I: pbuilder: network access will be disabled during build I: Current time: Mon Jun 5 19:43:40 +14 2023 I: pbuilder-time-stamp: 1685943820 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 [tombo_1.5.1-4.dsc] I: copying [./tombo_1.5.1.orig.tar.gz] I: copying [./tombo_1.5.1-4.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Nov 30 09:53:23 2022 +14 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 ./tombo_1.5.1-4.dsc: no acceptable signature found dpkg-source: info: extracting tombo in tombo-1.5.1 dpkg-source: info: unpacking tombo_1.5.1.orig.tar.gz dpkg-source: info: unpacking tombo_1.5.1-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying no_future.patch dpkg-source: info: applying 2to3.patch dpkg-source: info: applying mathjax.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/17412/tmp/hooks/D01_modify_environment starting debug: Running on jtx1c. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Jun 5 19:43 /bin/sh -> /bin/bash I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/17412/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/17412/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="15" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") BASH_VERSION='5.2.15(1)-release' BUILDDIR=/build BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=armhf DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=4 ' DIRSTACK=() DISTRIBUTION=bookworm EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=arm HOST_ARCH=armhf IFS=' ' INVOCATION_ID=cf6321600574477788ef9303c158943e LANG=C LANGUAGE=it_CH:it LC_ALL=C MACHTYPE=arm-unknown-linux-gnueabihf MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnueabihf PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=17412 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.sYs5cg6Y/pbuilderrc_378k --distribution bookworm --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.sYs5cg6Y/b2 --logfile b2/build.log --extrapackages usrmerge tombo_1.5.1-4.dsc' SUDO_GID=114 SUDO_UID=108 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://10.0.0.15:3142/ I: uname -a Linux i-capture-the-hostname 5.10.0-23-arm64 #1 SMP Debian 5.10.179-1 (2023-05-12) aarch64 GNU/Linux I: ls -l /bin total 5072 -rwxr-xr-x 1 root root 838488 Apr 24 11:24 bash -rwxr-xr-x 3 root root 67144 Sep 19 2022 bunzip2 -rwxr-xr-x 3 root root 67144 Sep 19 2022 bzcat lrwxrwxrwx 1 root root 6 Sep 19 2022 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Sep 19 2022 bzdiff lrwxrwxrwx 1 root root 6 Sep 19 2022 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4893 Nov 28 2021 bzexe lrwxrwxrwx 1 root root 6 Sep 19 2022 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Sep 19 2022 bzgrep -rwxr-xr-x 3 root root 67144 Sep 19 2022 bzip2 -rwxr-xr-x 1 root root 67112 Sep 19 2022 bzip2recover lrwxrwxrwx 1 root root 6 Sep 19 2022 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Sep 19 2022 bzmore -rwxr-xr-x 1 root root 67632 Sep 21 2022 cat -rwxr-xr-x 1 root root 67676 Sep 21 2022 chgrp -rwxr-xr-x 1 root root 67644 Sep 21 2022 chmod -rwxr-xr-x 1 root root 67684 Sep 21 2022 chown -rwxr-xr-x 1 root root 133532 Sep 21 2022 cp -rwxr-xr-x 1 root root 132868 Jan 6 03:20 dash -rwxr-xr-x 1 root root 133220 Sep 21 2022 date -rwxr-xr-x 1 root root 67732 Sep 21 2022 dd -rwxr-xr-x 1 root root 68104 Sep 21 2022 df -rwxr-xr-x 1 root root 133632 Sep 21 2022 dir -rwxr-xr-x 1 root root 59128 Mar 23 23:02 dmesg lrwxrwxrwx 1 root root 8 Dec 20 03:33 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Dec 20 03:33 domainname -> hostname -rwxr-xr-x 1 root root 67560 Sep 21 2022 echo -rwxr-xr-x 1 root root 41 Jan 25 04:43 egrep -rwxr-xr-x 1 root root 67548 Sep 21 2022 false -rwxr-xr-x 1 root root 41 Jan 25 04:43 fgrep -rwxr-xr-x 1 root root 55748 Mar 23 23:02 findmnt -rwsr-xr-x 1 root root 26208 Mar 23 22:15 fusermount -rwxr-xr-x 1 root root 128608 Jan 25 04:43 grep -rwxr-xr-x 2 root root 2346 Apr 10 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 10 2022 gzexe -rwxr-xr-x 1 root root 64220 Apr 10 2022 gzip -rwxr-xr-x 1 root root 67032 Dec 20 03:33 hostname -rwxr-xr-x 1 root root 67720 Sep 21 2022 ln -rwxr-xr-x 1 root root 35132 Mar 23 23:51 login -rwxr-xr-x 1 root root 133632 Sep 21 2022 ls -rwxr-xr-x 1 root root 136808 Mar 23 23:02 lsblk -rwxr-xr-x 1 root root 67800 Sep 21 2022 mkdir -rwxr-xr-x 1 root root 67764 Sep 21 2022 mknod -rwxr-xr-x 1 root root 67596 Sep 21 2022 mktemp -rwxr-xr-x 1 root root 38504 Mar 23 23:02 more -rwsr-xr-x 1 root root 38496 Mar 23 23:02 mount -rwxr-xr-x 1 root root 9824 Mar 23 23:02 mountpoint -rwxr-xr-x 1 root root 133532 Sep 21 2022 mv lrwxrwxrwx 1 root root 8 Dec 20 03:33 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 3 20:25 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 67608 Sep 21 2022 pwd lrwxrwxrwx 1 root root 4 Apr 24 11:24 rbash -> bash -rwxr-xr-x 1 root root 67600 Sep 21 2022 readlink -rwxr-xr-x 1 root root 67672 Sep 21 2022 rm -rwxr-xr-x 1 root root 67600 Sep 21 2022 rmdir -rwxr-xr-x 1 root root 67400 Nov 3 2022 run-parts -rwxr-xr-x 1 root root 133372 Jan 6 09:55 sed lrwxrwxrwx 1 root root 9 Jun 5 19:43 sh -> /bin/bash -rwxr-xr-x 1 root root 67584 Sep 21 2022 sleep -rwxr-xr-x 1 root root 67644 Sep 21 2022 stty -rwsr-xr-x 1 root root 50800 Mar 23 23:02 su -rwxr-xr-x 1 root root 67584 Sep 21 2022 sync -rwxr-xr-x 1 root root 336764 Apr 7 04:25 tar -rwxr-xr-x 1 root root 67144 Nov 3 2022 tempfile -rwxr-xr-x 1 root root 133224 Sep 21 2022 touch -rwxr-xr-x 1 root root 67548 Sep 21 2022 true -rwxr-xr-x 1 root root 9768 Mar 23 22:15 ulockmgr_server -rwsr-xr-x 1 root root 22108 Mar 23 23:02 umount -rwxr-xr-x 1 root root 67572 Sep 21 2022 uname -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress -rwxr-xr-x 1 root root 133632 Sep 21 2022 vdir -rwxr-xr-x 1 root root 42608 Mar 23 23:02 wdctl lrwxrwxrwx 1 root root 8 Dec 20 03:33 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 10 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 10 2022 zcmp -rwxr-xr-x 1 root root 6460 Apr 10 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 10 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 10 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 10 2022 zforce -rwxr-xr-x 1 root root 8103 Apr 10 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew I: user script /srv/workspace/pbuilder/17412/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: armhf Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-python, python3-all-dev, python3-setuptools, cython3, sphinx-doc, python3-sphinx, python3-sphinx-rtd-theme, python3-sphinx-argparse, libjs-mathjax, python3-h5py, python3-mappy, python3-numpy, python3-scipy, python3-tqdm, python3-nose2 dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19324 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on cython3; however: Package cython3 is not installed. pbuilder-satisfydepends-dummy depends on sphinx-doc; however: Package sphinx-doc is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx; however: Package python3-sphinx is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx-rtd-theme; however: Package python3-sphinx-rtd-theme is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx-argparse; however: Package python3-sphinx-argparse is not installed. pbuilder-satisfydepends-dummy depends on libjs-mathjax; however: Package libjs-mathjax is not installed. pbuilder-satisfydepends-dummy depends on python3-h5py; however: Package python3-h5py is not installed. pbuilder-satisfydepends-dummy depends on python3-mappy; however: Package python3-mappy is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on python3-tqdm; however: Package python3-tqdm is not installed. pbuilder-satisfydepends-dummy depends on python3-nose2; however: Package python3-nose2 