I: pbuilder: network access will be disabled during build
I: Current time: Thu Apr  2 05:32:39 -12 2026
I: pbuilder-time-stamp: 1775151159
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/unstable-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 [tipp_1.0+dfsg-3.dsc]
I: copying [./tipp_1.0+dfsg.orig.tar.xz]
I: copying [./tipp_1.0+dfsg-3.debian.tar.xz]
I: Extracting source
dpkg-source: warning: cannot verify inline signature for ./tipp_1.0+dfsg-3.dsc: unsupported subcommand
dpkg-source: info: extracting tipp in tipp-1.0+dfsg
dpkg-source: info: unpacking tipp_1.0+dfsg.orig.tar.xz
dpkg-source: info: unpacking tipp_1.0+dfsg-3.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying setup.patch
dpkg-source: info: applying use_debian_packaged_guppy_from_pplacer.patch
dpkg-source: info: applying change_java_version_for_ant.patch
dpkg-source: info: applying java_build.patch
dpkg-source: info: applying configuration_files_in_etc_and_per_user.patch
dpkg-source: info: applying using_python3_interpreter.patch
dpkg-source: info: applying tipp_metagenomics.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/3455421/tmp/hooks/D02_print_environment starting
I: set
  BUILDDIR='/build/reproducible-path'
  BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other'
  BUILDUSERNAME='pbuilder1'
  BUILD_ARCH='amd64'
  DEBIAN_FRONTEND='noninteractive'
  DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 '
  DISTRIBUTION='unstable'
  HOME='/root'
  HOST_ARCH='amd64'
  IFS=' 	
  '
  INVOCATION_ID='c5358b5e7b994278bcc9b99319d0551a'
  LANG='C'
  LANGUAGE='en_US:en'
  LC_ALL='C'
  MAIL='/var/mail/root'
  OPTIND='1'
  PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games'
  PBCURRENTCOMMANDLINEOPERATION='build'
  PBUILDER_OPERATION='build'
  PBUILDER_PKGDATADIR='/usr/share/pbuilder'
  PBUILDER_PKGLIBDIR='/usr/lib/pbuilder'
  PBUILDER_SYSCONFDIR='/etc'
  PPID='3455421'
  PS1='# '
  PS2='> '
  PS4='+ '
  PWD='/'
  SHELL='/bin/bash'
  SHLVL='2'
  SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.11kaiq2B/pbuilderrc_swsV --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.11kaiq2B/b1 --logfile b1/build.log tipp_1.0+dfsg-3.dsc'
  SUDO_GID='109'
  SUDO_UID='104'
  SUDO_USER='jenkins'
  TERM='unknown'
  TZ='/usr/share/zoneinfo/Etc/GMT+12'
  USER='root'
  _='/usr/bin/systemd-run'
I: uname -a
  Linux infom02-amd64 6.12.9+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.9-1~bpo12+1 (2025-01-19) x86_64 GNU/Linux
I: ls -l /bin
  lrwxrwxrwx 1 root root 7 Nov 22  2024 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/3455421/tmp/hooks/D02_print_environment finished
 -> Attempting to satisfy build-dependencies
 -> Creating pbuilder-satisfydepends-dummy package
Package: pbuilder-satisfydepends-dummy
Version: 0.invalid.0
Architecture: amd64
Maintainer: Debian Pbuilder Team <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 (= 13), dh-python, python3, python3-setuptools, python3-dendropy, ant, libjenkins-json-java, libgoogle-gson-java, ncbi-blast+, sepp (>= 4.5.1+really4.5.1+dfsg-1~)
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19779 files and directories currently installed.)
Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ...
Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ...
dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested:
 pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however:
  Package debhelper-compat is not installed.
 pbuilder-satisfydepends-dummy depends on dh-python; however:
  Package dh-python is not installed.
 pbuilder-satisfydepends-dummy depends on python3; however:
  Package python3 is not installed.
 pbuilder-satisfydepends-dummy depends on python3-setuptools; however:
  Package python3-setuptools is not installed.
 pbuilder-satisfydepends-dummy depends on python3-dendropy; however:
  Package python3-dendropy is not installed.
 pbuilder-satisfydepends-dummy depends on ant; however:
  Package ant is not installed.
 pbuilder-satisfydepends-dummy depends on libjenkins-json-java; however:
  Package libjenkins-json-java is not installed.
 pbuilder-satisfydepends-dummy depends on libgoogle-gson-java; however:
  Package libgoogle-gson-java is not installed.
 pbuilder-satisfydepends-dummy depends on ncbi-blast+; however:
  Package ncbi-blast+ is not installed.
 pbuilder-satisfydepends-dummy depends on sepp (>= 4.5.1+really4.5.1+dfsg-1~); however:
  Package sepp 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:
  adwaita-icon-theme{a} ant{a} at-spi2-common{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} dbus{a} dbus-bin{a} dbus-daemon{a} dbus-session-bus-common{a} dbus-system-bus-common{a} dbus-user-session{a} dconf-gsettings-backend{a} dconf-service{a} debhelper{a} default-jre{a} default-jre-headless{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} gettext{a} gettext-base{a} groff-base{a} gtk-update-icon-cache{a} hicolor-icon-theme{a} hmmer{a} intltool-debian{a} java-common{a} junit4{a} libapache-pom-java{a} libapparmor1{a} libarchive-zip-perl{a} libasound2-data{a} libasound2t64{a} libatk-bridge2.0-0t64{a} libatk1.0-0t64{a} libatspi2.0-0t64{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libbrotli1{a} libcairo-gobject2{a} libcairo2{a} libcloudproviders0{a} libcolord2{a} libcom-err2{a} libcommons-beanutils-java{a} libcommons-collections3-java{a} libcommons-collections4-java{a} libcommons-lang-java{a} libcommons-lang3-java{a} libcommons-logging-java{a} libcommons-parent-java{a} libcups2t64{a} libdatrie1{a} libdbus-1-3{a} libdconf1{a} libdebhelper-perl{a} libdeflate0{a} libdivsufsort3{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm2{a} libedit2{a} libelf1t64{a} libepoxy0{a} libexpat1{a} libezmorph-java{a} libffi8{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgbm1{a} libgdk-pixbuf-2.0-0{a} libgdk-pixbuf2.0-common{a} libgif7{a} libgl1{a} libgl1-mesa-dri{a} libglib2.0-0t64{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgnutls30t64{a} libgoogle-gson-java{a} libgraphite2-3{a} libgsl28{a} libgslcblas0{a} libgssapi-krb5-2{a} libgtk-3-0t64{a} libgtk-3-common{a} libhamcrest-java{a} libharfbuzz0b{a} libicu72{a} libidn2-0{a} libjaxen-java{a} libjbig0{a} libjenkins-json-java{a} libjpeg62-turbo{a} libjson-java{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblcms2-2{a} liblerc4{a} libllvm19{a} liblmdb0{a} libmagic-mgc{a} libmagic1t64{a} libmbedcrypto16{a} libmbedtls21{a} libmbedx509-7{a} libnghttp2-14{a} libnspr4{a} libnss3{a} libp11-kit0{a} libpam-systemd{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpciaccess0{a} libpcsclite1{a} libpipeline1{a} libpixman-1-0{a} libpng16-16t64{a} libproc2-0{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libreadline8t64{a} libsensors-config{a} libsensors5{a} libsharpyuv0{a} libslf4j-java{a} libsystemd-shared{a} libtasn1-6{a} libthai-data{a} libthai0{a} libtiff6{a} libtool{a} libuchardet0{a} libunistring5{a} libuv1t64{a} libvulkan1{a} libwayland-client0{a} libwayland-cursor0{a} libwayland-egl1{a} libwayland-server0{a} libwebp7{a} libx11-6{a} libx11-data{a} libx11-xcb1{a} libxau6{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-randr0{a} libxcb-render0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxcomposite1{a} libxcursor1{a} libxdamage1{a} libxdmcp6{a} libxerces2-java{a} libxext6{a} libxfixes3{a} libxi6{a} libxinerama1{a} libxkbcommon0{a} libxml-commons-external-java{a} libxml-commons-resolver1.1-java{a} libxml2{a} libxom-java{a} libxrandr2{a} libxrender1{a} libxshmfence1{a} libxtst6{a} libxxf86vm1{a} libz3-4{a} m4{a} man-db{a} media-types{a} mesa-libgallium{a} ncbi-blast+{a} ncbi-data{a} netbase{a} openjdk-21-jre{a} openjdk-21-jre-headless{a} openssl{a} po-debconf{a} pplacer{a} procps{a} python3{a} python3-autocommand{a} python3-dendropy{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-pkg-resources{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.13{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} sepp{a} shared-mime-info{a} systemd{a} systemd-sysv{a} tzdata{a} x11-common{a} xkb-data{a} 
