I: pbuilder: network access will be disabled during build I: Current time: Wed May 22 04:54:53 -12 2024 I: pbuilder-time-stamp: 1716396893 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-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 [augur_20.0.0-1.dsc] I: copying [./augur_20.0.0.orig.tar.gz] I: copying [./augur_20.0.0-1.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Feb 1 02:15:08 2023 -12 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./augur_20.0.0-1.dsc: no acceptable signature found dpkg-source: info: extracting augur in augur-20.0.0 dpkg-source: info: unpacking augur_20.0.0.orig.tar.gz dpkg-source: info: unpacking augur_20.0.0-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2683440/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' 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=16' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='aec4b71412ce42ad896fbcdbfa7b4d8b' 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='2683440' 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.7itIH284/pbuilderrc_QKyl --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.7itIH284/b1 --logfile b1/build.log augur_20.0.0-1.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://85.184.249.68:3128' I: uname -a Linux ionos15-amd64 6.1.0-0.deb11.5-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.12-1~bpo11+1 (2023-03-05) x86_64 GNU/Linux I: ls -l /bin total 5632 -rwxr-xr-x 1 root root 1265648 Feb 12 2023 bash -rwxr-xr-x 3 root root 39224 Sep 18 2022 bunzip2 -rwxr-xr-x 3 root root 39224 Sep 18 2022 bzcat lrwxrwxrwx 1 root root 6 Sep 18 2022 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Sep 18 2022 bzdiff lrwxrwxrwx 1 root root 6 Sep 18 2022 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe lrwxrwxrwx 1 root root 6 Sep 18 2022 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Sep 18 2022 bzgrep -rwxr-xr-x 3 root root 39224 Sep 18 2022 bzip2 -rwxr-xr-x 1 root root 14568 Sep 18 2022 bzip2recover lrwxrwxrwx 1 root root 6 Sep 18 2022 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Sep 18 2022 bzmore -rwxr-xr-x 1 root root 44016 Sep 20 2022 cat -rwxr-xr-x 1 root root 68656 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 64496 Sep 20 2022 chmod -rwxr-xr-x 1 root root 72752 Sep 20 2022 chown -rwxr-xr-x 1 root root 151152 Sep 20 2022 cp -rwxr-xr-x 1 root root 125640 Jan 5 2023 dash -rwxr-xr-x 1 root root 121904 Sep 20 2022 date -rwxr-xr-x 1 root root 89240 Sep 20 2022 dd -rwxr-xr-x 1 root root 102200 Sep 20 2022 df -rwxr-xr-x 1 root root 151344 Sep 20 2022 dir -rwxr-xr-x 1 root root 88656 Mar 22 2023 dmesg lrwxrwxrwx 1 root root 8 Dec 19 2022 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Dec 19 2022 domainname -> hostname -rwxr-xr-x 1 root root 43856 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 2023 egrep -rwxr-xr-x 1 root root 35664 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 2023 fgrep -rwxr-xr-x 1 root root 85600 Mar 22 2023 findmnt -rwsr-xr-x 1 root root 35128 Mar 22 2023 fusermount -rwxr-xr-x 1 root root 203152 Jan 24 2023 grep -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe -rwxr-xr-x 1 root root 98136 Apr 9 2022 gzip -rwxr-xr-x 1 root root 22680 Dec 19 2022 hostname -rwxr-xr-x 1 root root 72824 Sep 20 2022 ln -rwxr-xr-x 1 root root 53024 Mar 23 2023 login -rwxr-xr-x 1 root root 151344 Sep 20 2022 ls -rwxr-xr-x 1 root root 207168 Mar 22 2023 lsblk -rwxr-xr-x 1 root root 97552 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 72912 Sep 20 2022 mknod -rwxr-xr-x 1 root root 43952 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 59712 Mar 22 2023 more -rwsr-xr-x 1 root root 59704 Mar 22 2023 mount -rwxr-xr-x 1 root root 18744 Mar 22 2023 mountpoint -rwxr-xr-x 1 root root 142968 Sep 20 2022 mv lrwxrwxrwx 1 root root 8 Dec 19 2022 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 2 2023 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 43952 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Feb 12 2023 rbash -> bash -rwxr-xr-x 1 root root 52112 Sep 20 2022 readlink -rwxr-xr-x 1 root root 72752 Sep 20 2022 rm -rwxr-xr-x 1 root root 56240 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 27560 Nov 2 2022 run-parts -rwxr-xr-x 1 root root 126424 Jan 5 2023 sed lrwxrwxrwx 1 root root 4 Jan 5 2023 sh -> dash -rwxr-xr-x 1 root root 43888 Sep 20 2022 sleep -rwxr-xr-x 1 root root 85008 Sep 20 2022 stty -rwsr-xr-x 1 root root 72000 Mar 22 2023 su -rwxr-xr-x 1 root root 39824 Sep 20 2022 sync -rwxr-xr-x 1 root root 531984 Apr 6 2023 tar -rwxr-xr-x 1 root root 14520 Nov 2 2022 tempfile -rwxr-xr-x 1 root root 109616 Sep 20 2022 touch -rwxr-xr-x 1 root root 35664 Sep 20 2022 true -rwxr-xr-x 1 root root 14568 Mar 22 2023 ulockmgr_server -rwsr-xr-x 1 root root 35128 Mar 22 2023 umount -rwxr-xr-x 1 root root 43888 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress -rwxr-xr-x 1 root root 151344 Sep 20 2022 vdir -rwxr-xr-x 1 root root 72024 Mar 22 2023 wdctl lrwxrwxrwx 1 root root 8 Dec 19 2022 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp -rwxr-xr-x 1 root root 6460 Apr 9 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce -rwxr-xr-x 1 root root 8103 Apr 9 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew I: user script /srv/workspace/pbuilder/2683440/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-python, mafft, python3, python3-setuptools, python3-pytest, python3-pytest-mock, python3-biopython, python3-jsonschema, python3-networkx, python3-packaging, python3-pandas, python3-pyfastx, python3-treetime (>= 0.9.4), python3-freezegun, python3-isodate, python3-zstandard, vcftools, python3-xopen (>= 1.7.0-1~) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19596 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 mafft; however: Package mafft 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-pytest; however: Package python3-pytest is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest-mock; however: Package python3-pytest-mock is not installed. pbuilder-satisfydepends-dummy depends on python3-biopython; however: Package python3-biopython is not installed. pbuilder-satisfydepends-dummy depends on python3-jsonschema; however: Package python3-jsonschema is not installed. pbuilder-satisfydepends-dummy depends on python3-networkx; however: Package python3-networkx is not installed. pbuilder-satisfydepends-dummy depends on python3-packaging; however: Package python3-packaging is not installed. pbuilder-satisfydepends-dummy depends on python3-pandas; however: Package python3-pandas is not installed. pbuilder-satisfydepends-dummy depends on python3-pyfastx; however: Package python3-pyfastx is not installed. pbuilder-satisfydepends-dummy depends on python3-treetime (>= 0.9.4); however: Package python3-treetime is not installed. pbuilder-satisfydepends-dummy depends on python3-freezegun; however: Package python3-freezegun is not installed. pbuilder-satisfydepends-dummy depends on python3-isodate; however: Package python3-isodate is not installed. pbuilder-satisfydepends-dummy depends on python3-zstandard; however: Package python3-zstandard is not installed. pbuilder-satisfydepends-dummy depends on vcftools; however: Package vcftools is not installed. pbuilder-satisfydepends-dummy depends on python3-xopen (>= 1.7.0-1~); however: Package python3-xopen 