is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} cython3{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} docutils-common{a} docutils-doc{a} dwz{a} file{a} fonts-font-awesome{a} fonts-lato{a} fonts-mathjax{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libaec0{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libcurl4{a} libdebhelper-perl{a} libelf1{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libhdf5-103-1{a} libhdf5-hl-100{a} libicu72{a} libjs-jquery{a} libjs-mathjax{a} libjs-sphinxdoc{a} libjs-underscore{a} libjson-perl{a} liblapack3{a} liblbfgsb0{a} libldap-2.5-0{a} liblzf1{a} libmagic-mgc{a} libmagic1{a} libnghttp2-14{a} libpipeline1{a} libpsl5{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} libreadline8{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1{a} libsub-override-perl{a} libsz2{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} media-types{a} openssl{a} po-debconf{a} python-babel-localedata{a} python-requests-doc{a} python3{a} python3-alabaster{a} python3-all{a} python3-all-dev{a} python3-babel{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-decorator{a} python3-dev{a} python3-distutils{a} python3-doc{a} python3-docutils{a} python3-h5py{a} python3-h5py-serial{a} python3-idna{a} python3-imagesize{a} python3-jinja2{a} python3-lib2to3{a} python3-mappy{a} python3-markupsafe{a} python3-minimal{a} python3-nose2{a} python3-numpy{a} python3-packaging{a} python3-pkg-resources{a} python3-pygments{a} python3-requests{a} python3-roman{a} python3-scipy{a} python3-setuptools{a} python3-six{a} python3-snowballstemmer{a} python3-sphinx{a} python3-sphinx-argparse{a} python3-sphinx-rtd-theme{a} python3-tqdm{a} python3-tz{a} python3-urllib3{a} python3.11{a} python3.11-dev{a} python3.11-doc{a} python3.11-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{a} sphinx-doc{a} sphinx-rtd-theme-common{a} xml-core{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl javascript-common libarchive-cpio-perl libjson-xs-perl libldap-common libltdl-dev libmail-sendmail-perl libpaper-utils libsasl2-modules lynx publicsuffix python3-pil wget 0 packages upgraded, 125 newly installed, 0 to remove and 0 not upgraded. Need to get 95.8 MB of archives. After unpacking 415 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main armhf fonts-lato all 2.0-2.1 [2696 kB] Get: 2 http://deb.debian.org/debian bookworm/main armhf libpython3.11-minimal armhf 3.11.2-6 [798 kB] Get: 3 http://deb.debian.org/debian bookworm/main armhf libexpat1 armhf 2.5.0-1 [79.9 kB] Get: 4 http://deb.debian.org/debian bookworm/main armhf python3.11-minimal armhf 3.11.2-6 [1714 kB] Get: 5 http://deb.debian.org/debian bookworm/main armhf python3-minimal armhf 3.11.2-1+b1 [26.3 kB] Get: 6 http://deb.debian.org/debian bookworm/main armhf media-types all 10.0.0 [26.1 kB] Get: 7 http://deb.debian.org/debian bookworm/main armhf readline-common all 8.2-1.3 [69.0 kB] Get: 8 http://deb.debian.org/debian bookworm/main armhf libreadline8 armhf 8.2-1.3 [144 kB] Get: 9 http://deb.debian.org/debian bookworm/main armhf libpython3.11-stdlib armhf 3.11.2-6 [1678 kB] Get: 10 http://deb.debian.org/debian bookworm/main armhf python3.11 armhf 3.11.2-6 [572 kB] Get: 11 http://deb.debian.org/debian bookworm/main armhf libpython3-stdlib armhf 3.11.2-1+b1 [9296 B] Get: 12 http://deb.debian.org/debian bookworm/main armhf python3 armhf 3.11.2-1+b1 [26.3 kB] Get: 13 http://deb.debian.org/debian bookworm/main armhf sgml-base all 1.31 [15.4 kB] Get: 14 http://deb.debian.org/debian bookworm/main armhf sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 15 http://deb.debian.org/debian bookworm/main armhf openssl armhf 3.0.9-1 [1381 kB] Get: 16 http://deb.debian.org/debian bookworm/main armhf ca-certificates all 20230311 [153 kB] Get: 17 http://deb.debian.org/debian bookworm/main armhf libmagic-mgc armhf 1:5.44-3 [305 kB] Get: 18 http://deb.debian.org/debian bookworm/main armhf libmagic1 armhf 1:5.44-3 [96.5 kB] Get: 19 http://deb.debian.org/debian bookworm/main armhf file armhf 1:5.44-3 [41.6 kB] Get: 20 http://deb.debian.org/debian bookworm/main armhf gettext-base armhf 0.21-12 [157 kB] Get: 21 http://deb.debian.org/debian bookworm/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB] Get: 22 http://deb.debian.org/debian bookworm/main armhf groff-base armhf 1.22.4-10 [825 kB] Get: 23 http://deb.debian.org/debian bookworm/main armhf bsdextrautils armhf 2.38.1-5+b1 [78.6 kB] Get: 24 http://deb.debian.org/debian bookworm/main armhf libpipeline1 armhf 1.5.7-1 [33.6 kB] Get: 25 http://deb.debian.org/debian bookworm/main armhf man-db armhf 2.11.2-2 [1351 kB] Get: 26 http://deb.debian.org/debian bookworm/main armhf m4 armhf 1.4.19-3 [265 kB] Get: 27 http://deb.debian.org/debian bookworm/main armhf autoconf all 2.71-3 [332 kB] Get: 28 http://deb.debian.org/debian bookworm/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 29 http://deb.debian.org/debian bookworm/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 30 http://deb.debian.org/debian bookworm/main armhf autopoint all 0.21-12 [495 kB] Get: 31 http://deb.debian.org/debian bookworm/main armhf cython3 armhf 0.29.32-2+b1 [1230 kB] Get: 32 http://deb.debian.org/debian bookworm/main armhf libdebhelper-perl all 13.11.4 [81.2 kB] Get: 33 http://deb.debian.org/debian bookworm/main armhf libtool all 2.4.7-5 [517 kB] Get: 34 http://deb.debian.org/debian bookworm/main armhf dh-autoreconf all 20 [17.1 kB] Get: 35 http://deb.debian.org/debian bookworm/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 36 http://deb.debian.org/debian bookworm/main armhf libsub-override-perl all 0.09-4 [9304 B] Get: 37 http://deb.debian.org/debian bookworm/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 38 http://deb.debian.org/debian bookworm/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 39 http://deb.debian.org/debian bookworm/main armhf libelf1 armhf 0.188-2.1 [170 kB] Get: 40 http://deb.debian.org/debian bookworm/main armhf dwz armhf 0.15-1 [101 kB] Get: 41 http://deb.debian.org/debian bookworm/main armhf libicu72 armhf 72.1-3 [9048 kB] Get: 42 http://deb.debian.org/debian bookworm/main armhf libxml2 armhf 2.9.14+dfsg-1.2 [591 kB] Get: 43 http://deb.debian.org/debian bookworm/main armhf gettext armhf 0.21-12 [1229 kB] Get: 44 http://deb.debian.org/debian bookworm/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 45 http://deb.debian.org/debian bookworm/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 46 http://deb.debian.org/debian bookworm/main armhf debhelper all 13.11.4 [942 kB] Get: 47 http://deb.debian.org/debian bookworm/main armhf python3-lib2to3 all 3.11.2-3 [76.3 kB] Get: 48 http://deb.debian.org/debian bookworm/main armhf python3-distutils all 3.11.2-3 [131 kB] Get: 49 http://deb.debian.org/debian bookworm/main armhf dh-python all 5.20230130 [104 kB] Get: 50 http://deb.debian.org/debian bookworm/main armhf xml-core all 0.18+nmu1 [23.8 kB] Get: 51 http://deb.debian.org/debian bookworm/main armhf docutils-common all 0.19+dfsg-6 [127 kB] Get: 52 http://deb.debian.org/debian bookworm/main armhf docutils-doc all 0.19+dfsg-6 [1098 kB] Get: 53 http://deb.debian.org/debian bookworm/main armhf fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [517 kB] Get: 54 http://deb.debian.org/debian bookworm/main armhf fonts-mathjax all 2.7.9+dfsg-1 [2210 kB] Get: 55 http://deb.debian.org/debian bookworm/main armhf libaec0 armhf 1.0.6-1+b1 [19.8 kB] Get: 56 http://deb.debian.org/debian bookworm/main armhf libblas3 armhf 3.11.0-2 [105 kB] Get: 57 http://deb.debian.org/debian bookworm/main armhf libbrotli1 armhf 1.0.9-2+b6 [271 kB] Get: 58 http://deb.debian.org/debian bookworm/main armhf libsasl2-modules-db armhf 2.1.28+dfsg-10 [19.0 kB] Get: 59 http://deb.debian.org/debian bookworm/main armhf libsasl2-2 armhf 2.1.28+dfsg-10 [52.3 kB] Get: 60 http://deb.debian.org/debian bookworm/main armhf libldap-2.5-0 armhf 2.5.13+dfsg-5 [158 kB] Get: 61 http://deb.debian.org/debian bookworm/main armhf libnghttp2-14 armhf 1.52.0-1 [60.8 kB] Get: 62 http://deb.debian.org/debian bookworm/main armhf libpsl5 armhf 0.21.2-1 [57.5 kB] Get: 63 http://deb.debian.org/debian bookworm/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [55.2 kB] Get: 64 http://deb.debian.org/debian bookworm/main armhf libssh2-1 armhf 1.10.0-3+b1 [163 kB] Get: 65 http://deb.debian.org/debian bookworm/main armhf libcurl4 armhf 7.88.1-10 [347 kB] Get: 66 http://deb.debian.org/debian bookworm/main armhf libexpat1-dev armhf 2.5.0-1 [134 kB] Get: 67 http://deb.debian.org/debian bookworm/main armhf libgfortran5 armhf 12.2.0-14 [246 kB] Get: 68 http://deb.debian.org/debian bookworm/main armhf libsz2 armhf 1.0.6-1+b1 [7864 B] Get: 69 http://deb.debian.org/debian bookworm/main armhf libhdf5-103-1 armhf 1.10.8+repack1-1 [1183 kB] Get: 70 http://deb.debian.org/debian bookworm/main armhf