The following packages are RECOMMENDED but will NOT be installed:
  alsa-topology-conf alsa-ucm-conf ant-optional at-spi2-core chrony curl fonts-dejavu-extra groovy krb5-locales libarchive-cpio-perl libatk-wrapper-java-jni libgdk-pixbuf2.0-bin libglib2.0-data libgtk-3-bin libkmod2 liblog4j1.2-java libltdl-dev libmail-sendmail-perl libnss-systemd librsvg2-common linux-sysctl-defaults lynx mesa-vulkan-drivers ntpsec openntpd psmisc systemd-cryptsetup systemd-timesyncd wget xdg-user-dirs 
0 packages upgraded, 232 newly installed, 0 to remove and 0 not upgraded.
Need to get 186 MB of archives. After unpacking 802 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian unstable/main amd64 libsystemd-shared amd64 257.3-1 [2138 kB]
Get: 2 http://deb.debian.org/debian unstable/main amd64 libapparmor1 amd64 4.1.0~beta5-2+b1 [43.7 kB]
Get: 3 http://deb.debian.org/debian unstable/main amd64 systemd amd64 257.3-1 [3092 kB]
Get: 4 http://deb.debian.org/debian unstable/main amd64 systemd-sysv amd64 257.3-1 [61.4 kB]
Get: 5 http://deb.debian.org/debian unstable/main amd64 libdbus-1-3 amd64 1.16.2-1 [177 kB]
Get: 6 http://deb.debian.org/debian unstable/main amd64 dbus-bin amd64 1.16.2-1 [79.4 kB]
Get: 7 http://deb.debian.org/debian unstable/main amd64 dbus-session-bus-common all 1.16.2-1 [51.6 kB]
Get: 8 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.6.4-1 [106 kB]
Get: 9 http://deb.debian.org/debian unstable/main amd64 dbus-daemon amd64 1.16.2-1 [158 kB]
Get: 10 http://deb.debian.org/debian unstable/main amd64 dbus-system-bus-common all 1.16.2-1 [52.7 kB]
Get: 11 http://deb.debian.org/debian unstable/main amd64 dbus amd64 1.16.2-1 [71.0 kB]
Get: 12 http://deb.debian.org/debian unstable/main amd64 libpython3.13-minimal amd64 3.13.2-1 [859 kB]
Get: 13 http://deb.debian.org/debian unstable/main amd64 python3.13-minimal amd64 3.13.2-1 [2205 kB]
Get: 14 http://deb.debian.org/debian unstable/main amd64 python3-minimal amd64 3.13.2-1 [27.1 kB]
Get: 15 http://deb.debian.org/debian unstable/main amd64 media-types all 12.0.0 [28.9 kB]
Get: 16 http://deb.debian.org/debian unstable/main amd64 netbase all 6.4 [12.8 kB]
Get: 17 http://deb.debian.org/debian unstable/main amd64 tzdata all 2025a-2 [259 kB]
Get: 18 http://deb.debian.org/debian unstable/main amd64 libffi8 amd64 3.4.7-1 [23.9 kB]
Get: 19 http://deb.debian.org/debian unstable/main amd64 readline-common all 8.2-6 [69.4 kB]
Get: 20 http://deb.debian.org/debian unstable/main amd64 libreadline8t64 amd64 8.2-6 [169 kB]
Get: 21 http://deb.debian.org/debian unstable/main amd64 libpython3.13-stdlib amd64 3.13.2-1 [1979 kB]
Get: 22 http://deb.debian.org/debian unstable/main amd64 python3.13 amd64 3.13.2-1 [745 kB]
Get: 23 http://deb.debian.org/debian unstable/main amd64 libpython3-stdlib amd64 3.13.2-1 [10.0 kB]
Get: 24 http://deb.debian.org/debian unstable/main amd64 python3 amd64 3.13.2-1 [28.1 kB]
Get: 25 http://deb.debian.org/debian unstable/main amd64 libproc2-0 amd64 2:4.0.4-7 [64.9 kB]
Get: 26 http://deb.debian.org/debian unstable/main amd64 procps amd64 2:4.0.4-7 [878 kB]
Get: 27 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB]
Get: 28 http://deb.debian.org/debian unstable/main amd64 openssl amd64 3.4.1-1 [1427 kB]
Get: 29 http://deb.debian.org/debian unstable/main amd64 ca-certificates all 20241223 [164 kB]
Get: 30 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB]
Get: 31 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB]
Get: 32 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB]
Get: 33 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-1 [243 kB]
Get: 34 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB]
Get: 35 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-7 [1185 kB]
Get: 36 http://deb.debian.org/debian unstable/main amd64 libpam-systemd amd64 257.3-1 [293 kB]
Get: 37 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.4-5 [92.4 kB]
Get: 38 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB]
Get: 39 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB]
Get: 40 http://deb.debian.org/debian unstable/main amd64 libgdk-pixbuf2.0-common all 2.42.12+dfsg-2 [311 kB]
Get: 41 http://deb.debian.org/debian unstable/main amd64 libglib2.0-0t64 amd64 2.83.4-1 [1512 kB]
Get: 42 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-6 [9421 kB]
Get: 43 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b2 [699 kB]
Get: 44 http://deb.debian.org/debian unstable/main amd64 shared-mime-info amd64 2.4-5+b2 [760 kB]
Get: 45 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo amd64 1:2.1.5-3.1 [168 kB]
Get: 46 http://deb.debian.org/debian unstable/main amd64 libpng16-16t64 amd64 1.6.47-1 [282 kB]
Get: 47 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.23-1+b1 [47.5 kB]
Get: 48 http://deb.debian.org/debian unstable/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB]
Get: 49 http://deb.debian.org/debian unstable/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB]
Get: 50 http://deb.debian.org/debian unstable/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [116 kB]
Get: 51 http://deb.debian.org/debian unstable/main amd64 libwebp7 amd64 1.5.0-0.1 [318 kB]
Get: 52 http://deb.debian.org/debian unstable/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB]
Get: 53 http://deb.debian.org/debian unstable/main amd64 libgdk-pixbuf-2.0-0 amd64 2.42.12+dfsg-2 [140 kB]
Get: 54 http://deb.debian.org/debian unstable/main amd64 gtk-update-icon-cache amd64 4.17.5+ds-3 [51.5 kB]
Get: 55 http://deb.debian.org/debian unstable/main amd64 hicolor-icon-theme all 0.18-2 [11.8 kB]
Get: 56 http://deb.debian.org/debian unstable/main amd64 adwaita-icon-theme all 48~beta-3 [504 kB]
Get: 57 http://deb.debian.org/debian unstable/main amd64 ca-certificates-java all 20240118 [11.6 kB]
Get: 58 http://deb.debian.org/debian unstable/main amd64 java-common all 0.76 [6776 B]
Get: 59 http://deb.debian.org/debian unstable/main amd64 liblcms2-2 amd64 2.16-2 [160 kB]
Get: 60 http://deb.debian.org/debian unstable/main amd64 libnspr4 amd64 2:4.36-1 [110 kB]
Get: 61 http://deb.debian.org/debian unstable/main amd64 libnss3 amd64 2:3.108-1 [1393 kB]
Get: 62 http://deb.debian.org/debian unstable/main amd64 libpcsclite1 amd64 2.3.1-1 [56.0 kB]
Get: 63 http://deb.debian.org/debian unstable/main amd64 openjdk-21-jre-headless amd64 21.0.6+7-1 [41.7 MB]
Get: 64 http://deb.debian.org/debian unstable/main amd64 default-jre-headless amd64 2:1.21-76 [3192 B]
Get: 65 http://deb.debian.org/debian unstable/main amd64 ant all 1.10.15-1 [2163 kB]
Get: 66 http://deb.debian.org/debian unstable/main amd64 at-spi2-common all 2.55.2-1 [170 kB]
Get: 67 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-5 [294 kB]
Get: 68 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB]
Get: 69 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB]
Get: 70 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.17-3 [862 kB]
Get: 71 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-1 [770 kB]
Get: 72 http://deb.debian.org/debian unstable/main amd64 dbus-user-session amd64 1.16.2-1 [51.5 kB]
Get: 73 http://deb.debian.org/debian unstable/main amd64 libdconf1 amd64 0.40.0-5 [41.8 kB]
Get: 74 http://deb.debian.org/debian unstable/main amd64 dconf-service amd64 0.40.0-5 [32.4 kB]
Get: 75 http://deb.debian.org/debian unstable/main amd64 dconf-gsettings-backend amd64 0.40.0-5 [28.6 kB]
