Sun May 5 05:38:14 UTC 2024 I: starting to build tombo/unstable/armhf on jenkins on '2024-05-05 05:38' Sun May 5 05:38:14 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_20/2985/console.log Sun May 5 05:38:14 UTC 2024 I: Downloading source for unstable/tombo=1.5.1-6 --2024-05-05 05:38:14-- http://deb.debian.org/debian/pool/main/t/tombo/tombo_1.5.1-6.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2292 (2.2K) [text/prs.lines.tag] Saving to: ‘tombo_1.5.1-6.dsc’ 0K .. 100% 347M=0s 2024-05-05 05:38:14 (347 MB/s) - ‘tombo_1.5.1-6.dsc’ saved [2292/2292] Sun May 5 05:38:14 UTC 2024 I: tombo_1.5.1-6.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: tombo Binary: tombo, tombo-doc Architecture: any all Version: 1.5.1-6 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/nanoporetech/tombo Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/tombo Vcs-Git: https://salsa.debian.org/med-team/tombo.git Testsuite: autopkgtest Build-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 Package-List: tombo deb science optional arch=any tombo-doc deb doc optional arch=all Checksums-Sha1: 94f33539552d8c2f7e6c06987fd264400fc17f84 22294835 tombo_1.5.1.orig.tar.gz 698e4cfe6b42253c1bb5e7fa5e8a36c6cd6e07f6 7024 tombo_1.5.1-6.debian.tar.xz Checksums-Sha256: f5f7ce37baee40b851ea867c2b835e6eae324ef90bdeb23fb931fde3272769a0 22294835 tombo_1.5.1.orig.tar.gz d3fb4aa21c5f0076c85497035a5ddca3d9226c7586b00265b53d491d45cdd2c7 7024 tombo_1.5.1-6.debian.tar.xz Files: 3709e4f4d6f4c58ec2d6ae216059929c 22294835 tombo_1.5.1.orig.tar.gz 2a6ce15a7eb1ba753b79b4644dbd8ac2 7024 tombo_1.5.1-6.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmV/SsIRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtF7Dw/7B/FranIpCYEXfTgZbtqWl8ZQxcImQelh xtZj0bZwT/NQZEed4+mKaaq77ohRcAFw/q0SAOtHj6JX+hNfwj6eoj6UIc1DIGHD Adr19kdNSM78Qr4ESgue8qCS1rQO1PRa+2OcCZN1i32KY3jJJt+9HfZGoTMcbyIB +KMg+UgaZ4mIm/ap540wiyD/Kps9kzA39ykdbTCmrwDEhyQu88fd+9bW9kOTKVIu G9PWnABJX8kDGeOaYXvnFW8bDhJov/VIIlTSOeVfX29ACpYFZ/8Tblexz7Hv/mmp boVAyRxR7AoDUxFeKBMHeF0IaNfz75pOyGjK0Wq8uyZ2SUu6/88zDETEekmn6Bhp nBLiKeZSG0RjjhiEQbFnqXDOz6t5WDV4gD4VKnVG/g8yS19Rd8cfhN544j9l/W0X HRWfe6dyj8s/HU3ecjgxVgNq1c+mIk5Bnaucs2iIUPgNKQT6didShNS71EuMuUXs vFKViRB/oF1voOsJIbJLRrRzSjozAXMulA26dN1gCr0Xjz9I4O0uZ4GafmA620Fj r2M0+Uou4yYcFpAwG1+0mDQiKH2UI/3wKcAWt9PKagDl1QZGSn0qr4O6qYs8RDHf WYacuV4Rj8EHSMQYvAZ+20P0XlltunEUPjVA4KORF8r53zLLfOaU6mNVHsAmwvHy Y6b2L3a3jCE= =Byih -----END PGP SIGNATURE----- Sun May 5 05:38:14 UTC 2024 I: Checking whether the package is not for us Sun May 5 05:38:14 UTC 2024 I: Starting 1st build on remote node virt64c-armhf-rb.debian.net. Sun May 5 05:38:14 UTC 2024 I: Preparing to do remote build '1' on virt64c-armhf-rb.debian.net. Sun May 5 05:59:46 UTC 2024 I: Deleting $TMPDIR on virt64c-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat May 4 17:39:01 -12 2024 I: pbuilder-time-stamp: 1714887541 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [tombo_1.5.1-6.dsc] I: copying [./tombo_1.5.1.orig.tar.gz] I: copying [./tombo_1.5.1-6.debian.tar.xz] I: Extracting source gpgv: Signature made Sun Dec 17 19:23:46 2023 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_1.5.1-6.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_1.5.1-6.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 dpkg-source: info: applying cython3-fix.patch dpkg-source: info: applying no_install_depends_cython.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/5079/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='6e8e15fdf8e94b66884397f9edcdb148' 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='5079' 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.Hq2bXAJf/pbuilderrc_tf6g --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Hq2bXAJf/b1 --logfile b1/build.log tombo_1.5.1-6.dsc' SUDO_GID='113' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:3142/' I: uname -a Linux virt64c 6.1.0-20-arm64 #1 SMP Debian 6.1.85-1 (2024-04-11) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 1 07:43 /bin -> usr/bin I: user script /srv/workspace/pbuilder/5079/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 ... 