I: pbuilder: network access will be disabled during build
I: Current time: Fri Nov 29 06:40:41 +14 2024
I: pbuilder-time-stamp: 1732812041
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/experimental-reproducible-base.tgz]
I: copying local configuration
W: --override-config is not set; not updating apt.conf Read the manpage for details.
I: mounting /proc filesystem
I: mounting /sys filesystem
I: creating /{dev,run}/shm
I: mounting /dev/pts filesystem
I: redirecting /dev/ptmx to /dev/pts/ptmx
I: policy-rc.d already exists
I: Copying source file
I: copying [sibelia_3.0.7+dfsg-4.dsc]
I: copying [./sibelia_3.0.7+dfsg.orig.tar.xz]
I: copying [./sibelia_3.0.7+dfsg-4.debian.tar.xz]
I: Extracting source
gpgv: Signature made Mon Nov 25 14:29:08 2024 
gpgv:                using RSA key 724D609337113C710550D7473C26763F6C67E6E2
gpgv:                issuer "crusoe@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify inline signature for ./sibelia_3.0.7+dfsg-4.dsc: no acceptable signature found
dpkg-source: info: extracting sibelia in sibelia-3.0.7+dfsg
dpkg-source: info: unpacking sibelia_3.0.7+dfsg.orig.tar.xz
dpkg-source: info: unpacking sibelia_3.0.7+dfsg-4.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying use_debian_packaged_libdivsufsort.patch
dpkg-source: info: applying use_debian_packaged_lagan.patch
dpkg-source: info: applying snpeff_is_removed.patch
dpkg-source: info: applying 2to3.patch
dpkg-source: info: applying 0005-Upgrade-to-SeqAn-2.5.0.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/30252/tmp/hooks/D01_modify_environment starting
debug: Running on virt32c.
I: Changing host+domainname to test build reproducibility
I: Adding a custom variable just for the fun of it...
I: Changing /bin/sh to bash
'/bin/sh' -> '/bin/bash'
lrwxrwxrwx 1 root root 9 Nov 28 16:41 /bin/sh -> /bin/bash
I: Setting pbuilder2's login shell to /bin/bash
I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other
I: user script /srv/workspace/pbuilder/30252/tmp/hooks/D01_modify_environment finished
I: user script /srv/workspace/pbuilder/30252/tmp/hooks/D02_print_environment starting
I: set
  BASH=/bin/sh
  BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath
  BASH_ALIASES=()
  BASH_ARGC=()
  BASH_ARGV=()
  BASH_CMDS=()
  BASH_LINENO=([0]="12" [1]="0")
  BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:.
  BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment")
  BASH_VERSINFO=([0]="5" [1]="2" [2]="32" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf")
  BASH_VERSION='5.2.32(1)-release'
  BUILDDIR=/build/reproducible-path
  BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other'
  BUILDUSERNAME=pbuilder2
  BUILD_ARCH=armhf
  DEBIAN_FRONTEND=noninteractive
  DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=4 '
  DIRSTACK=()
  DISTRIBUTION=experimental
  EUID=0
  FUNCNAME=([0]="Echo" [1]="main")
  GROUPS=()
  HOME=/root
  HOSTNAME=i-capture-the-hostname
  HOSTTYPE=arm
  HOST_ARCH=armhf
  IFS=' 	
  '
  INVOCATION_ID=9cdd722106174adbbf96ec75f9cfed2e
  LANG=C
  LANGUAGE=it_CH:it
  LC_ALL=C
  MACHTYPE=arm-unknown-linux-gnueabihf
  MAIL=/var/mail/root
  OPTERR=1
  OPTIND=1
  OSTYPE=linux-gnueabihf
  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=30252
  PS4='+ '
  PWD=/
  SHELL=/bin/bash
  SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix
  SHLVL=3
  SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.eFaIi3Lm/pbuilderrc_4pag --distribution experimental --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/experimental-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.eFaIi3Lm/b2 --logfile b2/build.log sibelia_3.0.7+dfsg-4.dsc'
  SUDO_GID=113
  SUDO_UID=107
  SUDO_USER=jenkins
  TERM=unknown
  TZ=/usr/share/zoneinfo/Etc/GMT-14
  UID=0
  USER=root
  _='I: set'
  http_proxy=http://10.0.0.15:3142/
I: uname -a
  Linux i-capture-the-hostname 6.1.0-28-armmp-lpae #1 SMP Debian 6.1.119-1 (2024-11-22) armv7l GNU/Linux
I: ls -l /bin
  lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/30252/tmp/hooks/D02_print_environment finished
 -> Attempting to satisfy build-dependencies
 -> Creating pbuilder-satisfydepends-dummy package
Package: pbuilder-satisfydepends-dummy
Version: 0.invalid.0
Architecture: armhf
Maintainer: Debian Pbuilder Team <pbuilder-maint@lists.alioth.debian.org>
Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder
 This package was created automatically by pbuilder to satisfy the
 build-dependencies of the package being currently built.
Depends: debhelper-compat (= 12), cmake, libdivsufsort-dev, libboost-dev, libseqan2-dev (= 2.5.0~rc3+dfsg-1), libtclap-dev, libhts-dev
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19684 files and directories currently installed.)
Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ...
Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ...
dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested:
 pbuilder-satisfydepends-dummy depends on debhelper-compat (= 12); however:
  Package debhelper-compat is not installed.
 pbuilder-satisfydepends-dummy depends on cmake; however:
  Package cmake is not installed.
 pbuilder-satisfydepends-dummy depends on libdivsufsort-dev; however:
  Package libdivsufsort-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libboost-dev; however:
  Package libboost-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libseqan2-dev (= 2.5.0~rc3+dfsg-1); however:
  Package libseqan2-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libtclap-dev; however:
  Package libtclap-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libhts-dev; however:
  Package libhts-dev is not installed.

Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ...
Reading package lists...
Building dependency tree...
Reading state information...
Initializing package states...
Writing extended state information...
Building tag database...
pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0)
pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0)
The following NEW packages will be installed:
  autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} cmake{a} cmake-data{a} comerr-dev{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} krb5-multidev{a} libarchive-zip-perl{a} libarchive13t64{a} libboost-dev{a} libboost1.83-dev{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libcurl4t64{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdivsufsort-dev{a} libdivsufsort3{a} libelf1t64{a} libevent-2.1-7t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libhts-dev{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libidn2-dev{a} libjsoncpp26{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} libldap-2.5-0{a} libldap-dev{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls-dev{a} libngtcp2-crypto-gnutls8{a} libngtcp2-dev{a} libp11-kit-dev{a} libpipeline1{a} libpkgconf3{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} librhash1{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libtasn1-6-dev{a} libtclap-dev{a} libtool{a} libuchardet0{a} libunbound8{a} libuv1t64{a} libxml2{a} libzstd-dev{a} m4{a} man-db{a} nettle-dev{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} sensible-utils{a} zlib1g-dev{a} 
The following packages are RECOMMENDED but will NOT be installed:
  bzip2-doc ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libssl3 libtasn1-doc linux-sysctl-defaults lynx psmisc publicsuffix wget 
0 packages upgraded, 103 newly installed, 0 to remove and 0 not upgraded.
Need to get 59.1 MB of archives. After unpacking 329 MB will be used.