Get: 76 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.24.1 [90.9 kB]
Get: 77 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-3 [539 kB]
Get: 78 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB]
Get: 79 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 80 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB]
Get: 81 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B]
Get: 82 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB]
Get: 83 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB]
Get: 84 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.3-1 [476 kB]
Get: 85 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-1 [1680 kB]
Get: 86 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 87 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 88 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.24.1 [920 kB]
Get: 89 http://deb.debian.org/debian unstable/main amd64 libatk1.0-0t64 amd64 2.55.2-1 [51.4 kB]
Get: 90 http://deb.debian.org/debian unstable/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB]
Get: 91 http://deb.debian.org/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB]
Get: 92 http://deb.debian.org/debian unstable/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB]
Get: 93 http://deb.debian.org/debian unstable/main amd64 libx11-data all 2:1.8.10-2 [337 kB]
Get: 94 http://deb.debian.org/debian unstable/main amd64 libx11-6 amd64 2:1.8.10-2 [813 kB]
Get: 95 http://deb.debian.org/debian unstable/main amd64 libxext6 amd64 2:1.3.4-1+b3 [50.4 kB]
Get: 96 http://deb.debian.org/debian unstable/main amd64 libxi6 amd64 2:1.8.2-1 [78.9 kB]
Get: 97 http://deb.debian.org/debian unstable/main amd64 libatspi2.0-0t64 amd64 2.55.2-1 [77.0 kB]
Get: 98 http://deb.debian.org/debian unstable/main amd64 libatk-bridge2.0-0t64 amd64 2.55.2-1 [68.1 kB]
Get: 99 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB]
Get: 100 http://deb.debian.org/debian unstable/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB]
Get: 101 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB]
Get: 102 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-core all 2.37-8 [840 kB]
Get: 103 http://deb.debian.org/debian unstable/main amd64 fontconfig-config amd64 2.15.0-2 [317 kB]
Get: 104 http://deb.debian.org/debian unstable/main amd64 libfontconfig1 amd64 2.15.0-2 [391 kB]
Get: 105 http://deb.debian.org/debian unstable/main amd64 libpixman-1-0 amd64 0.44.0-3 [248 kB]
Get: 106 http://deb.debian.org/debian unstable/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB]
Get: 107 http://deb.debian.org/debian unstable/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB]
Get: 108 http://deb.debian.org/debian unstable/main amd64 libxrender1 amd64 1:0.9.10-1.1+b4 [27.8 kB]
Get: 109 http://deb.debian.org/debian unstable/main amd64 libcairo2 amd64 1.18.2-2 [535 kB]
Get: 110 http://deb.debian.org/debian unstable/main amd64 libcairo-gobject2 amd64 1.18.2-2 [130 kB]
Get: 111 http://deb.debian.org/debian unstable/main amd64 libcloudproviders0 amd64 0.3.6-1+b1 [29.2 kB]
Get: 112 http://deb.debian.org/debian unstable/main amd64 libcolord2 amd64 1.4.7-2 [139 kB]
Get: 113 http://deb.debian.org/debian unstable/main amd64 libavahi-common-data amd64 0.8-16 [112 kB]
Get: 114 http://deb.debian.org/debian unstable/main amd64 libavahi-common3 amd64 0.8-16 [44.2 kB]
Get: 115 http://deb.debian.org/debian unstable/main amd64 libavahi-client3 amd64 0.8-16 [48.4 kB]
Get: 116 http://deb.debian.org/debian unstable/main amd64 libidn2-0 amd64 2.3.7-2+b1 [129 kB]
Get: 117 http://deb.debian.org/debian unstable/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB]
Get: 118 http://deb.debian.org/debian unstable/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB]
Get: 119 http://deb.debian.org/debian unstable/main amd64 libgnutls30t64 amd64 3.8.9-2 [1464 kB]
Get: 120 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-4 [32.8 kB]
Get: 121 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.2-1 [24.0 kB]
Get: 122 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-4 [80.9 kB]
Get: 123 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B]
Get: 124 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-4 [326 kB]
Get: 125 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-4 [138 kB]
Get: 126 http://deb.debian.org/debian unstable/main amd64 libcups2t64 amd64 2.4.10-2+b1 [251 kB]
Get: 127 http://deb.debian.org/debian unstable/main amd64 libepoxy0 amd64 1.5.10-2 [193 kB]
Get: 128 http://deb.debian.org/debian unstable/main amd64 libfribidi0 amd64 1.0.16-1 [26.5 kB]
Get: 129 http://deb.debian.org/debian unstable/main amd64 libgraphite2-3 amd64 1.3.14-2+b1 [75.4 kB]
Get: 130 http://deb.debian.org/debian unstable/main amd64 libharfbuzz0b amd64 10.2.0-1 [479 kB]
Get: 131 http://deb.debian.org/debian unstable/main amd64 fontconfig amd64 2.15.0-2 [463 kB]
Get: 132 http://deb.debian.org/debian unstable/main amd64 libthai-data all 0.1.29-2 [168 kB]
Get: 133 http://deb.debian.org/debian unstable/main amd64 libdatrie1 amd64 0.2.13-3+b1 [38.1 kB]
Get: 134 http://deb.debian.org/debian unstable/main amd64 libthai0 amd64 0.1.29-2+b1 [49.4 kB]
Get: 135 http://deb.debian.org/debian unstable/main amd64 libpango-1.0-0 amd64 1.56.1-1 [226 kB]
Get: 136 http://deb.debian.org/debian unstable/main amd64 libpangoft2-1.0-0 amd64 1.56.1-1 [55.3 kB]
Get: 137 http://deb.debian.org/debian unstable/main amd64 libpangocairo-1.0-0 amd64 1.56.1-1 [35.8 kB]
Get: 138 http://deb.debian.org/debian unstable/main amd64 libwayland-client0 amd64 1.23.1-3 [26.8 kB]
Get: 139 http://deb.debian.org/debian unstable/main amd64 libwayland-cursor0 amd64 1.23.1-3 [11.9 kB]
Get: 140 http://deb.debian.org/debian unstable/main amd64 libwayland-egl1 amd64 1.23.1-3 [5860 B]
Get: 141 http://deb.debian.org/debian unstable/main amd64 libxcomposite1 amd64 1:0.4.6-1 [16.3 kB]
Get: 142 http://deb.debian.org/debian unstable/main amd64 libxfixes3 amd64 1:6.0.0-2+b4 [20.2 kB]
Get: 143 http://deb.debian.org/debian unstable/main amd64 libxcursor1 amd64 1:1.2.3-1 [39.7 kB]
Get: 144 http://deb.debian.org/debian unstable/main amd64 libxdamage1 amd64 1:1.1.6-1+b2 [15.5 kB]
Get: 145 http://deb.debian.org/debian unstable/main amd64 libxinerama1 amd64 2:1.1.4-3+b3 [16.0 kB]
Get: 146 http://deb.debian.org/debian unstable/main amd64 xkb-data all 2.42-1 [790 kB]
Get: 147 http://deb.debian.org/debian unstable/main amd64 libxkbcommon0 amd64 1.7.0-2 [113 kB]
Get: 148 http://deb.debian.org/debian unstable/main amd64 libxrandr2 amd64 2:1.5.4-1+b3 [36.3 kB]
Get: 149 http://deb.debian.org/debian unstable/main amd64 libgtk-3-common all 3.24.48-4 [4873 kB]
Get: 150 http://deb.debian.org/debian unstable/main amd64 libgtk-3-0t64 amd64 3.24.48-4 [2767 kB]
Get: 151 http://deb.debian.org/debian unstable/main amd64 libglvnd0 amd64 1.7.0-1+b2 [52.0 kB]
Get: 152 http://deb.debian.org/debian unstable/main amd64 libdrm-common all 2.4.124-1 [8180 B]
Get: 153 http://deb.debian.org/debian unstable/main amd64 libdrm2 amd64 2.4.124-1 [38.9 kB]
Get: 154 http://deb.debian.org/debian unstable/main amd64 libx11-xcb1 amd64 2:1.8.10-2 [241 kB]
Get: 155 http://deb.debian.org/debian unstable/main amd64 libxcb-dri3-0 amd64 1.17.0-2+b1 [107 kB]
Get: 156 http://deb.debian.org/debian unstable/main amd64 libxcb-glx0 amd64 1.17.0-2+b1 [122 kB]
Get: 157 http://deb.debian.org/debian unstable/main amd64 libxcb-present0 amd64 1.17.0-2+b1 [106 kB]
Get: 158 http://deb.debian.org/debian unstable/main amd64 libxcb-xfixes0 amd64 1.17.0-2+b1 [109 kB]
Get: 159 http://deb.debian.org/debian unstable/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b4 [19.3 kB]
Get: 160 http://deb.debian.org/debian unstable/main amd64 libdrm-amdgpu1 amd64 2.4.124-1 [22.4 kB]