19445 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} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgssapi-krb5-2{a} libhdf5-103-1t64{a} libhdf5-hl-100t64{a} libicu72{a} libjs-jquery{a} libjs-mathjax{a} libjs-sphinxdoc{a} libjs-underscore{a} libjson-perl{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} liblbfgsb0{a} liblzf1{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libpipeline1{a} libpsl5t64{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.11-dev{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libpython3.11t64{a} libpython3.12-dev{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.12t64{a} libreadline8t64{a} librtmp1{a} libssh2-1t64{a} libsub-override-perl{a} libsz2{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} media-types{a} netbase{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-sphinxcontrib.jquery{a} python3-tqdm{a} python3-urllib3{a} python3.11{a} python3.11-dev{a} python3.11-doc{a} python3.11-minimal{a} python3.12{a} python3.12-dev{a} python3.12-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{a} sphinx-doc{a} sphinx-rtd-theme-common{a} tzdata{a} xml-core{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl javascript-common krb5-locales libarchive-cpio-perl libjson-xs-perl libltdl-dev libmail-sendmail-perl libpaper-utils lynx publicsuffix python3-coverage python3-pil wget 0 packages upgraded, 137 newly installed, 0 to remove and 0 not upgraded. Need to get 113 MB of archives. After unpacking 491 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main armhf fonts-lato all 2.015-1 [2780 kB] Get: 2 http://deb.debian.org/debian unstable/main armhf libpython3.11-minimal armhf 3.11.9-1 [805 kB] Get: 3 http://deb.debian.org/debian unstable/main armhf libexpat1 armhf 2.6.2-1 [83.5 kB] Get: 4 http://deb.debian.org/debian unstable/main armhf python3.11-minimal armhf 3.11.9-1 [1600 kB] Get: 5 http://deb.debian.org/debian unstable/main armhf python3-minimal armhf 3.11.8-1 [26.3 kB] Get: 6 http://deb.debian.org/debian unstable/main armhf media-types all 10.1.0 [26.9 kB] Get: 7 http://deb.debian.org/debian unstable/main armhf netbase all 6.4 [12.8 kB] Get: 8 http://deb.debian.org/debian unstable/main armhf tzdata all 2024a-4 [255 kB] Get: 9 http://deb.debian.org/debian unstable/main armhf readline-common all 8.2-4 [69.3 kB] Get: 10 http://deb.debian.org/debian unstable/main armhf libreadline8t64 armhf 8.2-4 [145 kB] Get: 11 http://deb.debian.org/debian unstable/main armhf libpython3.11-stdlib armhf 3.11.9-1 [1704 kB] Get: 12 http://deb.debian.org/debian unstable/main armhf python3.11 armhf 3.11.9-1 [602 kB] Get: 13 http://deb.debian.org/debian unstable/main armhf libpython3-stdlib armhf 3.11.8-1 [9332 B] Get: 14 http://deb.debian.org/debian unstable/main armhf python3 armhf 3.11.8-1 [27.4 kB] Get: 15 http://deb.debian.org/debian unstable/main armhf libpython3.12-minimal armhf 3.12.3-1 [795 kB] Get: 16 http://deb.debian.org/debian unstable/main armhf python3.12-minimal armhf 3.12.3-1 [1783 kB] Get: 17 http://deb.debian.org/debian unstable/main armhf sgml-base all 1.31 [15.4 kB] Get: 18 http://deb.debian.org/debian unstable/main armhf sensible-utils all 0.0.22 [22.4 kB] Get: 19 http://deb.debian.org/debian unstable/main armhf openssl armhf 3.2.1-3 [1326 kB] Get: 20 http://deb.debian.org/debian unstable/main armhf ca-certificates all 20240203 [158 kB] Get: 21 http://deb.debian.org/debian unstable/main armhf libmagic-mgc armhf 1:5.45-3 [314 kB] Get: 22 http://deb.debian.org/debian unstable/main armhf libmagic1t64 armhf 1:5.45-3 [98.1 kB] Get: 23 http://deb.debian.org/debian unstable/main armhf file armhf 1:5.45-3 [42.0 kB] Get: 24 http://deb.debian.org/debian unstable/main armhf gettext-base armhf 0.21-14+b1 [157 kB] Get: 25 http://deb.debian.org/debian unstable/main armhf libuchardet0 armhf 0.0.8-1+b1 [65.7 kB] Get: 26 http://deb.debian.org/debian unstable/main armhf groff-base armhf 1.23.0-4 [1090 kB] Get: 27 http://deb.debian.org/debian unstable/main armhf bsdextrautils armhf 2.40-8 [85.6 kB] Get: 28 http://deb.debian.org/debian unstable/main armhf libpipeline1 armhf 1.5.7-2 [33.3 kB] Get: 29 http://deb.debian.org/debian unstable/main armhf man-db armhf 2.12.1-1 [1375 kB] Get: 30 http://deb.debian.org/debian unstable/main armhf m4 armhf 1.4.19-4 [264 kB] Get: 31 http://deb.debian.org/debian unstable/main armhf autoconf all 2.71-3 [332 kB] Get: 32 http://deb.debian.org/debian unstable/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 33 http://deb.debian.org/debian unstable/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 34 http://deb.debian.org/debian unstable/main armhf autopoint all 0.21-14 [496 kB] Get: 35 http://deb.debian.org/debian unstable/main armhf cython3 armhf 3.0.10+dfsg-5 [3208 kB] Get: 36 http://deb.debian.org/debian unstable/main armhf libdebhelper-perl all 13.15.3 [88.0 kB] Get: 37 http://deb.debian.org/debian unstable/main armhf libtool all 2.4.7-7 [517 kB] Get: 38 http://deb.debian.org/debian unstable/main armhf dh-autoreconf all 20 [17.1 kB] Get: 39 http://deb.debian.org/debian unstable/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 40 http://deb.debian.org/debian unstable/main armhf libsub-override-perl