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} blt{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-lyx{a} fonts-urw-base35{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libboost-dev{a} libboost1.74-dev{a} libbrotli1{a} libbsd0{a} libdebhelper-perl{a} libdeflate0{a} libelf1{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfontenc1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0{a} libgraphite2-3{a} libharfbuzz0b{a} libicu72{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-sphinxdoc{a} libjs-underscore{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} liblerc4{a} libmagic-mgc{a} libmagic1{a} libopenblas-dev{a} libopenblas-pthread-dev{a} libopenblas0{a} libopenblas0-pthread{a} libopenjp2-7{a} libpipeline1{a} libpng16-16{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.11{a} libpython3.11-dev{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libqhull-r8.0{a} libraqm0{a} libreadline8{a} libsub-override-perl{a} libtcl8.6{a} libtiff6{a} libtk8.6{a} libtool{a} libuchardet0{a} libwebp7{a} libwebpdemux2{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2{a} libxrender1{a} libxsimd-dev{a} libxslt1.1{a} libxss1{a} m4{a} mafft{a} mailcap{a} man-db{a} media-types{a} mime-support{a} pigz{a} po-debconf{a} python-matplotlib-data{a} python3{a} python3-all{a} python3-all-dev{a} python3-appdirs{a} python3-attr{a} python3-beniget{a} python3-biopython{a} python3-brotli{a} python3-cffi-backend{a} python3-contourpy{a} python3-cycler{a} python3-dateutil{a} python3-decorator{a} python3-dev{a} python3-distutils{a} python3-fonttools{a} python3-freezegun{a} python3-fs{a} python3-gast{a} python3-iniconfig{a} python3-isodate{a} python3-jsonschema{a} python3-kiwisolver{a} python3-lib2to3{a} python3-lxml{a} python3-lz4{a} python3-matplotlib{a} python3-minimal{a} python3-more-itertools{a} python3-mpmath{a} python3-networkx{a} python3-numpy{a} python3-packaging{a} python3-pandas{a} python3-pandas-lib{a} python3-pil{a} python3-pil.imagetk{a} python3-pkg-resources{a} python3-pluggy{a} python3-ply{a} python3-py{a} python3-pyfaidx{a} python3-pyfastx{a} python3-pyparsing{a} python3-pyrsistent{a} python3-pytest{a} python3-pytest-mock{a} python3-pythran{a} python3-renderpm{a} python3-reportlab{a} python3-reportlab-accel{a} python3-scipy{a} python3-setuptools{a} python3-six{a} python3-sympy{a} python3-tk{a} python3-treetime{a} python3-tz{a} python3-ufolib2{a} python3-xopen{a} python3-zstandard{a} python3.11{a} python3.11-dev{a} python3.11-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} tk8.6-blt2.5{a} unicode-data{a} vcftools{a} w3c-sgml-lib{a} x11-common{a} xfonts-encodings{a} xfonts-utils{a} xml-core{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl isympy-common javascript-common libarchive-cpio-perl libglib2.0-data libltdl-dev libmail-sendmail-perl libwww-perl lynx ncbi-blast+ python-biopython-doc python3-bottleneck python3-bs4 python3-gdal python3-html5lib python3-idna python3-jinja2 python3-json-pointer python3-numba python3-numexpr python3-odf python3-olefile python3-openpyxl python3-pydot python3-pygments python3-pygraphviz python3-rfc3987 python3-tables python3-uritemplate python3-webcolors python3-yaml ruby shared-mime-info tabix wget xdg-user-dirs 0 packages upgraded, 177 newly installed, 0 to remove and 0 not upgraded. Need to get 145 MB of archives. After unpacking 752 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main amd64 pigz amd64 2.6-1 [64.0 kB] Get: 2 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-minimal amd64 3.11.2-6 [813 kB] Get: 3 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get: 4 http://deb.debian.org/debian bookworm/main amd64 python3.11-minimal amd64 3.11.2-6 [2064 kB] Get: 5 http://deb.debian.org/debian bookworm/main amd64 python3-minimal amd64 3.11.2-1+b1 [26.3 kB] Get: 6 http://deb.debian.org/debian bookworm/main amd64 media-types all 10.0.0 [26.1 kB] Get: 7 http://deb.debian.org/debian bookworm/main amd64 mailcap all 3.70+nmu1 [32.0 kB] Get: 8 http://deb.debian.org/debian bookworm/main amd64 mime-support all 3.66 [10.9 kB] Get: 9 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.2-1.3 [69.0 kB] Get: 10 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2-1.3 [166 kB] Get: 11 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-stdlib amd64 3.11.2-6 [1796 kB] Get: 12 http://deb.debian.org/debian bookworm/main amd64 python3.11 amd64 3.11.2-6 [572 kB] Get: 13 http://deb.debian.org/debian bookworm/main amd64 libpython3-stdlib amd64 3.11.2-1+b1 [9312 B] Get: 14 http://deb.debian.org/debian bookworm/main amd64 python3 amd64 3.11.2-1+b1 [26.3 kB] Get: 15 http://deb.debian.org/debian bookworm/main amd64 sgml-base all 1.31 [15.4 kB] Get: 16 http://deb.debian.org/debian bookworm/main amd64 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 17 http://deb.debian.org/debian bookworm/main amd64 libmagic-mgc amd64 1:5.44-3 [305 kB] Get: 18 http://deb.debian.org/debian bookworm/main amd64 libmagic1 amd64 1:5.44-3 [104 kB] Get: 19 http://deb.debian.org/debian bookworm/main amd64 file amd64 1:5.44-3 [42.5 kB] Get: 20 http://deb.debian.org/debian bookworm/main amd64 gettext-base amd64 0.21-12 [160 kB] Get: 21 http://deb.debian.org/debian bookworm/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 22 http://deb.debian.org/debian bookworm/main amd64 groff-base amd64 1.22.4-10 [916 kB] Get: 23 http://deb.debian.org/debian bookworm/main amd64 bsdextrautils amd64 2.38.1-5+b1 [86.6 kB] Get: 24 http://deb.debian.org/debian bookworm/main amd64 libpipeline1 amd64 1.5.7-1 [38.5 kB] Get: 25 http://deb.debian.org/debian bookworm/main amd64 man-db amd64 2.11.2-2 [1386 kB] Get: 26 http://deb.debian.org/debian bookworm/main amd64 m4 amd64 1.4.19-3 [287 kB] Get: 27 http://deb.debian.org/debian bookworm/main amd64 autoconf all 2.71-3 [332 kB] Get: 28 http://deb.debian.org/debian bookworm/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 29 http://deb.debian.org/debian bookworm/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 30 http://deb.debian.org/debian bookworm/main amd64 autopoint all 0.21-12 [495 kB] Get: 31 http://deb.debian.org/debian bookworm/main amd64 libtcl8.6 amd64 8.6.13+dfsg-2 [1035 kB] Get: 32 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get: 33 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB] Get: 34 http://deb.debian.org/debian bookworm/main amd64 libfreetype6 amd64 2.12.1+dfsg-4 [399 kB] Get: 35 http://deb.debian.org/debian bookworm/main amd64 fonts-dejavu-core all 2.37-6 [1068 kB] Get: 36 http://deb.debian.org/debian bookworm/main amd64 libfontenc1 amd64 1:1.1.4-1 [24.3 kB] Get: 37 http://deb.debian.org/debian bookworm/main amd64 x11-common all 1:7.7+23 [252 kB] Get: 38 http://deb.debian.org/debian bookworm/main amd64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get: 39 http://deb.debian.org/debian bookworm/main amd64 xfonts-utils amd64 1:7.7+6 [93.0 kB] Get: 40 http://deb.debian.org/debian bookworm/main amd64 fonts-urw-base35 all 20200910-7 [10.8 MB] Get: 41 http://deb.debian.org/debian bookworm/main amd64 fontconfig-config amd64 2.14.1-4 [315 kB] Get: 42 http://deb.debian.org/debian bookworm/main amd64 libfontconfig1 amd64 2.14.1-4 [386 kB] Get: 43 http://deb.debian.org/debian bookworm/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get: 44 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.7-2 [117 kB] Get: 45 http://deb.debian.org/debian bookworm/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get: 46 http://deb.debian.org/debian bookworm/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get: 47 http://deb.debian.org/debian bookworm/main amd64 libx11-data all 2:1.8.4-2 [292 kB] Get: 48 http://deb.debian.org/debian bookworm/main amd64 libx11-6 amd64 2:1.8.4-2 [759 kB] Get: 49 http://deb.debian.org/debian bookworm/main amd64 libxrender1 amd64 1:0.9.10-1.1 [33.2 kB] Get: 50 http://deb.debian.org/debian bookworm/main amd64 libxft2 amd64 2.3.6-1 [61.8 kB] Get: 51 http://deb.debian.org/debian bookworm/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get: 52 http://deb.debian.org/debian bookworm/main amd64 libxss1 amd64 1:1.2.3-1 [17.8 kB] Get: 53 http://deb.debian.org/debian bookworm/main amd64 libtk8.6 amd64 8.6.13-2 [781 kB] Get: 54 http://deb.debian.org/debian bookworm/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-4.1 [593 kB] Get: 55 http://deb.debian.org/debian bookworm/main amd64 blt amd64 2.5.3+dfsg-4.1 [14.9 kB] Get: 56 http://deb.debian.org/debian bookworm/main amd64 libdebhelper-perl all 13.11.4 [81.2 kB] Get: 57 http://deb.debian.org/debian bookworm/main amd64 libtool all 2.4.7-5 [517 kB] Get: 58 http://deb.debian.org/debian bookworm/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 59 http://deb.debian.org/debian bookworm/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 60 http://deb.debian.org/debian bookworm/main amd64 libsub-override-perl all 0.09-4 [9304 B] Get: 61 http://deb.debian.org/debian bookworm/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 62 http://deb.debian.org/debian bookworm/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 63 http://deb.debian.org/debian bookworm/main amd64 libelf1 amd64 0.188-2.1 [174 kB] Get: 64 http://deb.debian.org/debian bookworm/main amd64 dwz amd64 0.15-1 [109 kB] Get: 65 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get: 66 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.1+b3 [687 kB] Get: 67 http://deb.debian.org/debian bookworm/main amd64 gettext amd64 0.21-12 [1300 kB] Get: 68 http://deb.debian.org/debian bookworm/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 69 http://deb.debian.org/debian bookworm/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 70 http://deb.debian.org/debian