libhdf5-hl-100 armhf 1.10.8+repack1-1 [65.3 kB] Get: 71 http://deb.debian.org/debian bookworm/main armhf libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 72 http://deb.debian.org/debian bookworm/main armhf libjs-mathjax all 2.7.9+dfsg-1 [5667 kB] Get: 73 http://deb.debian.org/debian bookworm/main armhf libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 74 http://deb.debian.org/debian bookworm/main armhf libjs-sphinxdoc all 5.3.0-4 [130 kB] Get: 75 http://deb.debian.org/debian bookworm/main armhf libjson-perl all 4.10000-1 [87.5 kB] Get: 76 http://deb.debian.org/debian bookworm/main armhf liblapack3 armhf 3.11.0-2 [1724 kB] Get: 77 http://deb.debian.org/debian bookworm/main armhf liblbfgsb0 armhf 3.0+dfsg.4-1 [25.0 kB] Get: 78 http://deb.debian.org/debian bookworm/main armhf liblzf1 armhf 3.6-3 [9248 B] Get: 79 http://deb.debian.org/debian bookworm/main armhf libpython3.11 armhf 3.11.2-6 [1710 kB] Get: 80 http://deb.debian.org/debian bookworm/main armhf zlib1g-dev armhf 1:1.2.13.dfsg-1 [902 kB] Get: 81 http://deb.debian.org/debian bookworm/main armhf libpython3.11-dev armhf 3.11.2-6 [3518 kB] Get: 82 http://deb.debian.org/debian bookworm/main armhf libpython3-dev armhf 3.11.2-1+b1 [9556 B] Get: 83 http://deb.debian.org/debian bookworm/main armhf libpython3-all-dev armhf 3.11.2-1+b1 [1068 B] Get: 84 http://deb.debian.org/debian bookworm/main armhf python-babel-localedata all 2.10.3-1 [5615 kB] Get: 85 http://deb.debian.org/debian bookworm/main armhf python-requests-doc all 2.28.1+dfsg-1 [183 kB] Get: 86 http://deb.debian.org/debian bookworm/main armhf python3-alabaster all 0.7.12-1 [20.8 kB] Get: 87 http://deb.debian.org/debian bookworm/main armhf python3-all armhf 3.11.2-1+b1 [1060 B] Get: 88 http://deb.debian.org/debian bookworm/main armhf python3.11-dev armhf 3.11.2-6 [615 kB] Get: 89 http://deb.debian.org/debian bookworm/main armhf python3-dev armhf 3.11.2-1+b1 [26.2 kB] Get: 90 http://deb.debian.org/debian bookworm/main armhf python3-all-dev armhf 3.11.2-1+b1 [1076 B] Get: 91 http://deb.debian.org/debian bookworm/main armhf python3-pkg-resources all 66.1.1-1 [296 kB] Get: 92 http://deb.debian.org/debian bookworm/main armhf python3-tz all 2022.7.1-4 [30.1 kB] Get: 93 http://deb.debian.org/debian bookworm/main armhf python3-babel all 2.10.3-1 [103 kB] Get: 94 http://deb.debian.org/debian bookworm/main armhf python3-certifi all 2022.9.24-1 [153 kB] Get: 95 http://deb.debian.org/debian bookworm/main armhf python3-chardet all 5.1.0+dfsg-2 [110 kB] Get: 96 http://deb.debian.org/debian bookworm/main armhf python3-charset-normalizer all 3.0.1-2 [49.3 kB] Get: 97 http://deb.debian.org/debian bookworm/main armhf python3-decorator all 5.1.1-3 [14.9 kB] Get: 98 http://deb.debian.org/debian bookworm/main armhf python3.11-doc all 3.11.2-6 [12.6 MB] Get: 99 http://deb.debian.org/debian bookworm/main armhf python3-doc all 3.11.2-1 [9208 B] Get: 100 http://deb.debian.org/debian bookworm/main armhf python3-roman all 3.3-3 [9880 B] Get: 101 http://deb.debian.org/debian bookworm/main armhf python3-docutils all 0.19+dfsg-6 [382 kB] Get: 102 http://deb.debian.org/debian bookworm/main armhf python3-numpy armhf 1:1.24.2-1 [4165 kB] Get: 103 http://deb.debian.org/debian bookworm/main armhf python3-h5py-serial armhf 3.7.0-8 [730 kB] Get: 104 http://deb.debian.org/debian bookworm/main armhf python3-h5py all 3.7.0-8 [10.3 kB] Get: 105 http://deb.debian.org/debian bookworm/main armhf python3-idna all 3.3-1 [39.4 kB] Get: 106 http://deb.debian.org/debian bookworm/main armhf python3-imagesize all 1.4.1-1 [6688 B] Get: 107 http://deb.debian.org/debian bookworm/main armhf python3-markupsafe armhf 2.1.2-1+b1 [12.8 kB] Get: 108 http://deb.debian.org/debian bookworm/main armhf python3-jinja2 all 3.1.2-1 [119 kB] Get: 109 http://deb.debian.org/debian bookworm/main armhf python3-mappy armhf 2.24+dfsg-3+b1 [147 kB] Get: 110 http://deb.debian.org/debian bookworm/main armhf python3-six all 1.16.0-4 [17.5 kB] Get: 111 http://deb.debian.org/debian bookworm/main armhf python3-nose2 all 0.12.0-1 [107 kB] Get: 112 http://deb.debian.org/debian bookworm/main armhf python3-packaging all 23.0-1 [32.5 kB] Get: 113 http://deb.debian.org/debian bookworm/main armhf python3-pygments all 2.14.0+dfsg-1 [783 kB] Get: 114 http://deb.debian.org/debian bookworm/main armhf python3-urllib3 all 1.26.12-1 [117 kB] Get: 115 http://deb.debian.org/debian bookworm/main armhf python3-requests all 2.28.1+dfsg-1 [67.9 kB] Get: 116 http://deb.debian.org/debian bookworm/main armhf python3-scipy armhf 1.10.1-2 [13.8 MB] Get: 117 http://deb.debian.org/debian bookworm/main armhf python3-setuptools all 66.1.1-1 [521 kB] Get: 118 http://deb.debian.org/debian bookworm/main armhf python3-snowballstemmer all 2.2.0-2 [57.8 kB] Get: 119 http://deb.debian.org/debian bookworm/main armhf sphinx-common all 5.3.0-4 [653 kB] Get: 120 http://deb.debian.org/debian bookworm/main armhf python3-sphinx all 5.3.0-4 [549 kB] Get: 121 http://deb.debian.org/debian bookworm/main armhf sphinx-rtd-theme-common all 1.2.0+dfsg-1 [997 kB] Get: 122 http://deb.debian.org/debian bookworm/main armhf python3-sphinx-argparse all 0.3.2-1 [37.1 kB] Get: 123 http://deb.debian.org/debian bookworm/main armhf python3-sphinx-rtd-theme all 1.2.0+dfsg-1 [27.7 kB] Get: 124 http://deb.debian.org/debian bookworm/main armhf python3-tqdm all 4.64.1-1 [97.7 kB] Get: 125 http://deb.debian.org/debian bookworm/main armhf sphinx-doc all 5.3.0-4 [2307 kB] Fetched 95.8 MB in 8s (11.6 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package fonts-lato. (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 ... 19324 files and directories currently installed.) Preparing to unpack .../fonts-lato_2.0-2.1_all.deb ... Unpacking fonts-lato (2.0-2.1) ... Selecting previously unselected package libpython3.11-minimal:armhf. Preparing to unpack .../libpython3.11-minimal_3.11.2-6_armhf.deb ... Unpacking libpython3.11-minimal:armhf (3.11.2-6) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../libexpat1_2.5.0-1_armhf.deb ... Unpacking libexpat1:armhf (2.5.0-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.2-6_armhf.deb ... Unpacking python3.11-minimal (3.11.2-6) ... Setting up libpython3.11-minimal:armhf (3.11.2-6) ... Setting up libexpat1:armhf (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 ... 19666 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.2-1+b1_armhf.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 readline-common. Preparing to unpack .../2-readline-common_8.2-1.3_all.deb ... Unpacking readline-common (8.2-1.3) ... Selecting previously unselected package libreadline8:armhf. Preparing to unpack .../3-libreadline8_8.2-1.3_armhf.deb ... Unpacking libreadline8:armhf (8.2-1.3) ... Selecting previously unselected package libpython3.11-stdlib:armhf. Preparing to unpack .../4-libpython3.11-stdlib_3.11.2-6_armhf.deb ... Unpacking libpython3.11-stdlib:armhf (3.11.2-6) ... Selecting previously unselected package python3.11. Preparing to unpack .../5-python3.11_3.11.2-6_armhf.deb ... Unpacking python3.11 (3.11.2-6) ... Selecting previously unselected package libpython3-stdlib:armhf. Preparing to unpack .../6-libpython3-stdlib_3.11.2-1+b1_armhf.deb ... Unpacking libpython3-stdlib:armhf (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 ... 20100 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.2-1+b1_armhf.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 openssl. Preparing to unpack .../003-openssl_3.0.9-1_armhf.deb ... Unpacking openssl (3.0.9-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../004-ca-certificates_20230311_all.deb ... Unpacking ca-certificates (20230311) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../005-libmagic-mgc_1%3a5.44-3_armhf.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:armhf. Preparing to unpack .../006-libmagic1_1%3a5.44-3_armhf.deb ... Unpacking libmagic1:armhf (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../007-file_1%3a5.44-3_armhf.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../008-gettext-base_0.21-12_armhf.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../009-libuchardet0_0.0.7-1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../010-groff-base_1.22.4-10_armhf.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../011-bsdextrautils_2.38.1-5+b1_armhf.