sR-1, eR-sR+1, "-",SeqLenR); | ~^ ~~~~ | | | | int long int | %ld delta2maf.cc:597:23: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=] 597 | printf("s %s %d %d %s %d ", IdR, sR-1, eR-sR+1, "-",SeqLenR); | ~^ ~~~~~~~ | | | | int long int | %ld delta2maf.cc:597:29: warning: format '%d' expects argument of type 'int', but argument 6 has type 'long int' [-Wformat=] 597 | printf("s %s %d %d %s %d ", IdR, sR-1, eR-sR+1, "-",SeqLenR); | ~^ ~~~~~~~ | | | | int long int | %ld delta2maf.cc:600:20: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=] 600 | printf("s %s %d %d %s %d ", IdR, sR-1, eR-sR+1, "+",SeqLenR); | ~^ ~~~~ | | | | int long int | %ld delta2maf.cc:600:23: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=] 600 | printf("s %s %d %d %s %d ", IdR, sR-1, eR-sR+1, "+",SeqLenR); | ~^ ~~~~~~~ | | | | int long int | %ld delta2maf.cc:600:29: warning: format '%d' expects argument of type 'int', but argument 6 has type 'long int' [-Wformat=] 600 | printf("s %s %d %d %s %d ", IdR, sR-1, eR-sR+1, "+",SeqLenR); | ~^ ~~~~~~~ | | | | int long int | %ld delta2maf.cc:633:13: warning: format '%s' expects argument of type 'char*', but argument 2 has type 'char (*)[(Screen_Width + 1)]' [-Wformat=] 633 | printf("%s", &Buff2); | ~^ ~~~~~~ | | | | | char (*)[(Screen_Width + 1)] | char* delta2maf.cc:637:13: warning: format '%s' expects argument of type 'char*', but argument 2 has type 'char (*)[(Screen_Width + 1)]' [-Wformat=] 637 | printf("%s", &Buff1); | ~^ ~~~~~~ | | | | | char (*)[(Screen_Width + 1)] | char* delta2maf.cc:659:14: warning: format '%s' expects argument of type 'char*', but argument 2 has type 'char (*)[(Screen_Width + 1)]' [-Wformat=] 659 | printf("%s", &Buff2); | ~^ ~~~~~~ | | | | | char (*)[(Screen_Width + 1)] | char* delta2maf.cc:663:14: warning: format '%s' expects argument of type 'char*', but argument 2 has type 'char (*)[(Screen_Width + 1)]' [-Wformat=] 663 | printf("%s", &Buff1); | ~^ ~~~~~~ | | | | | char (*)[(Screen_Width + 1)] | char* delta2maf.cc:710:16: warning: format '%s' expects argument of type 'char*', but argument 2 has type 'char (*)[(Screen_Width + 1)]' [-Wformat=] 710 | printf("%s", &Buff2); | ~^ ~~~~~~ | | | | | char (*)[(Screen_Width + 1)] | char* delta2maf.cc:714:16: warning: format '%s' expects argument of type 'char*', but argument 2 has type 'char (*)[(Screen_Width + 1)]' [-Wformat=] 714 | printf("%s", &Buff1); | ~^ ~~~~~~ | | | | | char (*)[(Screen_Width + 1)] | char* delta2maf.cc:732:17: warning: format '%s' expects argument of type 'char*', but argument 2 has type 'char (*)[(Screen_Width + 1)]' [-Wformat=] 732 | printf("%s", &Buff2); | ~^ ~~~~~~ | | | | | char (*)[(Screen_Width + 1)] | char* delta2maf.cc:736:17: warning: format '%s' expects argument of type 'char*', but argument 2 has type 'char (*)[(Screen_Width + 1)]' [-Wformat=] 736 | printf("%s", &Buff1); | ~^ ~~~~~~ | | | | | char (*)[(Screen_Width + 1)] | char* make[3]: Leaving directory '/build/mummer-3.23+dfsg/src/tigr' make[2]: Leaving directory '/build/mummer-3.23+dfsg' /usr/bin/make -C docs make[2]: Entering directory '/build/mummer-3.23+dfsg/docs' pdflatex maxmat3man This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./maxmat3man.tex LaTeX2e <2020-10-01> patch level 4 L3 programming layer <2021-01-09> xparse <2020-03-03> (/usr/share/texlive/texmf-dist/tex/latex/base/article.cls Document Class: article 2020/04/10 v1.4m Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size12.clo)) (/usr/share/texlive/texmf-dist/tex/latex/ntgclass/a4.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/xspace.sty) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty) (./skaff.sty) (./optionman.sty) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ot1ptm.fd) (/usr/share/texlive/texmf-dist/tex/latex/l3backend/l3backend-pdftex.def) No file maxmat3man.aux. (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ot1pcr.fd) LaTeX Warning: Reference `SecBasicNotions' on page 1 undefined on input line 36 . Overfull \hbox (4.79204pt too wide) in paragraph at lines 60--61 \OT1/ptm/m/n/12 Compute \OT1/ptm/m/it/12 MUM\OT1/ptm/m/n/12 -candidates, i.e. m atches that are unique in the reference-sequence [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] LaTeX Warning: Reference `SecBasicNotions' on page 2 undefined on input line 10 4. [2] [3] Overfull \hbox (8.54073pt too wide) in paragraph at lines 225--225 []\OT1/pcr/m/n/10.95 # ........................................................ ......