The following packages have unmet dependencies:
 pbuilder-satisfydepends-dummy : Depends: libseqan2-dev (= 2.5.0~rc3+dfsg-1) but it is not going to be installed
The following actions will resolve these dependencies:

     Install the following packages:                  
1)     libseqan2-dev [2.5.0~rc3+dfsg-1 (experimental)]



The following NEW packages will be installed:
  autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} cmake{a} cmake-data{a} comerr-dev{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} krb5-multidev{a} libarchive-zip-perl{a} libarchive13t64{a} libboost-dev{a} libboost1.83-dev{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libcurl4t64{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdivsufsort-dev{a} libdivsufsort3{a} libelf1t64{a} libevent-2.1-7t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libhts-dev{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libidn2-dev{a} libjsoncpp26{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} libldap-2.5-0{a} libldap-dev{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls-dev{a} libngtcp2-crypto-gnutls8{a} libngtcp2-dev{a} libp11-kit-dev{a} libpipeline1{a} libpkgconf3{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} librhash1{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libseqan2-dev{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libtasn1-6-dev{a} libtclap-dev{a} libtool{a} libuchardet0{a} libunbound8{a} libuv1t64{a} libxml2{a} libzstd-dev{a} m4{a} man-db{a} nettle-dev{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} sensible-utils{a} zlib1g-dev{a} 
The following packages are RECOMMENDED but will NOT be installed:
  bzip2-doc ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libssl3 libtasn1-doc linux-sysctl-defaults lynx psmisc publicsuffix wget 
0 packages upgraded, 104 newly installed, 0 to remove and 0 not upgraded.
Need to get 60.3 MB of archives. After unpacking 343 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian unstable/main armhf libproc2-0 armhf 2:4.0.4-6 [56.0 kB]
Get: 2 http://deb.debian.org/debian unstable/main armhf procps armhf 2:4.0.4-6 [864 kB]
Get: 3 http://deb.debian.org/debian unstable/main armhf sensible-utils all 0.0.24 [24.8 kB]
Get: 4 http://deb.debian.org/debian unstable/main armhf libmagic-mgc armhf 1:5.45-3+b1 [314 kB]
Get: 5 http://deb.debian.org/debian unstable/main armhf libmagic1t64 armhf 1:5.45-3+b1 [98.5 kB]
Get: 6 http://deb.debian.org/debian unstable/main armhf file armhf 1:5.45-3+b1 [42.3 kB]
Get: 7 http://deb.debian.org/debian unstable/main armhf gettext-base armhf 0.22.5-2 [195 kB]
Get: 8 http://deb.debian.org/debian unstable/main armhf libuchardet0 armhf 0.0.8-1+b2 [65.6 kB]
Get: 9 http://deb.debian.org/debian unstable/main armhf groff-base armhf 1.23.0-5 [1091 kB]
Get: 10 http://deb.debian.org/debian unstable/main armhf bsdextrautils armhf 2.40.2-11 [83.6 kB]
Get: 11 http://deb.debian.org/debian unstable/main armhf libpipeline1 armhf 1.5.8-1 [35.0 kB]
Get: 12 http://deb.debian.org/debian unstable/main armhf man-db armhf 2.13.0-1 [1382 kB]
Get: 13 http://deb.debian.org/debian unstable/main armhf m4 armhf 1.4.19-4 [264 kB]
Get: 14 http://deb.debian.org/debian unstable/main armhf autoconf all 2.72-3 [493 kB]
Get: 15 http://deb.debian.org/debian unstable/main armhf autotools-dev all 20220109.1 [51.6 kB]
Get: 16 http://deb.debian.org/debian unstable/main armhf automake all 1:1.16.5-1.3 [823 kB]
Get: 17 http://deb.debian.org/debian unstable/main armhf autopoint all 0.22.5-2 [723 kB]
Get: 18 http://deb.debian.org/debian unstable/main armhf cmake-data all 3.31.1-1 [2267 kB]
Get: 19 http://deb.debian.org/debian unstable/main armhf libicu72 armhf 72.1-5+b1 [9088 kB]
Get: 20 http://deb.debian.org/debian unstable/main armhf libxml2 armhf 2.12.7+dfsg+really2.9.14-0.2+b1 [605 kB]
Get: 21 http://deb.debian.org/debian unstable/main armhf libarchive13t64 armhf 3.7.4-1.1 [306 kB]
Get: 22 http://deb.debian.org/debian unstable/main armhf libbrotli1 armhf 1.1.0-2+b6 [282 kB]
Get: 23 http://deb.debian.org/debian unstable/main armhf libkrb5support0 armhf 1.21.3-3 [30.0 kB]
Get: 24 http://deb.debian.org/debian unstable/main armhf libcom-err2 armhf 1.47.1-1+b1 [22.3 kB]
Get: 25 http://deb.debian.org/debian unstable/main armhf libk5crypto3 armhf 1.21.3-3 [75.8 kB]
Get: 26 http://deb.debian.org/debian unstable/main armhf libkeyutils1 armhf 1.6.3-4 [8096 B]
Get: 27 http://deb.debian.org/debian unstable/main armhf libkrb5-3 armhf 1.21.3-3 [283 kB]
Get: 28 http://deb.debian.org/debian unstable/main armhf libgssapi-krb5-2 armhf 1.21.3-3 [114 kB]
Get: 29 http://deb.debian.org/debian unstable/main armhf libsasl2-modules-db armhf 2.1.28+dfsg1-8 [18.2 kB]
Get: 30 http://deb.debian.org/debian unstable/main armhf libsasl2-2 armhf 2.1.28+dfsg1-8 [50.2 kB]
Get: 31 http://deb.debian.org/debian unstable/main armhf libldap-2.5-0 armhf 2.5.18+dfsg-3+b1 [163 kB]
Get: 32 http://deb.debian.org/debian unstable/main armhf libnghttp2-14 armhf 1.64.0-1 [62.9 kB]
Get: 33 http://deb.debian.org/debian unstable/main armhf libpsl5t64 armhf 0.21.2-1.1+b1 [55.8 kB]
Get: 34 http://deb.debian.org/debian unstable/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b5 [53.2 kB]
Get: 35 http://deb.debian.org/debian unstable/main armhf libssh2-1t64 armhf 1.11.1-1 [227 kB]
Get: 36 http://deb.debian.org/debian unstable/main armhf libcurl4t64 armhf 8.11.0-1 [303 kB]
Get: 37 http://deb.debian.org/debian unstable/main armhf libexpat1 armhf 2.6.4-1 [83.5 kB]
Get: 38 http://deb.debian.org/debian unstable/main armhf libjsoncpp26 armhf 1.9.6-3 [69.9 kB]
Get: 39 http://deb.debian.org/debian unstable/main armhf librhash1 armhf 1.4.5-1 [143 kB]
Get: 40 http://deb.debian.org/debian unstable/main armhf libuv1t64 armhf 1.48.0-7 [134 kB]
Get: 41 http://deb.debian.org/debian unstable/main armhf cmake armhf 3.31.1-1 [5747 kB]
Get: 42 http://deb.debian.org/debian unstable/main armhf comerr-dev armhf 2.1-1.47.1-1+b1 [54.3 kB]
Get: 43 http://deb.debian.org/debian unstable/main armhf libdebhelper-perl all 13.20 [89.7 kB]
Get: 44 http://deb.debian.org/debian unstable/main armhf libtool all 2.4.7-8 [517 kB]
Get: 45 http://deb.debian.org/debian unstable/main armhf dh-autoreconf all 20 [17.1 kB]
Get: 46 http://deb.debian.org/debian unstable/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get: 47 http://deb.debian.org/debian unstable/main armhf libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB]
Get: 48 http://deb.debian.org/debian unstable/main armhf dh-strip-nondeterminism all 1.14.0-1 [8448 B]
Get: 49 http://deb.debian.org/debian unstable/main armhf libelf1t64 armhf 0.192-4 [184 kB]
Get: 50 http://deb.debian.org/debian unstable/main armhf dwz armhf 0.15-1+b2 [106 kB]