bookworm/main amd64 debhelper all 13.11.4 [942 kB] Get: 71 http://deb.debian.org/debian bookworm/main amd64 python3-lib2to3 all 3.11.2-2 [76.2 kB] Get: 72 http://deb.debian.org/debian bookworm/main amd64 python3-distutils all 3.11.2-2 [131 kB] Get: 73 http://deb.debian.org/debian bookworm/main amd64 dh-python all 5.20230130 [104 kB] Get: 74 http://deb.debian.org/debian bookworm/main amd64 fonts-lyx all 2.3.7-1 [186 kB] Get: 75 http://deb.debian.org/debian bookworm/main amd64 libblas3 amd64 3.11.0-2 [149 kB] Get: 76 http://deb.debian.org/debian bookworm/main amd64 libboost1.74-dev amd64 1.74.0+ds1-20 [9510 kB] Get: 77 http://deb.debian.org/debian bookworm/main amd64 libboost-dev amd64 1.74.0.3 [4548 B] Get: 78 http://deb.debian.org/debian bookworm/main amd64 libdeflate0 amd64 1.14-1 [61.4 kB] Get: 79 http://deb.debian.org/debian bookworm/main amd64 libexpat1-dev amd64 2.5.0-1 [150 kB] Get: 80 http://deb.debian.org/debian bookworm/main amd64 libfribidi0 amd64 1.0.8-2.1 [65.0 kB] Get: 81 http://deb.debian.org/debian bookworm/main amd64 libgfortran5 amd64 12.2.0-14 [793 kB] Get: 82 http://deb.debian.org/debian bookworm/main amd64 libglib2.0-0 amd64 2.74.6-2 [1398 kB] Get: 83 http://deb.debian.org/debian bookworm/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get: 84 http://deb.debian.org/debian bookworm/main amd64 libharfbuzz0b amd64 6.0.0+dfsg-3 [1945 kB] Get: 85 http://deb.debian.org/debian bookworm/main amd64 libimagequant0 amd64 2.17.0-1 [32.5 kB] Get: 86 http://deb.debian.org/debian bookworm/main amd64 libjbig0 amd64 2.1-6.1 [31.7 kB] Get: 87 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.5-2 [166 kB] Get: 88 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 89 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 90 http://deb.debian.org/debian bookworm/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 91 http://deb.debian.org/debian bookworm/main amd64 libjs-sphinxdoc all 5.3.0-4 [130 kB] Get: 92 http://deb.debian.org/debian bookworm/main amd64 libopenblas0-pthread amd64 0.3.21+ds-4 [6709 kB] Get: 93 http://deb.debian.org/debian bookworm/main amd64 liblapack3 amd64 3.11.0-2 [2323 kB] Get: 94 http://deb.debian.org/debian bookworm/main amd64 liblbfgsb0 amd64 3.0+dfsg.4-1 [28.9 kB] Get: 95 http://deb.debian.org/debian bookworm/main amd64 liblcms2-2 amd64 2.14-2 [154 kB] Get: 96 http://deb.debian.org/debian bookworm/main amd64 liblerc4 amd64 4.0.0+ds-2 [170 kB] Get: 97 http://deb.debian.org/debian bookworm/main amd64 libopenblas0 amd64 0.3.21+ds-4 [32.6 kB] Get: 98 http://deb.debian.org/debian bookworm/main amd64 libopenblas-pthread-dev amd64 0.3.21+ds-4 [4971 kB] Get: 99 http://deb.debian.org/debian bookworm/main amd64 libopenblas-dev amd64 0.3.21+ds-4 [44.9 kB] Get: 100 http://deb.debian.org/debian bookworm/main amd64 libopenjp2-7 amd64 2.5.0-1+b1 [189 kB] Get: 101 http://deb.debian.org/debian bookworm/main amd64 libpython3.11 amd64 3.11.2-6 [1988 kB] Get: 102 http://deb.debian.org/debian bookworm/main amd64 zlib1g-dev amd64 1:1.2.13.dfsg-1 [916 kB] Get: 103 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-dev amd64 3.11.2-6 [4738 kB] Get: 104 http://deb.debian.org/debian bookworm/main amd64 libpython3-dev amd64 3.11.2-1+b1 [9572 B] Get: 105 http://deb.debian.org/debian bookworm/main amd64 libpython3-all-dev amd64 3.11.2-1+b1 [1068 B] Get: 106 http://deb.debian.org/debian bookworm/main amd64 libqhull-r8.0 amd64 2020.2-5 [248 kB] Get: 107 http://deb.debian.org/debian bookworm/main amd64 libraqm0 amd64 0.7.0-4.1 [10.6 kB] Get: 108 http://deb.debian.org/debian bookworm/main amd64 libwebp7 amd64 1.2.4-0.1 [285 kB] Get: 109 http://deb.debian.org/debian bookworm/main amd64 libtiff6 amd64 4.5.0-5 [316 kB] Get: 110 http://deb.debian.org/debian bookworm/main amd64 libwebpdemux2 amd64 1.2.4-0.1 [99.2 kB] Get: 111 http://deb.debian.org/debian bookworm/main amd64 libwebpmux3 amd64 1.2.4-0.1 [109 kB] Get: 112 http://deb.debian.org/debian bookworm/main amd64 libxsimd-dev amd64 8.1.0-7 [88.8 kB] Get: 113 http://deb.debian.org/debian bookworm/main amd64 libxslt1.1 amd64 1.1.35-1 [242 kB] Get: 114 http://deb.debian.org/debian bookworm/main amd64 mafft amd64 7.505-1 [1078 kB] Get: 115 http://deb.debian.org/debian bookworm/main amd64 python-matplotlib-data all 3.6.3-1 [2744 kB] Get: 116 http://deb.debian.org/debian bookworm/main amd64 python3-all amd64 3.11.2-1+b1 [1056 B] Get: 117 http://deb.debian.org/debian bookworm/main amd64 python3.11-dev amd64 3.11.2-6 [615 kB] Get: 118 http://deb.debian.org/debian bookworm/main amd64 python3-dev amd64 3.11.2-1+b1 [26.2 kB] Get: 119 http://deb.debian.org/debian bookworm/main amd64 python3-all-dev amd64 3.11.2-1+b1 [1072 B] Get: 120 http://deb.debian.org/debian bookworm/main amd64 python3-appdirs all 1.4.4-3 [13.0 kB] Get: 121 http://deb.debian.org/debian bookworm/main amd64 python3-attr all 22.2.0-1 [65.4 kB] Get: 122 http://deb.debian.org/debian bookworm/main amd64 python3-gast all 0.5.2-2 [9364 B] Get: 123 http://deb.debian.org/debian bookworm/main amd64 python3-beniget all 0.4.1-3 [9920 B] Get: 124 http://deb.debian.org/debian bookworm/main amd64 python3-pkg-resources all 66.1.1-1 [296 kB] Get: 125 http://deb.debian.org/debian bookworm/main amd64 python3-numpy amd64 1:1.24.2-1 [5209 kB] Get: 126 http://deb.debian.org/debian bookworm/main amd64 python3-renderpm amd64 3.6.12-1+b1 [79.2 kB] Get: 127 http://deb.debian.org/debian bookworm/main amd64 python3-reportlab-accel amd64 3.6.12-1+b1 [38.6 kB] Get: 128 http://deb.debian.org/debian bookworm/main amd64 python3-tk amd64 3.11.2-2 [98.2 kB] Get: 129 http://deb.debian.org/debian bookworm/main amd64 python3-pil.imagetk amd64 9.4.0-1.1+b1 [74.4 kB] Get: 130 http://deb.debian.org/debian bookworm/main amd64 python3-pil amd64 9.4.0-1.1+b1 [472 kB] Get: 131 http://deb.debian.org/debian bookworm/main amd64 python3-reportlab all 3.6.12-1 [564 kB] Get: 132 http://deb.debian.org/debian bookworm/main amd64 xml-core all 0.18+nmu1 [23.8 kB] Get: 133 http://deb.debian.org/debian bookworm/main amd64 w3c-sgml-lib all 1.3-3 [273 kB] Get: 134 http://deb.debian.org/debian bookworm/main amd64 python3-biopython amd64 1.80+dfsg-4+b1 [1593 kB] Get: 135 http://deb.debian.org/debian bookworm/main amd64 python3-brotli amd64 1.0.9-2+b6 [281 kB] Get: 136 http://deb.debian.org/debian bookworm/main amd64 python3-cffi-backend amd64 1.15.1-5+b1 [84.6 kB] Get: 137 http://deb.debian.org/debian bookworm/main amd64 python3-contourpy amd64 1.0.7-1+b1 [176 kB] Get: 138 http://deb.debian.org/debian bookworm/main amd64 python3-cycler all 0.11.0-1 [8020 B] Get: 139 http://deb.debian.org/debian bookworm/main amd64 python3-six all 1.16.0-4 [17.5 kB] Get: 140 http://deb.debian.org/debian bookworm/main amd64 python3-dateutil all 2.8.2-2 [78.3 kB] Get: 141 http://deb.debian.org/debian bookworm/main amd64 python3-decorator all 5.1.1-3 [14.9 kB] Get: 142 http://deb.debian.org/debian bookworm/main amd64 python3-ply all 3.11-5 [65.8 kB] Get: 143 http://deb.debian.org/debian bookworm/main amd64 python3-pythran amd64 0.11.0+ds-7 [427 kB] Get: 144 http://deb.debian.org/debian bookworm/main amd64 python3-scipy amd64 1.10.1-2 [15.2 MB] Get: 145 http://deb.debian.org/debian bookworm/main amd64 python3-ufolib2 all 0.14.0+dfsg1-1 [34.3 kB] Get: 146 http://deb.debian.org/debian bookworm/main amd64 python3-mpmath all 1.2.1-2 [418 kB] Get: 147 http://deb.debian.org/debian bookworm/main amd64 python3-sympy all 1.11.1-1 [4358 kB] Get: 148 http://deb.debian.org/debian bookworm/main amd64 python3-tz all 2022.7.1-3 [30.1 kB] Get: 149 http://deb.debian.org/debian bookworm/main amd64 python3-fs all 2.4.16-2 [95.2 kB] Get: 150 http://deb.debian.org/debian bookworm/main amd64 python3-lxml amd64 4.9.2-1+b1 [1194 kB] Get: 151 http://deb.debian.org/debian bookworm/main amd64 python3-lz4 amd64 4.0.2+dfsg-1+b2 [25.0 kB] Get: 152 http://deb.debian.org/debian bookworm/main amd64 unicode-data all 15.0.0-1 [7984 kB] Get: 153 http://deb.debian.org/debian bookworm/main amd64 python3-fonttools amd64 4.38.0-1+b1 [1012 kB] Get: 154 http://deb.debian.org/debian bookworm/main amd64 python3-freezegun all 1.2.1+actually1.2.1-1 [15.5 kB] Get: 155 http://deb.debian.org/debian bookworm/main amd64 python3-iniconfig all 1.1.1-2 [6396 B] Get: 156 http://deb.debian.org/debian bookworm/main amd64 python3-isodate all 0.6.1-1 [25.3 kB] Get: 157 http://deb.debian.org/debian bookworm/main amd64 python3-pyrsistent amd64 0.18.1-1+b3 [60.0 kB] Get: 158 http://deb.debian.org/debian bookworm/main amd64 python3-jsonschema all 4.10.3-1 [67.9 