I: pbuilder: network access will be disabled during build I: Current time: Fri Dec 17 22:57:40 +14 2021 I: pbuilder-time-stamp: 1639731460 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-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 [unanimity_3.3.0+dfsg-2.1.dsc] I: copying [./unanimity_3.3.0+dfsg.orig.tar.xz] I: copying [./unanimity_3.3.0+dfsg-2.1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Wed Feb 6 21:18:37 2019 +14 gpgv: using RSA key 3AFA757FAC6EA11D2FF45DF088D24287A2D898B1 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./unanimity_3.3.0+dfsg-2.1.dsc dpkg-source: info: extracting unanimity in unanimity-3.3.0+dfsg dpkg-source: info: unpacking unanimity_3.3.0+dfsg.orig.tar.xz dpkg-source: info: unpacking unanimity_3.3.0+dfsg-2.1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying add_missing_library_files dpkg-source: info: applying git-version.patch dpkg-source: info: applying no-static-linking.patch dpkg-source: info: applying do_not_refer_to_non-existing_images.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3089728/tmp/hooks/D01_modify_environment starting debug: Running on ionos11-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/3089728/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/3089728/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]="0" [2]="3" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='5.0.3(1)-release' BUILDDIR=/build BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=15' DIRSTACK=() DISTRIBUTION= EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=c6cd1f5d882b4613a6ab846e0ab755c3 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=3089728 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.1O36T9Y4EX/pbuilderrc_KDeU --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.1O36T9Y4EX/b2 --logfile b2/build.log unanimity_3.3.0+dfsg-2.1.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://78.137.99.97:3128 I: uname -a Linux i-capture-the-hostname 5.10.0-9-amd64 #1 SMP Debian 5.10.70-1 (2021-09-30) x86_64 GNU/Linux I: ls -l /bin total 5116 -rwxr-xr-x 1 root root 1168776 Apr 18 2019 bash -rwxr-xr-x 3 root root 38984 Jul 11 2019 bunzip2 -rwxr-xr-x 3 root root 38984 Jul 11 2019 bzcat lrwxrwxrwx 1 root root 6 Jul 11 2019 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2227 Jul 11 2019 bzdiff lrwxrwxrwx 1 root root 6 Jul 11 2019 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Jun 25 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 11 2019 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3641 Jul 11 2019 bzgrep -rwxr-xr-x 3 root root 38984 Jul 11 2019 bzip2 -rwxr-xr-x 1 root root 14328 Jul 11 2019 bzip2recover lrwxrwxrwx 1 root root 6 Jul 11 2019 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 11 2019 bzmore -rwxr-xr-x 1 root root 43744 Mar 1 2019 cat -rwxr-xr-x 1 root root 64320 Mar 1 2019 chgrp -rwxr-xr-x 1 root root 64288 Mar 1 2019 chmod -rwxr-xr-x 1 root root 72512 Mar 1 2019 chown -rwxr-xr-x 1 root root 146880 Mar 1 2019 cp -rwxr-xr-x 1 root root 121464 Jan 18 2019 dash -rwxr-xr-x 1 root root 109408 Mar 1 2019 date -rwxr-xr-x 1 root root 76712 Mar 1 2019 dd -rwxr-xr-x 1 root root 93744 Mar 1 2019 df -rwxr-xr-x 1 root root 138856 Mar 1 2019 dir -rwxr-xr-x 1 root root 84288 Jan 10 2019 dmesg lrwxrwxrwx 1 root root 8 Sep 27 2018 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Sep 27 2018 domainname -> hostname -rwxr-xr-x 1 root root 39520 Mar 1 2019 echo -rwxr-xr-x 1 root root 28 Jan 8 2019 egrep -rwxr-xr-x 1 root root 35424 Mar 1 2019 false -rwxr-xr-x 1 root root 28 Jan 8 2019 fgrep -rwxr-xr-x 1 root root 68880 Jan 10 2019 findmnt -rwsr-xr-x 1 root root 34896 Apr 23 2020 fusermount -rwxr-xr-x 1 root root 198976 Jan 8 2019 grep -rwxr-xr-x 2 root root 2345 Jan 6 2019 gunzip -rwxr-xr-x 1 root root 6375 Jan 6 2019 gzexe -rwxr-xr-x 1 root root 98048 Jan 6 2019 gzip -rwxr-xr-x 1 root root 26696 Sep 27 2018 hostname -rwxr-xr-x 1 root root 68552 Mar 1 2019 ln -rwxr-xr-x 1 root root 56760 Jul 27 2018 login -rwxr-xr-x 1 root root 138856 Mar 1 2019 ls -rwxr-xr-x 1 root root 108624 Jan 10 2019 lsblk -rwxr-xr-x 1 root root 89088 Mar 1 2019 mkdir -rwxr-xr-x 1 root root 68544 Mar 1 2019 mknod -rwxr-xr-x 1 root root 43808 Mar 1 2019 mktemp -rwxr-xr-x 1 root root 43008 Jan 10 2019 more -rwsr-xr-x 1 root root 51280 Jan 10 2019 mount -rwxr-xr-x 1 root root 14408 Jan 10 2019 mountpoint -rwxr-xr-x 1 root root 138728 Mar 1 2019 mv lrwxrwxrwx 1 root root 8 Sep 27 2018 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Feb 15 2019 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 39616 Mar 1 2019 pwd lrwxrwxrwx 1 root root 4 Apr 18 2019 rbash -> bash -rwxr-xr-x 1 root root 47776 Mar 1 2019 readlink -rwxr-xr-x 1 root root 68416 Mar 1 2019 rm -rwxr-xr-x 1 root root 47776 Mar 1 2019 rmdir -rwxr-xr-x 1 root root 23312 Jan 22 2019 run-parts -rwxr-xr-x 1 root root 122224 Dec 23 2018 sed lrwxrwxrwx 1 root root 4 Dec 17 22:57 sh -> bash lrwxrwxrwx 1 root root 4 Nov 8 11:58 sh.distrib -> dash -rwxr-xr-x 1 root root 39552 Mar 1 2019 sleep -rwxr-xr-x 1 root root 80672 Mar 1 2019 stty -rwsr-xr-x 1 root root 63568 Jan 10 2019 su -rwxr-xr-x 1 root root 35488 Mar 1 2019 sync -rwxr-xr-x 1 root root 445560 Apr 24 2019 tar -rwxr-xr-x 1 root root 14440 Jan 22 2019 tempfile -rwxr-xr-x 1 root root 97152 Mar 1 2019 touch -rwxr-xr-x 1 root root 35424 Mar 1 2019 true -rwxr-xr-x 1 root root 14328 Apr 23 2020 ulockmgr_server -rwsr-xr-x 1 root root 34888 Jan 10 2019 umount -rwxr-xr-x 1 root root 39584 Mar 1 2019 uname -rwxr-xr-x 2 root root 2345 Jan 6 2019 uncompress -rwxr-xr-x 1 root root 138856 Mar 1 2019 vdir -rwxr-xr-x 1 root root 34896 Jan 10 2019 wdctl -rwxr-xr-x 1 root root 946 Jan 22 2019 which lrwxrwxrwx 1 root root 8 Sep 27 2018 ypdomainname -> hostname -rwxr-xr-x 1 root root 1983 Jan 6 2019 zcat -rwxr-xr-x 1 root root 1677 Jan 6 2019 zcmp -rwxr-xr-x 1 root root 5879 Jan 6 2019 zdiff -rwxr-xr-x 1 root root 29 Jan 6 2019 zegrep -rwxr-xr-x 1 root root 29 Jan 6 2019 zfgrep -rwxr-xr-x 1 root root 2080 Jan 6 2019 zforce -rwxr-xr-x 1 root root 7584 Jan 6 2019 zgrep -rwxr-xr-x 1 root root 2205 Jan 6 2019 zless -rwxr-xr-x 1 root root 1841 Jan 6 2019 zmore -rwxr-xr-x 1 root root 4552 Jan 6 2019 znew I: user script /srv/workspace/pbuilder/3089728/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 (>= 12~), dh-python, cmake, swig, python-setuptools, python-all-dev, python-numpy, libboost-dev, libhts-dev, libpbbam-dev (>= 0.18.0+dfsg-1~), libpbcopper-dev, libseqan2-dev, pandoc dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19195 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 (>= 12~); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on swig; however: Package swig is not installed. pbuilder-satisfydepends-dummy depends on python-setuptools; however: Package python-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python-all-dev; however: Package python-all-dev is not installed. pbuilder-satisfydepends-dummy depends on python-numpy; however: Package python-numpy is not installed. pbuilder-satisfydepends-dummy depends on libboost-dev; however: Package libboost-dev is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-dev is not installed. pbuilder-satisfydepends-dummy depends on libpbbam-dev (>= 0.18.0+dfsg-1~); however: Package libpbbam-dev is not installed. pbuilder-satisfydepends-dummy depends on libpbcopper-dev; however: Package libpbcopper-dev is not installed. pbuilder-satisfydepends-dummy depends on libseqan2-dev; however: Package libseqan2-dev is not installed. pbuilder-satisfydepends-dummy depends on pandoc; however: Package pandoc 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} bsdmainutils{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-python{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} libblas3{a} libboost-dev{a} libboost1.67-dev{a} libbsd0{a} libcroco3{a} libcurl3-gnutls{a} libcurl4{a} libdeflate0{a} libelf1{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libglib2.0-0{a} libgssapi-krb5-2{a} libhts-dev{a} libhts2{a} libicu63{a} libjsoncpp1{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} libldap-2.4-2{a} libldap-common{a} liblua5.1-0{a} liblzma-dev{a} libmagic-mgc{a} libmagic1{a} libmpdec2{a} libncurses6{a} libnghttp2-14{a} libpbbam-dev{a} libpbbam0.19.0{a} libpbcopper-dev{a} libpipeline1{a} libprocps7{a} libpsl5{a} libpython-all-dev{a} libpython-dev{a} libpython-stdlib{a} libpython2-dev{a} libpython2-stdlib{a} libpython2.7{a} libpython2.7-dev{a} libpython2.7-minimal{a} libpython2.7-stdlib{a} libpython3-stdlib{a} libpython3.7-minimal{a} libpython3.7-stdlib{a} libreadline7{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libseqan2-dev{a} libsigsegv2{a} libssh2-1{a} libssl-dev{a} libssl1.1{a} libtool{a} libuchardet0{a} libuv1{a} libxml2{a} libyaml-0-2{a} lsb-base{a} m4{a} man-db{a} mime-support{a} pandoc{a} pandoc-data{a} po-debconf{a} procps{a} python{a} python-all{a} python-all-dev{a} python-dev{a} python-minimal{a} python-numpy{a} python-pkg-resources{a} python-setuptools{a} python2{a} python2-dev{a} python2-minimal{a} python2.7{a} python2.7-dev{a} python2.7-minimal{a} python3{a} python3-distutils{a} python3-lib2to3{a} python3-minimal{a} python3.7{a} python3.7-minimal{a} readline-common{a} sensible-utils{a} swig{a} swig3.0{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libglib2.0-data libgpm2 libltdl-dev libmail-sendmail-perl libsasl2-modules lynx psmisc publicsuffix shared-mime-info wget xdg-user-dirs 0 packages upgraded, 118 newly installed, 0 to remove and 0 not upgraded. Need to get 111 MB of archives. After unpacking 521 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main amd64 libbsd0 amd64 0.9.1-2+deb10u1 [99.5 kB] Get: 2 http://deb.debian.org/debian buster/main amd64 bsdmainutils amd64 11.1.2+b1 [191 kB] Get: 3 http://deb.debian.org/debian buster/main amd64 libuchardet0 amd64 0.0.6-3 [64.9 kB] Get: 4 http://deb.debian.org/debian buster/main amd64 groff-base amd64 1.22.4-3+deb10u1 [916 kB] Get: 5 http://deb.debian.org/debian buster/main amd64 libpipeline1 amd64 1.5.1-2 [31.2 kB] Get: 6 http://deb.debian.org/debian buster/main amd64 man-db amd64 2.8.5-2 [1274 kB] Get: 7 http://deb.debian.org/debian buster/main amd64 libpython2.7-minimal amd64 2.7.16-2+deb10u1 [395 kB] Get: 8 http://deb.debian.org/debian buster/main amd64 python2.7-minimal amd64 2.7.16-2+deb10u1 [1369 kB] Get: 9 http://deb.debian.org/debian buster/main amd64 python2-minimal amd64 2.7.16-1 [41.4 kB] Get: 10 http://deb.debian.org/debian buster/main amd64 python-minimal amd64 2.7.16-1 [21.0 kB] Get: 11 http://deb.debian.org/debian buster/main amd64 libssl1.1 amd64 1.1.1d-0+deb10u7 [1539 kB] Get: 12 http://deb.debian.org/debian buster/main amd64 mime-support all 3.62 [37.2 kB] Get: 13 http://deb.debian.org/debian buster/main amd64 libexpat1 amd64 2.2.6-2+deb10u1 [106 kB] Get: 14 http://deb.debian.org/debian buster/main amd64 readline-common all 7.0-5 [70.6 kB] Get: 15 http://deb.debian.org/debian buster/main amd64 libreadline7 amd64 7.0-5 [151 kB] Get: 16 http://deb.debian.org/debian buster/main amd64 libpython2.7-stdlib amd64 2.7.16-2+deb10u1 [1912 kB] Get: 17 http://deb.debian.org/debian buster/main amd64 python2.7 amd64 2.7.16-2+deb10u1 [305 kB] Get: 18 http://deb.debian.org/debian buster/main amd64 libpython2-stdlib amd64 2.7.16-1 [20.8 kB] Get: 19 http://deb.debian.org/debian buster/main amd64 libpython-stdlib amd64 2.7.16-1 [20.8 kB] Get: 20 http://deb.debian.org/debian buster/main amd64 python2 amd64 2.7.16-1 [41.6 kB] Get: 21 http://deb.debian.org/debian buster/main amd64 python amd64 2.7.16-1 [22.8 kB] Get: 22 http://deb.debian.org/debian buster/main amd64 libpython3.7-minimal amd64 3.7.3-2+deb10u3 [589 kB] Get: 23 http://deb.debian.org/debian buster/main amd64 python3.7-minimal amd64 3.7.3-2+deb10u3 [1737 kB] Get: 24 http://deb.debian.org/debian buster/main amd64 python3-minimal amd64 3.7.3-1 [36.6 kB] Get: 25 http://deb.debian.org/debian buster/main amd64 libmpdec2 amd64 2.4.2-2 [87.2 kB] Get: 26 http://deb.debian.org/debian buster/main amd64 libpython3.7-stdlib amd64 3.7.3-2+deb10u3 [1734 kB] Get: 27 http://deb.debian.org/debian buster/main amd64 python3.7 amd64 3.7.3-2+deb10u3 [330 kB] Get: 28 http://deb.debian.org/debian buster/main amd64 libpython3-stdlib amd64 3.7.3-1 [20.0 kB] Get: 29 http://deb.debian.org/debian buster/main amd64 python3 amd64 3.7.3-1 [61.5 kB] Get: 30 http://deb.debian.org/debian buster/main amd64 libncurses6 amd64 6.1+20181013-2+deb10u2 [102 kB] Get: 31 http://deb.debian.org/debian buster/main amd64 libprocps7 amd64 2:3.3.15-2 [61.7 kB] Get: 32 http://deb.debian.org/debian buster/main amd64 lsb-base all 10.2019051400 [28.4 kB] Get: 33 http://deb.debian.org/debian buster/main amd64 procps amd64 2:3.3.15-2 [259 kB] Get: 34 http://deb.debian.org/debian buster/main amd64 sensible-utils all 0.0.12 [15.8 kB] Get: 35 http://deb.debian.org/debian buster/main amd64 libmagic-mgc amd64 1:5.35-4+deb10u2 [242 kB] Get: 36 http://deb.debian.org/debian buster/main amd64 libmagic1 amd64 1:5.35-4+deb10u2 [118 kB] Get: 37 http://deb.debian.org/debian buster/main amd64 file amd64 1:5.35-4+deb10u2 [66.4 kB] Get: 38 http://deb.debian.org/debian buster/main amd64 gettext-base amd64 0.19.8.1-9 [123 kB] Get: 39 http://deb.debian.org/debian buster/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get: 40 http://deb.debian.org/debian buster/main amd64 m4 amd64 1.4.18-2 [203 kB] Get: 41 http://deb.debian.org/debian buster/main amd64 autoconf all 2.69-11 [341 kB] Get: 42 http://deb.debian.org/debian buster/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get: 43 http://deb.debian.org/debian buster/main amd64 automake all 1:1.16.1-4 [771 kB] Get: 44 http://deb.debian.org/debian buster/main amd64 autopoint all 0.19.8.1-9 [434 kB] Get: 45 http://deb.debian.org/debian buster/main amd64 cmake-data all 3.13.4-1 [1476 kB] Get: 46 http://deb.debian.org/debian buster/main amd64 libicu63 amd64 63.1-6+deb10u1 [8300 kB] Get: 47 http://deb.debian.org/debian