Get: 51 http://deb.debian.org/debian unstable/main armhf gettext armhf 0.22.5-2 [1485 kB]
Get: 52 http://deb.debian.org/debian unstable/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 53 http://deb.debian.org/debian unstable/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get: 54 http://deb.debian.org/debian unstable/main armhf debhelper all 13.20 [915 kB]
Get: 55 http://deb.debian.org/debian unstable/main armhf libgssrpc4t64 armhf 1.21.3-3 [52.5 kB]
Get: 56 http://deb.debian.org/debian unstable/main armhf libkadm5clnt-mit12 armhf 1.21.3-3 [37.0 kB]
Get: 57 http://deb.debian.org/debian unstable/main armhf libkdb5-10t64 armhf 1.21.3-3 [37.1 kB]
Get: 58 http://deb.debian.org/debian unstable/main armhf libkadm5srv-mit12 armhf 1.21.3-3 [46.7 kB]
Get: 59 http://deb.debian.org/debian unstable/main armhf krb5-multidev armhf 1.21.3-3 [126 kB]
Get: 60 http://deb.debian.org/debian unstable/main armhf libboost1.83-dev armhf 1.83.0-3.2+b1 [10.6 MB]
Get: 61 http://deb.debian.org/debian unstable/main armhf libboost-dev armhf 1.83.0.2+b2 [3832 B]
Get: 62 http://deb.debian.org/debian unstable/main armhf libbrotli-dev armhf 1.1.0-2+b6 [293 kB]
Get: 63 http://deb.debian.org/debian unstable/main armhf libbz2-dev armhf 1.0.8-6 [28.7 kB]
Get: 64 http://deb.debian.org/debian unstable/main armhf libnghttp3-9 armhf 1.6.0-2 [56.8 kB]
Get: 65 http://deb.debian.org/debian unstable/main armhf libngtcp2-16 armhf 1.9.1-1 [115 kB]
Get: 66 http://deb.debian.org/debian unstable/main armhf libngtcp2-crypto-gnutls8 armhf 1.9.1-1 [15.8 kB]
Get: 67 http://deb.debian.org/debian unstable/main armhf libcurl3t64-gnutls armhf 8.11.0-1 [310 kB]
Get: 68 http://deb.debian.org/debian unstable/main armhf libevent-2.1-7t64 armhf 2.1.12-stable-10+b1 [164 kB]
Get: 69 http://deb.debian.org/debian unstable/main armhf libunbound8 armhf 1.22.0-1 [539 kB]
Get: 70 http://deb.debian.org/debian unstable/main armhf libgnutls-dane0t64 armhf 3.8.8-2 [440 kB]
Get: 71 http://deb.debian.org/debian unstable/main armhf libgnutls-openssl27t64 armhf 3.8.8-2 [440 kB]
Get: 72 http://deb.debian.org/debian unstable/main armhf libidn2-dev armhf 2.3.7-2+b1 [119 kB]
Get: 73 http://deb.debian.org/debian unstable/main armhf libp11-kit-dev armhf 0.25.5-2+b1 [208 kB]
Get: 74 http://deb.debian.org/debian unstable/main armhf libtasn1-6-dev armhf 4.19.0-3+b3 [93.2 kB]
Get: 75 http://deb.debian.org/debian unstable/main armhf libgmpxx4ldbl armhf 2:6.3.0+dfsg-2+b2 [328 kB]
Get: 76 http://deb.debian.org/debian unstable/main armhf libgmp-dev armhf 2:6.3.0+dfsg-2+b2 [593 kB]
Get: 77 http://deb.debian.org/debian unstable/main armhf nettle-dev armhf 3.10-1+b1 [1313 kB]
Get: 78 http://deb.debian.org/debian unstable/main armhf libgnutls28-dev armhf 3.8.8-2 [1328 kB]
Get: 79 http://deb.debian.org/debian unstable/main armhf libkrb5-dev armhf 1.21.3-3 [15.8 kB]
Get: 80 http://deb.debian.org/debian unstable/main armhf libldap-dev armhf 2.5.18+dfsg-3+b1 [282 kB]
Get: 81 http://deb.debian.org/debian unstable/main armhf libpkgconf3 armhf 1.8.1-4 [31.8 kB]
Get: 82 http://deb.debian.org/debian unstable/main armhf pkgconf-bin armhf 1.8.1-4 [29.2 kB]
Get: 83 http://deb.debian.org/debian unstable/main armhf pkgconf armhf 1.8.1-4 [26.1 kB]
Get: 84 http://deb.debian.org/debian unstable/main armhf libnghttp2-dev armhf 1.64.0-1 [103 kB]
Get: 85 http://deb.debian.org/debian unstable/main armhf libnghttp3-dev armhf 1.6.0-2 [81.8 kB]
Get: 86 http://deb.debian.org/debian unstable/main armhf libngtcp2-crypto-gnutls-dev armhf 1.9.1-1 [21.3 kB]
Get: 87 http://deb.debian.org/debian unstable/main armhf libngtcp2-dev armhf 1.9.1-1 [165 kB]
Get: 88 http://deb.debian.org/debian unstable/main armhf libpsl-dev armhf 0.21.2-1.1+b1 [76.8 kB]
Get: 89 http://deb.debian.org/debian unstable/main armhf zlib1g-dev armhf 1:1.3.dfsg+really1.3.1-1+b1 [905 kB]
Get: 90 http://deb.debian.org/debian unstable/main armhf librtmp-dev armhf 2.4+20151223.gitfa8646d.1-2+b5 [63.6 kB]
Get: 91 http://deb.debian.org/debian unstable/main armhf libssl-dev armhf 3.3.2-2 [2385 kB]
Get: 92 http://deb.debian.org/debian unstable/main armhf libssh2-1-dev armhf 1.11.1-1 [378 kB]
Get: 93 http://deb.debian.org/debian unstable/main armhf libzstd-dev armhf 1.5.6+dfsg-1+b1 [327 kB]
Get: 94 http://deb.debian.org/debian unstable/main armhf libcurl4-gnutls-dev armhf 8.11.0-1 [434 kB]
Get: 95 http://deb.debian.org/debian unstable/main armhf libdeflate0 armhf 1.22-1 [36.3 kB]
Get: 96 http://deb.debian.org/debian unstable/main armhf libdeflate-dev armhf 1.22-1 [44.5 kB]
Get: 97 http://deb.debian.org/debian unstable/main armhf libdivsufsort3 armhf 2.0.1-6+b1 [45.0 kB]
Get: 98 http://deb.debian.org/debian unstable/main armhf libdivsufsort-dev armhf 2.0.1-6+b1 [19.1 kB]
Get: 99 http://deb.debian.org/debian unstable/main armhf libhtscodecs2 armhf 1.6.1-1 [63.1 kB]
Get: 100 http://deb.debian.org/debian unstable/main armhf libhts3t64 armhf 1.20+ds-2 [401 kB]
Get: 101 http://deb.debian.org/debian unstable/main armhf liblzma-dev armhf 5.6.3-1+b1 [304 kB]
Get: 102 http://deb.debian.org/debian unstable/main armhf libhts-dev armhf 1.20+ds-2 [1625 kB]
Get: 103 http://deb.debian.org/debian experimental/main armhf libseqan2-dev all 2.5.0~rc3+dfsg-1 [1222 kB]
Get: 104 http://deb.debian.org/debian unstable/main armhf libtclap-dev armhf 1.2.5-1+b1 [3359 kB]
Fetched 60.3 MB in 1s (40.6 MB/s)
debconf: delaying package configuration, since apt-utils is not installed
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I: Building the package
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hostname: Name or service not known
I: Running cd /build/reproducible-path/sibelia-3.0.7+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S  > ../sibelia_3.0.7+dfsg-4_source.changes
dpkg-buildpackage: info: source package sibelia
dpkg-buildpackage: info: source version 3.0.7+dfsg-4
dpkg-buildpackage: info: source distribution experimental
dpkg-buildpackage: info: source changed by Michael R. Crusoe <crusoe@debian.org>
 dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
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dh clean --sourcedirectory=src
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	cd obj-arm-linux-gnueabihf && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config 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_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/arm-linux-gnueabihf ../src
CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required):
  Compatibility with CMake < 3.10 will be removed from a future version of
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  Update the VERSION argument <min> value.  Or, use the <min>...<max> syntax
  to tell CMake that the project requires at least <min> but has been updated
  to work with policies introduced by <max> or earlier.