kB] Get: 159 http://deb.debian.org/debian bookworm/main amd64 python3-kiwisolver amd64 1.4.4-1+b1 [60.1 kB] Get: 160 http://deb.debian.org/debian bookworm/main amd64 python3-pyparsing all 3.0.9-1 [138 kB] Get: 161 http://deb.debian.org/debian bookworm/main amd64 python3-packaging all 23.0-1 [32.5 kB] Get: 162 http://deb.debian.org/debian bookworm/main amd64 python3-matplotlib amd64 3.6.3-1+b1 [6921 kB] Get: 163 http://deb.debian.org/debian bookworm/main amd64 python3-more-itertools all 8.10.0-2 [53.0 kB] Get: 164 http://deb.debian.org/debian bookworm/main amd64 python3-networkx all 2.8.8-1 [1425 kB] Get: 165 http://deb.debian.org/debian bookworm/main amd64 python3-pandas-lib amd64 1.5.3+dfsg-2 [3499 kB] Get: 166 http://deb.debian.org/debian bookworm/main amd64 python3-pandas all 1.5.3+dfsg-2 [2885 kB] Get: 167 http://deb.debian.org/debian bookworm/main amd64 python3-pluggy all 1.0.0+repack-1 [19.7 kB] Get: 168 http://deb.debian.org/debian bookworm/main amd64 python3-py all 1.11.0-1 [89.2 kB] Get: 169 http://deb.debian.org/debian bookworm/main amd64 python3-pyfaidx all 0.7.1-2 [28.0 kB] Get: 170 http://deb.debian.org/debian bookworm/main amd64 python3-pyfastx amd64 0.8.4-2 [52.0 kB] Get: 171 http://deb.debian.org/debian bookworm/main amd64 python3-pytest all 7.2.1-2 [236 kB] Get: 172 http://deb.debian.org/debian bookworm/main amd64 python3-pytest-mock all 3.8.2-3 [16.5 kB] Get: 173 http://deb.debian.org/debian bookworm/main amd64 python3-setuptools all 66.1.1-1 [521 kB] Get: 174 http://deb.debian.org/debian bookworm/main amd64 python3-treetime all 0.9.4-1 [921 kB] Get: 175 http://deb.debian.org/debian bookworm/main amd64 python3-xopen all 1.7.0-2 [16.9 kB] Get: 176 http://deb.debian.org/debian bookworm/main amd64 python3-zstandard amd64 0.20.0-3 [324 kB] Get: 177 http://deb.debian.org/debian bookworm/main amd64 vcftools amd64 0.1.16-3+b1 [431 kB] Fetched 145 MB in 3s (52.1 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package pigz. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19596 files and directories currently installed.) Preparing to unpack .../archives/pigz_2.6-1_amd64.deb ... Unpacking pigz (2.6-1) ... Selecting previously unselected package libpython3.11-minimal:amd64. Preparing to unpack .../libpython3.11-minimal_3.11.2-6_amd64.deb ... Unpacking libpython3.11-minimal:amd64 (3.11.2-6) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.5.0-1_amd64.deb ... Unpacking libexpat1:amd64 (2.5.0-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.2-6_amd64.deb ... Unpacking python3.11-minimal (3.11.2-6) ... Setting up libpython3.11-minimal:amd64 (3.11.2-6) ... Setting up libexpat1:amd64 (2.5.0-1) ... Setting up python3.11-minimal (3.11.2-6) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19921 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.2-1+b1_amd64.deb ... Unpacking python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_10.0.0_all.deb ... Unpacking media-types (10.0.0) ... Selecting previously unselected package mailcap. Preparing to unpack .../2-mailcap_3.70+nmu1_all.deb ... Unpacking mailcap (3.70+nmu1) ... Selecting previously unselected package mime-support. Preparing to unpack .../3-mime-support_3.66_all.deb ... Unpacking mime-support (3.66) ... Selecting previously unselected package readline-common. Preparing to unpack .../4-readline-common_8.2-1.3_all.deb ... Unpacking readline-common (8.2-1.3) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../5-libreadline8_8.2-1.3_amd64.deb ... Unpacking libreadline8:amd64 (8.2-1.3) ... Selecting previously unselected package libpython3.11-stdlib:amd64. Preparing to unpack .../6-libpython3.11-stdlib_3.11.2-6_amd64.deb ... Unpacking libpython3.11-stdlib:amd64 (3.11.2-6) ... Selecting previously unselected package python3.11. Preparing to unpack .../7-python3.11_3.11.2-6_amd64.deb ... Unpacking python3.11 (3.11.2-6) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../8-libpython3-stdlib_3.11.2-1+b1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.11.2-1+b1) ... Setting up python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20379 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.2-1+b1_amd64.deb ... Unpacking python3 (3.11.2-1+b1) ... Selecting previously unselected package sgml-base. Preparing to unpack .../001-sgml-base_1.31_all.deb ... Unpacking sgml-base (1.31) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../002-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../003-libmagic-mgc_1%3a5.44-3_amd64.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../004-libmagic1_1%3a5.44-3_amd64.deb ... Unpacking libmagic1:amd64 (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../005-file_1%3a5.44-3_amd64.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../006-gettext-base_0.21-12_amd64.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../007-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../008-groff-base_1.22.4-10_amd64.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../009-bsdextrautils_2.38.1-5+b1_amd64.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../010-libpipeline1_1.5.7-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../011-man-db_2.11.2-2_amd64.deb ... Unpacking man-db (2.11.2-2) ... Selecting previously unselected package m4. Preparing to unpack .../012-m4_1.4.19-3_amd64.deb ... Unpacking m4 (1.4.19-3) ... Selecting previously unselected package autoconf. Preparing to unpack .../013-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../014-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. 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Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:amd64 (2.74.6-2) ... No schema files found: doing nothing. Setting up fonts-lyx (2.3.7-1) ... Setting up libdebhelper-perl (13.11.4) ... Setting up libbrotli1:amd64 (1.0.9-2+b6) ... Setting up x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libmagic1:amd64 (1:5.44-3) ... Setting up libdeflate0:amd64 (1.14-1) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up libqhull-r8.0:amd64 (2020.2-5) ... Setting up file (1:5.44-3) ... Setting up libjbig0:amd64 (2.1-6.1) ... Setting up unicode-data (15.0.0-1) ... Setting up libxsimd-dev:amd64 (8.1.0-7) ... Setting up libfontenc1:amd64 (1:1.1.4-1) ... Setting up autotools-dev (20220109.1) ... Setting up libblas3:amd64 (3.11.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libexpat1-dev:amd64 (2.5.0-1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-2) ... Setting up libx11-data (2:1.8.4-2) ... Setting up xfonts-encodings (1:1.0.4-2.2) ... Setting up libfribidi0:amd64 (1.0.8-2.1) ... Setting up libimagequant0:amd64 (2.17.0-1) ... Setting up libpng16-16:amd64 (1.6.39-2) ... Setting up libtcl8.6:amd64 (8.6.13+dfsg-2) ... Setting up autopoint (0.21-12) ... Setting up fonts-dejavu-core (2.37-6) ... Setting up libgfortran5:amd64 (12.2.0-14) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:amd64 (1.2.4-0.1) ... Setting up zlib1g-dev:amd64 (1:1.2.13.dfsg-1) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up pigz (2.6-1) ... Setting up libtiff6:amd64 (4.5.0-5) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libopenjp2-7:amd64 (2.5.0-1+b1) ... Setting up libsub-override-perl (0.09-4) ... Setting up sgml-base (1.31) ... Setting up libboost-dev:amd64 (1.74.0.3) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up python-matplotlib-data (3.6.3-1) ... Setting up libwebpmux3:amd64 (1.2.4-0.1) ... Setting up libbsd0:amd64 (0.11.7-2) ... Setting up mailcap (3.70+nmu1) ... Setting up libelf1:amd64 (0.188-2.1) ... Setting up readline-common (8.2-1.3) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.1+b3) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up liblapack3:amd64 (3.11.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libxcb1:amd64 (1.15-1) ... Setting up gettext (0.21-12) ... Setting up libopenblas0-pthread:amd64 (0.3.21+ds-4) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblas.so.0 to provide /usr/lib/x86_64-linux-gnu/libopenblas.so.0 (libopenblas.so.0-x86_64-linux-gnu) in auto mode Setting up mime-support (3.66) ... Setting up libtool (2.4.7-5) ... Setting up fontconfig-config (2.14.1-4) ... Setting up libwebpdemux2:amd64 (1.2.4-0.1) ... Setting up libreadline8:amd64 (8.2-1.3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libfreetype6:amd64 (2.12.1+dfsg-4) ... Setting up libjs-sphinxdoc (5.3.0-4) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up libopenblas0:amd64 (0.3.21+ds-4) ... Setting up groff-base (1.22.4-10) ... Setting up xml-core (0.18+nmu1) ... Setting up libxslt1.1:amd64 (1.1.35-1) ... Setting up libx11-6:amd64 (2:1.8.4-2) ... Setting up libharfbuzz0b:amd64 (6.0.0+dfsg-3) ... Setting up libfontconfig1:amd64 (2.14.1-4) ... Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1) ... Setting up libopenblas-pthread-dev:amd64 (0.3.21+ds-4) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblas.so to provide /usr/lib/x86_64-linux-gnu/libopenblas.so (libopenblas.so-x86_64-linux-gnu) in auto mode Setting up libxrender1:amd64 (1:0.9.10-1.1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:amd64 (3.11.2-6) ... Setting up libxext6:amd64 (2:1.3.4-1+b1) ... Setting up xfonts-utils (1:7.7+6) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libopenblas-dev:amd64 (0.3.21+ds-4) ... Setting up libraqm0:amd64 (0.7.0-4.1) ... Setting up libxss1:amd64 (1:1.2.3-1) ... Setting up libpython3-stdlib:amd64 (3.11.2-1+b1) ... Setting up python3.11 (3.11.2-6) ... Setting up libxft2:amd64 (2.3.6-1) ... Setting up libpython3.11:amd64 (3.11.2-6) ... Setting up libtk8.6:amd64 (8.6.13-2) ... Setting up debhelper (13.11.4) ... Setting up python3 (3.11.2-1+b1) ... Setting up fonts-urw-base35 (20200910-7) ... Setting up python3-tz (2022.7.1-3) ... Setting up python3-six (1.16.0-4) ... Setting up python3-isodate (0.6.1-1) ... Setting up python3-pil:amd64 (9.4.0-1.1+b1) ... Setting up python3-decorator (5.1.1-3) ... Setting up python3-packaging (23.0-1) ... Setting up python3-pyparsing (3.0.9-1) ... Setting up libpython3.11-dev:amd64 (3.11.2-6) ... Setting up python3-brotli (1.0.9-2+b6) ... Setting up python3-cycler (0.11.0-1) ... Setting up python3-reportlab-accel:amd64 (3.6.12-1+b1) ... Setting up python3-kiwisolver (1.4.4-1+b1) ... Setting up python3-pluggy (1.0.0+repack-1) ... Setting up python3-reportlab (3.6.12-1) ... Setting up python3-pyrsistent:amd64 (0.18.1-1+b3) ... Setting up python3-lxml:amd64 (4.9.2-1+b1) ... Setting up python3-dateutil (2.8.2-2) ... Setting up python3-mpmath (1.2.1-2) ... Setting up python3-lib2to3 (3.11.2-2) ... Setting up python3-appdirs (1.4.4-3) ... Setting up python3-freezegun (1.2.1+actually1.2.1-1) ... Setting up python3-cffi-backend:amd64 (1.15.1-5+b1) ... Setting up python3-pkg-resources (66.1.1-1) ... Setting up python3-distutils (3.11.2-2) ... Setting up dh-python (5.20230130) ... Setting up python3-more-itertools (8.10.0-2) ... Setting up python3-pyfaidx (0.7.1-2) ... Setting up python3-iniconfig (1.1.1-2) ... Setting up python3-sympy (1.11.1-1) ... Setting up python3-attr (22.2.0-1) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-4.1) ... Setting up libpython3-dev:amd64 (3.11.2-1+b1) ... Setting up python3-renderpm:amd64 (3.6.12-1+b1) ... Setting up python3-setuptools (66.1.1-1) ... Setting up python3-py (1.11.0-1) ... Setting up python3-lz4 (4.0.2+dfsg-1+b2) ... Setting up python3.11-dev (3.11.2-6) ... Setting up python3-pytest (7.2.1-2) ... Setting up blt (2.5.3+dfsg-4.1) ... Setting up python3-ply (3.11-5) ... Setting up python3-pyfastx (0.8.4-2) ... Setting up python3-gast (0.5.2-2) ... Setting up python3-all (3.11.2-1+b1) ... Setting up python3-tk:amd64 (3.11.2-2) ... Setting up python3-networkx (2.8.8-1) ... Setting up python3-fs (2.4.16-2) ... Setting up python3-beniget (0.4.1-3) ... Setting up python3-xopen (1.7.0-2) ... Setting up python3-zstandard (0.20.0-3) ... Setting up python3-pil.imagetk:amd64 (9.4.0-1.1+b1) ... Setting up python3-jsonschema (4.10.3-1) ... Setting up libpython3-all-dev:amd64 (3.11.2-1+b1) ... Setting up python3-dev (3.11.2-1+b1) ... Setting up python3-numpy (1:1.24.2-1) ... Setting up python3-pytest-mock (3.8.2-3) ... Setting up python3-contourpy (1.0.7-1+b1) ... Setting up python3-all-dev (3.11.2-1+b1) ... Setting up python3-pandas-lib:amd64 (1.5.3+dfsg-2) ... Setting up python3-pandas (1.5.3+dfsg-2) ... Setting up python3-pythran (0.11.0+ds-7) ... Setting up python3-scipy (1.10.1-2) ... Setting up python3-fonttools (4.38.0-1+b1) ... Setting up python3-ufolib2 (0.14.0+dfsg1-1) ... Setting up python3-matplotlib (3.6.3-1+b1) ... Processing triggers for libc-bin (2.36-9) ... Processing triggers for sgml-base (1.31) ... Setting up w3c-sgml-lib (1.3-3) ... Setting up python3-biopython (1.80+dfsg-4+b1) ... Setting up python3-treetime (0.9.4-1) ... 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/augur-20.0.0/ && 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 > ../augur_20.0.0-1_source.changes dpkg-buildpackage: info: source package augur dpkg-buildpackage: info: source version 20.0.0-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille 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/augur-20.0.0' dh_auto_clean I: pybuild base:240: python3.11 setup.py clean running clean removing '/build/augur-20.0.0/.pybuild/cpython3_3.11/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.11' does not exist -- can't clean it rm -rf .pytest_cache nextstrain_augur.egg-info make[1]: Leaving directory '/build/augur-20.0.0' 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 dh_auto_configure -O--buildsystem=pybuild I: pybuild base:240: python3.11 setup.py config running config dh_auto_build -O--buildsystem=pybuild I: pybuild base:240: /usr/bin/python3 setup.py build running build running build_py creating /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/version.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/validate_export.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/validate.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/utils.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/types.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/tree.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/translate.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/traits.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/titers.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/titer_model.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/sequence_traits.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/refine.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/reconstruct_sequences.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/parse.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/mask.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/lbi.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/index.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/frequency_estimators.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/frequencies.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/filenames.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/export_v2.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/export_v1.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/export.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/errors.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/distance.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/dates.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/clades.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/argparse_.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/ancestral.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/align.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/__version__.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/__main__.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur copying augur/__init__.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur creating /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support copying augur/util_support/node_data_reader.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support copying augur/util_support/node_data_file.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support copying augur/util_support/node_data.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support copying augur/util_support/date_disambiguator.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support copying augur/util_support/color_parser_line.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support copying augur/util_support/color_parser.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support copying augur/util_support/__init__.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support creating /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/measurements copying augur/measurements/export.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/measurements copying augur/measurements/concat.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/measurements copying augur/measurements/__init__.