buster/main amd64 libxml2 amd64 2.9.4+dfsg1-7+deb10u2 [689 kB] Get: 48 http://deb.debian.org/debian buster/main amd64 libarchive13 amd64 3.3.3-4+deb10u1 [313 kB] Get: 49 http://deb.debian.org/debian buster/main amd64 libkeyutils1 amd64 1.6-6 [15.0 kB] Get: 50 http://deb.debian.org/debian buster/main amd64 libkrb5support0 amd64 1.17-3+deb10u3 [65.8 kB] Get: 51 http://deb.debian.org/debian buster/main amd64 libk5crypto3 amd64 1.17-3+deb10u3 [122 kB] Get: 52 http://deb.debian.org/debian buster/main amd64 libkrb5-3 amd64 1.17-3+deb10u3 [370 kB] Get: 53 http://deb.debian.org/debian buster/main amd64 libgssapi-krb5-2 amd64 1.17-3+deb10u3 [158 kB] Get: 54 http://deb.debian.org/debian buster/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-1+deb10u1 [69.1 kB] Get: 55 http://deb.debian.org/debian buster/main amd64 libsasl2-2 amd64 2.1.27+dfsg-1+deb10u1 [106 kB] Get: 56 http://deb.debian.org/debian buster/main amd64 libldap-common all 2.4.47+dfsg-3+deb10u6 [90.0 kB] Get: 57 http://deb.debian.org/debian buster/main amd64 libldap-2.4-2 amd64 2.4.47+dfsg-3+deb10u6 [224 kB] Get: 58 http://deb.debian.org/debian buster/main amd64 libnghttp2-14 amd64 1.36.0-2+deb10u1 [85.0 kB] Get: 59 http://deb.debian.org/debian buster/main amd64 libpsl5 amd64 0.20.2-2 [53.7 kB] Get: 60 http://deb.debian.org/debian buster/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2 [60.5 kB] Get: 61 http://deb.debian.org/debian buster/main amd64 libssh2-1 amd64 1.8.0-2.1 [140 kB] Get: 62 http://deb.debian.org/debian buster/main amd64 libcurl4 amd64 7.64.0-4+deb10u2 [332 kB] Get: 63 http://deb.debian.org/debian buster/main amd64 libjsoncpp1 amd64 1.7.4-3 [75.6 kB] Get: 64 http://deb.debian.org/debian buster/main amd64 librhash0 amd64 1.3.8-1 [122 kB] Get: 65 http://deb.debian.org/debian buster/main amd64 libuv1 amd64 1.24.1-1+deb10u1 [110 kB] Get: 66 http://deb.debian.org/debian buster/main amd64 cmake amd64 3.13.4-1 [3480 kB] Get: 67 http://deb.debian.org/debian buster/main amd64 libtool all 2.4.6-9 [547 kB] Get: 68 http://deb.debian.org/debian buster/main amd64 dh-autoreconf all 19 [16.9 kB] Get: 69 http://deb.debian.org/debian buster/main amd64 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 70 http://deb.debian.org/debian buster/main amd64 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 71 http://deb.debian.org/debian buster/main amd64 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 72 http://deb.debian.org/debian buster/main amd64 libelf1 amd64 0.176-1.1 [161 kB] Get: 73 http://deb.debian.org/debian buster/main amd64 dwz amd64 0.12-3 [78.0 kB] Get: 74 http://deb.debian.org/debian buster/main amd64 libglib2.0-0 amd64 2.58.3-2+deb10u3 [1259 kB] Get: 75 http://deb.debian.org/debian buster/main amd64 libcroco3 amd64 0.6.12-3 [145 kB] Get: 76 http://deb.debian.org/debian buster/main amd64 gettext amd64 0.19.8.1-9 [1303 kB] Get: 77 http://deb.debian.org/debian buster/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 78 http://deb.debian.org/debian buster/main amd64 po-debconf all 1.0.21 [248 kB] Get: 79 http://deb.debian.org/debian buster/main amd64 debhelper all 12.1.1 [1016 kB] Get: 80 http://deb.debian.org/debian buster/main amd64 python3-lib2to3 all 3.7.3-1 [76.7 kB] Get: 81 http://deb.debian.org/debian buster/main amd64 python3-distutils all 3.7.3-1 [142 kB] Get: 82 http://deb.debian.org/debian buster/main amd64 dh-python all 3.20190308 [99.3 kB] Get: 83 http://deb.debian.org/debian buster/main amd64 libgfortran5 amd64 8.3.0-6 [581 kB] Get: 84 http://deb.debian.org/debian buster/main amd64 libblas3 amd64 3.8.0-2 [148 kB] Get: 85 http://deb.debian.org/debian buster/main amd64 libboost1.67-dev amd64 1.67.0-13+deb10u1 [8388 kB] Get: 86 http://deb.debian.org/debian buster/main amd64 libboost-dev amd64 1.67.0.1 [3864 B] Get: 87 http://deb.debian.org/debian buster/main amd64 libcurl3-gnutls amd64 7.64.0-4+deb10u2 [330 kB] Get: 88 http://deb.debian.org/debian buster/main amd64 libdeflate0 amd64 1.2-1 [55.4 kB] Get: 89 http://deb.debian.org/debian buster/main amd64 libexpat1-dev amd64 2.2.6-2+deb10u1 [153 kB] Get: 90 http://deb.debian.org/debian buster/main amd64 libhts2 amd64 1.9-12~deb10u1 [305 kB] Get: 91 http://deb.debian.org/debian buster/main amd64 liblzma-dev amd64 5.2.4-1 [210 kB] Get: 92 http://deb.debian.org/debian buster/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-1 [214 kB] Get: 93 http://deb.debian.org/debian buster/main amd64 libhts-dev amd64 1.9-12~deb10u1 [4347 kB] Get: 94 http://deb.debian.org/debian buster/main amd64 liblapack3 amd64 3.8.0-2 [2110 kB] Get: 95 http://deb.debian.org/debian buster/main amd64 liblua5.1-0 amd64 5.1.5-8.1+b2 [111 kB] Get: 96 http://deb.debian.org/debian buster/main amd64 libpbbam0.19.0 amd64 0.19.0+dfsg-4 [551 kB] Get: 97 http://deb.debian.org/debian buster/main amd64 libssl-dev amd64 1.1.1d-0+deb10u7 [1795 kB] Get: 98 http://deb.debian.org/debian buster/main amd64 libpbbam-dev amd64 0.19.0+dfsg-4 [93.3 kB] Get: 99 http://deb.debian.org/debian buster/main amd64 libpbcopper-dev amd64 0.4.1+dfsg-2 [299 kB] Get: 100 http://deb.debian.org/debian buster/main amd64 libpython2.7 amd64 2.7.16-2+deb10u1 [1036 kB] Get: 101 http://deb.debian.org/debian buster/main amd64 libpython2.7-dev amd64 2.7.16-2+deb10u1 [31.6 MB] Get: 102 http://deb.debian.org/debian buster/main amd64 libpython2-dev amd64 2.7.16-1 [20.9 kB] Get: 103 http://deb.debian.org/debian buster/main amd64 libpython-dev amd64 2.7.16-1 [20.9 kB] Get: 104 http://deb.debian.org/debian buster/main amd64 libpython-all-dev amd64 2.7.16-1 [1064 B] Get: 105 http://deb.debian.org/debian buster/main amd64 libseqan2-dev all 2.4.0+dfsg-11 [1220 kB] Get: 106 http://deb.debian.org/debian buster/main amd64 libyaml-0-2 amd64 0.2.1-1 [47.2 kB] Get: 107 http://deb.debian.org/debian buster/main amd64 pandoc-data all 2.2.1-3 [329 kB] Get: 108 http://deb.debian.org/debian buster/main amd64 pandoc amd64 2.2.1-3+b2 [14.7 MB] Get: 109 http://deb.debian.org/debian buster/main amd64 python-all amd64 2.7.16-1 [1044 B] Get: 110 http://deb.debian.org/debian buster/main amd64 python2.7-dev amd64 2.7.16-2+deb10u1 [294 kB] Get: 111 http://deb.debian.org/debian buster/main amd64 python2-dev amd64 2.7.16-1 [1212 B] Get: 112 http://deb.debian.org/debian buster/main amd64 python-dev amd64 2.7.16-1 [1192 B] Get: 113 http://deb.debian.org/debian buster/main amd64 python-all-dev amd64 2.7.16-1 [1068 B] Get: 114 http://deb.debian.org/debian buster/main amd64 python-pkg-resources all 40.8.0-1 [182 kB] Get: 115 http://deb.debian.org/debian buster/main amd64 python-numpy amd64 1:1.16.2-1 [2101 kB] Get: 116 http://deb.debian.org/debian buster/main amd64 python-setuptools all 40.8.0-1 [382 kB] Get: 117 http://deb.debian.org/debian buster/main amd64 swig3.0 amd64 3.0.12-2 [1397 kB] Get: 118 http://deb.debian.org/debian buster/main amd64 swig amd64 3.0.12-2 [310 kB] Fetched 111 MB in 3s (33.5 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:amd64. (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 ... 19195 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-2+deb10u1_amd64.deb ... Unpacking libbsd0:amd64 (0.9.1-2+deb10u1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_amd64.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../02-libuchardet0_0.0.6-3_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../03-groff-base_1.22.4-3+deb10u1_amd64.deb ... Unpacking groff-base (1.22.4-3+deb10u1) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../04-libpipeline1_1.5.1-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../05-man-db_2.8.5-2_amd64.deb ... Unpacking man-db (2.8.5-2) ... Selecting previously unselected package libpython2.7-minimal:amd64. Preparing to unpack .../06-libpython2.7-minimal_2.7.16-2+deb10u1_amd64.deb ... Unpacking libpython2.7-minimal:amd64 (2.7.16-2+deb10u1) ... Selecting previously unselected package python2.7-minimal. Preparing to unpack .../07-python2.7-minimal_2.7.16-2+deb10u1_amd64.deb ... Unpacking python2.7-minimal (2.7.16-2+deb10u1) ... Selecting previously unselected package python2-minimal. Preparing to unpack .../08-python2-minimal_2.7.16-1_amd64.deb ... Unpacking python2-minimal (2.7.16-1) ... Selecting previously unselected package python-minimal. Preparing to unpack .../09-python-minimal_2.7.16-1_amd64.deb ... Unpacking python-minimal (2.7.16-1) ... Selecting previously unselected package libssl1.1:amd64. Preparing to unpack .../10-libssl1.1_1.1.1d-0+deb10u7_amd64.deb ... Unpacking libssl1.1:amd64 (1.1.1d-0+deb10u7) ... Selecting previously unselected package mime-support. Preparing to unpack .../11-mime-support_3.62_all.deb ... Unpacking mime-support (3.62) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../12-libexpat1_2.2.6-2+deb10u1_amd64.deb ... Unpacking libexpat1:amd64 (2.2.6-2+deb10u1) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_7.0-5_all.deb ... Unpacking readline-common (7.0-5) ... Selecting previously unselected package libreadline7:amd64. Preparing to unpack .../14-libreadline7_7.0-5_amd64.deb ... Unpacking libreadline7:amd64 (7.0-5) ... Selecting previously unselected package libpython2.7-stdlib:amd64. Preparing to unpack .../15-libpython2.7-stdlib_2.7.16-2+deb10u1_amd64.deb ... Unpacking libpython2.7-stdlib:amd64 (2.7.16-2+deb10u1) ... Selecting previously unselected package python2.7. Preparing to unpack .../16-python2.7_2.7.16-2+deb10u1_amd64.deb ... Unpacking python2.7 (2.7.16-2+deb10u1) ... Selecting previously unselected package libpython2-stdlib:amd64. Preparing to unpack .../17-libpython2-stdlib_2.7.16-1_amd64.deb ... Unpacking libpython2-stdlib:amd64 (2.7.16-1) ... Selecting previously unselected package libpython-stdlib:amd64. Preparing to unpack .../18-libpython-stdlib_2.7.16-1_amd64.deb ... Unpacking libpython-stdlib:amd64 (2.7.16-1) ... Setting up libpython2.7-minimal:amd64 (2.7.16-2+deb10u1) ... Setting up python2.7-minimal (2.7.16-2+deb10u1) ... Setting up python2-minimal (2.7.16-1) ... Selecting previously unselected package python2. (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 ... 20658 files and directories currently installed.) Preparing to unpack .../python2_2.7.16-1_amd64.deb ... Unpacking python2 (2.7.16-1) ... Setting up python-minimal (2.7.16-1) ... Selecting previously unselected package python. (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 ... 20691 files and directories currently installed.) Preparing to unpack .../python_2.7.16-1_amd64.deb ... Unpacking python (2.7.16-1) ... Selecting previously unselected package libpython3.7-minimal:amd64. Preparing to unpack .../libpython3.7-minimal_3.7.3-2+deb10u3_amd64.deb ... Unpacking libpython3.7-minimal:amd64 (3.7.3-2+deb10u3) ... Selecting previously unselected package python3.7-minimal. Preparing to unpack .../python3.7-minimal_3.7.3-2+deb10u3_amd64.deb ... Unpacking python3.7-minimal (3.7.3-2+deb10u3) ... Setting up libssl1.1:amd64 (1.1.1d-0+deb10u7) ... Setting up libpython3.7-minimal:amd64 (3.7.3-2+deb10u3) ... Setting up libexpat1:amd64 (2.2.6-2+deb10u1) ... Setting up python3.7-minimal (3.7.3-2+deb10u3) ... Selecting previously unselected package python3-minimal. (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 ... 20945 files and directories currently installed.) Preparing to unpack .../python3-minimal_3.7.3-1_amd64.deb ... Unpacking python3-minimal (3.7.3-1) ... Selecting previously unselected package libmpdec2:amd64. Preparing to unpack .../libmpdec2_2.4.2-2_amd64.deb ... Unpacking libmpdec2:amd64 (2.4.2-2) ... Selecting previously unselected package libpython3.7-stdlib:amd64. Preparing to unpack .../libpython3.7-stdlib_3.7.3-2+deb10u3_amd64.deb ... Unpacking libpython3.7-stdlib:amd64 (3.7.3-2+deb10u3) ... Selecting previously unselected package python3.7. Preparing to unpack .../python3.7_3.7.3-2+deb10u3_amd64.deb ... Unpacking python3.7 (3.7.3-2+deb10u3) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../libpython3-stdlib_3.7.3-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.7.3-1) ... Setting up python3-minimal (3.7.3-1) ... Selecting previously unselected package python3. (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 ... 21357 files and directories currently installed.) Preparing to unpack .../00-python3_3.7.3-1_amd64.deb ... Unpacking python3 (3.7.3-1) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../01-libncurses6_6.1+20181013-2+deb10u2_amd64.deb ... Unpacking libncurses6:amd64 (6.1+20181013-2+deb10u2) ... Selecting previously unselected package libprocps7:amd64. Preparing to unpack .../02-libprocps7_2%3a3.3.15-2_amd64.deb ... Unpacking libprocps7:amd64 (2:3.3.15-2) ... Selecting previously unselected package lsb-base. Preparing to unpack .../03-lsb-base_10.2019051400_all.deb ... Unpacking lsb-base (10.2019051400) ... Selecting previously unselected package procps. Preparing to unpack .../04-procps_2%3a3.3.15-2_amd64.deb ... Unpacking procps (2:3.3.15-2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../05-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../06-libmagic-mgc_1%3a5.35-4+deb10u2_amd64.deb ... Unpacking libmagic-mgc (1:5.35-4+deb10u2) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../07-libmagic1_1%3a5.35-4+deb10u2_amd64.deb ... Unpacking libmagic1:amd64 (1:5.35-4+deb10u2) ... Selecting previously unselected package file. Preparing to unpack .../08-file_1%3a5.35-4+deb10u2_amd64.deb ... Unpacking file (1:5.35-4+deb10u2) ... Selecting previously unselected package gettext-base. Preparing to unpack .../09-gettext-base_0.19.8.1-9_amd64.