all 0.10-1 [10.6 kB] Get: 41 http://deb.debian.org/debian unstable/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 42 http://deb.debian.org/debian unstable/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 43 http://deb.debian.org/debian unstable/main armhf libelf1t64 armhf 0.191-1+b1 [183 kB] Get: 44 http://deb.debian.org/debian unstable/main armhf dwz armhf 0.15-1+b2 [106 kB] Get: 45 http://deb.debian.org/debian unstable/main armhf libicu72 armhf 72.1-4+b1 [9070 kB] Get: 46 http://deb.debian.org/debian unstable/main armhf libxml2 armhf 2.9.14+dfsg-1.3+b3 [598 kB] Get: 47 http://deb.debian.org/debian unstable/main armhf gettext armhf 0.21-14+b1 [1230 kB] Get: 48 http://deb.debian.org/debian unstable/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 49 http://deb.debian.org/debian unstable/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 50 http://deb.debian.org/debian unstable/main armhf debhelper all 13.15.3 [901 kB] Get: 51 http://deb.debian.org/debian unstable/main armhf python3-pkg-resources all 68.1.2-2 [241 kB] Get: 52 http://deb.debian.org/debian unstable/main armhf python3-lib2to3 all 3.12.3-1 [77.6 kB] Get: 53 http://deb.debian.org/debian unstable/main armhf python3-distutils all 3.12.3-1 [131 kB] Get: 54 http://deb.debian.org/debian unstable/main armhf python3-setuptools all 68.1.2-2 [468 kB] Get: 55 http://deb.debian.org/debian unstable/main armhf dh-python all 6.20240422 [107 kB] Get: 56 http://deb.debian.org/debian unstable/main armhf xml-core all 0.19 [20.1 kB] Get: 57 http://deb.debian.org/debian unstable/main armhf docutils-common all 0.20.1+dfsg-3 [128 kB] Get: 58 http://deb.debian.org/debian unstable/main armhf docutils-doc all 0.20.1+dfsg-3 [1114 kB] Get: 59 http://deb.debian.org/debian unstable/main armhf fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [517 kB] Get: 60 http://deb.debian.org/debian unstable/main armhf fonts-mathjax all 2.7.9+dfsg-1 [2210 kB] Get: 61 http://deb.debian.org/debian unstable/main armhf libaec0 armhf 1.1.3-1 [21.5 kB] Get: 62 http://deb.debian.org/debian unstable/main armhf libblas3 armhf 3.12.0-3 [108 kB] Get: 63 http://deb.debian.org/debian unstable/main armhf libbrotli1 armhf 1.1.0-2+b3 [284 kB] Get: 64 http://deb.debian.org/debian unstable/main armhf libcom-err2 armhf 1.47.1~rc2-1 [21.8 kB] Get: 65 http://deb.debian.org/debian unstable/main armhf libkrb5support0 armhf 1.20.1-6+b1 [30.6 kB] Get: 66 http://deb.debian.org/debian unstable/main armhf libk5crypto3 armhf 1.20.1-6+b1 [75.5 kB] Get: 67 http://deb.debian.org/debian unstable/main armhf libkeyutils1 armhf 1.6.3-3 [7908 B] Get: 68 http://deb.debian.org/debian unstable/main armhf libkrb5-3 armhf 1.20.1-6+b1 [290 kB] Get: 69 http://deb.debian.org/debian unstable/main armhf libgssapi-krb5-2 armhf 1.20.1-6+b1 [112 kB] Get: 70 http://deb.debian.org/debian unstable/main armhf libnghttp2-14 armhf 1.61.0-1+b1 [64.1 kB] Get: 71 http://deb.debian.org/debian unstable/main armhf libpsl5t64 armhf 0.21.2-1.1 [55.6 kB] Get: 72 http://deb.debian.org/debian unstable/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b4 [53.2 kB] Get: 73 http://deb.debian.org/debian unstable/main armhf libssh2-1t64 armhf 1.11.0-4.1+b2 [198 kB] Get: 74 http://deb.debian.org/debian unstable/main armhf libcurl4t64 armhf 8.7.1-5 [391 kB] Get: 75 http://deb.debian.org/debian unstable/main armhf libexpat1-dev armhf 2.6.2-1 [140 kB] Get: 76 http://deb.debian.org/debian unstable/main armhf libgfortran5 armhf 14-20240429-1 [263 kB] Get: 77 http://deb.debian.org/debian unstable/main armhf libsz2 armhf 1.1.3-1 [7724 B] Get: 78 http://deb.debian.org/debian unstable/main armhf libhdf5-103-1t64 armhf 1.10.10+repack-3.3 [1190 kB] Get: 79 http://deb.debian.org/debian unstable/main armhf libhdf5-hl-100t64 armhf 1.10.10+repack-3.3 [61.2 kB] Get: 80 http://deb.debian.org/debian unstable/main armhf libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 81 http://deb.debian.org/debian unstable/main armhf libjs-mathjax all 2.7.9+dfsg-1 [5667 kB] Get: 82 http://deb.debian.org/debian unstable/main armhf libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 83 http://deb.debian.org/debian unstable/main armhf libjs-sphinxdoc all 7.2.6-6 [150 kB] Get: 84 http://deb.debian.org/debian unstable/main armhf libjson-perl all 4.10000-1 [87.5 kB] Get: 85 http://deb.debian.org/debian unstable/main armhf liblapack3 armhf 3.12.0-3 [1803 kB] Get: 86 http://deb.debian.org/debian unstable/main armhf liblbfgsb0 armhf 3.0+dfsg.4-1+b1 [25.5 kB] Get: 87 http://deb.debian.org/debian unstable/main armhf liblzf1 armhf 3.6-4+b1 [9476 B] Get: 88 http://deb.debian.org/debian unstable/main armhf libpython3.11t64 