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../012-libpipeline1_1.5.7-1_armhf.deb ... Unpacking libpipeline1:armhf (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../013-man-db_2.11.2-2_armhf.deb ... Unpacking man-db (2.11.2-2) ... Selecting previously unselected package m4. Preparing to unpack .../014-m4_1.4.19-3_armhf.deb ... Unpacking m4 (1.4.19-3) ... Selecting previously unselected package autoconf. Preparing to unpack .../015-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../016-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../017-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../018-autopoint_0.21-12_all.deb ... Unpacking autopoint (0.21-12) ... Selecting previously unselected package cython3. Preparing to unpack .../019-cython3_0.29.32-2+b1_armhf.deb ... Unpacking cython3 (0.29.32-2+b1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../020-libdebhelper-perl_13.11.4_all.deb ... Unpacking libdebhelper-perl (13.11.4) ... Selecting previously unselected package libtool. Preparing to unpack .../021-libtool_2.4.7-5_all.deb ... Unpacking libtool (2.4.7-5) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../022-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../023-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../024-libsub-override-perl_0.09-4_all.deb ... Unpacking libsub-override-perl (0.09-4) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../025-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../026-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1:armhf. Preparing to unpack .../027-libelf1_0.188-2.1_armhf.deb ... Unpacking libelf1:armhf (0.188-2.1) ... Selecting previously unselected package dwz. Preparing to unpack .../028-dwz_0.15-1_armhf.deb ... Unpacking dwz (0.15-1) ... Selecting previously unselected package libicu72:armhf. Preparing to unpack .../029-libicu72_72.1-3_armhf.deb ... Unpacking libicu72:armhf (72.1-3) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../030-libxml2_2.9.14+dfsg-1.2_armhf.deb ... Unpacking libxml2:armhf (2.9.14+dfsg-1.2) ... Selecting previously unselected package gettext. Preparing to unpack .../031-gettext_0.21-12_armhf.deb ... Unpacking gettext (0.21-12) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../032-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../033-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../034-debhelper_13.11.4_all.deb ... Unpacking debhelper (13.11.4) ... Selecting previously unselected package python3-lib2to3. Preparing to unpack .../035-python3-lib2to3_3.11.2-3_all.deb ... Unpacking python3-lib2to3 (3.11.2-3) ... Selecting previously unselected package python3-distutils. Preparing to unpack .../036-python3-distutils_3.11.2-3_all.deb ... Unpacking python3-distutils (3.11.2-3) ... Selecting previously unselected package dh-python. Preparing to unpack .../037-dh-python_5.20230130_all.deb ... Unpacking dh-python (5.20230130) ... Selecting previously unselected package xml-core. Preparing to unpack .../038-xml-core_0.18+nmu1_all.deb ... Unpacking xml-core (0.18+nmu1) ... Selecting previously unselected package docutils-common. Preparing to unpack .../039-docutils-common_0.19+dfsg-6_all.deb ... Unpacking docutils-common (0.19+dfsg-6) ... Selecting previously unselected package docutils-doc. Preparing to unpack .../040-docutils-doc_0.19+dfsg-6_all.deb ... Unpacking docutils-doc (0.19+dfsg-6) ... Selecting previously unselected package fonts-font-awesome. Preparing to unpack .../041-fonts-font-awesome_5.0.10+really4.7.0~dfsg-4.1_all.deb ... Unpacking fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... Selecting previously unselected package fonts-mathjax. Preparing to unpack .../042-fonts-mathjax_2.7.9+dfsg-1_all.deb ... Unpacking fonts-mathjax (2.7.9+dfsg-1) ... Selecting previously unselected package libaec0:armhf. Preparing to unpack .../043-libaec0_1.0.6-1+b1_armhf.deb ... Unpacking libaec0:armhf (1.0.6-1+b1) ... Selecting previously unselected package libblas3:armhf. Preparing to unpack .../044-libblas3_3.11.0-2_armhf.deb ... Unpacking libblas3:armhf (3.11.0-2) ... Selecting previously unselected package libbrotli1:armhf. Preparing to unpack .../045-libbrotli1_1.0.9-2+b6_armhf.deb ... Unpacking libbrotli1:armhf (1.0.9-2+b6) ... Selecting previously unselected package libsasl2-modules-db:armhf. Preparing to unpack .../046-libsasl2-modules-db_2.1.28+dfsg-10_armhf.deb ... Unpacking libsasl2-modules-db:armhf (2.1.28+dfsg-10) ... Selecting previously unselected package libsasl2-2:armhf. Preparing to unpack .../047-libsasl2-2_2.1.28+dfsg-10_armhf.deb ... Unpacking libsasl2-2:armhf (2.1.28+dfsg-10) ... Selecting previously unselected package libldap-2.5-0:armhf. Preparing to unpack .../048-libldap-2.5-0_2.5.13+dfsg-5_armhf.deb ... Unpacking libldap-2.5-0:armhf (2.5.13+dfsg-5) ... Selecting previously unselected package libnghttp2-14:armhf. Preparing to unpack .../049-libnghttp2-14_1.52.0-1_armhf.deb ... Unpacking libnghttp2-14:armhf (1.52.0-1) ... Selecting previously unselected package libpsl5:armhf. Preparing to unpack .../050-libpsl5_0.21.2-1_armhf.deb ... Unpacking libpsl5:armhf (0.21.2-1) ... Selecting previously unselected package librtmp1:armhf. Preparing to unpack .../051-librtmp1_2.4+20151223.gitfa8646d.1-2+b2_armhf.deb ... Unpacking librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libssh2-1:armhf. Preparing to unpack .../052-libssh2-1_1.10.0-3+b1_armhf.deb ... Unpacking libssh2-1:armhf (1.10.0-3+b1) ... Selecting previously unselected package libcurl4:armhf. Preparing to unpack .../053-libcurl4_7.88.1-10_armhf.deb ... Unpacking libcurl4:armhf (7.88.1-10) ... Selecting previously unselected package libexpat1-dev:armhf. Preparing to unpack .../054-libexpat1-dev_2.5.0-1_armhf.deb ... Unpacking libexpat1-dev:armhf (2.5.0-1) ... Selecting previously unselected package libgfortran5:armhf. Preparing to unpack .../055-libgfortran5_12.2.0-14_armhf.deb ... Unpacking libgfortran5:armhf (12.2.0-14) ... Selecting previously unselected package libsz2:armhf. Preparing to unpack .../056-libsz2_1.0.6-1+b1_armhf.deb ... Unpacking libsz2:armhf (1.0.6-1+b1) ... Selecting previously unselected package libhdf5-103-1:armhf. Preparing to unpack .../057-libhdf5-103-1_1.10.8+repack1-1_armhf.deb ... Unpacking libhdf5-103-1:armhf (1.10.8+repack1-1) ... Selecting previously unselected package libhdf5-hl-100:armhf. Preparing to unpack .../058-libhdf5-hl-100_1.10.8+repack1-1_armhf.deb ... Unpacking libhdf5-hl-100:armhf (1.10.8+repack1-1) ... Selecting previously unselected package libjs-jquery. Preparing to unpack .../059-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Selecting previously unselected package libjs-mathjax. Preparing to unpack .../060-libjs-mathjax_2.7.9+dfsg-1_all.deb ... Unpacking libjs-mathjax (2.7.9+dfsg-1) ... Selecting previously unselected package libjs-underscore. Preparing to unpack .../061-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Selecting previously unselected package libjs-sphinxdoc. Preparing to unpack .../062-libjs-sphinxdoc_5.3.0-4_all.deb ... Unpacking libjs-sphinxdoc (5.3.0-4) ... Selecting previously unselected package libjson-perl. Preparing to unpack .../063-libjson-perl_4.10000-1_all.deb ... Unpacking libjson-perl (4.10000-1) ... Selecting previously unselected package liblapack3:armhf. Preparing to unpack .../064-liblapack3_3.11.0-2_armhf.deb ... Unpacking liblapack3:armhf (3.11.0-2) ... Selecting previously unselected package liblbfgsb0:armhf. Preparing to unpack .../065-liblbfgsb0_3.0+dfsg.4-1_armhf.deb ... Unpacking liblbfgsb0:armhf (3.0+dfsg.4-1) ... Selecting previously unselected package liblzf1:armhf. Preparing to unpack .../066-liblzf1_3.6-3_armhf.deb ... Unpacking liblzf1:armhf (3.6-3) ... Selecting previously unselected package libpython3.11:armhf. Preparing to unpack .../067-libpython3.11_3.11.2-6_armhf.deb ... Unpacking libpython3.11:armhf (3.11.2-6) ... Selecting previously unselected package zlib1g-dev:armhf. Preparing to unpack .../068-zlib1g-dev_1%3a1.2.13.dfsg-1_armhf.deb ... Unpacking zlib1g-dev:armhf (1:1.2.13.dfsg-1) ... Selecting previously unselected package libpython3.11-dev:armhf. Preparing to unpack .../069-libpython3.11-dev_3.11.2-6_armhf.deb ... Unpacking libpython3.11-dev:armhf (3.11.2-6) ... Selecting previously unselected package libpython3-dev:armhf. Preparing to unpack .../070-libpython3-dev_3.11.2-1+b1_armhf.deb ... Unpacking libpython3-dev:armhf (3.11.2-1+b1) ... Selecting previously unselected package libpython3-all-dev:armhf. Preparing to unpack .../071-libpython3-all-dev_3.11.2-1+b1_armhf.deb ... Unpacking libpython3-all-dev:armhf (3.11.2-1+b1) ... Selecting previously unselected package python-babel-localedata. Preparing to unpack .../072-python-babel-localedata_2.10.3-1_all.deb ... Unpacking python-babel-localedata (2.10.3-1) ... Selecting previously unselected package python-requests-doc. Preparing to unpack .../073-python-requests-doc_2.28.1+dfsg-1_all.deb ... Unpacking python-requests-doc (2.28.1+dfsg-1) ... Selecting previously unselected package python3-alabaster. Preparing to unpack .../074-python3-alabaster_0.7.12-1_all.deb ... Unpacking python3-alabaster (0.7.12-1) ... Selecting previously unselected package python3-all. Preparing to unpack .../075-python3-all_3.11.2-1+b1_armhf.deb ... Unpacking python3-all (3.11.2-1+b1) ... Selecting previously unselected package python3.11-dev. Preparing to unpack .../076-python3.11-dev_3.11.2-6_armhf.deb ... Unpacking python3.11-dev (3.11.2-6) ... Selecting previously unselected package python3-dev. Preparing to unpack .../077-python3-dev_3.11.2-1+b1_armhf.deb ... Unpacking python3-dev (3.11.2-1+b1) ... Selecting previously unselected package python3-all-dev. Preparing to unpack .../078-python3-all-dev_3.11.2-1+b1_armhf.deb ... Unpacking python3-all-dev (3.11.2-1+b1) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../079-python3-pkg-resources_66.1.1-1_all.deb ... Unpacking python3-pkg-resources (66.1.1-1) ... Selecting previously unselected package python3-tz. Preparing to unpack .../080-python3-tz_2022.7.1-4_all.deb ... Unpacking python3-tz (2022.7.1-4) ... Selecting previously unselected package python3-babel. Preparing to unpack .../081-python3-babel_2.10.3-1_all.deb ... Unpacking python3-babel (2.10.3-1) ... Selecting previously unselected package python3-certifi. Preparing to unpack .../082-python3-certifi_2022.9.24-1_all.deb ... Unpacking python3-certifi (2022.9.24-1) ... Selecting previously unselected package python3-chardet. Preparing to unpack .../083-python3-chardet_5.1.0+dfsg-2_all.deb ... Unpacking python3-chardet (5.1.0+dfsg-2) ... Selecting previously unselected package python3-charset-normalizer. Preparing to unpack .../084-python3-charset-normalizer_3.0.1-2_all.deb ... Unpacking python3-charset-normalizer (3.0.1-2) ... Selecting previously unselected package python3-decorator. Preparing to unpack .../085-python3-decorator_5.1.1-3_all.deb ... Unpacking python3-decorator (5.1.1-3) ... Selecting previously unselected package python3.11-doc. Preparing to unpack .../086-python3.11-doc_3.11.2-6_all.deb ... Unpacking python3.11-doc (3.11.2-6) ... Selecting previously unselected package python3-doc. Preparing to unpack .../087-python3-doc_3.11.2-1_all.deb ... Unpacking python3-doc (3.11.2-1) ... Selecting previously unselected package python3-roman. Preparing to unpack .../088-python3-roman_3.3-3_all.deb ... Unpacking python3-roman (3.3-3) ... Selecting previously unselected package python3-docutils. Preparing to unpack .../089-python3-docutils_0.19+dfsg-6_all.deb ... Unpacking python3-docutils (0.19+dfsg-6) ... Selecting previously unselected package python3-numpy. Preparing to unpack .../090-python3-numpy_1%3a1.24.2-1_armhf.deb ... Unpacking python3-numpy (1:1.24.2-1) ... Selecting previously unselected package python3-h5py-serial. Preparing to unpack .../091-python3-h5py-serial_3.7.0-8_armhf.deb ... Unpacking python3-h5py-serial (3.7.0-8) ... Selecting previously unselected package python3-h5py. Preparing to unpack .../092-python3-h5py_3.7.0-8_all.deb ... Unpacking python3-h5py (3.7.0-8) ... Selecting previously unselected package python3-idna. Preparing to unpack .../093-python3-idna_3.3-1_all.deb ... Unpacking python3-idna (3.3-1) ... Selecting previously unselected package python3-imagesize. Preparing to unpack .../094-python3-imagesize_1.4.1-1_all.deb ... Unpacking python3-imagesize (1.4.1-1) ... Selecting previously unselected package python3-markupsafe. Preparing to unpack .../095-python3-markupsafe_2.1.2-1+b1_armhf.deb ... Unpacking python3-markupsafe (2.1.2-1+b1) ... Selecting previously unselected package python3-jinja2. Preparing to unpack .../096-python3-jinja2_3.1.2-1_all.deb ... Unpacking python3-jinja2 (3.1.2-1) ... Selecting previously unselected package python3-mappy. Preparing to unpack .../097-python3-mappy_2.24+dfsg-3+b1_armhf.deb ... Unpacking python3-mappy (2.24+dfsg-3+b1) ... Selecting previously unselected package python3-six. Preparing to unpack .../098-python3-six_1.16.0-4_all.deb ... Unpacking python3-six (1.16.0-4) ... Selecting previously unselected package python3-nose2. Preparing to unpack .../099-python3-nose2_0.12.0-1_all.deb ... Unpacking python3-nose2 (0.12.0-1) ... Selecting previously unselected package python3-packaging. Preparing to unpack .../100-python3-packaging_23.0-1_all.deb ... Unpacking python3-packaging (23.0-1) ... Selecting previously unselected package python3-pygments. Preparing to unpack .../101-python3-pygments_2.14.0+dfsg-1_all.deb ... Unpacking python3-pygments (2.14.0+dfsg-1) ... Selecting previously unselected package python3-urllib3. Preparing to unpack .../102-python3-urllib3_1.26.12-1_all.deb ... Unpacking python3-urllib3 (1.26.12-1) ... Selecting previously unselected package python3-requests. Preparing to unpack .../103-python3-requests_2.28.1+dfsg-1_all.deb ... Unpacking python3-requests (2.28.1+dfsg-1) ... Selecting previously unselected package python3-scipy. Preparing to unpack .../104-python3-scipy_1.10.1-2_armhf.deb ... Unpacking python3-scipy (1.10.1-2) ... Selecting previously unselected package python3-setuptools. Preparing to unpack .../105-python3-setuptools_66.1.1-1_all.deb ... Unpacking python3-setuptools (66.1.1-1) ... Selecting previously unselected package python3-snowballstemmer. Preparing to unpack .../106-python3-snowballstemmer_2.2.0-2_all.deb ... Unpacking python3-snowballstemmer (2.2.0-2) ... Selecting previously unselected package sphinx-common. Preparing to unpack .../107-sphinx-common_5.3.0-4_all.deb ... Unpacking sphinx-common (5.3.0-4) ... Selecting previously unselected package python3-sphinx. Preparing to unpack .../108-python3-sphinx_5.3.0-4_all.deb ... Unpacking python3-sphinx (5.3.0-4) ... Selecting previously unselected package sphinx-rtd-theme-common. Preparing to unpack .../109-sphinx-rtd-theme-common_1.2.0+dfsg-1_all.deb ... Unpacking sphinx-rtd-theme-common (1.2.0+dfsg-1) ... Selecting previously unselected package python3-sphinx-argparse. Preparing to unpack .../110-python3-sphinx-argparse_0.3.2-1_all.deb ... Unpacking python3-sphinx-argparse (0.3.2-1) ... Selecting previously unselected package python3-sphinx-rtd-theme. Preparing to unpack .../111-python3-sphinx-rtd-theme_1.2.0+dfsg-1_all.deb ... Unpacking python3-sphinx-rtd-theme (1.2.0+dfsg-1) ... Selecting previously unselected package python3-tqdm. Preparing to unpack .../112-python3-tqdm_4.64.1-1_all.deb ... Unpacking python3-tqdm (4.64.1-1) ... Selecting previously unselected package sphinx-doc. Preparing to unpack .../113-sphinx-doc_5.3.0-4_all.deb ... Unpacking sphinx-doc (5.3.0-4) ... Setting up media-types (10.0.0) ... Setting up libpipeline1:armhf (1.5.7-1) ... Setting up libpsl5:armhf (0.21.2-1) ... Setting up fonts-lato (2.0-2.1) ... Setting up fonts-mathjax (2.7.9+dfsg-1) ... Setting up libicu72:armhf (72.1-3) ... Setting up docutils-doc (0.19+dfsg-6) ... Setting up bsdextrautils (2.38.1-5+b1) ... Setting up libjs-mathjax (2.7.9+dfsg-1) ... Setting up libmagic-mgc (1:5.44-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.11.4) ... Setting up libbrotli1:armhf (1.0.9-2+b6) ... Setting up libnghttp2-14:armhf (1.52.0-1) ... Setting up libmagic1:armhf (1:5.44-3) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up file (1:5.44-3) ... Setting up libaec0:armhf (1.0.6-1+b1) ... Setting up python-babel-localedata (2.10.3-1) ... Setting up libsasl2-modules-db:armhf (2.1.28+dfsg-10) ... Setting up autotools-dev (20220109.1) ... Setting up libblas3:armhf (3.11.0-2) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode Setting up libexpat1-dev:armhf (2.5.0-1) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up liblzf1:armhf (3.6-3) ... Setting up autopoint (0.21-12) ... Setting up libsasl2-2:armhf (2.1.28+dfsg-10) ... Setting up libgfortran5:armhf (12.2.0-14) ... Setting up autoconf (2.71-3) ... Setting up zlib1g-dev:armhf (1:1.2.13.dfsg-1) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up libuchardet0:armhf (0.0.7-1) ... Setting up libjson-perl (4.10000-1) ... Setting up libsub-override-perl (0.09-4) ... Setting up libssh2-1:armhf (1.10.0-3+b1) ... Setting up sgml-base (1.31) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up openssl (3.0.9-1) ... Setting up libelf1:armhf (0.188-2.1) ... Setting up readline-common (8.2-1.3) ... Setting up libxml2:armhf (2.9.14+dfsg-1.2) ... Setting up fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... Setting up sphinx-rtd-theme-common (1.2.0+dfsg-1) ... Setting up libsz2:armhf (1.0.6-1+b1) ... 