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../10-libsigsegv2_2.12-2_amd64.deb ... Unpacking libsigsegv2:amd64 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../11-m4_1.4.18-2_amd64.deb ... Unpacking m4 (1.4.18-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../12-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../13-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../14-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../15-autopoint_0.19.8.1-9_all.deb ... Unpacking autopoint (0.19.8.1-9) ... Selecting previously unselected package cmake-data. Preparing to unpack .../16-cmake-data_3.13.4-1_all.deb ... Unpacking cmake-data (3.13.4-1) ... Selecting previously unselected package libicu63:amd64. Preparing to unpack .../17-libicu63_63.1-6+deb10u1_amd64.deb ... Unpacking libicu63:amd64 (63.1-6+deb10u1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../18-libxml2_2.9.4+dfsg1-7+deb10u2_amd64.deb ... Unpacking libxml2:amd64 (2.9.4+dfsg1-7+deb10u2) ... Selecting previously unselected package libarchive13:amd64. Preparing to unpack .../19-libarchive13_3.3.3-4+deb10u1_amd64.deb ... Unpacking libarchive13:amd64 (3.3.3-4+deb10u1) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../20-libkeyutils1_1.6-6_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6-6) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../21-libkrb5support0_1.17-3+deb10u3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.17-3+deb10u3) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../22-libk5crypto3_1.17-3+deb10u3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.17-3+deb10u3) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../23-libkrb5-3_1.17-3+deb10u3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.17-3+deb10u3) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../24-libgssapi-krb5-2_1.17-3+deb10u3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.17-3+deb10u3) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../25-libsasl2-modules-db_2.1.27+dfsg-1+deb10u1_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.27+dfsg-1+deb10u1) ... Selecting previously unselected package libsasl2-2:amd64. 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Setting up swig3.0 (3.0.12-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Setting up libncurses6:amd64 (6.1+20181013-2+deb10u2) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up libssl-dev:amd64 (1.1.1d-0+deb10u7) ... Setting up autopoint (0.19.8.1-9) ... Setting up libpbcopper-dev (0.4.1+dfsg-2) ... Setting up libk5crypto3:amd64 (1.17-3+deb10u3) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-1+deb10u1) ... Setting up libgfortran5:amd64 (8.3.0-6) ... Setting up liblzma-dev:amd64 (5.2.4-1) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-1) ... Setting up sensible-utils (0.0.12) ... Setting up librhash0:amd64 (1.3.8-1) ... Setting up libuchardet0:amd64 (0.0.6-3) ... Setting up procps (2:3.3.15-2) ... update-alternatives: using /usr/bin/w.procps to provide /usr/bin/w (w) in auto mode Setting up liblua5.1-0:amd64 (5.1.5-8.1+b2) ... Setting up libssh2-1:amd64 (1.8.0-2.1) ... Setting up cmake-data (3.13.4-1) ... Setting up libkrb5-3:amd64 (1.17-3+deb10u3) ... Setting up libboost-dev:amd64 (1.67.0.1) ... Setting up libmpdec2:amd64 (2.4.2-2) ... Setting up pandoc-data (2.2.1-3) ... Setting up libbsd0:amd64 (0.9.1-2+deb10u1) ... Setting up libelf1:amd64 (0.176-1.1) ... Setting up readline-common (7.0-5) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7+deb10u2) ... Setting up libjsoncpp1:amd64 (1.7.4-3) ... Setting up libreadline7:amd64 (7.0-5) ... Setting up libfile-stripnondeterminism-perl (1.1.2-1) ... Setting up libpython3.7-stdlib:amd64 (3.7.3-2+deb10u3) ... Setting up swig (3.0.12-2) ... Setting up libtool (2.4.6-9) ... Setting up libarchive13:amd64 (3.3.3-4+deb10u1) ... Setting up libldap-2.4-2:amd64 (2.4.47+dfsg-3+deb10u6) ... Setting up m4 (1.4.18-2) ... Setting up libpython2.7-stdlib:amd64 (2.7.16-2+deb10u1) ... Setting up libblas3:amd64 (3.8.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up pandoc (2.2.1-3+b2) ... Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libgssapi-krb5-2:amd64 (1.17-3+deb10u3) ... Setting up libcroco3:amd64 (0.6.12-3) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.12-3) ... Setting up groff-base (1.22.4-3+deb10u1) ... Setting up libcurl4:amd64 (7.64.0-4+deb10u2) ... Setting up libpython3-stdlib:amd64 (3.7.3-1) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up python3.7 (3.7.3-2+deb10u3) ... Setting up libpython2.7:amd64 (2.7.16-2+deb10u1) ... Setting up liblapack3:amd64 (3.8.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libpython2.7-dev:amd64 (2.7.16-2+deb10u1) ... Setting up gettext (0.19.8.1-9) ... Setting up python2.7 (2.7.16-2+deb10u1) ... Setting up libpython2-stdlib:amd64 (2.7.16-1) ... Setting up libcurl3-gnutls:amd64 (7.64.0-4+deb10u2) ... Setting up python3 (3.7.3-1) ... Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up python2 (2.7.16-1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libpython-stdlib:amd64 (2.7.16-1) ... Setting up cmake (3.13.4-1) ... Setting up libpython2-dev:amd64 (2.7.16-1) ... Setting up python3-lib2to3 (3.7.3-1) ... Setting up python (2.7.16-1) ... Setting up python2.7-dev (2.7.16-2+deb10u1) ... Setting up python3-distutils (3.7.3-1) ... Setting up dh-python (3.20190308) ... Setting up python2-dev (2.7.16-1) ... Setting up libhts2:amd64 (1.9-12~deb10u1) ... Setting up python-pkg-resources (40.8.0-1) ... Setting up po-debconf (1.0.21) ... Setting up libhts-dev:amd64 (1.9-12~deb10u1) ... Setting up python-all (2.7.16-1) ... Setting up libpython-dev:amd64 (2.7.16-1) ... Setting up python-setuptools (40.8.0-1) ... Setting up libpbbam0.19.0:amd64 (0.19.0+dfsg-4) ... Setting up libpbbam-dev (0.19.0+dfsg-4) ... Setting up python-dev (2.7.16-1) ... Setting up libpython-all-dev:amd64 (2.7.16-1) ... Setting up python-numpy (1:1.16.2-1) ... Setting up python-all-dev (2.7.16-1) ... Setting up debhelper (12.1.1) ... Setting up dh-autoreconf (19) ... Setting up dh-strip-nondeterminism (1.1.2-1) ... Processing triggers for libc-bin (2.28-10) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package hostname: Name or service not known I: Running cd /build/unanimity-3.3.0+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 > ../unanimity_3.3.0+dfsg-2.1_source.changes dpkg-buildpackage: info: source package unanimity dpkg-buildpackage: info: source version 3.3.0+dfsg-2.1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Adrian Bunk dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean \ --package=unanimity \ --no-package=python-consensuscore2 \ --buildsystem=cmake \ --builddirectory=build debian/rules override_dh_auto_clean make[1]: Entering directory '/build/unanimity-3.3.0+dfsg' dh_auto_clean rm -f config-main rm -f doc/JULIET.html doc/PBCCS.html make[1]: Leaving directory '/build/unanimity-3.3.0+dfsg' dh_autoreconf_clean -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_clean -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh clean \ --package=python-consensuscore2 \ --no-package=unanimity \ --with python2 \ --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/unanimity-3.3.0+dfsg' dh_auto_clean I: pybuild base:217: python2.7 setup.py clean running clean removing '/build/unanimity-3.3.0+dfsg/.pybuild/cpython2_2.7_consensuscore2/build' (and everything under it) 'build/bdist.linux-amd64' does not exist -- can't clean it 'build/scripts-2.7' does not exist -- can't clean it rm -f config-main rm -f doc/JULIET.html doc/PBCCS.html make[1]: Leaving directory '/build/unanimity-3.3.0+dfsg' dh_autoreconf_clean -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_clean -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild debian/rules build dh build \ --package=unanimity \ --no-package=python-consensuscore2 \ --buildsystem=cmake \ --builddirectory=build dh_update_autotools_config -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_autoreconf -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build debian/rules override_dh_auto_configure make[1]: Entering directory '/build/unanimity-3.3.0+dfsg' dh_auto_configure -- \ -DCMAKE_EXE_LINKER_FLAGS=-pthread \ -DUNY_build_tests=OFF \ -DPYTHON_SWIG=ON \ -DZLIB_INCLUDE_DIRS=/usr/include \ -DBoost_INCLUDE_DIRS=/usr/include \ -DPacBioBAM_INCLUDE_DIRS=/usr/include \ -DPacBioBAM_LIBRARIES=/usr/lib/x86_64-linux-gnu/libpbbam.so \ -DSEQAN_INCLUDE_DIRS=/usr/include \ -Dpbcopper_INCLUDE_DIRS=/usr/include \ -Dpbcopper_LIBRARIES=/usr/lib/x86_64-linux-gnu/libpbcopper.a cd build && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DCMAKE_EXE_LINKER_FLAGS=-pthread -DUNY_build_tests=OFF -DPYTHON_SWIG=ON -DZLIB_INCLUDE_DIRS=/usr/include -DBoost_INCLUDE_DIRS=/usr/include -DPacBioBAM_INCLUDE_DIRS=/usr/include -DPacBioBAM_LIBRARIES=/usr/lib/x86_64-linux-gnu/libpbbam.so -DSEQAN_INCLUDE_DIRS=/usr/include -Dpbcopper_INCLUDE_DIRS=/usr/include -Dpbcopper_LIBRARIES=/usr/lib/x86_64-linux-gnu/libpbcopper.a .. -- The CXX compiler identification is GNU 8.3.0 -- The C compiler identification is GNU 8.3.0 -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Performing Test HAS_NO_UNUSED_LOCAL_TYPEDEFS -- Performing Test HAS_NO_UNUSED_LOCAL_TYPEDEFS - Success -- Found PythonInterp: /usr/bin/python (found version "2.7.16") -- 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 ZLIB_INCLUDE_DIRS -- Build files have been written to: /build/unanimity-3.3.0+dfsg/build touch config-main make[1]: Leaving directory '/build/unanimity-3.3.0+dfsg' dh_auto_build -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build cd build && make -j15 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/unanimity-3.3.0+dfsg/build' /usr/bin/cmake -S/build/unanimity-3.3.0+dfsg -B/build/unanimity-3.3.0+dfsg/build --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/unanimity-3.3.0+dfsg/build/CMakeFiles /build/unanimity-3.3.0+dfsg/build/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/unanimity-3.3.0+dfsg/build' make -f src/CMakeFiles/unanimity.dir/build.make src/CMakeFiles/unanimity.dir/depend make -f src/CMakeFiles/cc2.dir/build.make src/CMakeFiles/cc2.dir/depend make[3]: Entering directory '/build/unanimity-3.3.0+dfsg/build' cd /build/unanimity-3.3.0+dfsg/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/unanimity-3.3.0+dfsg /build/unanimity-3.3.0+dfsg/src /build/unanimity-3.3.0+dfsg/build /build/unanimity-3.3.0+dfsg/build/src /build/unanimity-3.3.0+dfsg/build/src/CMakeFiles/unanimity.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/unanimity-3.3.0+dfsg/build' cd /build/unanimity-3.3.0+dfsg/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/unanimity-3.3.0+dfsg /build/unanimity-3.3.0+dfsg/src /build/unanimity-3.3.0+dfsg/build /build/unanimity-3.3.0+dfsg/build/src /build/unanimity-3.3.0+dfsg/build/src/CMakeFiles/cc2.dir/DependInfo.cmake --color= Scanning dependencies of target unanimity make[3]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make -f src/CMakeFiles/unanimity.dir/build.make src/CMakeFiles/unanimity.dir/build make[3]: Entering directory '/build/unanimity-3.3.0+dfsg/build' Scanning dependencies of target cc2 make[3]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make -f src/CMakeFiles/cc2.dir/build.make src/CMakeFiles/cc2.dir/build [ 1%] Building CXX object src/CMakeFiles/unanimity.dir/genomicconsensus/experimental/ConsensusModelFactory.cpp.o [ 2%] Building CXX object src/CMakeFiles/unanimity.dir/genomicconsensus/experimental/Consensus.cpp.o [ 3%] Building CXX object src/CMakeFiles/unanimity.dir/genomicconsensus/experimental/Filters.cpp.o [ 4%] Building CXX object src/CMakeFiles/unanimity.dir/genomicconsensus/experimental/Input.cpp.o [ 6%] Building CXX object src/CMakeFiles/unanimity.dir/genomicconsensus/experimental/GenomicConsensus.cpp.o make[3]: Entering directory '/build/unanimity-3.3.0+dfsg/build' [ 7%] Building CXX object src/CMakeFiles/unanimity.dir/genomicconsensus/experimental/IPoaModel.cpp.o [ 8%] Building CXX object src/CMakeFiles/unanimity.dir/genomicconsensus/experimental/Intervals.cpp.o [ 9%] Building CXX object src/CMakeFiles/unanimity.dir/genomicconsensus/experimental/Output.cpp.o [ 11%] Building CXX object src/CMakeFiles/unanimity.dir/genomicconsensus/experimental/Settings.cpp.o cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -std=c++14 -o CMakeFiles/unanimity.dir/genomicconsensus/experimental/Consensus.cpp.o -c /build/unanimity-3.3.0+dfsg/src/genomicconsensus/experimental/Consensus.cpp cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -std=c++14 -o CMakeFiles/unanimity.dir/genomicconsensus/experimental/ConsensusModelFactory.cpp.o -c /build/unanimity-3.3.0+dfsg/src/genomicconsensus/experimental/ConsensusModelFactory.cpp [ 12%] Building CXX object src/CMakeFiles/unanimity.dir/genomicconsensus/experimental/Sorting.cpp.o cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -std=c++14 -o CMakeFiles/unanimity.dir/genomicconsensus/experimental/Filters.cpp.o -c /build/unanimity-3.3.0+dfsg/src/genomicconsensus/experimental/Filters.cpp cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -std=c++14 -o CMakeFiles/unanimity.dir/genomicconsensus/experimental/GenomicConsensus.cpp.o -c /build/unanimity-3.3.0+dfsg/src/genomicconsensus/experimental/GenomicConsensus.cpp [ 13%] Building CXX object src/CMakeFiles/cc2.dir/__/generated/UnanimityGitHash.cpp.o [ 14%] Building CXX object src/CMakeFiles/cc2.dir/__/generated/UnanimityVersion.cpp.o cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -std=c++14 -o CMakeFiles/unanimity.dir/genomicconsensus/experimental/IPoaModel.cpp.o -c /build/unanimity-3.3.0+dfsg/src/genomicconsensus/experimental/IPoaModel.cpp cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -fPIC -std=c++14 -o CMakeFiles/cc2.dir/__/generated/UnanimityGitHash.cpp.o -c /build/unanimity-3.3.0+dfsg/build/generated/UnanimityGitHash.cpp [ 16%] Building CXX object src/CMakeFiles/cc2.dir/align/AffineAlignment.cpp.o [ 17%] Building CXX object src/CMakeFiles/cc2.dir/__/generated/ModelInternalInitializer.cpp.o cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -fPIC -std=c++14 -o CMakeFiles/cc2.dir/__/generated/UnanimityVersion.cpp.o -c /build/unanimity-3.3.0+dfsg/build/generated/UnanimityVersion.cpp cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -std=c++14 -o CMakeFiles/unanimity.dir/genomicconsensus/experimental/Input.cpp.o -c /build/unanimity-3.3.0+dfsg/src/genomicconsensus/experimental/Input.cpp [ 