-- The CXX compiler identification is GNU 14.2.0
-- Detecting CXX compiler ABI info
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[ 15%] Building CXX object CMakeFiles/Sibelia.dir/indexedsequence.cpp.o
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[ 20%] Building CXX object CMakeFiles/Sibelia.dir/util.cpp.o
/usr/bin/c++  -I/build/reproducible-path/sibelia-3.0.7+dfsg/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/sibelia-3.0.7+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -MD -MT CMakeFiles/Sibelia.dir/util.cpp.o -MF CMakeFiles/Sibelia.dir/util.cpp.o.d -o CMakeFiles/Sibelia.dir/util.cpp.o -c /build/reproducible-path/sibelia-3.0.7+dfsg/src/util.cpp
In file included from /usr/include/boost/bind/detail/requires_cxx11.hpp:9,
                 from /usr/include/boost/bind/bind.hpp:24,
                 from /usr/include/boost/bind.hpp:29,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:31,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/fasta.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/hashing.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.cpp:7:
/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/boost/bind/detail/requires_cxx11.hpp:9,
                 from /usr/include/boost/bind/bind.hpp:24,
                 from /usr/include/boost/bind.hpp:29,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:31,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockfinder.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/util.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/util.cpp:7:
/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:104:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  104 |                 struct FancyIterator: public std::iterator<std::forward_iterator_tag, ReturnType>
      |                                                   ^~~~~~~~
In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66,
                 from /usr/include/c++/14/string:47,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:12:
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:12:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/unrolledlist.h:36:45: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   36 |                 class iterator: public std::iterator<std::bidirectional_iterator_tag, T>
      |                                             ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:51:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   51 |                 class StrandIterator: public std::iterator<std::bidirectional_iterator_tag, char, size_t>
      |                                                   ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:37:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   37 |                 std::auto_ptr<DNASequence> sequence_;
      |                      ^~~~~~~~
In file included from /usr/include/c++/14/memory:78,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:20:
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:38:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   38 |                 std::auto_ptr<BifurcationStorage> bifStorage_;
      |                      ^~~~~~~~
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:104:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  104 |                 struct FancyIterator: public std::iterator<std::forward_iterator_tag, ReturnType>
      |                                                   ^~~~~~~~
In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66,
                 from /usr/include/c++/14/string:47,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:12:
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:12,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.h:11:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/unrolledlist.h:36:45: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   36 |                 class iterator: public std::iterator<std::bidirectional_iterator_tag, T>
      |                                             ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:51:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   51 |                 class StrandIterator: public std::iterator<std::bidirectional_iterator_tag, char, size_t>
      |                                                   ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockfinder.h:11:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:37:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   37 |                 std::auto_ptr<DNASequence> sequence_;
      |                      ^~~~~~~~
In file included from /usr/include/c++/14/memory:78,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:20:
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:38:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   38 |                 std::auto_ptr<BifurcationStorage> bifStorage_;
      |                      ^~~~~~~~
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
[ 25%] Building CXX object CMakeFiles/Sibelia.dir/outputgenerator.cpp.o
/usr/bin/c++  -I/build/reproducible-path/sibelia-3.0.7+dfsg/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/sibelia-3.0.7+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -MD -MT CMakeFiles/Sibelia.dir/outputgenerator.cpp.o -MF CMakeFiles/Sibelia.dir/outputgenerator.cpp.o.d -o CMakeFiles/Sibelia.dir/outputgenerator.cpp.o -c /build/reproducible-path/sibelia-3.0.7+dfsg/src/outputgenerator.cpp
[ 30%] Building CXX object CMakeFiles/Sibelia.dir/blockfinder.cpp.o
/usr/bin/c++  -I/build/reproducible-path/sibelia-3.0.7+dfsg/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/sibelia-3.0.7+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -MD -MT CMakeFiles/Sibelia.dir/blockfinder.cpp.o -MF CMakeFiles/Sibelia.dir/blockfinder.cpp.o.d -o CMakeFiles/Sibelia.dir/blockfinder.cpp.o -c /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockfinder.cpp
In file included from /usr/include/boost/bind/detail/requires_cxx11.hpp:9,
                 from /usr/include/boost/bind/bind.hpp:24,
                 from /usr/include/boost/bind.hpp:29,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:31,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/fasta.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/postprocessor.h:13,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/sibelia.cpp:8:
/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/boost/bind/detail/requires_cxx11.hpp:9,
                 from /usr/include/boost/bind/bind.hpp:24,
                 from /usr/include/boost/bind.hpp:29,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:31,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/fasta.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/postprocessor.h:13,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/postprocessor.cpp:9:
/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:104:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  104 |                 struct FancyIterator: public std::iterator<std::forward_iterator_tag, ReturnType>
      |                                                   ^~~~~~~~
In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66,
                 from /usr/include/c++/14/string:47,
                 from /usr/include/tclap/SwitchArg.h:29,
                 from /usr/include/tclap/CmdLine.h:27,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/sibelia.cpp:7:
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:12,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.h:11,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/postprocessor.h:14:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/unrolledlist.h:36:45: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   36 |                 class iterator: public std::iterator<std::bidirectional_iterator_tag, T>
      |                                             ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:51:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   51 |                 class StrandIterator: public std::iterator<std::bidirectional_iterator_tag, char, size_t>
      |                                                   ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockfinder.h:11,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/util.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/sibelia.cpp:9:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:37:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   37 |                 std::auto_ptr<DNASequence> sequence_;
      |                      ^~~~~~~~
In file included from /usr/include/c++/14/memory:78,
                 from /usr/include/seqan/basic/test_system.h:53,
                 from /usr/include/seqan/basic.h:65,
                 from /usr/include/seqan/align.h:55,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/postprocessor.h:10:
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:38:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   38 |                 std::auto_ptr<BifurcationStorage> bifStorage_;
      |                      ^~~~~~~~
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/sibelia.cpp: In function ‘int main(int, char**)’:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/sibelia.cpp:239:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
  239 |                 std::auto_ptr<SyntenyFinder::BlockFinder> finder(inRAM.isSet() ? new SyntenyFinder::BlockFinder(chrList) : new SyntenyFinder::BlockFinder(chrList, tempDir));
      |                      ^~~~~~~~
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:104:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  104 |                 struct FancyIterator: public std::iterator<std::forward_iterator_tag, ReturnType>
      |                                                   ^~~~~~~~
In file included from /usr/include/c++/14/bits/stl_algobase.h:65,
                 from /usr/include/c++/14/algorithm:60,
                 from /usr/include/seqan/align.h:53,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/postprocessor.h:10:
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:12,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.h:11,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/postprocessor.h:14:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/unrolledlist.h:36:45: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   36 |                 class iterator: public std::iterator<std::bidirectional_iterator_tag, T>
      |                                             ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:51:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   51 |                 class StrandIterator: public std::iterator<std::bidirectional_iterator_tag, char, size_t>
      |                                                   ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /usr/include/boost/bind/detail/requires_cxx11.hpp:9,
                 from /usr/include/boost/bind/bind.hpp:24,