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 liblapack3:armhf (3.11.0-2) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode Setting up gettext (0.21-12) ... Setting up libtool (2.4.7-5) ... Setting up libreadline8:armhf (8.2-1.3) ... Setting up libldap-2.5-0:armhf (2.5.13+dfsg-5) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 140 added, 0 removed; done. Setting up python3.11-doc (3.11.2-6) ... Setting up libjs-sphinxdoc (5.3.0-4) ... Setting up python-requests-doc (2.28.1+dfsg-1) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.22.4-10) ... Setting up xml-core (0.18+nmu1) ... Setting up libcurl4:armhf (7.88.1-10) ... Setting up python3-doc (3.11.2-1) ... Setting up liblbfgsb0:armhf (3.0+dfsg.4-1) ... Setting up sphinx-doc (5.3.0-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:armhf (3.11.2-6) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up sphinx-common (5.3.0-4) ... Setting up libhdf5-103-1:armhf (1.10.8+repack1-1) ... Setting up libpython3-stdlib:armhf (3.11.2-1+b1) ... Setting up libhdf5-hl-100:armhf (1.10.8+repack1-1) ... Setting up python3.11 (3.11.2-6) ... Setting up libpython3.11:armhf (3.11.2-6) ... Setting up debhelper (13.11.4) ... Setting up python3 (3.11.2-1+b1) ... Setting up python3-markupsafe (2.1.2-1+b1) ... Setting up python3-tz (2022.7.1-4) ... Setting up python3-six (1.16.0-4) ... Setting up python3-roman (3.3-3) ... Setting up python3-decorator (5.1.1-3) ... Setting up python3-jinja2 (3.1.2-1) ... Setting up python3-packaging (23.0-1) ... Setting up python3-certifi (2022.9.24-1) ... Setting up python3-snowballstemmer (2.2.0-2) ... Setting up libpython3.11-dev:armhf (3.11.2-6) ... Setting up python3-idna (3.3-1) ... Setting up cython3 (0.29.32-2+b1) ... Setting up python3-urllib3 (1.26.12-1) ... Setting up python3-lib2to3 (3.11.2-3) ... Setting up python3-imagesize (1.4.1-1) ... Setting up python3-pkg-resources (66.1.1-1) ... Setting up python3-distutils (3.11.2-3) ... Setting up dh-python (5.20230130) ... Setting up libpython3-dev:armhf (3.11.2-1+b1) ... Setting up python3-setuptools (66.1.1-1) ... Setting up python3-babel (2.10.3-1) ... update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up python3.11-dev (3.11.2-6) ... Setting up python3-charset-normalizer (3.0.1-2) ... Setting up python3-alabaster (0.7.12-1) ... Setting up python3-tqdm (4.64.1-1) ... Setting up python3-all (3.11.2-1+b1) ... Setting up python3-mappy (2.24+dfsg-3+b1) ... Setting up python3-nose2 (0.12.0-1) ... Setting up python3-pygments (2.14.0+dfsg-1) ... Setting up python3-chardet (5.1.0+dfsg-2) ... Setting up libpython3-all-dev:armhf (3.11.2-1+b1) ... Setting up python3-dev (3.11.2-1+b1) ... Setting up python3-requests (2.28.1+dfsg-1) ... Setting up python3-numpy (1:1.24.2-1) ... Setting up python3-all-dev (3.11.2-1+b1) ... Setting up python3-scipy (1.10.1-2) ... Setting up python3-h5py-serial (3.7.0-8) ... Setting up python3-h5py (3.7.0-8) ... Processing triggers for libc-bin (2.36-9) ... Processing triggers for sgml-base (1.31) ... Setting up docutils-common (0.19+dfsg-6) ... Processing triggers for sgml-base (1.31) ... Setting up python3-docutils (0.19+dfsg-6) ... Setting up python3-sphinx (5.3.0-4) ... Setting up python3-sphinx-rtd-theme (1.2.0+dfsg-1) ... Setting up python3-sphinx-argparse (0.3.2-1) ... Processing triggers for ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... usrmerge is already the newest version (35). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: user script /srv/workspace/pbuilder/17412/tmp/hooks/A99_set_merged_usr starting Re-configuring usrmerge... removed '/etc/unsupported-skip-usrmerge-conversion' The system has been successfully converted. I: user script /srv/workspace/pbuilder/17412/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/tombo-1.5.1/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../tombo_1.5.1-4_source.changes dpkg-buildpackage: info: source package tombo dpkg-buildpackage: info: source version 1.5.1-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean --with python3,sphinxdoc --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:240: python3.11 setup.py clean running clean removing '/build/tombo-1.5.1/.pybuild/cpython3_3.11/build' (and everything under it) 'build/bdist.linux-armhf' does not exist -- can't clean it 'build/scripts-3.11' does not exist -- can't clean it dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --with python3,sphinxdoc --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 debian/rules override_dh_auto_build make[1]: Entering directory '/build/tombo-1.5.1' dh_auto_build I: pybuild base:240: /usr/bin/python3 setup.py build running build running build_py creating /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_option_parsers.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_default_parameters.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/__main__.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_version.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_plot_commands.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/tombo_helper.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/tombo_stats.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_filter_reads.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_text_output_commands.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/__init__.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_preprocess.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_event_resquiggle.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/resquiggle.py -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo running egg_info creating ont_tombo.egg-info writing ont_tombo.egg-info/PKG-INFO writing dependency_links to ont_tombo.egg-info/dependency_links.txt writing entry points to ont_tombo.egg-info/entry_points.txt writing requirements to ont_tombo.egg-info/requires.txt writing top-level names to ont_tombo.egg-info/top_level.txt writing manifest file 'ont_tombo.egg-info/SOURCES.txt' reading manifest file 'ont_tombo.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '*' under directory 'cython' adding license file 'LICENSE.md' writing manifest file 'ont_tombo.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'tombo.R_scripts' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'tombo.R_scripts' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'tombo.R_scripts' has been automatically added to the distribution only because it may contain data files, but this behavior is likely to change in future versions of setuptools (and therefore is considered deprecated). Please make sure that 'tombo.R_scripts' is included as a package by using the `packages` configuration field or the proper discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" and "data files" on setuptools documentation page. !