armhf 3.11.9-1 [1674 kB] Get: 89 http://deb.debian.org/debian unstable/main armhf zlib1g-dev armhf 1:1.3.dfsg-3.1 [904 kB] Get: 90 http://deb.debian.org/debian unstable/main armhf libpython3.11-dev armhf 3.11.9-1 [3108 kB] Get: 91 http://deb.debian.org/debian unstable/main armhf libpython3-dev armhf 3.11.8-1 [9560 B] Get: 92 http://deb.debian.org/debian unstable/main armhf libpython3.12-stdlib armhf 3.12.3-1 [1808 kB] Get: 93 http://deb.debian.org/debian unstable/main armhf libpython3.12t64 armhf 3.12.3-1 [1820 kB] Get: 94 http://deb.debian.org/debian unstable/main armhf libpython3.12-dev armhf 3.12.3-1 [3754 kB] Get: 95 http://deb.debian.org/debian unstable/main armhf libpython3-all-dev armhf 3.11.8-1 [1072 B] Get: 96 http://deb.debian.org/debian unstable/main armhf python-babel-localedata all 2.14.0-1 [5701 kB] Get: 97 http://deb.debian.org/debian unstable/main armhf python-requests-doc all 2.31.0+dfsg-1 [190 kB] Get: 98 http://deb.debian.org/debian unstable/main armhf python3-alabaster all 0.7.12-1 [20.8 kB] Get: 99 http://deb.debian.org/debian unstable/main armhf python3.12 armhf 3.12.3-1 [659 kB] Get: 100 http://deb.debian.org/debian unstable/main armhf python3-all armhf 3.11.8-1 [1056 B] Get: 101 http://deb.debian.org/debian unstable/main armhf python3.11-dev armhf 3.11.9-1 [501 kB] Get: 102 http://deb.debian.org/debian unstable/main armhf python3-dev armhf 3.11.8-1 [26.1 kB] Get: 103 http://deb.debian.org/debian unstable/main armhf python3.12-dev armhf 3.12.3-1 [499 kB] Get: 104 http://deb.debian.org/debian unstable/main armhf python3-all-dev armhf 3.11.8-1 [1072 B] Get: 105 http://deb.debian.org/debian unstable/main armhf python3-babel all 2.14.0-1 [111 kB] Get: 106 http://deb.debian.org/debian unstable/main armhf python3-certifi all 2023.11.17-1 [155 kB] Get: 107 http://deb.debian.org/debian unstable/main armhf python3-chardet all 5.2.0+dfsg-1 [107 kB] Get: 108 http://deb.debian.org/debian unstable/main armhf python3-charset-normalizer all 3.3.2-1 [51.6 kB] Get: 109 http://deb.debian.org/debian unstable/main armhf python3-decorator all 5.1.1-5 [15.1 kB] Get: 110 http://deb.debian.org/debian unstable/main armhf python3.11-doc all 3.11.9-1 [12.6 MB] Get: 111 http://deb.debian.org/debian unstable/main armhf python3-doc all 3.11.8-1 [9528 B] Get: 112 http://deb.debian.org/debian unstable/main armhf python3-roman all 3.3-3 [9880 B] Get: 113 http://deb.debian.org/debian unstable/main armhf python3-docutils all 0.20.1+dfsg-3 [389 kB] Get: 114 http://deb.debian.org/debian unstable/main armhf python3-numpy armhf 1:1.26.4+ds-8 [4132 kB] Get: 115 http://deb.debian.org/debian unstable/main armhf python3-h5py-serial armhf 3.10.0-1+b2 [1262 kB] Get: 116 http://deb.debian.org/debian unstable/main armhf python3-h5py all 3.10.0-1 [14.4 kB] Get: 117 http://deb.debian.org/debian unstable/main armhf python3-idna all 3.6-2 [37.0 kB] Get: 118 http://deb.debian.org/debian unstable/main armhf python3-imagesize all 1.4.1-1 [6688 B] Get: 119 http://deb.debian.org/debian unstable/main armhf python3-markupsafe armhf 2.1.5-1 [13.9 kB] Get: 120 http://deb.debian.org/debian unstable/main armhf python3-jinja2 all 3.1.3-1 [119 kB] Get: 121 http://deb.debian.org/debian unstable/main armhf python3-mappy armhf 2.27+dfsg-1 [195 kB] Get: 122 http://deb.debian.org/debian unstable/main armhf python3-nose2 all 0.14.0-2 [115 kB] Get: 123 http://deb.debian.org/debian unstable/main armhf python3-packaging all 24.0-1 [45.5 kB] Get: 124 http://deb.debian.org/debian unstable/main armhf python3-pygments all 2.17.2+dfsg-1 [818 kB] Get: 125 http://deb.debian.org/debian unstable/main armhf python3-six all 1.16.0-6 [16.3 kB] Get: 126 http://deb.debian.org/debian unstable/main armhf python3-urllib3 all 1.26.18-2 [116 kB] Get: 127 http://deb.debian.org/debian unstable/main armhf python3-requests all 2.31.0+dfsg-1 [68.6 kB] Get: 128 http://deb.debian.org/debian unstable/main armhf python3-scipy armhf 1.11.4-6 [16.9 MB] Get: 129 http://deb.debian.org/debian unstable/main armhf python3-snowballstemmer all 2.2.0-4 [58.0 kB] Get: 130 http://deb.debian.org/debian unstable/main armhf sphinx-common all 7.2.6-6 [702 kB] Get: 131 http://deb.debian.org/debian unstable/main armhf python3-sphinx all 7.2.6-6 [552 kB] Get: 132 http://deb.debian.org/debian unstable/main armhf sphinx-rtd-theme-common all 2.0.0+dfsg-1 [1021 kB] Get: 133 http://deb.debian.org/debian unstable/main armhf python3-sphinx-argparse all 0.4.0-1 [37.7 kB] Get: 134 http://deb.debian.org/debian unstable/main armhf python3-sphinxcontrib.jquery all 4.1-5 [7348 B] Get: 135 http://deb.debian.org/debian unstable/main armhf python3-sphinx-rtd-theme all 2.0.0+dfsg-1 [28.3 kB] Get: 136 http://deb.debian.org/debian unstable/main armhf python3-tqdm all 4.66.4-1 [90.8 kB] Get: 137 http://deb.debian.org/debian unstable/main armhf sphinx-doc all 7.2.6-6 [2375 kB] Fetched 113 MB in 10s (11.4 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 ... 