                 from /usr/include/boost/bind.hpp:29,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:31,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockfinder.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/util.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/outputgenerator.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/outputgenerator.cpp:9:
/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/boost/bind/detail/requires_cxx11.hpp:9,
                 from /usr/include/boost/bind/bind.hpp:24,
                 from /usr/include/boost/bind.hpp:29,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:31,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockfinder.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockfinder.cpp:7:
/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:104:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  104 |                 struct FancyIterator: public std::iterator<std::forward_iterator_tag, ReturnType>
      |                                                   ^~~~~~~~
In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66,
                 from /usr/include/c++/14/string:47,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:12:
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:12,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.h:11:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/unrolledlist.h:36:45: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   36 |                 class iterator: public std::iterator<std::bidirectional_iterator_tag, T>
      |                                             ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:51:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   51 |                 class StrandIterator: public std::iterator<std::bidirectional_iterator_tag, char, size_t>
      |                                                   ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockfinder.h:11:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:37:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   37 |                 std::auto_ptr<DNASequence> sequence_;
      |                      ^~~~~~~~
In file included from /usr/include/c++/14/memory:78,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:20:
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:38:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   38 |                 std::auto_ptr<BifurcationStorage> bifStorage_;
      |                      ^~~~~~~~
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:104:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  104 |                 struct FancyIterator: public std::iterator<std::forward_iterator_tag, ReturnType>
      |                                                   ^~~~~~~~
In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66,
                 from /usr/include/c++/14/string:47,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:12:
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:12,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.h:11:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/unrolledlist.h:36:45: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   36 |                 class iterator: public std::iterator<std::bidirectional_iterator_tag, T>
      |                                             ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:51:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   51 |                 class StrandIterator: public std::iterator<std::bidirectional_iterator_tag, char, size_t>
      |                                                   ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockfinder.h:11:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:37:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   37 |                 std::auto_ptr<DNASequence> sequence_;
      |                      ^~~~~~~~
In file included from /usr/include/c++/14/memory:78,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:20:
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:38:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   38 |                 std::auto_ptr<BifurcationStorage> bifStorage_;
      |                      ^~~~~~~~
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
[ 35%] Building CXX object CMakeFiles/Sibelia.dir/blockinstance.cpp.o
/usr/bin/c++  -I/build/reproducible-path/sibelia-3.0.7+dfsg/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/sibelia-3.0.7+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -MD -MT CMakeFiles/Sibelia.dir/blockinstance.cpp.o -MF CMakeFiles/Sibelia.dir/blockinstance.cpp.o.d -o CMakeFiles/Sibelia.dir/blockinstance.cpp.o -c /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.cpp
In file included from /usr/include/boost/bind/detail/requires_cxx11.hpp:9,
                 from /usr/include/boost/bind/bind.hpp:24,
                 from /usr/include/boost/bind.hpp:29,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:31,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.cpp:7:
/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:104:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  104 |                 struct FancyIterator: public std::iterator<std::forward_iterator_tag, ReturnType>
      |                                                   ^~~~~~~~
In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66,
                 from /usr/include/c++/14/string:47,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:12:
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:12,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.h:11:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/unrolledlist.h:36:45: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   36 |                 class iterator: public std::iterator<std::bidirectional_iterator_tag, T>
      |                                             ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:51:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   51 |                 class StrandIterator: public std::iterator<std::bidirectional_iterator_tag, char, size_t>
      |                                                   ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
[ 40%] Building CXX object CMakeFiles/Sibelia.dir/bifurcationstorage.cpp.o
/usr/bin/c++  -I/build/reproducible-path/sibelia-3.0.7+dfsg/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/sibelia-3.0.7+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -MD -MT CMakeFiles/Sibelia.dir/bifurcationstorage.cpp.o -MF CMakeFiles/Sibelia.dir/bifurcationstorage.cpp.o.d -o CMakeFiles/Sibelia.dir/bifurcationstorage.cpp.o -c /build/reproducible-path/sibelia-3.0.7+dfsg/src/bifurcationstorage.cpp
In file included from /usr/include/boost/bind/detail/requires_cxx11.hpp:9,
                 from /usr/include/boost/bind/bind.hpp:24,
                 from /usr/include/boost/bind.hpp:29,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:31,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/fasta.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/bifurcationstorage.h:11,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/bifurcationstorage.cpp:7:
/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:104:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  104 |                 struct FancyIterator: public std::iterator<std::forward_iterator_tag, ReturnType>
      |                                                   ^~~~~~~~
In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66,
                 from /usr/include/c++/14/string:47,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:12:
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:12:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/unrolledlist.h:36:45: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   36 |                 class iterator: public std::iterator<std::bidirectional_iterator_tag, T>
      |                                             ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:51:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   51 |                 class StrandIterator: public std::iterator<std::bidirectional_iterator_tag, char, size_t>
      |                                                   ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
[ 45%] Building CXX object CMakeFiles/Sibelia.dir/bulgeremoval.cpp.o
/usr/bin/c++  -I/build/reproducible-path/sibelia-3.0.7+dfsg/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/sibelia-3.0.7+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -MD -MT CMakeFiles/Sibelia.dir/bulgeremoval.cpp.o -MF CMakeFiles/Sibelia.dir/bulgeremoval.cpp.o.d -o CMakeFiles/Sibelia.dir/bulgeremoval.cpp.o -c /build/reproducible-path/sibelia-3.0.7+dfsg/src/bulgeremoval.cpp
[ 50%] Building CXX object CMakeFiles/Sibelia.dir/dnasequence.cpp.o
/usr/bin/c++  -I/build/reproducible-path/sibelia-3.0.7+dfsg/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/sibelia-3.0.7+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -MD -MT CMakeFiles/Sibelia.dir/dnasequence.cpp.o -MF CMakeFiles/Sibelia.dir/dnasequence.cpp.o.d -o CMakeFiles/Sibelia.dir/dnasequence.cpp.o -c /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.cpp
In file included from /usr/include/boost/bind/detail/requires_cxx11.hpp:9,
                 from /usr/include/boost/bind/bind.hpp:24,
                 from /usr/include/boost/bind.hpp:29,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:31,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockfinder.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/bulgeremoval.cpp:7:
/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
[ 55%] Building CXX object CMakeFiles/Sibelia.dir/edge.cpp.o
/usr/bin/c++  -I/build/reproducible-path/sibelia-3.0.7+dfsg/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/sibelia-3.0.7+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -MD -MT CMakeFiles/Sibelia.dir/edge.cpp.o -MF CMakeFiles/Sibelia.dir/edge.cpp.o.d -o CMakeFiles/Sibelia.dir/edge.cpp.o -c /build/reproducible-path/sibelia-3.0.7+dfsg/src/edge.cpp
In file included from /usr/include/boost/bind/detail/requires_cxx11.hpp:9,
                 from /usr/include/boost/bind/bind.hpp:24,
                 from /usr/include/boost/bind.hpp:29,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:31,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/fasta.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.cpp:7:
/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:104:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  104 |                 struct FancyIterator: public std::iterator<std::forward_iterator_tag, ReturnType>
      |                                                   ^~~~~~~~
In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66,
                 from /usr/include/c++/14/string:47,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:12:
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:12,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.h:11:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/unrolledlist.h:36:45: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   36 |                 class iterator: public std::iterator<std::bidirectional_iterator_tag, T>
      |                                             ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:51:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   51 |                 class StrandIterator: public std::iterator<std::bidirectional_iterator_tag, char, size_t>
      |                                                   ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockfinder.h:11:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:37:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   37 |                 std::auto_ptr<DNASequence> sequence_;
      |                      ^~~~~~~~
In file included from /usr/include/c++/14/memory:78,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:20:
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:38:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   38 |                 std::auto_ptr<BifurcationStorage> bifStorage_;
      |                      ^~~~~~~~
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
[ 60%] Building CXX object CMakeFiles/Sibelia.dir/fasta.cpp.o
/usr/bin/c++  -I/build/reproducible-path/sibelia-3.0.7+dfsg/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/sibelia-3.0.7+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -MD -MT CMakeFiles/Sibelia.dir/fasta.cpp.o -MF CMakeFiles/Sibelia.dir/fasta.cpp.o.d -o CMakeFiles/Sibelia.dir/fasta.cpp.o -c /build/reproducible-path/sibelia-3.0.7+dfsg/src/fasta.cpp
/build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:104:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  104 |                 struct FancyIterator: public std::iterator<std::forward_iterator_tag, ReturnType>
      |                                                   ^~~~~~~~
In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66,
                 from /usr/include/c++/14/string:47,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:12:
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:12:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/unrolledlist.h:36:45: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   36 |                 class iterator: public std::iterator<std::bidirectional_iterator_tag, T>
      |                                             ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:51:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   51 |                 class StrandIterator: public std::iterator<std::bidirectional_iterator_tag, char, size_t>
      |                                                   ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /usr/include/boost/bind/detail/requires_cxx11.hpp:9,
                 from /usr/include/boost/bind/bind.hpp:24,
                 from /usr/include/boost/bind.hpp:29,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:31,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockfinder.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/edge.cpp:7:
/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:104:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  104 |                 struct FancyIterator: public std::iterator<std::forward_iterator_tag, ReturnType>
      |                                                   ^~~~~~~~
In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66,
                 from /usr/include/c++/14/string:47,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:12:
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:12,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.h:11:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/unrolledlist.h:36:45: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   36 |                 class iterator: public std::iterator<std::bidirectional_iterator_tag, T>
      |                                             ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:51:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   51 |                 class StrandIterator: public std::iterator<std::bidirectional_iterator_tag, char, size_t>
      |                                                   ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockfinder.h:11:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:37:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   37 |                 std::auto_ptr<DNASequence> sequence_;
      |                      ^~~~~~~~
In file included from /usr/include/c++/14/memory:78,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:20:
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:38:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   38 |                 std::auto_ptr<BifurcationStorage> bifStorage_;
      |                      ^~~~~~~~
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
In file included from /usr/include/boost/bind/detail/requires_cxx11.hpp:9,
                 from /usr/include/boost/bind/bind.hpp:24,
                 from /usr/include/boost/bind.hpp:29,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:31,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/fasta.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/fasta.cpp:7:
/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
[ 65%] Building CXX object CMakeFiles/Sibelia.dir/serialization.cpp.o
/usr/bin/c++  -I/build/reproducible-path/sibelia-3.0.7+dfsg/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/sibelia-3.0.7+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -MD -MT CMakeFiles/Sibelia.dir/serialization.cpp.o -MF CMakeFiles/Sibelia.dir/serialization.cpp.o.d -o CMakeFiles/Sibelia.dir/serialization.cpp.o -c /build/reproducible-path/sibelia-3.0.7+dfsg/src/serialization.cpp
/build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:104:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  104 |                 struct FancyIterator: public std::iterator<std::forward_iterator_tag, ReturnType>
      |                                                   ^~~~~~~~
In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66,
                 from /usr/include/c++/14/string:47,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:12:
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
[ 70%] Building CXX object CMakeFiles/Sibelia.dir/synteny.cpp.o
/usr/bin/c++  -I/build/reproducible-path/sibelia-3.0.7+dfsg/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/sibelia-3.0.7+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -MD -MT CMakeFiles/Sibelia.dir/synteny.cpp.o -MF CMakeFiles/Sibelia.dir/synteny.cpp.o.d -o CMakeFiles/Sibelia.dir/synteny.cpp.o -c /build/reproducible-path/sibelia-3.0.7+dfsg/src/synteny.cpp
[ 75%] Building CXX object CMakeFiles/Sibelia.dir/test/unrolledlisttest.cpp.o
/usr/bin/c++  -I/build/reproducible-path/sibelia-3.0.7+dfsg/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/sibelia-3.0.7+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -MD -MT CMakeFiles/Sibelia.dir/test/unrolledlisttest.cpp.o -MF CMakeFiles/Sibelia.dir/test/unrolledlisttest.cpp.o.d -o CMakeFiles/Sibelia.dir/test/unrolledlisttest.cpp.o -c /build/reproducible-path/sibelia-3.0.7+dfsg/src/test/unrolledlisttest.cpp
[ 80%] Building CXX object CMakeFiles/Sibelia.dir/platform.cpp.o
/usr/bin/c++  -I/build/reproducible-path/sibelia-3.0.7+dfsg/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/sibelia-3.0.7+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -MD -MT CMakeFiles/Sibelia.dir/platform.cpp.o -MF CMakeFiles/Sibelia.dir/platform.cpp.o.d -o CMakeFiles/Sibelia.dir/platform.cpp.o -c /build/reproducible-path/sibelia-3.0.7+dfsg/src/platform.cpp
In file included from /usr/include/boost/bind/detail/requires_cxx11.hpp:9,
                 from /usr/include/boost/bind/bind.hpp:24,
                 from /usr/include/boost/bind.hpp:29,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:31,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockfinder.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/serialization.cpp:7:
/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:104:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  104 |                 struct FancyIterator: public std::iterator<std::forward_iterator_tag, ReturnType>
      |                                                   ^~~~~~~~
In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66,
                 from /usr/include/c++/14/string:47,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:12:
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:12,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.h:11:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/unrolledlist.h:36:45: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   36 |                 class iterator: public std::iterator<std::bidirectional_iterator_tag, T>
      |                                             ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:51:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   51 |                 class StrandIterator: public std::iterator<std::bidirectional_iterator_tag, char, size_t>
      |                                                   ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /usr/include/boost/bind/detail/requires_cxx11.hpp:9,
                 from /usr/include/boost/bind/bind.hpp:24,
                 from /usr/include/boost/bind.hpp:29,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:31,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockfinder.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/synteny.cpp:9:
/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockfinder.h:11:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:37:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   37 |                 std::auto_ptr<DNASequence> sequence_;
      |                      ^~~~~~~~
In file included from /usr/include/c++/14/memory:78,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:20:
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:38:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   38 |                 std::auto_ptr<BifurcationStorage> bifStorage_;
      |                      ^~~~~~~~
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
In file included from /usr/include/boost/bind/detail/requires_cxx11.hpp:9,
                 from /usr/include/boost/bind/bind.hpp:24,
                 from /usr/include/boost/bind.hpp:29,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/test/../common.h:31,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/test/unrolledlisttest.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/test/unrolledlisttest.cpp:7:
/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:104:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  104 |                 struct FancyIterator: public std::iterator<std::forward_iterator_tag, ReturnType>
      |                                                   ^~~~~~~~