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'tombo.tombo_models' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'tombo.tombo_models' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'tombo.tombo_models' has been automatically added to the distribution only because it may contain data files, but this behavior is likely to change in future versions of setuptools (and therefore is considered deprecated). Please make sure that 'tombo.tombo_models' is included as a package by using the `packages` configuration field or the proper discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" and "data files" on setuptools documentation page. !! check.warn(importable) copying tombo/_c_dynamic_programming.pyx -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_c_helper.pyx -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo creating /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/debugDP.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/debugFit.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/debugRawDP.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotGroupComp.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotKmerDist.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotModelComp.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotMotifStats.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotMultiReadCorr.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotPerReadStats.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotROC.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotROCPerRead.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotReadCorr.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotSigMDS.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotSingleRead.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotSingleRun.R -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts creating /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.5mC.model -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.6mA.model -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.CpG.model -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.dam.model -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.dcm.model -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.model -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.RNA.180mV.model -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.RNA.200mV.model -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.RNA.5mC.model -> /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models running build_ext cythoning tombo/_c_dynamic_programming.pyx to tombo/_c_dynamic_programming.cpp /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /build/tombo-1.5.1/tombo/_c_dynamic_programming.pyx tree = Parsing.p_module(s, pxd, full_module_name) cythoning tombo/_c_helper.pyx to tombo/_c_helper.cpp /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /build/tombo-1.5.1/tombo/_c_helper.pyx tree = Parsing.p_module(s, pxd, full_module_name) building 'tombo._c_dynamic_programming' extension creating build creating build/temp.linux-armhf-cpython-311 creating build/temp.linux-armhf-cpython-311/tombo arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/tombo-1.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c tombo/_c_dynamic_programming.cpp -o build/temp.linux-armhf-cpython-311/tombo/_c_dynamic_programming.o In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1940, from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:5, from tombo/_c_dynamic_programming.cpp:760: /usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ tombo/_c_dynamic_programming.cpp: In function 'PyObject* __pyx_pf_5tombo_22_c_dynamic_programming_2c_reg_z_scores(PyObject*, PyArrayObject*, PyArrayObject*, PyArrayObject*, PyArrayObject*, __pyx_t_5tombo_22_c_dynamic_programming_DTYPE_INT_t, __pyx_t_5tombo_22_c_dynamic_programming_DTYPE_INT_t, __pyx_t_5tombo_22_c_dynamic_programming_DTYPE_INT_t, __pyx_t_5tombo_22_c_dynamic_programming_DTYPE_INT_t, PyObject*)': tombo/_c_dynamic_programming.cpp:3782:36: warning: '__pyx_v_np_max_half_z_score' may be used uninitialized [-Wmaybe-uninitialized] 3782 | __pyx_t_20 = PyFloat_FromDouble(__pyx_v_np_max_half_z_score); if (unlikely(!__pyx_t_20)) __PYX_ERR(0, 93, __pyx_L1_error) | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tombo/_c_dynamic_programming.cpp:2991:51: note: '__pyx_v_np_max_half_z_score' was declared here 2991 | __pyx_t_5tombo_22_c_dynamic_programming_DTYPE_t __pyx_v_np_max_half_z_score; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/tombo-1.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-cpython-311/tombo/_c_dynamic_programming.o -L/usr/lib/arm-linux-gnueabihf -o /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_c_dynamic_programming.cpython-311-arm-linux-gnueabihf.so building 'tombo._c_helper' extension arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/tombo-1.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c tombo/_c_helper.cpp -o build/temp.linux-armhf-cpython-311/tombo/_c_helper.o In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1940, from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:5, from tombo/_c_helper.cpp:760: /usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/tombo-1.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-cpython-311/tombo/_c_helper.o -L/usr/lib/arm-linux-gnueabihf -o /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_c_helper.cpython-311-arm-linux-gnueabihf.so sphinx-build -N -bhtml docs docs/build Running Sphinx v5.3.0 Creating file ./tombo.rst. making output directory... done building [mo]: targets for 0 po files that are out of date building [html]: targets for 11 source files that are out of date updating environment: [new config] 11 added, 0 changed, 0 removed reading sources... [ 9%] examples reading sources... [ 18%] filtering reading sources... [ 27%] index reading sources... [ 36%] model_training reading sources... [ 45%] modified_base_detection reading sources... [ 54%] plotting reading sources... [ 63%] resquiggle reading sources... [ 72%] rna reading sources... [ 81%] text_output reading sources... [ 90%] tombo reading sources... [100%] tutorials WARNING: autodoc: failed to import module 'tombo'; the following exception was raised: No module named 'tombo' WARNING: autodoc: failed to import module 'resquiggle' from module 'tombo'; the following exception was raised: No module named 'tombo' WARNING: autodoc: failed to import module 'tombo_helper' from module 'tombo'; the following exception was raised: No module named 'tombo' WARNING: autodoc: failed to import module 'tombo_stats' from module 'tombo'; the following exception was raised: No module named 'tombo' looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done writing output... [ 9%] examples writing output... [ 18%] filtering writing output... [ 27%] index writing output... [ 36%] model_training writing output... [ 45%] modified_base_detection writing output... [ 54%] plotting writing output... [ 63%] resquiggle writing output... [ 72%] rna writing output... [ 81%] text_output writing output... [ 90%] tombo writing output... [100%] tutorials generating indices... genindex done writing additional pages... search done copying images... [ 4%] _images/testing_method_comparison.png copying images... [ 8%] _images/alt_density_est.png copying images... [ 13%] _images/old_correction_plot.png copying images... [ 17%] _images/outlier_robust_llr.gif copying images... [ 21%] _images/dampened_fraction.png copying images... [ 26%] _images/single_samp.png copying images... [ 30%] _images/sample_comp.png copying images... [ 34%] _images/model_comp.png copying images... [ 39%] _images/alt_model_comp.png copying images... [ 43%] _images/boxplot.png copying images... [ 47%] _images/quantile.png copying images... [ 52%] _images/density.png copying images... [ 56%] _images/pre_read_5mC.png copying images... [ 60%] _images/per_read_do_novo.png copying images... [ 65%] _images/stat_dist.png copying images... [ 69%] _images/kmer_levels.png copying images... [ 73%] _images/roc.png copying images... [ 78%] _images/per_read_stat_dist.png copying images... [ 82%] _images/begin_half_z_scores.png copying images... [ 86%] _images/begin_forward_pass.png copying images... [ 91%] _images/adaptive_half_z_scores.png copying images... [ 95%] _images/adaptive_forward_pass.png copying images... [100%] _images/stat_dist_null.png copying static files... done copying extra files... done dumping search index in English (code: en)... done dumping object inventory... done build succeeded, 4 warnings. The HTML pages are in docs/build. make[1]: Leaving directory '/build/tombo-1.5.1' dh_auto_test -O--buildsystem=pybuild I: pybuild base:240: cd /build/tombo-1.5.1/.pybuild/cpython3_3.11/build; python3.11 -m nose2 -v ---------------------------------------------------------------------- Ran 0 tests in 0.000s OK create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild base:240: /usr/bin/python3 setup.py install --root /build/tombo-1.5.1/debian/tmp 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 egg_info writing ont_tombo.egg-info/PKG-INFO writing dependency_links to ont_tombo.egg-info/dependency_links.txt writing entry points to ont_tombo.egg-info/entry_points.txt writing requirements to ont_tombo.egg-info/requires.txt writing top-level names to ont_tombo.egg-info/top_level.txt reading manifest file 'ont_tombo.