19445 files and directories currently installed.) Preparing to unpack .../fonts-lato_2.015-1_all.deb ... Unpacking fonts-lato (2.015-1) ... Selecting previously unselected package libpython3.11-minimal:armhf. Preparing to unpack .../libpython3.11-minimal_3.11.9-1_armhf.deb ... Unpacking libpython3.11-minimal:armhf (3.11.9-1) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../libexpat1_2.6.2-1_armhf.deb ... Unpacking libexpat1:armhf (2.6.2-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.9-1_armhf.deb ... Unpacking python3.11-minimal (3.11.9-1) ... Setting up libpython3.11-minimal:armhf (3.11.9-1) ... Setting up libexpat1:armhf (2.6.2-1) ... Setting up python3.11-minimal (3.11.9-1) ... 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 ... 19787 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.8-1_armhf.deb ... Unpacking python3-minimal (3.11.8-1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2024a-4_all.deb ... Unpacking tzdata (2024a-4) ... Selecting previously unselected package readline-common. Preparing to unpack .../4-readline-common_8.2-4_all.deb ... Unpacking readline-common (8.2-4) ... Selecting previously unselected package libreadline8t64:armhf. Preparing to unpack .../5-libreadline8t64_8.2-4_armhf.deb ... Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8 to /lib/arm-linux-gnueabihf/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8.2 to /lib/arm-linux-gnueabihf/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8 to /lib/arm-linux-gnueabihf/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8.2 to /lib/arm-linux-gnueabihf/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:armhf (8.2-4) ... Selecting previously unselected package libpython3.11-stdlib:armhf. Preparing to unpack .../6-libpython3.11-stdlib_3.11.9-1_armhf.deb ... Unpacking libpython3.11-stdlib:armhf (3.11.9-1) ... Selecting previously unselected package python3.11. Preparing to unpack .../7-python3.11_3.11.9-1_armhf.deb ... Unpacking python3.11 (3.11.9-1) ... Selecting previously unselected package libpython3-stdlib:armhf. Preparing to unpack .../8-libpython3-stdlib_3.11.8-1_armhf.deb ... Unpacking libpython3-stdlib:armhf (3.11.8-1) ... Setting up python3-minimal (3.11.8-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20779 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.8-1_armhf.deb ... Unpacking python3 (3.11.8-1) ... Selecting previously unselected package libpython3.12-minimal:armhf. Preparing to unpack .../001-libpython3.12-minimal_3.12.3-1_armhf.deb ... Unpacking libpython3.12-minimal:armhf (3.12.3-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../002-python3.12-minimal_3.12.3-1_armhf.deb ... Unpacking python3.12-minimal (3.12.3-1) ... Selecting previously unselected package sgml-base. Preparing to unpack .../003-sgml-base_1.31_all.deb ... Unpacking sgml-base (1.31) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../004-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package openssl. Preparing to unpack .../005-openssl_3.2.1-3_armhf.deb ... Unpacking openssl (3.2.1-3) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../006-ca-certificates_20240203_all.deb ... Unpacking ca-certificates (20240203) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../007-libmagic-mgc_1%3a5.45-3_armhf.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:armhf. Preparing to unpack .../008-libmagic1t64_1%3a5.45-3_armhf.deb ... Unpacking libmagic1t64:armhf (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../009-file_1%3a5.45-3_armhf.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../010-gettext-base_0.21-14+b1_armhf.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../011-libuchardet0_0.0.8-1+b1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../012-groff-base_1.23.0-4_armhf.deb ... Unpacking groff-base (1.23.0-4) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../013-bsdextrautils_2.40-8_armhf.deb ... Unpacking bsdextrautils (2.40-8) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../014-libpipeline1_1.5.7-2_armhf.deb ... Unpacking libpipeline1:armhf (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../015-man-db_2.12.1-1_armhf.deb ... Unpacking man-db (2.12.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../016-m4_1.4.19-4_armhf.