18%] Building CXX object src/CMakeFiles/unanimity.dir/genomicconsensus/experimental/Workflow.cpp.o cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -fPIC -std=c++14 -o CMakeFiles/cc2.dir/__/generated/ModelInternalInitializer.cpp.o -c /build/unanimity-3.3.0+dfsg/build/generated/ModelInternalInitializer.cpp cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -fPIC -std=c++14 -o CMakeFiles/cc2.dir/align/AffineAlignment.cpp.o -c /build/unanimity-3.3.0+dfsg/src/align/AffineAlignment.cpp cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -std=c++14 -o CMakeFiles/unanimity.dir/genomicconsensus/experimental/Intervals.cpp.o -c /build/unanimity-3.3.0+dfsg/src/genomicconsensus/experimental/Intervals.cpp cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -std=c++14 -o CMakeFiles/unanimity.dir/genomicconsensus/experimental/Output.cpp.o -c /build/unanimity-3.3.0+dfsg/src/genomicconsensus/experimental/Output.cpp cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -std=c++14 -o CMakeFiles/unanimity.dir/genomicconsensus/experimental/Settings.cpp.o -c /build/unanimity-3.3.0+dfsg/src/genomicconsensus/experimental/Settings.cpp cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -std=c++14 -o CMakeFiles/unanimity.dir/genomicconsensus/experimental/Sorting.cpp.o -c /build/unanimity-3.3.0+dfsg/src/genomicconsensus/experimental/Sorting.cpp cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -std=c++14 -o 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-I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -fPIC -std=c++14 -o CMakeFiles/cc2.dir/align/BandedChainAlignment.cpp.o -c /build/unanimity-3.3.0+dfsg/src/align/BandedChainAlignment.cpp [ 22%] Building CXX object src/CMakeFiles/cc2.dir/align/LinearAlignment.cpp.o cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -fPIC -std=c++14 -o CMakeFiles/cc2.dir/align/LinearAlignment.cpp.o -c 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-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -fPIC -std=c++14 -o CMakeFiles/cc2.dir/matrix/BasicDenseMatrix.cpp.o -c /build/unanimity-3.3.0+dfsg/src/matrix/BasicDenseMatrix.cpp [ 25%] Building CXX object src/CMakeFiles/cc2.dir/matrix/ScaledMatrix.cpp.o cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -fPIC -std=c++14 -o CMakeFiles/cc2.dir/matrix/ScaledMatrix.cpp.o -c /build/unanimity-3.3.0+dfsg/src/matrix/ScaledMatrix.cpp [ 27%] Building CXX object src/CMakeFiles/cc2.dir/matrix/SparseMatrix.cpp.o cd 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CMakeFiles/unanimity.dir/genomicconsensus/experimental/io/FastqWriter.cpp.o -c /build/unanimity-3.3.0+dfsg/src/genomicconsensus/experimental/io/FastqWriter.cpp [ 37%] Building CXX object src/CMakeFiles/unanimity.dir/genomicconsensus/experimental/io/GffWriter.cpp.o cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -std=c++14 -o CMakeFiles/unanimity.dir/genomicconsensus/experimental/io/GffWriter.cpp.o -c /build/unanimity-3.3.0+dfsg/src/genomicconsensus/experimental/io/GffWriter.cpp [ 38%] Building CXX object src/CMakeFiles/unanimity.dir/genomicconsensus/experimental/io/VcfWriter.cpp.o cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ 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-O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -std=c++14 -o CMakeFiles/unanimity.dir/genomicconsensus/experimental/poa/PoaModel.cpp.o -c /build/unanimity-3.3.0+dfsg/src/genomicconsensus/experimental/poa/PoaModel.cpp [ 46%] Building CXX object src/CMakeFiles/unanimity.dir/ChemistryMapping.cpp.o cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -std=c++14 -o CMakeFiles/unanimity.dir/ChemistryMapping.cpp.o -c /build/unanimity-3.3.0+dfsg/src/ChemistryMapping.cpp [ 48%] Building CXX object src/CMakeFiles/unanimity.dir/ChemistryTriple.cpp.o cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -std=c++14 -o CMakeFiles/unanimity.dir/ChemistryTriple.cpp.o -c /build/unanimity-3.3.0+dfsg/src/ChemistryTriple.cpp [ 49%] Building CXX object src/CMakeFiles/unanimity.dir/Interval.cpp.o cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra 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src/CMakeFiles/unanimity.dir/Timer.cpp.o cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -std=c++14 -o CMakeFiles/unanimity.dir/Timer.cpp.o -c /build/unanimity-3.3.0+dfsg/src/Timer.cpp [ 55%] Building CXX object src/CMakeFiles/unanimity.dir/Utility.cpp.o cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable 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src/CMakeFiles/cc2.dir/poa/PoaConsensus.cpp.o cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -fPIC -std=c++14 -o CMakeFiles/cc2.dir/poa/PoaConsensus.cpp.o -c /build/unanimity-3.3.0+dfsg/src/poa/PoaConsensus.cpp [ 61%] Building CXX object src/CMakeFiles/cc2.dir/poa/PoaGraph.cpp.o cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter 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CMakeFiles/cc2.dir/ModelFormFactory.cpp.o CMakeFiles/cc2.dir/ModelSelection.cpp.o CMakeFiles/cc2.dir/Mutation.cpp.o CMakeFiles/cc2.dir/Polish.cpp.o CMakeFiles/cc2.dir/PolishResult.cpp.o CMakeFiles/cc2.dir/Read.cpp.o CMakeFiles/cc2.dir/Recursor.cpp.o CMakeFiles/cc2.dir/Sequence.cpp.o CMakeFiles/cc2.dir/Template.cpp.o /usr/bin/ranlib libcc2.a make[3]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' [ 88%] Built target cc2 make -f src/CMakeFiles/ccs.dir/build.make src/CMakeFiles/ccs.dir/depend make[3]: Entering directory '/build/unanimity-3.3.0+dfsg/build' cd /build/unanimity-3.3.0+dfsg/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/unanimity-3.3.0+dfsg /build/unanimity-3.3.0+dfsg/src /build/unanimity-3.3.0+dfsg/build /build/unanimity-3.3.0+dfsg/build/src /build/unanimity-3.3.0+dfsg/build/src/CMakeFiles/ccs.dir/DependInfo.cmake --color= make -f src/CMakeFiles/arrow.dir/build.make src/CMakeFiles/arrow.dir/depend make[3]: Entering directory '/build/unanimity-3.3.0+dfsg/build' cd /build/unanimity-3.3.0+dfsg/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/unanimity-3.3.0+dfsg /build/unanimity-3.3.0+dfsg/src /build/unanimity-3.3.0+dfsg/build /build/unanimity-3.3.0+dfsg/build/src /build/unanimity-3.3.0+dfsg/build/src/CMakeFiles/arrow.dir/DependInfo.cmake --color= make -f src/CMakeFiles/gcpp.dir/build.make src/CMakeFiles/gcpp.dir/depend make[3]: Entering directory '/build/unanimity-3.3.0+dfsg/build' cd /build/unanimity-3.3.0+dfsg/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/unanimity-3.3.0+dfsg /build/unanimity-3.3.0+dfsg/src /build/unanimity-3.3.0+dfsg/build /build/unanimity-3.3.0+dfsg/build/src /build/unanimity-3.3.0+dfsg/build/src/CMakeFiles/gcpp.dir/DependInfo.cmake --color= make -f swig/CMakeFiles/_ConsensusCore2.dir/build.make swig/CMakeFiles/_ConsensusCore2.dir/depend make[3]: Entering directory '/build/unanimity-3.3.0+dfsg/build' Scanning dependencies of target arrow Scanning dependencies of target ccs make[3]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make -f src/CMakeFiles/ccs.dir/build.make src/CMakeFiles/ccs.dir/build make[3]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make[3]: Entering directory '/build/unanimity-3.3.0+dfsg/build' make -f src/CMakeFiles/arrow.dir/build.make src/CMakeFiles/arrow.dir/build [ 90%] Generating ConsensusCore2_wrap.cxx cd /build/unanimity-3.3.0+dfsg/build/swig && swig -Wextra -c++ -python -builtin -module ConsensusCore2 -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -o /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx -outdir /build/unanimity-3.3.0+dfsg/build/swig/lib /build/unanimity-3.3.0+dfsg/swig/ConsensusCore2.i Scanning dependencies of target gcpp make[3]: Entering directory '/build/unanimity-3.3.0+dfsg/build' make[3]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make -f src/CMakeFiles/gcpp.dir/build.make src/CMakeFiles/gcpp.dir/build 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-Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -fPIC -std=c++14 -o CMakeFiles/arrow.dir/main/arrow.cpp.o -c /build/unanimity-3.3.0+dfsg/src/main/arrow.cpp [ 93%] Building CXX object src/CMakeFiles/gcpp.dir/main/gcpp.cpp.o cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/c++ -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -fPIC -std=c++14 -o CMakeFiles/gcpp.dir/main/gcpp.cpp.o -c /build/unanimity-3.3.0+dfsg/src/main/gcpp.cpp cd /build/unanimity-3.3.0+dfsg/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/unanimity-3.3.0+dfsg /build/unanimity-3.3.0+dfsg/swig /build/unanimity-3.3.0+dfsg/build /build/unanimity-3.3.0+dfsg/build/swig /build/unanimity-3.3.0+dfsg/build/swig/CMakeFiles/_ConsensusCore2.dir/DependInfo.cmake --color= Scanning dependencies of target _ConsensusCore2 make[3]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make -f swig/CMakeFiles/_ConsensusCore2.dir/build.make swig/CMakeFiles/_ConsensusCore2.dir/build make[3]: Entering directory '/build/unanimity-3.3.0+dfsg/build' [ 95%] Building CXX object swig/CMakeFiles/_ConsensusCore2.dir/ConsensusCore2_wrap.cxx.o cd /build/unanimity-3.3.0+dfsg/build/swig && /usr/bin/c++ -D_ConsensusCore2_EXPORTS -I/build/unanimity-3.3.0+dfsg/include -I/build/unanimity-3.3.0+dfsg/build/generated -I/build/unanimity-3.3.0+dfsg/src -isystem /usr/include/python2.7 -isystem /usr/lib/python2.7/dist-packages/numpy/core/include -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -fPIC -fPIC -std=c++14 -o CMakeFiles/_ConsensusCore2.dir/ConsensusCore2_wrap.cxx.o -c /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx [ 96%] Linking CXX executable ../gcpp cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/gcpp.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -pthread -rdynamic CMakeFiles/gcpp.dir/main/gcpp.cpp.o -o ../gcpp -ldl libunanimity.a libcc2.a -lpbbam -Wl,-Bstatic -lpbcopper -Wl,-Bdynamic /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx: In function ‘PyObject* _wrap_delete_Mutation(PyObject*, PyObject*)’: /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:32863:14: warning: deleting object of polymorphic class type ‘PacBio::Consensus::Mutation’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] delete arg1; ^~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx: In function ‘PyObject* _wrap_delete_ScoredMutation(PyObject*, PyObject*)’: /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:33290:14: warning: deleting object of polymorphic class type ‘PacBio::Consensus::ScoredMutation’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] delete arg1; ^~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx: At global scope: /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:47796:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_DoublePair, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:48022:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_IntPair, /* tp_init */ ^~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:48248:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_LengthPair, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:48492:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_StringSet, /* tp_init */ ^~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:48743:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_DoubleVector, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:48994:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_IntPairVector, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:49245:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_IntVector, /* tp_init */ ^~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:49496:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_StringVector, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:49747:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_Uint8Vector, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:49998:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_DoubleVectorVector, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:50225:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_NCBI2na, /* tp_init */ ^~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:50456:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_NCBI4na, /* tp_init */ ^~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:50707:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_StateVector, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:50940:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_AlignParams, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:51167:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_AlignConfig, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:51403:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_PairwiseAlignment, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:51638:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_AffineAlignmentParams, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:52107:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_Mutation, /* tp_init */ ^~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:52338:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_ScoredMutation, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:52588:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_MutationVector, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:52838:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_ScoredMutationVector,/* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:53075:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_DiploidSite, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:53316:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_PolishResult, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:53548:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_PolishConfig, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:53777:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_RepeatConfig, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:54009:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_QualityValues, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:54249:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_SNR, /* tp_init */ ^~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:54488:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_Read, /* tp_init */ ^~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:54723:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_MappedRead, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:54962:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_Evaluator, /* tp_init */ ^~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:55183:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_EasyReadScorer, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:55409:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_IntegratorConfig, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:55651:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_Integrator, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:56105:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_PoaGraph, /* tp_init */ ^~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:56337:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_PoaConsensus, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx: In instantiation of ‘SwigValueWrapper::SwigMovePointer::~SwigMovePointer() [with T = PacBio::Consensus::Mutation]’: /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:22:28: required from here /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:26:26: warning: deleting object of polymorphic class type ‘PacBio::Consensus::Mutation’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] ~SwigMovePointer() { delete ptr; } ^~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx: In instantiation of ‘SwigValueWrapper::SwigMovePointer::~SwigMovePointer() [with T = PacBio::Consensus::ScoredMutation]’: /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:22:28: required from here /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:26:26: warning: deleting object of polymorphic class type ‘PacBio::Consensus::ScoredMutation’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx: In instantiation of ‘SwigValueWrapper::SwigMovePointer& SwigValueWrapper::SwigMovePointer::operator=(SwigValueWrapper::SwigMovePointer&) [with T = PacBio::Consensus::Mutation]’: /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:33:84: required from ‘SwigValueWrapper& SwigValueWrapper::operator=(const T&) [with T = PacBio::Consensus::Mutation]’ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:31962:63: required from here /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:27:82: warning: deleting object of polymorphic class type ‘PacBio::Consensus::Mutation’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] SwigMovePointer& operator=(SwigMovePointer& rhs) { T* oldptr = ptr; ptr = 0; delete oldptr; ptr = rhs.ptr; rhs.ptr = 0; return *this; } ^~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx: In instantiation of ‘SwigValueWrapper::SwigMovePointer& SwigValueWrapper::SwigMovePointer::operator=(SwigValueWrapper::SwigMovePointer&) [with T = PacBio::Consensus::ScoredMutation]’: /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:33:84: required from ‘SwigValueWrapper& SwigValueWrapper::operator=(const T&) [with T = PacBio::Consensus::ScoredMutation]’ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:32689:75: required from here /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:27:82: warning: deleting object of polymorphic class type ‘PacBio::Consensus::ScoredMutation’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx: In instantiation of ‘static Type swig::traits_as::as(PyObject*) [with Type = PacBio::Consensus::Mutation; PyObject = _object]’: /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:4722:64: required from ‘Type swig::as(PyObject*) [with Type = PacBio::Consensus::Mutation; PyObject = _object]’ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:5591:20: required from ‘swig::SwigPySequence_Ref::operator T() const [with T = PacBio::Consensus::Mutation]’ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:6050:30: required from ‘void swig::assign(const SwigPySeq&, Seq*) [with SwigPySeq = swig::SwigPySequence_Cont; Seq = std::vector]’ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:6072:12: required from ‘static int swig::traits_asptr_stdseq::asptr(PyObject*, swig::traits_asptr_stdseq::sequence**) [with Seq = std::vector; T = PacBio::Consensus::Mutation; PyObject = _object; swig::traits_asptr_stdseq::sequence = std::vector]’ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:6201:52: required from ‘static int swig::traits_asptr >::asptr(PyObject*, std::vector**) [with T = PacBio::Consensus::Mutation; PyObject = _object]’ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:4619:37: required from ‘int swig::asptr(PyObject*, Type**) [with Type = std::vector; PyObject = _object]’ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:33623:34: required from here /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:4690:4: warning: deleting object of polymorphic class type ‘PacBio::Consensus::Mutation’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] delete v; ^~~~~~ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx: In instantiation of ‘static Type swig::traits_as::as(PyObject*) [with Type = PacBio::Consensus::ScoredMutation; PyObject = _object]’: /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:4722:64: required from ‘Type swig::as(PyObject*) [with Type = PacBio::Consensus::ScoredMutation; PyObject = _object]’ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:5591:20: required from ‘swig::SwigPySequence_Ref::operator T() const [with T = PacBio::Consensus::ScoredMutation]’ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:6050:30: required from ‘void swig::assign(const SwigPySeq&, Seq*) [with SwigPySeq = swig::SwigPySequence_Cont; Seq = std::vector >]’ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:6072:12: required from ‘static int swig::traits_asptr_stdseq::asptr(PyObject*, swig::traits_asptr_stdseq::sequence**) [with Seq = std::vector >; T = PacBio::Consensus::ScoredMutation; PyObject = _object; swig::traits_asptr_stdseq::sequence = std::vector >]’ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:6201:52: required from ‘static int swig::traits_asptr >::asptr(PyObject*, std::vector**) [with T = PacBio::Consensus::ScoredMutation; PyObject = _object]’ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:4619:37: required from ‘int swig::asptr(PyObject*, Type**) [with Type = std::vector >; PyObject = _object]’ /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:35777:34: required from here /build/unanimity-3.3.0+dfsg/build/swig/ConsensusCore2_wrap.cxx:4690:4: warning: deleting object of polymorphic class type ‘PacBio::Consensus::ScoredMutation’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] make[3]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' [ 96%] Built target gcpp [ 97%] Linking CXX executable ../arrow cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/arrow.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -pthread -rdynamic CMakeFiles/arrow.dir/main/arrow.cpp.o -o ../arrow -ldl libunanimity.a libcc2.a -lpbbam -Wl,-Bstatic -lpbcopper -Wl,-Bdynamic make[3]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' [ 97%] Built target arrow [ 98%] Linking CXX executable ../ccs cd /build/unanimity-3.3.0+dfsg/build/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ccs.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -pthread -rdynamic CMakeFiles/ccs.dir/main/ccs.cpp.o -o ../ccs -ldl libunanimity.a libcc2.a -lpbbam -Wl,-Bstatic -lpbcopper -Wl,-Bdynamic make[3]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' [ 98%] Built target ccs [100%] Linking CXX shared module lib/_ConsensusCore2.so cd /build/unanimity-3.3.0+dfsg/build/swig && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ConsensusCore2.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/unanimity-3.3.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-unused-variable -Wno-unused-local-typedefs -Wl,-z,relro -Wl,-z,now -shared -o lib/_ConsensusCore2.so CMakeFiles/_ConsensusCore2.dir/ConsensusCore2_wrap.cxx.o ../src/libcc2.a -Wl,-Bstatic -lpbcopper -Wl,-Bdynamic make[3]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' [100%] Built target _ConsensusCore2 make[2]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' /usr/bin/cmake -E cmake_progress_start /build/unanimity-3.3.0+dfsg/build/CMakeFiles 0 make[1]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' dh_auto_test -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build create-stamp debian/debhelper-build-stamp dh build \ --package=python-consensuscore2 \ --no-package=unanimity \ --with python2 \ --buildsystem=pybuild dh_update_autotools_config -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_autoreconf -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild debian/rules override_dh_auto_configure make[1]: Entering directory '/build/unanimity-3.3.0+dfsg' make[1]: 'override_dh_auto_configure' is up to date. make[1]: Leaving directory '/build/unanimity-3.3.0+dfsg' dh_auto_build -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild I: pybuild base:217: /usr/bin/python setup.py build running build running build_py copying swig/ConsensusCore2.py -> /build/unanimity-3.3.0+dfsg/.pybuild/cpython2_2.7_consensuscore2/build running build_ext Configuring with command `cmake -Dpbcopper_LIBRARIES=/usr/lib/x86_64-linux-gnu/libpbcopper.a -DPYTHON_EXECUTABLE=/usr/bin/python -DUNY_build_tests=0 -DCMAKE_BUILD_TYPE=RelWithDebInfo -Dpbcopper_INCLUDE_DIRS=/usr/include -DUNY_build_bin=0 -DPYTHON_SWIG=1 /build/unanimity-3.3.0+dfsg` -- The CXX compiler identification is GNU 8.3.0 -- The C compiler identification is GNU 8.3.0 -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Boost version: 1.67.0 -- Performing Test HAS_NO_UNUSED_LOCAL_TYPEDEFS -- Performing Test HAS_NO_UNUSED_LOCAL_TYPEDEFS - Success -- Configuring done -- Generating done -- Build files have been written to: /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7 Building with command `make _ConsensusCore2` make[1]: Entering directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[2]: Entering directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[3]: Entering directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' Scanning dependencies of target cc2 make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' [ 2%] Building CXX object src/CMakeFiles/cc2.dir/__/generated/UnanimityGitHash.cpp.o [ 4%] Building CXX object src/CMakeFiles/cc2.dir/__/generated/UnanimityVersion.cpp.o [ 6%] Building CXX object src/CMakeFiles/cc2.dir/__/generated/ModelInternalInitializer.cpp.o [ 8%] Building CXX object src/CMakeFiles/cc2.dir/align/AffineAlignment.cpp.o [ 10%] Building CXX object src/CMakeFiles/cc2.dir/align/AlignConfig.cpp.o [ 12%] Building CXX object src/CMakeFiles/cc2.dir/align/BandedChainAlignment.cpp.o [ 14%] Building CXX object src/CMakeFiles/cc2.dir/align/LinearAlignment.cpp.o [ 17%] Building CXX object src/CMakeFiles/cc2.dir/align/PairwiseAlignment.cpp.o [ 19%] Building CXX object src/CMakeFiles/cc2.dir/matrix/BasicDenseMatrix.cpp.o [ 21%] Building CXX object src/CMakeFiles/cc2.dir/matrix/ScaledMatrix.cpp.o [ 23%] Building CXX object src/CMakeFiles/cc2.dir/matrix/SparseMatrix.cpp.o [ 25%] Building CXX object src/CMakeFiles/cc2.dir/models/MarginalModelForm.cpp.o [ 27%] Building CXX object src/CMakeFiles/cc2.dir/models/P6C4NoCov_Model.cpp.o [ 29%] Building CXX object src/CMakeFiles/cc2.dir/models/PwSnrAModelForm.cpp.o [ 31%] Building CXX object src/CMakeFiles/cc2.dir/models/PwSnrModelForm.cpp.o [ 34%] Building CXX object src/CMakeFiles/cc2.dir/models/S_P1C1Beta_Model.cpp.o [ 36%] Building CXX object src/CMakeFiles/cc2.dir/models/S_P1C1v1_Model.cpp.o [ 38%] Building CXX object src/CMakeFiles/cc2.dir/models/S_P1C1v2_Model.cpp.o [ 40%] Building CXX object src/CMakeFiles/cc2.dir/models/S_P2C2v5_Model.cpp.o [ 42%] Building CXX object src/CMakeFiles/cc2.dir/models/SnrModelForm.cpp.o [ 44%] Building CXX object src/CMakeFiles/cc2.dir/poa/PoaAlignmentMatrix.cpp.o [ 46%] Building CXX object src/CMakeFiles/cc2.dir/poa/PoaConsensus.cpp.o [ 48%] Building CXX object src/CMakeFiles/cc2.dir/poa/PoaGraph.cpp.o [ 51%] Building CXX object src/CMakeFiles/cc2.dir/poa/PoaGraphImpl.cpp.o [ 53%] Building CXX object src/CMakeFiles/cc2.dir/poa/PoaGraphTraversals.cpp.o [ 55%] Building CXX object src/CMakeFiles/cc2.dir/poa/RangeFinder.cpp.o [ 57%] Building CXX object src/CMakeFiles/cc2.dir/Coverage.cpp.o [ 59%] Building CXX object src/CMakeFiles/cc2.dir/EasyReadScorer.cpp.o [ 61%] Building CXX object src/CMakeFiles/cc2.dir/Evaluator.cpp.o [ 63%] Building CXX object src/CMakeFiles/cc2.dir/EvaluatorImpl.cpp.o [ 65%] Building CXX object src/CMakeFiles/cc2.dir/Integrator.cpp.o [ 68%] Building CXX object src/CMakeFiles/cc2.dir/IntervalMask.cpp.o [ 70%] Building CXX object src/CMakeFiles/cc2.dir/ModelConfig.cpp.o [ 72%] Building CXX object src/CMakeFiles/cc2.dir/ModelFactory.cpp.o [ 74%] Building CXX object src/CMakeFiles/cc2.dir/ModelFormFactory.cpp.o [ 76%] Building CXX object src/CMakeFiles/cc2.dir/ModelSelection.cpp.o [ 78%] Building CXX object src/CMakeFiles/cc2.dir/Mutation.cpp.o [ 80%] Building CXX object src/CMakeFiles/cc2.dir/Polish.cpp.o [ 82%] Building CXX object src/CMakeFiles/cc2.dir/PolishResult.cpp.o [ 85%] Building CXX object src/CMakeFiles/cc2.dir/Read.cpp.o [ 87%] Building CXX object src/CMakeFiles/cc2.dir/Recursor.cpp.o [ 89%] Building CXX object src/CMakeFiles/cc2.dir/Sequence.cpp.o [ 91%] Building CXX object src/CMakeFiles/cc2.dir/Template.cpp.o [ 93%] Linking CXX static library libcc2.a make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' [ 93%] Built target cc2 make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' [ 95%] Generating ConsensusCore2_wrap.cxx Scanning dependencies of target _ConsensusCore2 make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' [ 