In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66,
                 from /usr/include/c++/14/string:47,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:12:
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:12,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockinstance.h:11:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/unrolledlist.h:36:45: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   36 |                 class iterator: public std::iterator<std::bidirectional_iterator_tag, T>
      |                                             ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:51:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   51 |                 class StrandIterator: public std::iterator<std::bidirectional_iterator_tag, char, size_t>
      |                                                   ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /usr/include/boost/bind/detail/requires_cxx11.hpp:9,
                 from /usr/include/boost/bind/bind.hpp:24,
                 from /usr/include/boost/bind.hpp:29,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:31,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/platform.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/platform.cpp:7:
/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/blockfinder.h:11:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:37:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   37 |                 std::auto_ptr<DNASequence> sequence_;
      |                      ^~~~~~~~
In file included from /usr/include/c++/14/memory:78,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:20:
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:38:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   38 |                 std::auto_ptr<BifurcationStorage> bifStorage_;
      |                      ^~~~~~~~
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/test/../common.h:104:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  104 |                 struct FancyIterator: public std::iterator<std::forward_iterator_tag, ReturnType>
      |                                                   ^~~~~~~~
In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66,
                 from /usr/include/c++/14/string:47,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/test/../common.h:12:
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/test/unrolledlisttest.h:11:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/test/../unrolledlist.h:36:45: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   36 |                 class iterator: public std::iterator<std::bidirectional_iterator_tag, T>
      |                                             ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:104:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  104 |                 struct FancyIterator: public std::iterator<std::forward_iterator_tag, ReturnType>
      |                                                   ^~~~~~~~
In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66,
                 from /usr/include/c++/14/string:47,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:12:
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
[ 85%] Building CXX object CMakeFiles/Sibelia.dir/stranditerator.cpp.o
/usr/bin/c++  -I/build/reproducible-path/sibelia-3.0.7+dfsg/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/sibelia-3.0.7+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -MD -MT CMakeFiles/Sibelia.dir/stranditerator.cpp.o -MF CMakeFiles/Sibelia.dir/stranditerator.cpp.o.d -o CMakeFiles/Sibelia.dir/stranditerator.cpp.o -c /build/reproducible-path/sibelia-3.0.7+dfsg/src/stranditerator.cpp
[ 90%] Building CXX object CMakeFiles/Sibelia.dir/vertexenumeration.cpp.o
/usr/bin/c++  -I/build/reproducible-path/sibelia-3.0.7+dfsg/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/sibelia-3.0.7+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -MD -MT CMakeFiles/Sibelia.dir/vertexenumeration.cpp.o -MF CMakeFiles/Sibelia.dir/vertexenumeration.cpp.o.d -o CMakeFiles/Sibelia.dir/vertexenumeration.cpp.o -c /build/reproducible-path/sibelia-3.0.7+dfsg/src/vertexenumeration.cpp
In file included from /usr/include/boost/bind/detail/requires_cxx11.hpp:9,
                 from /usr/include/boost/bind/bind.hpp:24,
                 from /usr/include/boost/bind.hpp:29,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:31,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/fasta.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/stranditerator.cpp:7:
/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
[ 95%] Building CXX object CMakeFiles/Sibelia.dir/resource.cpp.o
/usr/bin/c++  -I/build/reproducible-path/sibelia-3.0.7+dfsg/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/sibelia-3.0.7+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -MD -MT CMakeFiles/Sibelia.dir/resource.cpp.o -MF CMakeFiles/Sibelia.dir/resource.cpp.o.d -o CMakeFiles/Sibelia.dir/resource.cpp.o -c /build/reproducible-path/sibelia-3.0.7+dfsg/src/resource.cpp
In file included from /usr/include/boost/bind/detail/requires_cxx11.hpp:9,
                 from /usr/include/boost/bind/bind.hpp:24,
                 from /usr/include/boost/bind.hpp:29,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:31,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/fasta.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/hashing.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:10,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/vertexenumeration.cpp:7:
/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:104:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  104 |                 struct FancyIterator: public std::iterator<std::forward_iterator_tag, ReturnType>
      |                                                   ^~~~~~~~
In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66,
                 from /usr/include/c++/14/string:47,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:12:
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:12:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/unrolledlist.h:36:45: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   36 |                 class iterator: public std::iterator<std::bidirectional_iterator_tag, T>
      |                                             ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:51:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   51 |                 class StrandIterator: public std::iterator<std::bidirectional_iterator_tag, char, size_t>
      |                                                   ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:104:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  104 |                 struct FancyIterator: public std::iterator<std::forward_iterator_tag, ReturnType>
      |                                                   ^~~~~~~~
In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66,
                 from /usr/include/c++/14/string:47,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:12:
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
In file included from /build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:12:
/build/reproducible-path/sibelia-3.0.7+dfsg/src/unrolledlist.h:36:45: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   36 |                 class iterator: public std::iterator<std::bidirectional_iterator_tag, T>
      |                                             ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/dnasequence.h:51:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
   51 |                 class StrandIterator: public std::iterator<std::bidirectional_iterator_tag, char, size_t>
      |                                                   ^~~~~~~~
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:37:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   37 |                 std::auto_ptr<DNASequence> sequence_;
      |                      ^~~~~~~~
In file included from /usr/include/c++/14/memory:78,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:20:
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/indexedsequence.h:38:22: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
   38 |                 std::auto_ptr<BifurcationStorage> bifStorage_;
      |                      ^~~~~~~~
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
   59 |   template<typename> class auto_ptr;
      |                            ^~~~~~~~
In file included from /usr/include/boost/bind/detail/requires_cxx11.hpp:9,
                 from /usr/include/boost/bind/bind.hpp:24,
                 from /usr/include/boost/bind.hpp:29,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:31,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/resource.h:6,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/resource.cpp:6:
/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:104:51: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  104 |                 struct FancyIterator: public std::iterator<std::forward_iterator_tag, ReturnType>
      |                                                   ^~~~~~~~
In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66,
                 from /usr/include/c++/14/string:47,
                 from /build/reproducible-path/sibelia-3.0.7+dfsg/src/common.h:12:
/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here
  127 |     struct _GLIBCXX17_DEPRECATED iterator
      |                                  ^~~~~~~~
[100%] Linking CXX executable Sibelia
/usr/bin/cmake -E cmake_link_script CMakeFiles/Sibelia.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/sibelia-3.0.7+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--dependency-file,CMakeFiles/Sibelia.dir/link.d CMakeFiles/Sibelia.dir/sibelia.cpp.o CMakeFiles/Sibelia.dir/postprocessor.cpp.o CMakeFiles/Sibelia.dir/indexedsequence.cpp.o CMakeFiles/Sibelia.dir/util.cpp.o CMakeFiles/Sibelia.dir/outputgenerator.cpp.o CMakeFiles/Sibelia.dir/blockfinder.cpp.o CMakeFiles/Sibelia.dir/blockinstance.cpp.o CMakeFiles/Sibelia.dir/bifurcationstorage.cpp.o CMakeFiles/Sibelia.dir/bulgeremoval.cpp.o CMakeFiles/Sibelia.dir/dnasequence.cpp.o CMakeFiles/Sibelia.dir/edge.cpp.o CMakeFiles/Sibelia.dir/fasta.cpp.o CMakeFiles/Sibelia.dir/serialization.cpp.o CMakeFiles/Sibelia.dir/synteny.cpp.o CMakeFiles/Sibelia.dir/test/unrolledlisttest.cpp.o CMakeFiles/Sibelia.dir/platform.cpp.o CMakeFiles/Sibelia.dir/stranditerator.cpp.o CMakeFiles/Sibelia.dir/vertexenumeration.cpp.o CMakeFiles/Sibelia.dir/resource.cpp.o -o Sibelia  -ldivsufsort
make[3]: Leaving directory '/build/reproducible-path/sibelia-3.0.7+dfsg/obj-arm-linux-gnueabihf'
[100%] Built target Sibelia
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	cd obj-arm-linux-gnueabihf && make -j4 install DESTDIR=/build/reproducible-path/sibelia-3.0.7\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true"
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Install the project...