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../017-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../018-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../019-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 .../020-autopoint_0.21-14_all.deb ... Unpacking autopoint (0.21-14) ... Selecting previously unselected package cython3. Preparing to unpack .../021-cython3_3.0.10+dfsg-5_armhf.deb ... Unpacking cython3 (3.0.10+dfsg-5) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../022-libdebhelper-perl_13.15.3_all.deb ... Unpacking libdebhelper-perl (13.15.3) ... Selecting previously unselected package libtool. Preparing to unpack .../023-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../024-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../025-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 .../026-libsub-override-perl_0.10-1_all.deb ... Unpacking libsub-override-perl (0.10-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../027-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 .../028-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1t64:armhf. Preparing to unpack .../029-libelf1t64_0.191-1+b1_armhf.deb ... Unpacking libelf1t64:armhf (0.191-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../030-dwz_0.15-1+b2_armhf.deb ... Unpacking dwz (0.15-1+b2) ... Selecting previously unselected package libicu72:armhf. Preparing to unpack .../031-libicu72_72.1-4+b1_armhf.deb ... Unpacking libicu72:armhf (72.1-4+b1) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../032-libxml2_2.9.14+dfsg-1.3+b3_armhf.deb ... Unpacking libxml2:armhf (2.9.14+dfsg-1.3+b3) ... Selecting previously unselected package gettext. Preparing to unpack .../033-gettext_0.21-14+b1_armhf.deb ... Unpacking gettext (0.21-14+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../034-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 .../035-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../036-debhelper_13.15.3_all.deb ... Unpacking debhelper (13.15.3) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../037-python3-pkg-resources_68.1.2-2_all.deb ... Unpacking python3-pkg-resources (68.1.2-2) ... Selecting previously unselected package python3-lib2to3. Preparing to unpack .../038-python3-lib2to3_3.12.3-1_all.deb ... Unpacking python3-lib2to3 (3.12.3-1) ... Selecting previously unselected package python3-distutils. Preparing to unpack .../039-python3-distutils_3.12.3-1_all.deb ... Unpacking python3-distutils (3.12.3-1) ... Selecting previously unselected package python3-setuptools. Preparing to unpack .../040-python3-setuptools_68.1.2-2_all.deb ... Unpacking python3-setuptools (68.1.2-2) ... Selecting previously unselected package dh-python. Preparing to unpack .../041-dh-python_6.20240422_all.deb ... Unpacking dh-python (6.20240422) ... Selecting previously unselected package xml-core. Preparing to unpack .../042-xml-core_0.19_all.deb ... Unpacking xml-core (0.19) ... Selecting previously unselected package docutils-common. Preparing to unpack .../043-docutils-common_0.20.1+dfsg-3_all.deb ... Unpacking docutils-common (0.20.1+dfsg-3) ... Selecting previously unselected package docutils-doc. Preparing to unpack .../044-docutils-doc_0.20.1+dfsg-3_all.deb ... Unpacking docutils-doc (0.20.1+dfsg-3) ... Selecting previously unselected package fonts-font-awesome. Preparing to unpack .../045-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 .../046-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 .../047-libaec0_1.1.3-1_armhf.deb ... Unpacking libaec0:armhf (1.1.3-1) ... Selecting previously unselected package libblas3:armhf. Preparing to unpack .../048-libblas3_3.12.0-3_armhf.deb ... Unpacking libblas3:armhf (3.12.0-3) ... Selecting previously unselected package libbrotli1:armhf. Preparing to unpack .../049-libbrotli1_1.1.0-2+b3_armhf.deb ... Unpacking libbrotli1:armhf (1.1.0-2+b3) ... Selecting previously unselected package libcom-err2:armhf. Preparing to unpack .../050-libcom-err2_1.47.1~rc2-1_armhf.deb ... Unpacking libcom-err2:armhf (1.47.1~rc2-1) ... Selecting previously unselected package libkrb5support0:armhf. Preparing to unpack .../051-libkrb5support0_1.20.1-6+b1_armhf.deb ... Unpacking libkrb5support0:armhf (1.20.1-6+b1) ... Selecting previously unselected package libk5crypto3:armhf. Preparing to unpack .../052-libk5crypto3_1.20.1-6+b1_armhf.deb ... Unpacking libk5crypto3:armhf (1.20.1-6+b1) ... Selecting previously unselected package libkeyutils1:armhf. Preparing to unpack .../053-libkeyutils1_1.6.3-3_armhf.deb ... Unpacking libkeyutils1:armhf (1.6.3-3) ... Selecting previously unselected package libkrb5-3:armhf. Preparing to unpack .../054-libkrb5-3_1.20.1-6+b1_armhf.deb ... Unpacking libkrb5-3:armhf (1.20.1-6+b1) ... Selecting previously unselected package libgssapi-krb5-2:armhf. Preparing to unpack .../055-libgssapi-krb5-2_1.20.1-6+b1_armhf.deb ... Unpacking libgssapi-krb5-2:armhf (1.20.1-6+b1) ... Selecting previously unselected package libnghttp2-14:armhf. Preparing to unpack .../056-libnghttp2-14_1.61.0-1+b1_armhf.deb ... Unpacking libnghttp2-14:armhf (1.61.0-1+b1) ... Selecting previously unselected package libpsl5t64:armhf. Preparing to unpack .../057-libpsl5t64_0.21.2-1.1_armhf.deb ... Unpacking libpsl5t64:armhf (0.21.2-1.1) ... Selecting previously unselected package librtmp1:armhf. Preparing to unpack .../058-librtmp1_2.4+20151223.gitfa8646d.1-2+b4_armhf.deb ... Unpacking librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b4) ... Selecting previously unselected package libssh2-1t64:armhf. Preparing to unpack .../059-libssh2-1t64_1.11.0-4.1+b2_armhf.deb ... Unpacking libssh2-1t64:armhf (1.11.0-4.1+b2) ... Selecting previously unselected package libcurl4t64:armhf. Preparing to unpack .../060-libcurl4t64_8.7.1-5_armhf.deb ... Unpacking libcurl4t64:armhf (8.7.1-5) ... Selecting previously unselected package libexpat1-dev:armhf. Preparing to unpack .../061-libexpat1-dev_2.6.2-1_armhf.deb ... Unpacking libexpat1-dev:armhf (2.6.2-1) ... Selecting previously unselected package libgfortran5:armhf. Preparing to unpack .../062-libgfortran5_14-20240429-1_armhf.deb ... Unpacking libgfortran5:armhf (14-20240429-1) ... Selecting previously unselected package libsz2:armhf. Preparing to unpack .../063-libsz2_1.1.3-1_armhf.deb ... Unpacking libsz2:armhf (1.1.3-1) ... Selecting previously unselected package libhdf5-103-1t64:armhf. Preparing to unpack .../064-libhdf5-103-1t64_1.10.10+repack-3.3_armhf.deb ... Unpacking libhdf5-103-1t64:armhf (1.10.10+repack-3.3) ... Selecting previously unselected package libhdf5-hl-100t64:armhf. Preparing to unpack .../065-libhdf5-hl-100t64_1.10.10+repack-3.3_armhf.deb ... Unpacking libhdf5-hl-100t64:armhf (1.10.10+repack-3.3) ... Selecting previously unselected package libjs-jquery. Preparing to unpack .../066-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 .../067-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 .../068-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 .../069-libjs-sphinxdoc_7.2.6-6_all.deb ... Unpacking libjs-sphinxdoc (7.2.6-6) ... Selecting previously unselected package libjson-perl. Preparing to unpack .../070-libjson-perl_4.10000-1_all.deb ... Unpacking libjson-perl (4.10000-1) ... Selecting previously unselected package liblapack3:armhf. Preparing to unpack .../071-liblapack3_3.12.0-3_armhf.deb ... Unpacking liblapack3:armhf (3.12.0-3) ... Selecting previously unselected package liblbfgsb0:armhf. Preparing to unpack .../072-liblbfgsb0_3.0+dfsg.4-1+b1_armhf.deb ... Unpacking liblbfgsb0:armhf (3.0+dfsg.4-1+b1) ... Selecting previously unselected package liblzf1:armhf. Preparing to unpack .../073-liblzf1_3.6-4+b1_armhf.deb ... Unpacking liblzf1:armhf (3.6-4+b1) ... Selecting previously unselected package libpython3.11t64:armhf. Preparing to unpack .../074-libpython3.11t64_3.11.9-1_armhf.deb ... Unpacking libpython3.11t64:armhf (3.11.9-1) ... Selecting previously unselected package zlib1g-dev:armhf. Preparing to unpack .../075-zlib1g-dev_1%3a1.3.dfsg-3.1_armhf.deb ... Unpacking zlib1g-dev:armhf (1:1.3.dfsg-3.1) ... Selecting previously unselected package libpython3.11-dev:armhf. Preparing to unpack .../076-libpython3.11-dev_3.11.9-1_armhf.deb ... Unpacking libpython3.11-dev:armhf (3.11.9-1) ... Selecting previously unselected package libpython3-dev:armhf. Preparing to unpack .../077-libpython3-dev_3.11.8-1_armhf.deb ... Unpacking libpython3-dev:armhf (3.11.8-1) ... Selecting previously unselected package libpython3.12-stdlib:armhf. Preparing to unpack .../078-libpython3.12-stdlib_3.12.3-1_armhf.deb ... Unpacking libpython3.12-stdlib:armhf (3.12.3-1) ... Selecting previously unselected package libpython3.12t64:armhf. Preparing to unpack .../079-libpython3.12t64_3.12.3-1_armhf.deb ... Unpacking libpython3.12t64:armhf (3.12.3-1) ... Selecting previously unselected package libpython3.12-dev:armhf. Preparing to unpack .../080-libpython3.12-dev_3.12.3-1_armhf.deb ... Unpacking libpython3.12-dev:armhf (3.12.3-1) ... Selecting previously unselected package libpython3-all-dev:armhf. Preparing to unpack .../081-libpython3-all-dev_3.11.8-1_armhf.deb ... Unpacking libpython3-all-dev:armhf (3.11.8-1) ... Selecting previously unselected package python-babel-localedata. Preparing to unpack .../082-python-babel-localedata_2.14.0-1_all.deb ... Unpacking python-babel-localedata (2.14.0-1) ... Selecting previously unselected