Get: 161 http://deb.debian.org/debian unstable/main amd64 libpciaccess0 amd64 0.17-3+b3 [51.9 kB]
Get: 162 http://deb.debian.org/debian unstable/main amd64 libdrm-intel1 amd64 2.4.124-1 [63.8 kB]
Get: 163 http://deb.debian.org/debian unstable/main amd64 libedit2 amd64 3.1-20250104-1 [93.8 kB]
Get: 164 http://deb.debian.org/debian unstable/main amd64 libz3-4 amd64 4.13.3-1 [8560 kB]
Get: 165 http://deb.debian.org/debian unstable/main amd64 libllvm19 amd64 1:19.1.7-1+b1 [26.0 MB]
Get: 166 http://deb.debian.org/debian unstable/main amd64 libsensors-config all 1:3.6.0-10 [14.6 kB]
Get: 167 http://deb.debian.org/debian unstable/main amd64 libsensors5 amd64 1:3.6.0-10+b1 [35.1 kB]
Get: 168 http://deb.debian.org/debian unstable/main amd64 libxcb-randr0 amd64 1.17.0-2+b1 [117 kB]
Get: 169 http://deb.debian.org/debian unstable/main amd64 libxcb-sync1 amd64 1.17.0-2+b1 [109 kB]
Get: 170 http://deb.debian.org/debian unstable/main amd64 libxshmfence1 amd64 1.3-1+b3 [8852 B]
Get: 171 http://deb.debian.org/debian unstable/main amd64 mesa-libgallium amd64 25.0.0-1 [9620 kB]
Get: 172 http://deb.debian.org/debian unstable/main amd64 libwayland-server0 amd64 1.23.1-3 [34.4 kB]
Get: 173 http://deb.debian.org/debian unstable/main amd64 libgbm1 amd64 25.0.0-1 [43.9 kB]
Get: 174 http://deb.debian.org/debian unstable/main amd64 libvulkan1 amd64 1.4.304.0-1 [129 kB]
Get: 175 http://deb.debian.org/debian unstable/main amd64 libgl1-mesa-dri amd64 25.0.0-1 [45.5 kB]
Get: 176 http://deb.debian.org/debian unstable/main amd64 libglx-mesa0 amd64 25.0.0-1 [142 kB]
Get: 177 http://deb.debian.org/debian unstable/main amd64 libglx0 amd64 1.7.0-1+b2 [34.9 kB]
Get: 178 http://deb.debian.org/debian unstable/main amd64 libgl1 amd64 1.7.0-1+b2 [89.5 kB]
Get: 179 http://deb.debian.org/debian unstable/main amd64 libasound2-data all 1.2.13-1 [21.1 kB]
Get: 180 http://deb.debian.org/debian unstable/main amd64 libasound2t64 amd64 1.2.13-1+b1 [373 kB]
Get: 181 http://deb.debian.org/debian unstable/main amd64 libgif7 amd64 5.2.2-1+b1 [44.2 kB]
Get: 182 http://deb.debian.org/debian unstable/main amd64 x11-common all 1:7.7+24 [217 kB]
Get: 183 http://deb.debian.org/debian unstable/main amd64 libxtst6 amd64 2:1.2.5-1 [25.8 kB]
Get: 184 http://deb.debian.org/debian unstable/main amd64 openjdk-21-jre amd64 21.0.6+7-1 [205 kB]
Get: 185 http://deb.debian.org/debian unstable/main amd64 default-jre amd64 2:1.21-76 [1068 B]
Get: 186 http://deb.debian.org/debian unstable/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB]
Get: 187 http://deb.debian.org/debian unstable/main amd64 python3-more-itertools all 10.6.0-1 [65.3 kB]
Get: 188 http://deb.debian.org/debian unstable/main amd64 python3-typing-extensions all 4.12.2-2 [73.0 kB]
Get: 189 http://deb.debian.org/debian unstable/main amd64 python3-typeguard all 4.4.2-1 [37.3 kB]
Get: 190 http://deb.debian.org/debian unstable/main amd64 python3-inflect all 7.3.1-2 [32.4 kB]
Get: 191 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.context all 6.0.0-1 [7984 B]
Get: 192 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB]
Get: 193 http://deb.debian.org/debian unstable/main amd64 python3-pkg-resources all 75.8.0-1 [222 kB]
Get: 194 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB]
Get: 195 http://deb.debian.org/debian unstable/main amd64 python3-zipp all 3.21.0-1 [10.6 kB]
Get: 196 http://deb.debian.org/debian unstable/main amd64 python3-setuptools all 75.8.0-1 [724 kB]
Get: 197 http://deb.debian.org/debian unstable/main amd64 dh-python all 6.20250108 [113 kB]
Get: 198 http://deb.debian.org/debian unstable/main amd64 libdivsufsort3 amd64 2.0.1-6+b1 [45.9 kB]
Get: 199 http://deb.debian.org/debian unstable/main amd64 hmmer amd64 3.4+dfsg-2 [1062 kB]
Get: 200 http://deb.debian.org/debian unstable/main amd64 libhamcrest-java all 2.2-2 [121 kB]
Get: 201 http://deb.debian.org/debian unstable/main amd64 junit4 all 4.13.2-5 [350 kB]
Get: 202 http://deb.debian.org/debian unstable/main amd64 libapache-pom-java all 33-2 [5852 B]
Get: 203 http://deb.debian.org/debian unstable/main amd64 libcommons-collections3-java all 3.2.2-3 [530 kB]
Get: 204 http://deb.debian.org/debian unstable/main amd64 libcommons-parent-java all 56-1 [10.8 kB]
Get: 205 http://deb.debian.org/debian unstable/main amd64 libcommons-logging-java all 1.3.0-1 [68.6 kB]
Get: 206 http://deb.debian.org/debian unstable/main amd64 libcommons-beanutils-java all 1.9.4-2 [233 kB]
Get: 207 http://deb.debian.org/debian unstable/main amd64 libcommons-collections4-java all 4.4-2 [682 kB]
Get: 208 http://deb.debian.org/debian unstable/main amd64 libcommons-lang-java all 2.6-10 [273 kB]
Get: 209 http://deb.debian.org/debian unstable/main amd64 libcommons-lang3-java all 3.17.0-1 [641 kB]
Get: 210 http://deb.debian.org/debian unstable/main amd64 libezmorph-java all 1.0.6-4 [75.9 kB]
Get: 211 http://deb.debian.org/debian unstable/main amd64 libgoogle-gson-java all 2.10.1-1 [262 kB]
Get: 212 http://deb.debian.org/debian unstable/main amd64 libgslcblas0 amd64 2.8+dfsg-5 [116 kB]
Get: 213 http://deb.debian.org/debian unstable/main amd64 libgsl28 amd64 2.8+dfsg-5 [994 kB]
Get: 214 http://deb.debian.org/debian unstable/main amd64 libjaxen-java all 1.1.6-5 [214 kB]
Get: 215 http://deb.debian.org/debian unstable/main amd64 libjenkins-json-java all 2.4-jenkins-8+dfsg-1 [211 kB]
Get: 216 http://deb.debian.org/debian unstable/main amd64 libslf4j-java all 1.7.32-1 [144 kB]
Get: 217 http://deb.debian.org/debian unstable/main amd64 libxml-commons-external-java all 1.4.01-6 [240 kB]
Get: 218 http://deb.debian.org/debian unstable/main amd64 libxml-commons-resolver1.1-java all 1.2-11 [98.3 kB]
Get: 219 http://deb.debian.org/debian unstable/main amd64 libxerces2-java all 2.12.2-1 [1440 kB]
Get: 220 http://deb.debian.org/debian unstable/main amd64 libxom-java all 1.3.9-1 [174 kB]
Get: 221 http://deb.debian.org/debian unstable/main amd64 libjson-java all 3.1.0+dfsg-2 [142 kB]
Get: 222 http://deb.debian.org/debian unstable/main amd64 liblmdb0 amd64 0.9.31-1+b2 [45.2 kB]
Get: 223 http://deb.debian.org/debian unstable/main amd64 libmbedcrypto16 amd64 3.6.2-3 [355 kB]
Get: 224 http://deb.debian.org/debian unstable/main amd64 libmbedx509-7 amd64 3.6.2-3 [147 kB]
Get: 225 http://deb.debian.org/debian unstable/main amd64 libmbedtls21 amd64 3.6.2-3 [234 kB]
Get: 226 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB]
Get: 227 http://deb.debian.org/debian unstable/main amd64 libuv1t64 amd64 1.50.0-2 [154 kB]
Get: 228 http://deb.debian.org/debian unstable/main amd64 ncbi-data all 6.1.20170106+dfsg2-5 [3537 kB]
Get: 229 http://deb.debian.org/debian unstable/main amd64 ncbi-blast+ amd64 2.16.0+ds-6+b1 [15.2 MB]
Get: 230 http://deb.debian.org/debian unstable/main amd64 pplacer amd64 1.1~alpha19-8+b1 [3093 kB]
Get: 231 http://deb.debian.org/debian unstable/main amd64 python3-dendropy all 4.6.1-2 [277 kB]
Get: 232 http://deb.debian.org/debian unstable/main amd64 sepp amd64 4.5.5+dfsg-1 [166 kB]
Fetched 186 MB in 7s (25.3 MB/s)
Preconfiguring packages ...
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Unpacking libsystemd-shared:amd64 (257.3-1) ...
Selecting previously unselected package libapparmor1:amd64.
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Unpacking libapparmor1:amd64 (4.1.0~beta5-2+b1) ...
Setting up libsystemd-shared:amd64 (257.3-1) ...
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Unpacking systemd (257.3-1) ...
Setting up libapparmor1:amd64 (4.1.0~beta5-2+b1) ...
Setting up systemd (257.3-1) ...
Created symlink '/etc/systemd/system/getty.target.wants/getty@tty1.service' -> '/usr/lib/systemd/system/getty@.service'.