97%] Building CXX object swig/CMakeFiles/_ConsensusCore2.dir/ConsensusCore2_wrap.cxx.o /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx: In function ‘PyObject* _wrap_delete_Mutation(PyObject*, PyObject*)’: /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:32863:14: warning: deleting object of polymorphic class type ‘PacBio::Consensus::Mutation’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] delete arg1; ^~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx: In function ‘PyObject* _wrap_delete_ScoredMutation(PyObject*, PyObject*)’: /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:33290:14: warning: deleting object of polymorphic class type ‘PacBio::Consensus::ScoredMutation’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] delete arg1; ^~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx: At global scope: /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:47796:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_DoublePair, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:48022:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_IntPair, /* tp_init */ ^~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:48248:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_LengthPair, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:48492:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_StringSet, /* tp_init */ ^~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:48743:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_DoubleVector, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:48994:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_IntPairVector, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:49245:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_IntVector, /* tp_init */ ^~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:49496:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_StringVector, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:49747:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_Uint8Vector, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:49998:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_DoubleVectorVector, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:50225:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_NCBI2na, /* tp_init */ ^~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:50456:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_NCBI4na, /* tp_init */ ^~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:50707:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_StateVector, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:50940:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_AlignParams, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:51167:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_AlignConfig, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:51403:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_PairwiseAlignment, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:51638:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_AffineAlignmentParams, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:52107:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_Mutation, /* tp_init */ ^~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:52338:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_ScoredMutation, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:52588:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_MutationVector, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:52838:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_ScoredMutationVector,/* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:53075:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_DiploidSite, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:53316:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_PolishResult, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:53548:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_PolishConfig, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:53777:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_RepeatConfig, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:54009:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_QualityValues, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:54249:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_SNR, /* tp_init */ ^~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:54488:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_Read, /* tp_init */ ^~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:54723:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_MappedRead, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:54962:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_Evaluator, /* tp_init */ ^~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:55183:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_EasyReadScorer, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:55409:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_IntegratorConfig, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:55651:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_Integrator, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:56105:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_PoaGraph, /* tp_init */ ^~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:56337:16: warning: cast between incompatible function types from ‘int (*)(PyObject*, PyObject*)’ {aka ‘int (*)(_object*, _object*)’} to ‘initproc’ {aka ‘int (*)(_object*, _object*, _object*)’} [-Wcast-function-type] (initproc) _wrap_new_PoaConsensus, /* tp_init */ ^~~~~~~~~~~~~~~~~~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx: In instantiation of ‘SwigValueWrapper::SwigMovePointer::~SwigMovePointer() [with T = PacBio::Consensus::Mutation]’: /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:22:28: required from here /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:26:26: warning: deleting object of polymorphic class type ‘PacBio::Consensus::Mutation’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] ~SwigMovePointer() { delete ptr; } ^~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx: In instantiation of ‘SwigValueWrapper::SwigMovePointer::~SwigMovePointer() [with T = PacBio::Consensus::ScoredMutation]’: /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:22:28: required from here /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:26:26: warning: deleting object of polymorphic class type ‘PacBio::Consensus::ScoredMutation’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx: In instantiation of ‘SwigValueWrapper::SwigMovePointer& SwigValueWrapper::SwigMovePointer::operator=(SwigValueWrapper::SwigMovePointer&) [with T = PacBio::Consensus::Mutation]’: /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:33:84: required from ‘SwigValueWrapper& SwigValueWrapper::operator=(const T&) [with T = PacBio::Consensus::Mutation]’ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:31962:63: required from here /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:27:82: warning: deleting object of polymorphic class type ‘PacBio::Consensus::Mutation’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] SwigMovePointer& operator=(SwigMovePointer& rhs) { T* oldptr = ptr; ptr = 0; delete oldptr; ptr = rhs.ptr; rhs.ptr = 0; return *this; } ^~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx: In instantiation of ‘SwigValueWrapper::SwigMovePointer& SwigValueWrapper::SwigMovePointer::operator=(SwigValueWrapper::SwigMovePointer&) [with T = PacBio::Consensus::ScoredMutation]’: /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:33:84: required from ‘SwigValueWrapper& SwigValueWrapper::operator=(const T&) [with T = PacBio::Consensus::ScoredMutation]’ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:32689:75: required from here /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:27:82: warning: deleting object of polymorphic class type ‘PacBio::Consensus::ScoredMutation’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx: In instantiation of ‘static Type swig::traits_as::as(PyObject*) [with Type = PacBio::Consensus::Mutation; PyObject = _object]’: /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:4722:64: required from ‘Type swig::as(PyObject*) [with Type = PacBio::Consensus::Mutation; PyObject = _object]’ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:5591:20: required from ‘swig::SwigPySequence_Ref::operator T() const [with T = PacBio::Consensus::Mutation]’ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:6050:30: required from ‘void swig::assign(const SwigPySeq&, Seq*) [with SwigPySeq = swig::SwigPySequence_Cont; Seq = std::vector]’ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:6072:12: required from ‘static int swig::traits_asptr_stdseq::asptr(PyObject*, swig::traits_asptr_stdseq::sequence**) [with Seq = std::vector; T = PacBio::Consensus::Mutation; PyObject = _object; swig::traits_asptr_stdseq::sequence = std::vector]’ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:6201:52: required from ‘static int swig::traits_asptr >::asptr(PyObject*, std::vector**) [with T = PacBio::Consensus::Mutation; PyObject = _object]’ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:4619:37: required from ‘int swig::asptr(PyObject*, Type**) [with Type = std::vector; PyObject = _object]’ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:33623:34: required from here /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:4690:4: warning: deleting object of polymorphic class type ‘PacBio::Consensus::Mutation’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] delete v; ^~~~~~ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx: In instantiation of ‘static Type swig::traits_as::as(PyObject*) [with Type = PacBio::Consensus::ScoredMutation; PyObject = _object]’: /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:4722:64: required from ‘Type swig::as(PyObject*) [with Type = PacBio::Consensus::ScoredMutation; PyObject = _object]’ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:5591:20: required from ‘swig::SwigPySequence_Ref::operator T() const [with T = PacBio::Consensus::ScoredMutation]’ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:6050:30: required from ‘void swig::assign(const SwigPySeq&, Seq*) [with SwigPySeq = swig::SwigPySequence_Cont; Seq = std::vector >]’ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:6072:12: required from ‘static int swig::traits_asptr_stdseq::asptr(PyObject*, swig::traits_asptr_stdseq::sequence**) [with Seq = std::vector >; T = PacBio::Consensus::ScoredMutation; PyObject = _object; swig::traits_asptr_stdseq::sequence = std::vector >]’ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:6201:52: required from ‘static int swig::traits_asptr >::asptr(PyObject*, std::vector**) [with T = PacBio::Consensus::ScoredMutation; PyObject = _object]’ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:4619:37: required from ‘int swig::asptr(PyObject*, Type**) [with Type = std::vector >; PyObject = _object]’ /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:35777:34: required from here /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7/swig/ConsensusCore2_wrap.cxx:4690:4: warning: deleting object of polymorphic class type ‘PacBio::Consensus::ScoredMutation’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] [100%] Linking CXX shared module lib/_ConsensusCore2.so make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' [100%] Built target _ConsensusCore2 make[3]: Leaving directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[2]: Leaving directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[1]: Leaving directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' dh_auto_test -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild I: pybuild base:217: cd /build/unanimity-3.3.0+dfsg/.pybuild/cpython2_2.7_consensuscore2/build; python2.7 -m unittest discover -v ---------------------------------------------------------------------- Ran 0 tests in 0.000s OK create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary \ --package=unanimity \ --no-package=python-consensuscore2 \ --buildsystem=cmake \ --builddirectory=build debian/rules binary-arch make[1]: Entering directory '/build/unanimity-3.3.0+dfsg' pandoc --standalone --from markdown --to html doc/JULIET.md -o doc/JULIET.html [WARNING] This document format requires a nonempty element. Please specify either 'title' or 'pagetitle' in the metadata. Falling back to 'JULIET' pandoc --standalone --from markdown --to html doc/PBCCS.md -o doc/PBCCS.html [WARNING] This document format requires a nonempty <title> element. Please specify either 'title' or 'pagetitle' in the metadata. Falling back to 'PBCCS' dh binary-arch \ --package=unanimity \ --no-package=python-consensuscore2 \ --buildsystem=cmake \ --builddirectory=build dh_testroot -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_prep -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_auto_install -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build cd build && make -j15 install DESTDIR=/build/unanimity-3.3.0\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/unanimity-3.3.0+dfsg/build' /usr/bin/cmake -S/build/unanimity-3.3.0+dfsg -B/build/unanimity-3.3.0+dfsg/build --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/unanimity-3.3.0+dfsg/build/CMakeFiles /build/unanimity-3.3.0+dfsg/build/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/unanimity-3.3.0+dfsg/build' make -f src/CMakeFiles/unanimity.dir/build.make src/CMakeFiles/unanimity.dir/depend make -f src/CMakeFiles/cc2.dir/build.make src/CMakeFiles/cc2.dir/depend make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' cd /build/unanimity-3.3.0+dfsg/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/unanimity-3.3.0+dfsg /build/unanimity-3.3.0+dfsg/src /build/unanimity-3.3.0+dfsg/build /build/unanimity-3.3.0+dfsg/build/src /build/unanimity-3.3.0+dfsg/build/src/CMakeFiles/unanimity.