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/measurements creating /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io copying augur/io/vcf.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io copying augur/io/shell_command_runner.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io copying augur/io/sequences.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io copying augur/io/print.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io copying augur/io/metadata.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io copying augur/io/json.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io copying augur/io/file.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io copying augur/io/__init__.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io creating /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/import_ copying augur/import_/beast.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/import_ copying augur/import_/__init__.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/import_ creating /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/filter copying augur/filter/validate_arguments.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/filter copying augur/filter/subsample.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/filter copying augur/filter/io.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/filter copying augur/filter/include_exclude_rules.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/filter copying augur/filter/_run.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/filter copying augur/filter/__init__.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/filter creating /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/curate copying augur/curate/passthru.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/curate copying augur/curate/normalize_strings.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/curate copying augur/curate/__init__.py -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/curate creating /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data copying augur/data/schema-tip-frequencies.json -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data copying augur/data/schema-measurements.json -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data copying augur/data/schema-measurements-collection-config.json -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data copying augur/data/schema-frequencies.json -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data copying augur/data/schema-export-v2.json -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data copying augur/data/schema-export-v1-tree.json -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data copying augur/data/schema-export-v1-meta.json -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data copying augur/data/schema-export-root-sequence.json -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data copying augur/data/schema-auspice-config-v2.json -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data copying augur/data/schema-annotations.json -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data copying augur/data/lat_longs.tsv -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data copying augur/data/colors.tsv -> /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data dh_auto_test -O--buildsystem=pybuild I: pybuild base:240: cd /build/augur-20.0.0/.pybuild/cpython3_3.11/build; python3.11 -m pytest tests ============================= test session starts ============================== platform linux -- Python 3.11.2, pytest-7.2.1, pluggy-1.0.0+repack rootdir: /build/augur-20.0.0 plugins: mock-3.8.2 collected 323 items tests/test_align.py .............................................. [ 14%] tests/test_clades.py ......... [ 17%] tests/test_dates.py ....... [ 19%] tests/test_frequencies.py .................... [ 25%] tests/test_mask.py ....................................... [ 37%] tests/test_parse.py ... [ 38%] tests/test_schemas.py .......... [ 41%] tests/test_titer_models.py . [ 41%] tests/test_translate.py .. [ 42%] tests/test_utils.py ........... [ 45%] tests/test_validate.py ......... [ 48%] tests/test_validate_export.py .. [ 49%] tests/filter/test_run.py ............................ [ 57%] tests/filter/test_subsample.py ................ [ 62%] tests/io/test_file.py ........ [ 65%] tests/io/test_metadata.py ................................... [ 76%] tests/io/test_sequences.py .................... [ 82%] tests/io/test_shell_command_runner.py .......... [ 85%] tests/io/test_vcf.py ....... [ 87%] tests/util_support/test_color_parser.py .... [ 88%] tests/util_support/test_date_disambiguator.py ..................... [ 95%] tests/util_support/test_node_data.py ... [ 96%] tests/util_support/test_node_data_file.py ...... [ 98%] tests/util_support/test_node_data_reader.py ...... [100%] ============================= 323 passed in 32.39s ============================= create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install --destdir=debian/augur/ -O--buildsystem=pybuild I: pybuild base:240: /usr/bin/python3 setup.py install --root /build/augur-20.0.0/debian/augur running install /usr/lib/python3/dist-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. warnings.warn( running build running build_py running install_lib creating /build/augur-20.0.0/debian/augur/usr creating /build/augur-20.0.0/debian/augur/usr/lib creating /build/augur-20.0.0/debian/augur/usr/lib/python3.11 creating /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages creating /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur creating /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/version.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/export_v2.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/export_v1.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/export.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/frequencies.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/titer_model.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/titers.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/frequency_estimators.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/distance.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/lbi.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/sequence_traits.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/traits.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/clades.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/reconstruct_sequences.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/translate.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/ancestral.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/refine.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/tree.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/align.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/mask.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/index.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/validate_export.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/validate.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/__version__.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/utils.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/dates.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/parse.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/argparse_.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/types.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/errors.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__pycache__/__init__.