Created symlink '/etc/systemd/system/multi-user.target.wants/remote-fs.target' -> '/usr/lib/systemd/system/remote-fs.target'.

Created symlink '/etc/systemd/system/sysinit.target.wants/systemd-pstore.service' -> '/usr/lib/systemd/system/systemd-pstore.service'.

Initializing machine ID from random generator.

Creating group 'systemd-journal' with GID 999.

Creating group 'systemd-network' with GID 998.

Creating user 'systemd-network' (systemd Network Management) with UID 998 and GID 998.

/usr/lib/tmpfiles.d/legacy.conf:14: Duplicate line for path "/run/lock", ignoring.

Selecting previously unselected package systemd-sysv.
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Unpacking dbus-bin (1.16.2-1) ...
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Unpacking python3.13-minimal (3.13.2-1) ...
Setting up libpython3.13-minimal:amd64 (3.13.2-1) ...
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Setting up x11-common (1:7.7+24) ...
Running in chroot, ignoring request.

Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix.
Setting up libsensors-config (1:3.6.0-10) ...
Setting up libnghttp2-14:amd64 (1.64.0-1) ...
Setting up libdeflate0:amd64 (1.23-1+b1) ...
Setting up gettext-base (0.23.1-1) ...
Setting up m4 (1.4.19-5) ...
Setting up xkb-data (2.42-1) ...
Setting up libxcb-shm0:amd64 (1.17.0-2+b1) ...
Setting up libcom-err2:amd64 (1.47.2-1) ...
Setting up file (1:5.45-3+b1) ...
Setting up libjbig0:amd64 (2.1-6.1+b2) ...
Setting up libelf1t64:amd64 (0.192-4) ...
Setting up libkrb5support0:amd64 (1.21.3-4) ...
Setting up tzdata (2025a-2) ...

Current default time zone: 'Etc/UTC'
Local time is now:      Thu Apr  2 17:36:02 UTC 2026.
Universal Time is now:  Thu Apr  2 17:36:02 UTC 2026.
Run 'dpkg-reconfigure tzdata' if you wish to change it.

Setting up libxcb-present0:amd64 (1.17.0-2+b1) ...
Setting up libcommons-collections3-java (3.2.2-3) ...
Setting up libasound2-data (1.2.13-1) ...
Setting up autotools-dev (20220109.1) ...
Setting up libz3-4:amd64 (4.13.3-1) ...
Setting up libasound2t64:amd64 (1.2.13-1+b1) ...
Setting up libjpeg62-turbo:amd64 (1:2.1.5-3.1) ...
Setting up libjaxen-java (1.1.6-5) ...
Setting up libx11-data (2:1.8.10-2) ...
Setting up libepoxy0:amd64 (1.5.10-2) ...
Setting up libnspr4:amd64 (2:4.36-1) ...
Setting up libxcb-sync1:amd64 (1.17.0-2+b1) ...
Setting up libapache-pom-java (33-2) ...
Setting up libavahi-common-data:amd64 (0.8-16) ...
Setting up libdbus-1-3:amd64 (1.16.2-1) ...
Setting up libfribidi0:amd64 (1.0.16-1) ...
Setting up libproc2-0:amd64 (2:4.0.4-7) ...
Setting up libunistring5:amd64 (1.3-1) ...
Setting up fonts-dejavu-mono (2.37-8) ...
Setting up libpng16-16t64:amd64 (1.6.47-1) ...
Setting up libxml-commons-resolver1.1-java (1.2-11) ...
Setting up autopoint (0.23.1-1) ...
Setting up fonts-dejavu-core (2.37-8) ...
Setting up libpcsclite1:amd64 (2.3.1-1) ...
Setting up libsensors5:amd64 (1:3.6.0-10+b1) ...
Setting up libk5crypto3:amd64 (1.21.3-4) ...
Setting up libhamcrest-java (2.2-2) ...
Setting up libvulkan1:amd64 (1.4.304.0-1) ...
Setting up autoconf (2.72-3) ...
Setting up libwebp7:amd64 (1.5.0-0.1) ...
Setting up libgif7:amd64 (5.2.2-1+b1) ...
Setting up libffi8:amd64 (3.4.7-1) ...
Setting up dwz (0.15-1+b1) ...
Setting up sensible-utils (0.0.24) ...
Setting up libxshmfence1:amd64 (1.3-1+b3) ...
Setting up at-spi2-common (2.55.2-1) ...
Setting up libtiff6:amd64 (4.5.1+git230720-5) ...
Setting up libxcb-randr0:amd64 (1.17.0-2+b1) ...
Setting up dbus-session-bus-common (1.16.2-1) ...
Setting up libuchardet0:amd64 (0.0.8-1+b2) ...
Setting up libxml-commons-external-java (1.4.01-6) ...
Setting up procps (2:4.0.4-7) ...
Setting up libtasn1-6:amd64 (4.20.0-2) ...
Setting up libx11-6:amd64 (2:1.8.10-2) ...
Setting up libthai-data (0.1.29-2) ...
Setting up netbase (6.4) ...
Setting up libkrb5-3:amd64 (1.21.3-4) ...
Setting up libwayland-egl1:amd64 (1.23.1-3) ...
Setting up libmbedcrypto16:amd64 (3.6.2-3) ...
Setting up libxerces2-java (2.12.2-1) ...
Setting up dbus-system-bus-common (1.16.2-1) ...
warn: The home dir /nonexistent you specified can't be accessed: No such file or directory

useradd: Warning: missing or non-executable shell '/usr/sbin/nologin'
Setting up libgsl28:amd64 (2.8+dfsg-5) ...
Setting up libdivsufsort3:amd64 (2.0.1-6+b1) ...
Setting up openssl (3.4.1-1) ...
Setting up libdrm-common (2.4.124-1) ...
Setting up libezmorph-java (1.0.6-4) ...
Setting up libxcomposite1:amd64 (1:0.4.6-1) ...
Setting up readline-common (8.2-6) ...
Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b2) ...
Setting up dbus-bin (1.16.2-1) ...
Setting up libxkbcommon0:amd64 (1.7.0-2) ...
Setting up libwayland-client0:amd64 (1.23.1-3) ...
Setting up automake (1:1.17-3) ...
update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode
Setting up libfile-stripnondeterminism-perl (1.14.1-2) ...
Setting up libxcb-dri3-0:amd64 (1.17.0-2+b1) ...
Setting up libllvm19:amd64 (1:19.1.7-1+b1) ...
Setting up libwayland-server0:amd64 (1.23.1-3) ...
Setting up libx11-xcb1:amd64 (2:1.8.10-2) ...
Setting up gettext (0.23.1-1) ...
Setting up libxdamage1:amd64 (1:1.1.6-1+b2) ...
Setting up libxrender1:amd64 (1:0.9.10-1.1+b4) ...
Setting up libtool (2.5.4-3) ...
Setting up fontconfig-config (2.15.0-2) ...
Setting up libcommons-parent-java (56-1) ...
Setting up libavahi-common3:amd64 (0.8-16) ...
Setting up pplacer (1.1~alpha19-8+b1) ...
Setting up libcommons-logging-java (1.3.0-1) ...
Setting up libxext6:amd64 (2:1.3.4-1+b3) ...
Setting up libidn2-0:amd64 (2.3.7-2+b1) ...
Setting up libnss3:amd64 (2:3.108-1) ...
Setting up dbus-daemon (1.16.2-1) ...
Setting up libxom-java (1.3.9-1) ...
Setting up libcommons-lang-java (2.6-10) ...
Setting up libxxf86vm1:amd64 (1:1.1.4-1+b4) ...
Setting up intltool-debian (0.35.0+20060710.6) ...
Setting up dh-autoreconf (20) ...
Setting up libthai0:amd64 (0.1.29-2+b1) ...
Setting up ca-certificates (20241223) ...
Updating certificates in /etc/ssl/certs...
152 added, 0 removed; done.
Setting up libglib2.0-0t64:amd64 (2.83.4-1) ...
Setting up libmbedx509-7:amd64 (3.6.2-3) ...
Setting up libfreetype6:amd64 (2.13.3+dfsg-1) ...
Setting up libxfixes3:amd64 (1:6.0.0-2+b4) ...
Setting up dbus (1.16.2-1) ...
Running in chroot, ignoring request.