/usr/bin/cmake -P cmake_install.cmake
-- Install configuration: "Release"
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/bin/Sibelia
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/NEWS.md
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/ANNOTATION.md
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/README.md
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/USAGE.md
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/INSTALL.md
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/SIBELIA.md
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/C-SIBELIA.md
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/LICENSE.txt
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Staphylococcus_aureus
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Staphylococcus_aureus/circos
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Staphylococcus_aureus/circos/circos.png
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Staphylococcus_aureus/circos/circos.highlight.txt
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Staphylococcus_aureus/circos/circos.svg
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-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Staphylococcus_aureus/circos/circos.sequences.txt
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Staphylococcus_aureus/circos/circos.segdup.txt
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Staphylococcus_aureus/circos/circos.conf
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Staphylococcus_aureus/Staphylococcus.fasta
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Staphylococcus_aureus/d3_blocks_diagram.html
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Staphylococcus_aureus/coverage_report.txt
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Staphylococcus_aureus/README.txt
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Staphylococcus_aureus/genomes_permutations.txt
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Staphylococcus_aureus/blocks_coords.txt
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Helicobacter_pylori
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Helicobacter_pylori/circos
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Helicobacter_pylori/circos/circos.highlight1.txt
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Helicobacter_pylori/circos/circos.png
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-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Helicobacter_pylori/circos/circos.highlight3.txt
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Helicobacter_pylori/circos/circos.svg
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Helicobacter_pylori/circos/circos.image.conf
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Helicobacter_pylori/circos/circos.highlight2.txt
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Helicobacter_pylori/circos/circos.sequences.txt
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Helicobacter_pylori/circos/circos.segdup.txt
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Helicobacter_pylori/circos/circos.conf
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Helicobacter_pylori/circos/circos.highlight4.txt
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Helicobacter_pylori/d3_blocks_diagram.html
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Helicobacter_pylori/coverage_report.txt
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Helicobacter_pylori/README.txt
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Helicobacter_pylori/genomes_permutations.txt
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Helicobacter_pylori/Helicobacter_pylori.fasta
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/Sibelia/Helicobacter_pylori/blocks_coords.txt
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/C-Sibelia
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/C-Sibelia/Staphylococcus_aureus
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/C-Sibelia/Staphylococcus_aureus/RN4220.fasta
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/C-Sibelia/Staphylococcus_aureus/README.txt
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/C-Sibelia/Staphylococcus_aureus/variant.vcf
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/doc/examples/C-Sibelia/Staphylococcus_aureus/NCTC8325.fasta
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/bin/C-Sibelia.py
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/utils
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/utils/sortsequences.py
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/share/Sibelia/utils/hidemappedcontigs.py
-- Installing: /build/reproducible-path/sibelia-3.0.7+dfsg/debian/tmp/usr/lib/Sibelia
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   debian/rules override_dh_install
make[1]: Entering directory '/build/reproducible-path/sibelia-3.0.7+dfsg'
dh_install
find debian -name LICENSE.txt -delete
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make[1]: Entering directory '/build/reproducible-path/sibelia-3.0.7+dfsg'
dh_installman -a
mv debian/sibelia/usr/share/man/py/man1/C-Sibelia.1 debian/sibelia/usr/share/man/man1/C-Sibelia.py.1
rm -rf debian/sibelia/usr/share/man/py
make[1]: Leaving directory '/build/reproducible-path/sibelia-3.0.7+dfsg'
   dh_installman -O--sourcedirectory=src -Nsibelia
   dh_installinit -O--sourcedirectory=src
   dh_installsystemduser -O--sourcedirectory=src
   dh_lintian -O--sourcedirectory=src
   dh_perl -O--sourcedirectory=src
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   dh_strip_nondeterminism -O--sourcedirectory=src
   dh_compress -O--sourcedirectory=src
   dh_fixperms -O--sourcedirectory=src
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   dh_dwz -O--sourcedirectory=src
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   dh_shlibdeps -O--sourcedirectory=src
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
 diversion by libc6 from: /lib/ld-linux-armhf.so.3
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
 diversion by libc6 to: /lib/ld-linux-armhf.so.3.usr-is-merged
dpkg-shlibdeps: warning: debian/sibelia/usr/bin/Sibelia contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
   dh_installdeb -O--sourcedirectory=src
   dh_gencontrol -O--sourcedirectory=src
   dh_md5sums -O--sourcedirectory=src
   dh_builddeb -O--sourcedirectory=src
dpkg-deb: building package 'sibelia-dbgsym' in '../sibelia-dbgsym_3.0.7+dfsg-4_armhf.deb'.
dpkg-deb: building package 'sibelia' in '../sibelia_3.0.7+dfsg-4_armhf.deb'.
dpkg-deb: building package 'sibelia-examples' in '../sibelia-examples_3.0.7+dfsg-4_all.deb'.
 dpkg-genbuildinfo --build=binary -O../sibelia_3.0.7+dfsg-4_armhf.buildinfo
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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/30252/tmp/hooks/B01_cleanup starting
I: user script /srv/workspace/pbuilder/30252/tmp/hooks/B01_cleanup finished
I: unmounting dev/ptmx filesystem
I: unmounting dev/pts filesystem
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I: unmounting proc filesystem
I: unmounting sys filesystem
I: cleaning the build env 
I: removing directory /srv/workspace/pbuilder/30252 and its subdirectories
I: Current time: Fri Nov 29 06:50:29 +14 2024
I: pbuilder-time-stamp: 1732812629