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' cd /build/unanimity-3.3.0+dfsg/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/unanimity-3.3.0+dfsg /build/unanimity-3.3.0+dfsg/src /build/unanimity-3.3.0+dfsg/build /build/unanimity-3.3.0+dfsg/build/src /build/unanimity-3.3.0+dfsg/build/src/CMakeFiles/cc2.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make -f src/CMakeFiles/unanimity.dir/build.make src/CMakeFiles/unanimity.dir/build make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make -f src/CMakeFiles/cc2.dir/build.make src/CMakeFiles/cc2.dir/build make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' make[4]: Nothing to be done for 'src/CMakeFiles/unanimity.dir/build'. make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' [ 34%] Built target unanimity make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' make[4]: Nothing to be done for 'src/CMakeFiles/cc2.dir/build'. make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' [ 88%] Built target cc2 make -f src/CMakeFiles/ccs.dir/build.make src/CMakeFiles/ccs.dir/depend make -f src/CMakeFiles/arrow.dir/build.make src/CMakeFiles/arrow.dir/depend make -f src/CMakeFiles/gcpp.dir/build.make src/CMakeFiles/gcpp.dir/depend make -f swig/CMakeFiles/_ConsensusCore2.dir/build.make swig/CMakeFiles/_ConsensusCore2.dir/depend make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' cd /build/unanimity-3.3.0+dfsg/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/unanimity-3.3.0+dfsg /build/unanimity-3.3.0+dfsg/src /build/unanimity-3.3.0+dfsg/build /build/unanimity-3.3.0+dfsg/build/src /build/unanimity-3.3.0+dfsg/build/src/CMakeFiles/ccs.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' cd /build/unanimity-3.3.0+dfsg/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/unanimity-3.3.0+dfsg /build/unanimity-3.3.0+dfsg/src /build/unanimity-3.3.0+dfsg/build /build/unanimity-3.3.0+dfsg/build/src /build/unanimity-3.3.0+dfsg/build/src/CMakeFiles/arrow.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' cd /build/unanimity-3.3.0+dfsg/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/unanimity-3.3.0+dfsg /build/unanimity-3.3.0+dfsg/src /build/unanimity-3.3.0+dfsg/build /build/unanimity-3.3.0+dfsg/build/src /build/unanimity-3.3.0+dfsg/build/src/CMakeFiles/gcpp.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' cd /build/unanimity-3.3.0+dfsg/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/unanimity-3.3.0+dfsg /build/unanimity-3.3.0+dfsg/swig /build/unanimity-3.3.0+dfsg/build /build/unanimity-3.3.0+dfsg/build/swig /build/unanimity-3.3.0+dfsg/build/swig/CMakeFiles/_ConsensusCore2.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make -f src/CMakeFiles/gcpp.dir/build.make src/CMakeFiles/gcpp.dir/build make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make -f src/CMakeFiles/ccs.dir/build.make src/CMakeFiles/ccs.dir/build make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make -f src/CMakeFiles/arrow.dir/build.make src/CMakeFiles/arrow.dir/build make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' make[4]: Nothing to be done for 'src/CMakeFiles/gcpp.dir/build'. make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' [ 91%] Built target gcpp make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' make[4]: Nothing to be done for 'src/CMakeFiles/ccs.dir/build'. make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' make[4]: Nothing to be done for 'src/CMakeFiles/arrow.dir/build'. make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' [ 93%] Built target ccs make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make -f swig/CMakeFiles/_ConsensusCore2.dir/build.make swig/CMakeFiles/_ConsensusCore2.dir/build [ 96%] Built target arrow make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' make[4]: Nothing to be done for 'swig/CMakeFiles/_ConsensusCore2.dir/build'. make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' [100%] Built target _ConsensusCore2 make[3]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' /usr/bin/cmake -E cmake_progress_start /build/unanimity-3.3.0+dfsg/build/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/unanimity-3.3.0+dfsg/build' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/unanimity-3.3.0+dfsg/debian/tmp/usr/bin/ccs -- Installing: /build/unanimity-3.3.0+dfsg/debian/tmp/usr/bin/arrow -- Installing: /build/unanimity-3.3.0+dfsg/debian/tmp/usr/bin/gcpp make[2]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' dh_install -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_installdocs -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_installchangelogs -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_installman -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_installinit -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_installsystemduser -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_perl -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_link -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_strip_nondeterminism -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_compress -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_fixperms -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_missing -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_missing: usr/bin/arrow exists in debian/tmp but is not installed to anywhere The following debhelper tools have reported what they installed (with files per package) * dh_install: python-consensuscore2 (0), unanimity (2) * dh_installdocs: python-consensuscore2 (0), unanimity (3) * dh_installman: python-consensuscore2 (0), unanimity (2) If the missing files are installed by another tool, please file a bug against it. When filing the report, if the tool is not part of debhelper itself, please reference the "Logging helpers and dh_missing" section from the "PROGRAMMING" guide for debhelper (10.6.3+). (in the debhelper package: /usr/share/doc/debhelper/PROGRAMMING.gz) Be sure to test with dpkg-buildpackage -A/-B as the results may vary when only a subset is built For a short-term work-around: Add the files to debian/not-installed dh_dwz -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_strip -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_makeshlibs -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_shlibdeps -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/unanimity/usr/bin/ccs debian/unanimity/usr/bin/gcpp were not linked against libdl.so.2 (they use none of the library's symbols) dh_installdeb -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_gencontrol -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dpkg-gencontrol: warning: Depends field of package unanimity: substitution variable ${python:Depends} used, but is not defined dpkg-gencontrol: warning: Depends field of package unanimity: substitution variable ${python:Depends} used, but is not defined dh_md5sums -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_builddeb -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dpkg-deb: building package 'unanimity-dbgsym' in '../unanimity-dbgsym_3.3.0+dfsg-2.1_amd64.deb'. dpkg-deb: building package 'unanimity' in '../unanimity_3.3.0+dfsg-2.1_amd64.deb'. dh binary-arch \ --package=python-consensuscore2 \ --no-package=unanimity \ --with python2 \ --buildsystem=pybuild dh_testroot -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_prep -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_auto_install -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild I: pybuild base:217: /usr/bin/python setup.py install --root /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2 running install running build running build_py running build_ext Configuring with command `cmake -Dpbcopper_LIBRARIES=/usr/lib/x86_64-linux-gnu/libpbcopper.a -DPYTHON_EXECUTABLE=/usr/bin/python -DUNY_build_tests=0 -DCMAKE_BUILD_TYPE=RelWithDebInfo -Dpbcopper_INCLUDE_DIRS=/usr/include -DUNY_build_bin=0 -DPYTHON_SWIG=1 /build/unanimity-3.3.0+dfsg` -- Boost version: 1.67.0 -- Configuring done -- Generating done -- Build files have been written to: /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7 Building with command `make _ConsensusCore2` make[2]: Entering directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[3]: Entering directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[5]: Entering directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[5]: Leaving directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' [ 93%] Built target cc2 make[5]: Entering directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[5]: Leaving directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' [100%] Built target _ConsensusCore2 make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[3]: Leaving directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[2]: Leaving directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' running install_lib creating /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2 creating /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2/usr creating /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2/usr/lib creating /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2/usr/lib/python2.7 creating /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2/usr/lib/python2.7/dist-packages copying /build/unanimity-3.3.0+dfsg/.pybuild/cpython2_2.7_consensuscore2/build/_ConsensusCore2.so -> /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2/usr/lib/python2.7/dist-packages copying /build/unanimity-3.3.0+dfsg/.pybuild/cpython2_2.7_consensuscore2/build/ConsensusCore2.py -> /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2/usr/lib/python2.7/dist-packages byte-compiling /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2/usr/lib/python2.7/dist-packages/ConsensusCore2.py to ConsensusCore2.pyc running install_egg_info running egg_info creating swig/ConsensusCore2.egg-info writing requirements to swig/ConsensusCore2.egg-info/requires.txt writing swig/ConsensusCore2.egg-info/PKG-INFO writing top-level names to swig/ConsensusCore2.egg-info/top_level.txt writing dependency_links to swig/ConsensusCore2.egg-info/dependency_links.txt writing manifest file 'swig/ConsensusCore2.egg-info/SOURCES.txt' reading manifest file 'swig/ConsensusCore2.egg-info/SOURCES.txt' writing manifest file 'swig/ConsensusCore2.egg-info/SOURCES.txt' Copying swig/ConsensusCore2.egg-info to /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2/usr/lib/python2.7/dist-packages/ConsensusCore2-3.0.0.egg-info Skipping SOURCES.txt running install_scripts dh_install -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_installdocs -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_installchangelogs -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_installman -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild debian/rules override_dh_python2 make[2]: Entering directory '/build/unanimity-3.3.0+dfsg' dh_python2 I: dh_python2 fs:343: renaming _ConsensusCore2.so to _ConsensusCore2.x86_64-linux-gnu.so dh_numpy make[2]: Leaving directory '/build/unanimity-3.3.0+dfsg' dh_installinit -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_installsystemduser -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_perl -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_link -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_strip_nondeterminism -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_compress -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_fixperms -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_missing -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_dwz -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_strip -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_makeshlibs -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_shlibdeps -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_installdeb -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_gencontrol -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dpkg-gencontrol: warning: package python-consensuscore2: substitution variable ${python:Provides} unused, but is defined dpkg-gencontrol: warning: package python-consensuscore2: substitution variable ${python:Versions} unused, but is defined dpkg-gencontrol: warning: package python-consensuscore2: substitution variable ${python:Provides} unused, but is defined dpkg-gencontrol: warning: package python-consensuscore2: substitution variable ${python:Versions} unused, but is defined dh_md5sums -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_builddeb -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dpkg-deb: building package 'python-consensuscore2-dbgsym' in '../python-consensuscore2-dbgsym_3.3.0+dfsg-2.1_amd64.deb'. dpkg-deb: building package 'python-consensuscore2' in '../python-consensuscore2_3.3.0+dfsg-2.1_amd64.deb'. make[1]: Leaving directory '/build/unanimity-3.3.0+dfsg' Use of uninitialized value in numeric gt (>) at /usr/bin/dh line 821. dh binary \ --package=python-consensuscore2 \ --no-package=unanimity \ --with python2 \ --buildsystem=pybuild debian/rules binary-arch make[1]: Entering directory '/build/unanimity-3.3.0+dfsg' dh binary-arch \ --package=unanimity \ --no-package=python-consensuscore2 \ --buildsystem=cmake \ --builddirectory=build dh_testroot -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_prep -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_auto_install -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build cd build && make -j15 install DESTDIR=/build/unanimity-3.3.0\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/unanimity-3.3.0+dfsg/build' /usr/bin/cmake -S/build/unanimity-3.3.0+dfsg -B/build/unanimity-3.3.0+dfsg/build --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/unanimity-3.3.0+dfsg/build/CMakeFiles /build/unanimity-3.3.0+dfsg/build/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/unanimity-3.3.0+dfsg/build' make -f src/CMakeFiles/unanimity.dir/build.make src/CMakeFiles/unanimity.dir/depend make -f src/CMakeFiles/cc2.dir/build.make src/CMakeFiles/cc2.dir/depend make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' cd /build/unanimity-3.3.0+dfsg/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/unanimity-3.3.0+dfsg /build/unanimity-3.3.0+dfsg/src /build/unanimity-3.3.0+dfsg/build /build/unanimity-3.3.0+dfsg/build/src /build/unanimity-3.3.0+dfsg/build/src/CMakeFiles/unanimity.