invoke-rc.d: policy-rc.d denied execution of start.
Setting up shared-mime-info (2.4-5+b2) ...
Setting up libp11-kit0:amd64 (0.25.5-3) ...
Setting up libxinerama1:amd64 (2:1.1.4-3+b3) ...
Setting up libgssapi-krb5-2:amd64 (1.21.3-4) ...
Setting up libxrandr2:amd64 (2:1.5.4-1+b3) ...
Setting up libcommons-collections4-java (4.4-2) ...
Setting up libcommons-lang3-java (3.17.0-1) ...
Setting up libmbedtls21:amd64 (3.6.2-3) ...
Setting up libreadline8t64:amd64 (8.2-6) ...
Setting up dh-strip-nondeterminism (1.14.1-2) ...
Setting up libdrm2:amd64 (2.4.124-1) ...
Setting up groff-base (1.23.0-7) ...
Setting up libwayland-cursor0:amd64 (1.23.1-3) ...
Setting up libpam-systemd:amd64 (257.3-1) ...
Setting up hmmer (3.4+dfsg-2) ...
Setting up libcommons-beanutils-java (1.9.4-2) ...
Setting up libharfbuzz0b:amd64 (10.2.0-1) ...
Setting up libgdk-pixbuf-2.0-0:amd64 (2.42.12+dfsg-2) ...
Setting up libfontconfig1:amd64 (2.15.0-2) ...
Setting up ca-certificates-java (20240118) ...
No JRE found. Skipping Java certificates setup.
Setting up libpython3.13-stdlib:amd64 (3.13.2-1) ...
Setting up libjenkins-json-java (2.4-jenkins-8+dfsg-1) ...
Setting up libavahi-client3:amd64 (0.8-16) ...
Setting up libpython3-stdlib:amd64 (3.13.2-1) ...
Setting up libdrm-amdgpu1:amd64 (2.4.124-1) ...
Setting up libgnutls30t64:amd64 (3.8.9-2) ...
Setting up gtk-update-icon-cache (4.17.5+ds-3) ...
Setting up fontconfig (2.15.0-2) ...
Regenerating fonts cache... done.
Setting up libatk1.0-0t64:amd64 (2.55.2-1) ...
Setting up openjdk-21-jre-headless:amd64 (21.0.6+7-1) ...
update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode
Setting up libxi6:amd64 (2:1.8.2-1) ...
Setting up python3.13 (3.13.2-1) ...
Setting up libxtst6:amd64 (2:1.2.5-1) ...
Setting up po-debconf (1.0.21+nmu1) ...
Setting up libxcursor1:amd64 (1:1.2.3-1) ...
Setting up libpango-1.0-0:amd64 (1.56.1-1) ...
Setting up libdrm-intel1:amd64 (2.4.124-1) ...
Setting up libcloudproviders0:amd64 (0.3.6-1+b1) ...
Setting up python3 (3.13.2-1) ...
Setting up python3-zipp (3.21.0-1) ...
Setting up python3-autocommand (2.2.2-3) ...
Setting up man-db (2.13.0-1) ...
Not building database; man-db/auto-update is not 'true'.
Created symlink '/etc/systemd/system/timers.target.wants/man-db.timer' -> '/usr/lib/systemd/system/man-db.timer'.