[] [4] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALL2_BOVIN|ALLERGEN 139 1 155 7[] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALG3_YEAST|PUTATIVE 425 2 904 7[] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALF_TRYBB|FRUCTOSE-BISPHOSPHATE 177 4 794 7[] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALGB_YEAST|ALG11 114 12 599 7[] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALR_SYNY3|ALANINE 354 33 261 7[] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALGB_PSEAE|ALGINATE 212 40 991 7[] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALGB_PSEAE|ALGINATE 314 41 093 7[] [5] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALGB_PSEAE|ALGINATE 360 41 138 7[] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALR_SYNY3|ALANINE 79 44 186 7[] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALP_CEPAC|ALKALINE 366 45 304 7[] [6] [7] (./maxmat3man.aux) LaTeX Warning: There were undefined references. LaTeX Warning: Label(s) may have changed. Rerun to get cross-references right. ) (see the transcript file for additional information){/usr/share/texlive/texmf-d ist/fonts/enc/dvips/base/8r.enc} Output written on maxmat3man.pdf (7 pages, 125882 bytes). Transcript written on maxmat3man.log. pdflatex maxmat3man This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./maxmat3man.tex LaTeX2e <2020-10-01> patch level 4 L3 programming layer <2021-01-09> xparse <2020-03-03> (/usr/share/texlive/texmf-dist/tex/latex/base/article.cls Document Class: article 2020/04/10 v1.4m Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size12.clo)) (/usr/share/texlive/texmf-dist/tex/latex/ntgclass/a4.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/xspace.sty) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty) (./skaff.sty) (./optionman.sty) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ot1ptm.fd) (/usr/share/texlive/texmf-dist/tex/latex/l3backend/l3backend-pdftex.def) (./maxmat3man.aux) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ot1pcr.fd) Overfull \hbox (4.79204pt too wide) in paragraph at lines 60--61 \OT1/ptm/m/n/12 Compute \OT1/ptm/m/it/12 MUM\OT1/ptm/m/n/12 -candidates, i.e. m atches that are unique in the reference-sequence [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [3] Overfull \hbox (8.54073pt too wide) in paragraph at lines 225--225 []\OT1/pcr/m/n/10.95 # ........................................................ ......[] [4] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALL2_BOVIN|ALLERGEN 139 1 155 7[] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALG3_YEAST|PUTATIVE 425 2 904 7[] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALF_TRYBB|FRUCTOSE-BISPHOSPHATE 177 4 794 7[] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALGB_YEAST|ALG11 114 12 599 7[] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALR_SYNY3|ALANINE 354 33 261 7[] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALGB_PSEAE|ALGINATE 212 40 991 7[] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALGB_PSEAE|ALGINATE 314 41 093 7[] [5] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALGB_PSEAE|ALGINATE 360 41 138 7[] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALR_SYNY3|ALANINE 79 44 186 7[] Overfull \hbox (15.11072pt too wide) in paragraph at lines 298--298 [] \OT1/pcr/m/n/10.95 sp|ALP_CEPAC|ALKALINE 366 45 304 7[] [6] [7] (./maxmat3man.aux) ) (see the transcript file for additional information){/usr/share/texlive/texmf-d ist/fonts/enc/dvips/base/8r.enc} Output written on maxmat3man.pdf (7 pages, 125212 bytes). Transcript written on maxmat3man.log. make[2]: Leaving directory '/build/mummer-3.23+dfsg/docs' make[1]: Leaving directory '/build/mummer-3.23+dfsg' dh_auto_test make -j8 check make[1]: Entering directory '/build/mummer-3.23+dfsg' check complete make[1]: Leaving directory '/build/mummer-3.23+dfsg' create-stamp debian/debhelper-build-stamp debian/rules override_dh_prep make[1]: Entering directory '/build/mummer-3.23+dfsg' dh_prep -X debian/tmp make[1]: Leaving directory '/build/mummer-3.23+dfsg' debian/rules override_dh_auto_install make[1]: Entering directory '/build/mummer-3.23+dfsg' mv /build/mummer-3.23+dfsg/debian/tmp/usr/bin/annotate /build/mummer-3.23+dfsg/debian/tmp/usr/bin/mummer-annotate make[1]: Leaving directory '/build/mummer-3.23+dfsg' 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/mummer-3.23+dfsg' dh_compress -Xpdf make[1]: Leaving directory '/build/mummer-3.23+dfsg' dh_fixperms dh_missing dh_dwz -a dwz: debian/mummer/usr/bin/mummer: DWARF compression not beneficial - old size 59801 new size 60295 dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'mummer-dbgsym' in '../mummer-dbgsym_3.23+dfsg-7_arm64.deb'. dpkg-deb: building package 'mummer' in '../mummer_3.23+dfsg-7_arm64.deb'. dpkg-deb: building package 'mummer-doc' in '../mummer-doc_3.23+dfsg-7_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../mummer_3.23+dfsg-7_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/9655/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/9655/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/9655 and its subdirectories I: Current time: Wed Oct 6 05:32:48 +14 2021 I: pbuilder-time-stamp: 1633447968