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' cd /build/unanimity-3.3.0+dfsg/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/unanimity-3.3.0+dfsg /build/unanimity-3.3.0+dfsg/src /build/unanimity-3.3.0+dfsg/build /build/unanimity-3.3.0+dfsg/build/src /build/unanimity-3.3.0+dfsg/build/src/CMakeFiles/cc2.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make -f src/CMakeFiles/unanimity.dir/build.make src/CMakeFiles/unanimity.dir/build make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make -f src/CMakeFiles/cc2.dir/build.make src/CMakeFiles/cc2.dir/build make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' make[4]: Nothing to be done for 'src/CMakeFiles/unanimity.dir/build'. make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' [ 34%] Built target unanimity make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' make[4]: Nothing to be done for 'src/CMakeFiles/cc2.dir/build'. make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' [ 88%] Built target cc2 make -f src/CMakeFiles/ccs.dir/build.make src/CMakeFiles/ccs.dir/depend make -f src/CMakeFiles/arrow.dir/build.make src/CMakeFiles/arrow.dir/depend make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' cd /build/unanimity-3.3.0+dfsg/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/unanimity-3.3.0+dfsg /build/unanimity-3.3.0+dfsg/src /build/unanimity-3.3.0+dfsg/build /build/unanimity-3.3.0+dfsg/build/src /build/unanimity-3.3.0+dfsg/build/src/CMakeFiles/ccs.dir/DependInfo.cmake --color= make -f src/CMakeFiles/gcpp.dir/build.make src/CMakeFiles/gcpp.dir/depend make -f swig/CMakeFiles/_ConsensusCore2.dir/build.make swig/CMakeFiles/_ConsensusCore2.dir/depend make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' cd /build/unanimity-3.3.0+dfsg/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/unanimity-3.3.0+dfsg /build/unanimity-3.3.0+dfsg/src /build/unanimity-3.3.0+dfsg/build /build/unanimity-3.3.0+dfsg/build/src /build/unanimity-3.3.0+dfsg/build/src/CMakeFiles/arrow.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' cd /build/unanimity-3.3.0+dfsg/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/unanimity-3.3.0+dfsg /build/unanimity-3.3.0+dfsg/src /build/unanimity-3.3.0+dfsg/build /build/unanimity-3.3.0+dfsg/build/src /build/unanimity-3.3.0+dfsg/build/src/CMakeFiles/gcpp.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' cd /build/unanimity-3.3.0+dfsg/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/unanimity-3.3.0+dfsg /build/unanimity-3.3.0+dfsg/swig /build/unanimity-3.3.0+dfsg/build /build/unanimity-3.3.0+dfsg/build/swig /build/unanimity-3.3.0+dfsg/build/swig/CMakeFiles/_ConsensusCore2.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make -f src/CMakeFiles/gcpp.dir/build.make src/CMakeFiles/gcpp.dir/build make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make -f src/CMakeFiles/ccs.dir/build.make src/CMakeFiles/ccs.dir/build make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make -f src/CMakeFiles/arrow.dir/build.make src/CMakeFiles/arrow.dir/build make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' make[4]: Nothing to be done for 'src/CMakeFiles/gcpp.dir/build'. make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' [ 91%] Built target gcpp make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' make[4]: Nothing to be done for 'src/CMakeFiles/ccs.dir/build'. make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' [ 93%] Built target ccs make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' make[4]: Nothing to be done for 'src/CMakeFiles/arrow.dir/build'. make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' make -f swig/CMakeFiles/_ConsensusCore2.dir/build.make swig/CMakeFiles/_ConsensusCore2.dir/build [ 96%] Built target arrow make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build' make[4]: Nothing to be done for 'swig/CMakeFiles/_ConsensusCore2.dir/build'. make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' [100%] Built target _ConsensusCore2 make[3]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' /usr/bin/cmake -E cmake_progress_start /build/unanimity-3.3.0+dfsg/build/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/unanimity-3.3.0+dfsg/build' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/unanimity-3.3.0+dfsg/debian/tmp/usr/bin/ccs -- Installing: /build/unanimity-3.3.0+dfsg/debian/tmp/usr/bin/arrow -- Installing: /build/unanimity-3.3.0+dfsg/debian/tmp/usr/bin/gcpp make[2]: Leaving directory '/build/unanimity-3.3.0+dfsg/build' dh_install -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_installdocs -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_installchangelogs -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_installman -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_installinit -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_installsystemduser -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_perl -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_link -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_strip_nondeterminism -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_compress -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_fixperms -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_missing -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_missing: usr/bin/arrow exists in debian/tmp but is not installed to anywhere The following debhelper tools have reported what they installed (with files per package) * dh_install: python-consensuscore2 (0), unanimity (2) * dh_installdocs: python-consensuscore2 (0), unanimity (3) * dh_installman: python-consensuscore2 (0), unanimity (2) If the missing files are installed by another tool, please file a bug against it. When filing the report, if the tool is not part of debhelper itself, please reference the "Logging helpers and dh_missing" section from the "PROGRAMMING" guide for debhelper (10.6.3+). (in the debhelper package: /usr/share/doc/debhelper/PROGRAMMING.gz) Be sure to test with dpkg-buildpackage -A/-B as the results may vary when only a subset is built For a short-term work-around: Add the files to debian/not-installed dh_dwz -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_strip -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_makeshlibs -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_shlibdeps -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/unanimity/usr/bin/ccs debian/unanimity/usr/bin/gcpp were not linked against libdl.so.2 (they use none of the library's symbols) dh_installdeb -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_gencontrol -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dpkg-gencontrol: warning: Depends field of package unanimity: substitution variable ${python:Depends} used, but is not defined dpkg-gencontrol: warning: Depends field of package unanimity: substitution variable ${python:Depends} used, but is not defined dh_md5sums -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dh_builddeb -a -O--package=unanimity -O--no-package=python-consensuscore2 -O--buildsystem=cmake -O--builddirectory=build dpkg-deb: building package 'unanimity-dbgsym' in '../unanimity-dbgsym_3.3.0+dfsg-2.1_amd64.deb'. dpkg-deb: building package 'unanimity' in '../unanimity_3.3.0+dfsg-2.1_amd64.deb'. dh binary-arch \ --package=python-consensuscore2 \ --no-package=unanimity \ --with python2 \ --buildsystem=pybuild dh_testroot -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_prep -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_auto_install -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild I: pybuild base:217: /usr/bin/python setup.py install --root /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2 running install running build running build_py running build_ext Configuring with command `cmake -Dpbcopper_LIBRARIES=/usr/lib/x86_64-linux-gnu/libpbcopper.a -DPYTHON_EXECUTABLE=/usr/bin/python -DUNY_build_tests=0 -DCMAKE_BUILD_TYPE=RelWithDebInfo -Dpbcopper_INCLUDE_DIRS=/usr/include -DUNY_build_bin=0 -DPYTHON_SWIG=1 /build/unanimity-3.3.0+dfsg` -- Boost version: 1.67.0 -- Configuring done -- Generating done -- Build files have been written to: /build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7 Building with command `make _ConsensusCore2` make[2]: Entering directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[3]: Entering directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[4]: Entering directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[5]: Entering directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[5]: Leaving directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' [ 93%] Built target cc2 make[5]: Entering directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[5]: Leaving directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' [100%] Built target _ConsensusCore2 make[4]: Leaving directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[3]: Leaving directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' make[2]: Leaving directory '/build/unanimity-3.3.0+dfsg/build/temp.linux-amd64-2.7' running install_lib creating /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2 creating /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2/usr creating /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2/usr/lib creating /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2/usr/lib/python2.7 creating /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2/usr/lib/python2.7/dist-packages copying /build/unanimity-3.3.0+dfsg/.pybuild/cpython2_2.7_consensuscore2/build/_ConsensusCore2.so -> /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2/usr/lib/python2.7/dist-packages copying /build/unanimity-3.3.0+dfsg/.pybuild/cpython2_2.7_consensuscore2/build/ConsensusCore2.py -> /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2/usr/lib/python2.7/dist-packages byte-compiling /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2/usr/lib/python2.7/dist-packages/ConsensusCore2.py to ConsensusCore2.pyc running install_egg_info running egg_info writing requirements to swig/ConsensusCore2.egg-info/requires.txt writing swig/ConsensusCore2.egg-info/PKG-INFO writing top-level names to swig/ConsensusCore2.egg-info/top_level.txt writing dependency_links to swig/ConsensusCore2.egg-info/dependency_links.txt reading manifest file 'swig/ConsensusCore2.egg-info/SOURCES.txt' writing manifest file 'swig/ConsensusCore2.egg-info/SOURCES.txt' Copying swig/ConsensusCore2.egg-info to /build/unanimity-3.3.0+dfsg/debian/python-consensuscore2/usr/lib/python2.7/dist-packages/ConsensusCore2-3.0.0.egg-info Skipping SOURCES.txt running install_scripts dh_install -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_installdocs -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_installchangelogs -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_installman -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild debian/rules override_dh_python2 make[2]: Entering directory '/build/unanimity-3.3.0+dfsg' dh_python2 I: dh_python2 fs:343: renaming _ConsensusCore2.so to _ConsensusCore2.x86_64-linux-gnu.so dh_numpy make[2]: Leaving directory '/build/unanimity-3.3.0+dfsg' dh_installinit -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_installsystemduser -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_perl -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_link -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_strip_nondeterminism -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_compress -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_fixperms -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_missing -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_dwz -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_strip -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_makeshlibs -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_shlibdeps -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_installdeb -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_gencontrol -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dpkg-gencontrol: warning: package python-consensuscore2: substitution variable ${python:Provides} unused, but is defined dpkg-gencontrol: warning: package python-consensuscore2: substitution variable ${python:Versions} unused, but is defined dpkg-gencontrol: warning: package python-consensuscore2: substitution variable ${python:Provides} unused, but is defined dpkg-gencontrol: warning: package python-consensuscore2: substitution variable ${python:Versions} unused, but is defined dh_md5sums -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dh_builddeb -a -O--package=python-consensuscore2 -O--no-package=unanimity -O--buildsystem=pybuild dpkg-deb: building package 'python-consensuscore2-dbgsym' in '../python-consensuscore2-dbgsym_3.3.0+dfsg-2.1_amd64.deb'. dpkg-deb: building package 'python-consensuscore2' in '../python-consensuscore2_3.3.0+dfsg-2.1_amd64.deb'. make[1]: Leaving directory '/build/unanimity-3.3.0+dfsg' Use of uninitialized value in numeric gt (>) at /usr/bin/dh line 821. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../unanimity_3.3.0+dfsg-2.1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/3089728/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/3089728/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/3089728 and its subdirectories I: Current time: Fri Dec 17 23:18:58 +14 2021 I: pbuilder-time-stamp: 1639732738