Setting up libcairo2:amd64 (1.18.2-2) ...
Setting up libcolord2:amd64 (1.4.7-2) ...
Setting up libdconf1:amd64 (0.40.0-5) ...
Setting up ncbi-blast+ (2.16.0+ds-6+b1) ...
Setting up dbus-user-session (1.16.2-1) ...
Setting up adwaita-icon-theme (48~beta-3) ...
update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode
Setting up libatspi2.0-0t64:amd64 (2.55.2-1) ...
Setting up python3-typing-extensions (4.12.2-2) ...
Setting up libcairo-gobject2:amd64 (1.18.2-2) ...
Setting up libpangoft2-1.0-0:amd64 (1.56.1-1) ...
Setting up python3-dendropy (4.6.1-2) ...
Setting up libcups2t64:amd64 (2.4.10-2+b1) ...
Setting up libpangocairo-1.0-0:amd64 (1.56.1-1) ...
Setting up libatk-bridge2.0-0t64:amd64 (2.55.2-1) ...
Setting up python3-more-itertools (10.6.0-1) ...
Setting up mesa-libgallium:amd64 (25.0.0-1) ...
Setting up python3-jaraco.functools (4.1.0-1) ...
Setting up python3-jaraco.context (6.0.0-1) ...
Setting up libgbm1:amd64 (25.0.0-1) ...
Setting up python3-typeguard (4.4.2-1) ...
Setting up libgl1-mesa-dri:amd64 (25.0.0-1) ...
Setting up debhelper (13.24.1) ...
Setting up dconf-service (0.40.0-5) ...
Setting up python3-inflect (7.3.1-2) ...
Setting up python3-jaraco.text (4.0.0-1) ...
Setting up python3-pkg-resources (75.8.0-1) ...
Setting up libglx-mesa0:amd64 (25.0.0-1) ...
Setting up python3-setuptools (75.8.0-1) ...
Setting up libglx0:amd64 (1.7.0-1+b2) ...
Setting up dconf-gsettings-backend:amd64 (0.40.0-5) ...
Setting up libgl1:amd64 (1.7.0-1+b2) ...
Setting up libgtk-3-common (3.24.48-4) ...
Setting up dh-python (6.20250108) ...
Setting up libgtk-3-0t64:amd64 (3.24.48-4) ...
Processing triggers for libc-bin (2.40-7) ...
Processing triggers for systemd (257.3-1) ...
Processing triggers for ca-certificates-java (20240118) ...
Adding debian:ACCVRAIZ1.pem
Adding debian:AC_RAIZ_FNMT-RCM.pem
Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem
Adding debian:ANF_Secure_Server_Root_CA.pem
Adding debian:Actalis_Authentication_Root_CA.pem
Adding debian:AffirmTrust_Commercial.pem
Adding debian:AffirmTrust_Networking.pem
Adding debian:AffirmTrust_Premium.pem
Adding debian:AffirmTrust_Premium_ECC.pem
Adding debian:Amazon_Root_CA_1.pem
Adding debian:Amazon_Root_CA_2.pem
Adding debian:Amazon_Root_CA_3.pem
Adding debian:Amazon_Root_CA_4.pem
Adding debian:Atos_TrustedRoot_2011.pem
Adding debian:Atos_TrustedRoot_Root_CA_ECC_TLS_2021.pem
Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem
Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem
Adding debian:BJCA_Global_Root_CA1.pem
Adding debian:BJCA_Global_Root_CA2.pem
Adding debian:Baltimore_CyberTrust_Root.pem
Adding debian:Buypass_Class_2_Root_CA.pem
Adding debian:Buypass_Class_3_Root_CA.pem
Adding debian:CA_Disig_Root_R2.pem
Adding debian:CFCA_EV_ROOT.pem
Adding debian:COMODO_Certification_Authority.pem
Adding debian:COMODO_ECC_Certification_Authority.pem
Adding debian:COMODO_RSA_Certification_Authority.pem
Adding debian:Certainly_Root_E1.pem
Adding debian:Certainly_Root_R1.pem
Adding debian:Certigna.pem
Adding debian:Certigna_Root_CA.pem
Adding debian:Certum_EC-384_CA.pem
Adding debian:Certum_Trusted_Network_CA.pem
Adding debian:Certum_Trusted_Network_CA_2.pem
Adding debian:Certum_Trusted_Root_CA.pem
Adding debian:CommScope_Public_Trust_ECC_Root-01.pem
Adding debian:CommScope_Public_Trust_ECC_Root-02.pem
Adding debian:CommScope_Public_Trust_RSA_Root-01.pem
Adding debian:CommScope_Public_Trust_RSA_Root-02.pem
Adding debian:Comodo_AAA_Services_root.pem
Adding debian:D-TRUST_BR_Root_CA_1_2020.pem
Adding debian:D-TRUST_EV_Root_CA_1_2020.pem
Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem
Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem
Adding debian:DigiCert_Assured_ID_Root_CA.pem
Adding debian:DigiCert_Assured_ID_Root_G2.pem
Adding debian:DigiCert_Assured_ID_Root_G3.pem
Adding debian:DigiCert_Global_Root_CA.pem
Adding debian:DigiCert_Global_Root_G2.pem
Adding debian:DigiCert_Global_Root_G3.pem
Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem
Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem
Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem
Adding debian:DigiCert_Trusted_Root_G4.pem
Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem
Adding debian:Entrust_Root_Certification_Authority.pem
Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem
Adding debian:Entrust_Root_Certification_Authority_-_G2.pem
Adding debian:Entrust_Root_Certification_Authority_-_G4.pem
Adding debian:FIRMAPROFESIONAL_CA_ROOT-A_WEB.pem
Adding debian:GDCA_TrustAUTH_R5_ROOT.pem
Adding debian:GLOBALTRUST_2020.pem
Adding debian:GTS_Root_R1.pem
Adding debian:GTS_Root_R2.pem
Adding debian:GTS_Root_R3.pem
Adding debian:GTS_Root_R4.pem
Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem
Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem
Adding debian:GlobalSign_Root_CA.pem
Adding debian:GlobalSign_Root_CA_-_R3.pem
Adding debian:GlobalSign_Root_CA_-_R6.pem
Adding debian:GlobalSign_Root_E46.pem
Adding debian:GlobalSign_Root_R46.pem
Adding debian:Go_Daddy_Class_2_CA.pem
Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem
Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem
Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem
Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem
Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem
Adding debian:HiPKI_Root_CA_-_G1.pem
Adding debian:Hongkong_Post_Root_CA_3.pem
Adding debian:ISRG_Root_X1.pem
Adding debian:ISRG_Root_X2.pem
Adding debian:IdenTrust_Commercial_Root_CA_1.pem
Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem
Adding debian:Izenpe.com.pem
Adding debian:Microsec_e-Szigno_Root_CA_2009.pem
Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem
Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem
Adding debian:NAVER_Global_Root_Certification_Authority.pem
Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem
Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem
Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem
Adding debian:QuoVadis_Root_CA_1_G3.pem
Adding debian:QuoVadis_Root_CA_2.pem
Adding debian:QuoVadis_Root_CA_2_G3.pem
Adding debian:QuoVadis_Root_CA_3.pem
Adding debian:QuoVadis_Root_CA_3_G3.pem
Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem
Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem
Adding debian:SSL.com_Root_Certification_Authority_ECC.pem
Adding debian:SSL.com_Root_Certification_Authority_RSA.pem
Adding debian:SSL.com_TLS_ECC_Root_CA_2022.pem
Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem
Adding debian:SZAFIR_ROOT_CA2.pem
Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem
Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem
Adding debian:SecureSign_RootCA11.pem
Adding debian:SecureSign_Root_CA12.pem
Adding debian:SecureSign_Root_CA14.pem
Adding debian:SecureSign_Root_CA15.pem
Adding debian:SecureTrust_CA.pem
Adding debian:Secure_Global_CA.pem
Adding debian:Security_Communication_ECC_RootCA1.pem
Adding debian:Security_Communication_RootCA2.pem
Adding debian:Security_Communication_RootCA3.pem
Adding debian:Starfield_Class_2_CA.pem
Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem
Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem
Adding debian:SwissSign_Gold_CA_-_G2.pem
Adding debian:SwissSign_Silver_CA_-_G2.pem
Adding debian:T-TeleSec_GlobalRoot_Class_2.pem
Adding debian:T-TeleSec_GlobalRoot_Class_3.pem
Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem
Adding debian:TWCA_CYBER_Root_CA.pem
Adding debian:TWCA_Global_Root_CA.pem
Adding debian:TWCA_Root_Certification_Authority.pem
Adding debian:Telekom_Security_TLS_ECC_Root_2020.pem
Adding debian:Telekom_Security_TLS_RSA_Root_2023.pem
Adding debian:TeliaSonera_Root_CA_v1.pem
Adding debian:Telia_Root_CA_v2.pem
Adding debian:TrustAsia_Global_Root_CA_G3.pem
Adding debian:TrustAsia_Global_Root_CA_G4.pem
Adding debian:Trustwave_Global_Certification_Authority.pem
Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem
Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem
Adding debian:TunTrust_Root_CA.pem
Adding debian:UCA_Extended_Validation_Root.pem
Adding debian:UCA_Global_G2_Root.pem
Adding debian:USERTrust_ECC_Certification_Authority.pem
Adding debian:USERTrust_RSA_Certification_Authority.pem
Adding debian:XRamp_Global_CA_Root.pem
Adding debian:certSIGN_ROOT_CA.pem
Adding debian:certSIGN_Root_CA_G2.pem
Adding debian:e-Szigno_Root_CA_2017.pem
Adding debian:ePKI_Root_Certification_Authority.pem
Adding debian:emSign_ECC_Root_CA_-_C3.pem
Adding debian:emSign_ECC_Root_CA_-_G3.pem
Adding debian:emSign_Root_CA_-_C1.pem
Adding debian:emSign_Root_CA_-_G1.pem
Adding debian:vTrus_ECC_Root_CA.pem
Adding debian:vTrus_Root_CA.pem
done.
Setting up openjdk-21-jre:amd64 (21.0.6+7-1) ...
Setting up ant (1.10.15-1) ...
Setting up junit4 (4.13.2-5) ...
Setting up default-jre-headless (2:1.21-76) ...
Setting up default-jre (2:1.21-76) ...
Setting up libjson-java (3.1.0+dfsg-2) ...
Setting up sepp (4.5.5+dfsg-1) ...
Processing triggers for ca-certificates (20241223) ...
Updating certificates in /etc/ssl/certs...
0 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
Processing triggers for ca-certificates-java (20240118) ...
done.
Reading package lists...
Building dependency tree...
Reading state information...
Reading extended state information...
Initializing package states...
Writing extended state information...
Building tag database...
 -> Finished parsing the build-deps
I: Building the package
I: Running cd /build/reproducible-path/tipp-1.0+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S  > ../tipp_1.0+dfsg-3_source.changes
dpkg-buildpackage: info: source package tipp
dpkg-buildpackage: info: source version 1.0+dfsg-3
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Pierre Gruet <pgt@debian.org>
 dpkg-source --before-build .
dpkg-buildpackage: info: host architecture amd64
 debian/rules clean
dh clean --with python3 --buildsystem=pybuild
   debian/rules override_dh_auto_clean
make[1]: Entering directory '/build/reproducible-path/tipp-1.0+dfsg'
dh_auto_clean
I: pybuild base:311: python3.13 setup.py clean 
'build/bdist.linux-x86_64' does not exist -- can't clean it
'build/scripts-3.13' does not exist -- can't clean it
rm -f -rf tools/bundled
rm -f -rf tools/merge/build
rm -f tipp.config
find . -name "*.class" -delete
find . -name "*.jar" -delete
make[1]: Leaving directory '/build/reproducible-path/tipp-1.0+dfsg'
   dh_autoreconf_clean -O--buildsystem=pybuild
   dh_clean -O--buildsystem=pybuild
 debian/rules binary
dh binary --with python3 --buildsystem=pybuild
   dh_update_autotools_config -O--buildsystem=pybuild
   dh_autoreconf -O--buildsystem=pybuild
   debian/rules override_dh_auto_configure
make[1]: Entering directory '/build/reproducible-path/tipp-1.0+dfsg'
dh_auto_configure
I: pybuild base:311: python3.13 setup.py config 
# Building the jar for tipp.
cd tools/merge && \
        CLASSPATH=/usr/share/java/jenkins-json-lib.jar:/usr/share/java/gson.jar ant -f tipp.xml
Buildfile: /build/reproducible-path/tipp-1.0+dfsg/tools/merge/tipp.xml

clean:

compile:
    [mkdir] Created dir: /build/reproducible-path/tipp-1.0+dfsg/tools/merge/classes
    [javac] /build/reproducible-path/tipp-1.0+dfsg/tools/merge/tipp.xml:32: warning: 'includeantruntime' was not set, defaulting to build.sysclasspath=last; set to false for repeatable builds
    [javac] Compiling 23 source files to /build/reproducible-path/tipp-1.0+dfsg/tools/merge/classes
    [javac] warning: [options] bootstrap class path not set in conjunction with -source 8
    [javac] warning: [options] source value 8 is obsolete and will be removed in a future release
    [javac] warning: [options] target value 8 is obsolete and will be removed in a future release
    [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
    [javac] /build/reproducible-path/tipp-1.0+dfsg/tools/merge/src/edu/rice/cs/bioinfo/programs/phylonet/structs/tree/util/Trees.java:32: warning: SunGraphicsEnvironment is internal proprietary API and may be removed in a future release
    [javac] import sun.java2d.SunGraphicsEnvironment;
    [javac]                  ^
    [javac] /build/reproducible-path/tipp-1.0+dfsg/tools/merge/src/edu/rice/cs/bioinfo/programs/phylonet/algos/lca/SchieberVishkinLCA.java:188: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal
    [javac] 			_tnode_idx_lookup.put(n, new Integer(i++));
    [javac] 			                         ^
    [javac] /build/reproducible-path/tipp-1.0+dfsg/tools/merge/src/edu/rice/cs/bioinfo/programs/phylonet/structs/tree/io/NewickReader.java:341: warning: [removal] Double(double) in Double has been deprecated and marked for removal
    [javac] 					node.setData(new Double(0));
    [javac] 					             ^
    [javac] /build/reproducible-path/tipp-1.0+dfsg/tools/merge/src/edu/rice/cs/bioinfo/programs/phylonet/structs/tree/model/sti/STITree.java:221: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal
    [javac] 		return _nodes.get(new Integer(id));
    [javac] 		                  ^
    [javac] /build/reproducible-path/tipp-1.0+dfsg/tools/merge/src/phylolab/taxonamic/JSONMerger.java:264: warning: [removal] Integer(String) in Integer has been deprecated and marked for removal
    [javac]           newRecord.set(locEdgeNum, new Integer(newLab));
    [javac]                                     ^
    [javac] /build/reproducible-path/tipp-1.0+dfsg/tools/merge/src/phylolab/taxonamic/JSONMerger.java:275: warning: [removal] Double(double) in Double has been deprecated and marked for removal
    [javac]           Double newLWR = new Double(prior * precord.getDouble(2));
    [javac]                           ^
    [javac] /build/reproducible-path/tipp-1.0+dfsg/tools/merge/src/phylolab/taxonamic/JSONMerger.java:519: warning: [removal] Double(String) in Double has been deprecated and marked for removal
    [javac]       mainEdgeLen.put(edgeLenMatcher.group(2), new Double(edgeLenMatcher.group(1)));
    [javac]                                                ^
    [javac] /build/reproducible-path/tipp-1.0+dfsg/tools/merge/src/phylolab/taxonamic/JSONMerger.java:616: warning: [removal] Double(String) in Double has been deprecated and marked for removal
    [javac]         cutoff = new Double(args[i]);        
    [javac]                  ^
    [javac] /build/reproducible-path/tipp-1.0+dfsg/tools/merge/src/phylolab/taxonamic/JSONMerger.java:656: warning: [removal] Double(String) in Double has been deprecated and marked for removal
    [javac]         threshold = new Double(args[i]);
    [javac]                     ^
    [javac] /build/reproducible-path/tipp-1.0+dfsg/tools/merge/src/phylolab/taxonamic/PPlacerJSONMerger.java:177: warning: [removal] Integer(String) in Integer has been deprecated and marked for removal
    [javac] 				pr.set(locEdgeNum, new Integer(newLab));
    [javac] 				                   ^
    [javac] /build/reproducible-path/tipp-1.0+dfsg/tools/merge/src/phylolab/taxonamic/PPlacerJSONMerger.java:269: warning: [removal] Double(String) in Double has been deprecated and marked for removal
    [javac] 				Double len = new Double(matcher.group(1));
    [javac] 				             ^
    [javac] Note: Some input files use or override a deprecated API.
    [javac] Note: Recompile with -Xlint:deprecation for details.
    [javac] Note: Some input files use unchecked or unsafe operations.
    [javac] Note: Recompile with -Xlint:unchecked for details.
    [javac] 15 warnings

jar:
      [jar] Building jar: /build/reproducible-path/tipp-1.0+dfsg/tools/merge/tippJsonMerger.jar

BUILD SUCCESSFUL
Total time: 2 seconds
# Creating the config files.
BLAST="/usr/bin/blastn" python3 setup.py tipp

Creating main TIPP config file at /build/reproducible-path/tipp-1.0+dfsg/.tipp/tipp.config and tools at /build/reproducible-path/tipp-1.0+dfsg/.tipp

Warning! REFERENCE variable is not defined. If you plan to run TIPP for abundance profiling, then have REFERENCE pointed to Reference directory.  You can also change your config to point to the Reference directory by including the following line in your config:
[reference]
path=/location/of/reference_directory/

make[1]: Leaving directory '/build/reproducible-path/tipp-1.0+dfsg'
   dh_auto_build -O--buildsystem=pybuild
I: pybuild base:311: /usr/bin/python3 setup.py build 
   dh_auto_test -O--buildsystem=pybuild
I: pybuild base:311: cd /build/reproducible-path/tipp-1.0+dfsg/.pybuild/cpython3_3.13/build; python3.13 -m unittest discover -v 

----------------------------------------------------------------------
Ran 0 tests in 0.000s

NO TESTS RAN
   create-stamp debian/debhelper-build-stamp
   dh_testroot -O--buildsystem=pybuild
   dh_prep -O--buildsystem=pybuild
   debian/rules override_dh_auto_install
make[1]: Entering directory '/build/reproducible-path/tipp-1.0+dfsg'
dh_auto_install
I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/tipp-1.0+dfsg/debian/tipp 
/usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:79: SetuptoolsDeprecationWarning: setup.py install is deprecated.
!!

        ********************************************************************************
        Please avoid running ``setup.py`` directly.
        Instead, use pypa/build, pypa/installer or other
        standards-based tools.

        See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
        ********************************************************************************

!!
  self.initialize_options()
# Deleting upstream configuration file, which we are not packaging.
rm -f debian/tipp/usr/home.path
make[1]: Leaving directory '/build/reproducible-path/tipp-1.0+dfsg'
   dh_install -O--buildsystem=pybuild
   dh_installdocs -O--buildsystem=pybuild
   dh_installchangelogs -O--buildsystem=pybuild
   debian/rules override_dh_installman
make[1]: Entering directory '/build/reproducible-path/tipp-1.0+dfsg'
dh_installman --language=C
make[1]: Leaving directory '/build/reproducible-path/tipp-1.0+dfsg'
   dh_python3 -O--buildsystem=pybuild
   dh_installsystemduser -O--buildsystem=pybuild
   dh_lintian -O--buildsystem=pybuild
   dh_perl -O--buildsystem=pybuild
   dh_link -O--buildsystem=pybuild
   dh_strip_nondeterminism -O--buildsystem=pybuild
   dh_compress -O--buildsystem=pybuild
   dh_fixperms -O--buildsystem=pybuild
   dh_missing -O--buildsystem=pybuild
   dh_dwz -a -O--buildsystem=pybuild
   dh_strip -a -O--buildsystem=pybuild
   dh_makeshlibs -a -O--buildsystem=pybuild
   dh_shlibdeps -a -O--buildsystem=pybuild
   dh_installdeb -O--buildsystem=pybuild
   dh_gencontrol -O--buildsystem=pybuild
dpkg-gencontrol: warning: Depends field of package tipp: substitution variable ${shlibs:Depends} used, but is not defined
   dh_md5sums -O--buildsystem=pybuild
   dh_builddeb -O--buildsystem=pybuild
dpkg-deb: building package 'tipp' in '../tipp_1.0+dfsg-3_amd64.deb'.
 dpkg-genbuildinfo --build=binary -O../tipp_1.0+dfsg-3_amd64.buildinfo
 dpkg-genchanges --build=binary -O../tipp_1.0+dfsg-3_amd64.changes
dpkg-genchanges: info: binary-only upload (no source code included)
 dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
dpkg-genchanges: info: not including original source code in upload
I: copying local configuration
I: unmounting dev/ptmx filesystem
I: unmounting dev/pts filesystem
I: unmounting dev/shm filesystem
I: unmounting proc filesystem
I: unmounting sys filesystem
I: cleaning the build env 
I: removing directory /srv/workspace/pbuilder/3455421 and its subdirectories
I: Current time: Thu Apr  2 05:37:35 -12 2026
I: pbuilder-time-stamp: 1775151455