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '*' under directory 'cython' adding license file 'LICENSE.md' writing manifest file 'ont_tombo.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'tombo.R_scripts' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'tombo.R_scripts' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'tombo.R_scripts' has been automatically added to the distribution only because it may contain data files, but this behavior is likely to change in future versions of setuptools (and therefore is considered deprecated). Please make sure that 'tombo.R_scripts' is included as a package by using the `packages` configuration field or the proper discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" and "data files" on setuptools documentation page. !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'tombo.tombo_models' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'tombo.tombo_models' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'tombo.tombo_models' has been automatically added to the distribution only because it may contain data files, but this behavior is likely to change in future versions of setuptools (and therefore is considered deprecated). Please make sure that 'tombo.tombo_models' is included as a package by using the `packages` configuration field or the proper discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" and "data files" on setuptools documentation page. !! check.warn(importable) running build_ext skipping 'tombo/_c_dynamic_programming.cpp' Cython extension (up-to-date) skipping 'tombo/_c_helper.cpp' Cython extension (up-to-date) running install_lib creating /build/tombo-1.5.1/debian/tmp/usr creating /build/tombo-1.5.1/debian/tmp/usr/lib creating /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11 creating /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages creating /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo creating /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.model -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.dcm.model -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.CpG.model -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.6mA.model -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.5mC.model -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.RNA.5mC.model -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.dam.model -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.RNA.180mV.model -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.RNA.200mV.model -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_c_dynamic_programming.cpython-311-arm-linux-gnueabihf.so -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_option_parsers.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_default_parameters.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/__main__.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_version.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_plot_commands.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_c_helper.cpython-311-arm-linux-gnueabihf.so -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_helper.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_stats.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_filter_reads.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_text_output_commands.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/__init__.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_preprocess.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_event_resquiggle.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_c_helper.pyx -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/resquiggle.py -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo creating /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotReadCorr.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotSingleRun.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotModelComp.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotROCPerRead.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotGroupComp.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotSigMDS.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotMotifStats.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotROC.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/debugDP.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/debugFit.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotSingleRead.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotMultiReadCorr.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotKmerDist.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotPerReadStats.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/debugRawDP.R -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_c_dynamic_programming.pyx -> /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_option_parsers.py to _option_parsers.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_default_parameters.py to _default_parameters.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/__main__.py to __main__.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_version.py to _version.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_plot_commands.py to _plot_commands.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_helper.py to tombo_helper.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_stats.py to tombo_stats.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_filter_reads.py to _filter_reads.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_text_output_commands.py to _text_output_commands.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/__init__.py to __init__.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_preprocess.py to _preprocess.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_event_resquiggle.py to _event_resquiggle.cpython-311.pyc byte-compiling /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/resquiggle.py to resquiggle.cpython-311.pyc running install_egg_info Copying ont_tombo.egg-info to /build/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/ont_tombo-1.5.1.egg-info Skipping SOURCES.txt running install_scripts Installing tombo script to /build/tombo-1.5.1/debian/tmp/usr/bin dh_install -O--buildsystem=pybuild dh_installdocs -O--buildsystem=pybuild dh_sphinxdoc -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild I: dh_python3 tools:114: replacing shebang in debian/tombo/usr/share/tombo/scripts/dump_per_read_statistics.py 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 debian/rules override_dh_fixperms make[1]: Entering directory '/build/tombo-1.5.1' dh_fixperms find debian -name "*.model" -exec chmod -x \{\} \; make[1]: Leaving directory '/build/tombo-1.5.1' dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dpkg-gencontrol: warning: package tombo-doc: substitution variable ${sphinxdoc:Built-Using} unused, but is defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'tombo-dbgsym' in '../tombo-dbgsym_1.5.1-4_armhf.deb'. dpkg-deb: building package 'tombo' in '../tombo_1.5.1-4_armhf.deb'. dpkg-deb: building package 'tombo-doc' in '../tombo-doc_1.5.1-4_all.deb'. dpkg-genbuildinfo --build=binary -O../tombo_1.5.1-4_armhf.buildinfo dpkg-genchanges --build=binary -O../tombo_1.5.1-4_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/17412/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/17412/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/17412 and its subdirectories I: Current time: Mon Jun 5 19:46:36 +14 2023 I: pbuilder-time-stamp: 1685943996