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__pycache__ creating /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/data copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data/colors.tsv -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/data copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data/lat_longs.tsv -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/data copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data/schema-annotations.json -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/data copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data/schema-auspice-config-v2.json -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/data copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data/schema-export-root-sequence.json -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/data copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data/schema-export-v1-meta.json -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/data copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data/schema-export-v1-tree.json -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/data copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data/schema-export-v2.json -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/data copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data/schema-frequencies.json -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/data copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data/schema-measurements-collection-config.json -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/data copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data/schema-measurements.json -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/data copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/data/schema-tip-frequencies.json -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/data creating /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/curate creating /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/curate/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/curate/__pycache__/passthru.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/curate/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/curate/__pycache__/normalize_strings.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/curate/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/curate/__pycache__/__init__.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/curate/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/curate/__init__.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/curate copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/curate/normalize_strings.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/curate copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/curate/passthru.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/curate creating /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filter creating /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filter/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/filter/__pycache__/subsample.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filter/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/filter/__pycache__/include_exclude_rules.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filter/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/filter/__pycache__/io.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filter/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/filter/__pycache__/_run.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filter/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/filter/__pycache__/__init__.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filter/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/filter/__init__.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filter copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/filter/_run.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filter copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/filter/include_exclude_rules.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filter copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/filter/io.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filter copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/filter/subsample.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filter copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/filter/validate_arguments.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filter creating /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/import_ creating /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/import_/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/import_/__pycache__/beast.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/import_/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/import_/__pycache__/__init__.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/import_/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/import_/__init__.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/import_ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/import_/beast.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/import_ creating /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io creating /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io/__pycache__/shell_command_runner.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io/__pycache__/vcf.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io/__pycache__/json.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io/__pycache__/sequences.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io/__pycache__/print.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io/__pycache__/metadata.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io/__pycache__/file.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io/__pycache__/__init__.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io/__init__.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io/file.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io/json.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io/metadata.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io/print.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io/sequences.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io/shell_command_runner.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/io/vcf.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io creating /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/measurements creating /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/measurements/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/measurements/__pycache__/concat.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/measurements/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/measurements/__pycache__/export.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/measurements/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/measurements/__pycache__/__init__.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/measurements/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/measurements/__init__.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/measurements copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/measurements/concat.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/measurements copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/measurements/export.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/measurements creating /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support creating /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support/__pycache__/node_data_file.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support/__pycache__/node_data.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support/__pycache__/node_data_reader.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support/__pycache__/color_parser_line.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support/__pycache__/color_parser.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support/__pycache__/date_disambiguator.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support/__pycache__/__init__.cpython-311.pyc -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support/__pycache__ copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support/__init__.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support/color_parser.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support/color_parser_line.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support/date_disambiguator.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support/node_data.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support/node_data_file.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/util_support/node_data_reader.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__init__.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__main__.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/__version__.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/align.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/ancestral.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/argparse_.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/clades.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/dates.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/distance.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/errors.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/export.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/export_v1.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/export_v2.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/filenames.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/frequencies.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/frequency_estimators.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/index.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/lbi.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/mask.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/parse.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/reconstruct_sequences.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/refine.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/sequence_traits.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/titer_model.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/titers.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/traits.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/translate.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/tree.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/types.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/utils.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/validate.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/validate_export.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur copying /build/augur-20.0.0/.pybuild/cpython3_3.11/build/augur/version.py -> /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/curate/__init__.py to __init__.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/curate/normalize_strings.py to normalize_strings.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/curate/passthru.py to passthru.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filter/__init__.py to __init__.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filter/_run.py to _run.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filter/include_exclude_rules.py to include_exclude_rules.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filter/io.py to io.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filter/subsample.py to subsample.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filter/validate_arguments.py to validate_arguments.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/import_/__init__.py to __init__.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/import_/beast.py to beast.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io/__init__.py to __init__.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io/file.py to file.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io/json.py to json.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io/metadata.py to metadata.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io/print.py to print.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io/sequences.py to sequences.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io/shell_command_runner.py to shell_command_runner.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/io/vcf.py to vcf.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/measurements/__init__.py to __init__.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/measurements/concat.py to concat.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/measurements/export.py to export.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support/__init__.py to __init__.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support/color_parser.py to color_parser.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support/color_parser_line.py to color_parser_line.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support/date_disambiguator.py to date_disambiguator.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support/node_data.py to node_data.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support/node_data_file.py to node_data_file.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/util_support/node_data_reader.py to node_data_reader.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__init__.py to __init__.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__main__.py to __main__.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/__version__.py to __version__.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/align.py to align.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/ancestral.py to ancestral.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/argparse_.py to argparse_.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/clades.py to clades.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/dates.py to dates.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/distance.py to distance.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/errors.py to errors.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/export.py to export.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/export_v1.py to export_v1.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/export_v2.py to export_v2.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/filenames.py to filenames.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/frequencies.py to frequencies.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/frequency_estimators.py to frequency_estimators.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/index.py to index.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/lbi.py to lbi.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/mask.py to mask.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/parse.py to parse.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/reconstruct_sequences.py to reconstruct_sequences.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/refine.py to refine.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/sequence_traits.py to sequence_traits.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/titer_model.py to titer_model.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/titers.py to titers.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/traits.py to traits.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/translate.py to translate.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/tree.py to tree.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/types.py to types.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/utils.py to utils.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/validate.py to validate.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/validate_export.py to validate_export.cpython-311.pyc byte-compiling /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/augur/version.py to version.cpython-311.pyc running install_egg_info running egg_info creating nextstrain_augur.egg-info writing nextstrain_augur.egg-info/PKG-INFO writing dependency_links to nextstrain_augur.egg-info/dependency_links.txt writing entry points to nextstrain_augur.egg-info/entry_points.txt writing requirements to nextstrain_augur.egg-info/requires.txt writing top-level names to nextstrain_augur.egg-info/top_level.txt writing manifest file 'nextstrain_augur.egg-info/SOURCES.txt' reading manifest file 'nextstrain_augur.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE.txt' writing manifest file 'nextstrain_augur.egg-info/SOURCES.txt' Copying nextstrain_augur.egg-info to /build/augur-20.0.0/debian/augur/usr/lib/python3.11/dist-packages/nextstrain_augur-20.0.0.egg-info Skipping SOURCES.txt running install_scripts Installing augur script to /build/augur-20.0.0/debian/augur/usr/bin debian/rules override_dh_install make[1]: Entering directory '/build/augur-20.0.0' dh_install find debian -name LICENSE.txt -delete find debian -name '*.fasta' -delete make[1]: Leaving directory '/build/augur-20.0.0' dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild dh_installsystemduser -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_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'augur' in '../augur_20.0.0-1_all.deb'. dpkg-genbuildinfo --build=binary -O../augur_20.0.0-1_amd64.buildinfo dpkg-genchanges --build=binary -O../augur_20.0.0-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full 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/2683440 and its subdirectories I: Current time: Wed May 22 05:01:22 -12 2024 I: pbuilder-time-stamp: 1716397282