package python-requests-doc. Preparing to unpack .../083-python-requests-doc_2.31.0+dfsg-1_all.deb ... Unpacking python-requests-doc (2.31.0+dfsg-1) ... Selecting previously unselected package python3-alabaster. Preparing to unpack .../084-python3-alabaster_0.7.12-1_all.deb ... Unpacking python3-alabaster (0.7.12-1) ... Selecting previously unselected package python3.12. Preparing to unpack .../085-python3.12_3.12.3-1_armhf.deb ... Unpacking python3.12 (3.12.3-1) ... Selecting previously unselected package python3-all. Preparing to unpack .../086-python3-all_3.11.8-1_armhf.deb ... Unpacking python3-all (3.11.8-1) ... Selecting previously unselected package python3.11-dev. Preparing to unpack .../087-python3.11-dev_3.11.9-1_armhf.deb ... Unpacking python3.11-dev (3.11.9-1) ... Selecting previously unselected package python3-dev. Preparing to unpack .../088-python3-dev_3.11.8-1_armhf.deb ... Unpacking python3-dev (3.11.8-1) ... Selecting previously unselected package python3.12-dev. Preparing to unpack .../089-python3.12-dev_3.12.3-1_armhf.deb ... Unpacking python3.12-dev (3.12.3-1) ... Selecting previously unselected package python3-all-dev. Preparing to unpack .../090-python3-all-dev_3.11.8-1_armhf.deb ... Unpacking python3-all-dev (3.11.8-1) ... Selecting previously unselected package python3-babel. Preparing to unpack .../091-python3-babel_2.14.0-1_all.deb ... Unpacking python3-babel (2.14.0-1) ... Selecting previously unselected package python3-certifi. Preparing to unpack .../092-python3-certifi_2023.11.17-1_all.deb ... Unpacking python3-certifi (2023.11.17-1) ... Selecting previously unselected package python3-chardet. Preparing to unpack .../093-python3-chardet_5.2.0+dfsg-1_all.deb ... Unpacking python3-chardet (5.2.0+dfsg-1) ... Selecting previously unselected package python3-charset-normalizer. Preparing to unpack .../094-python3-charset-normalizer_3.3.2-1_all.deb ... Unpacking python3-charset-normalizer (3.3.2-1) ... Selecting previously unselected package python3-decorator. Preparing to unpack .../095-python3-decorator_5.1.1-5_all.deb ... Unpacking python3-decorator (5.1.1-5) ... Selecting previously unselected package python3.11-doc. Preparing to unpack .../096-python3.11-doc_3.11.9-1_all.deb ... Unpacking python3.11-doc (3.11.9-1) ... Selecting previously unselected package python3-doc. Preparing to unpack .../097-python3-doc_3.11.8-1_all.deb ... Unpacking python3-doc (3.11.8-1) ... Selecting previously unselected package python3-roman. Preparing to unpack .../098-python3-roman_3.3-3_all.deb ... Unpacking python3-roman (3.3-3) ... Selecting previously unselected package python3-docutils. Preparing to unpack .../099-python3-docutils_0.20.1+dfsg-3_all.deb ... Unpacking python3-docutils (0.20.1+dfsg-3) ... Selecting previously unselected package python3-numpy. Preparing to unpack .../100-python3-numpy_1%3a1.26.4+ds-8_armhf.deb ... Unpacking python3-numpy (1:1.26.4+ds-8) ... Selecting previously unselected package python3-h5py-serial. Preparing to unpack .../101-python3-h5py-serial_3.10.0-1+b2_armhf.deb ... Unpacking python3-h5py-serial (3.10.0-1+b2) ... Selecting previously unselected package python3-h5py. Preparing to unpack .../102-python3-h5py_3.10.0-1_all.deb ... Unpacking python3-h5py (3.10.0-1) ... Selecting previously unselected package python3-idna. Preparing to unpack .../103-python3-idna_3.6-2_all.deb ... Unpacking python3-idna (3.6-2) ... Selecting previously unselected package python3-imagesize. Preparing to unpack .../104-python3-imagesize_1.4.1-1_all.deb ... Unpacking python3-imagesize (1.4.1-1) ... Selecting previously unselected package python3-markupsafe. Preparing to unpack .../105-python3-markupsafe_2.1.5-1_armhf.deb ... Unpacking python3-markupsafe (2.1.5-1) ... Selecting previously unselected package python3-jinja2. Preparing to unpack .../106-python3-jinja2_3.1.3-1_all.deb ... Unpacking python3-jinja2 (3.1.3-1) ... Selecting previously unselected package python3-mappy. Preparing to unpack .../107-python3-mappy_2.27+dfsg-1_armhf.deb ... Unpacking python3-mappy (2.27+dfsg-1) ... Selecting previously unselected package python3-nose2. Preparing to unpack .../108-python3-nose2_0.14.0-2_all.deb ... Unpacking python3-nose2 (0.14.0-2) ... Selecting previously unselected package python3-packaging. Preparing to unpack .../109-python3-packaging_24.0-1_all.deb ... Unpacking python3-packaging (24.0-1) ... Selecting previously unselected package python3-pygments. Preparing to unpack .../110-python3-pygments_2.17.2+dfsg-1_all.deb ... Unpacking python3-pygments (2.17.2+dfsg-1) ... Selecting previously unselected package python3-six. Preparing to unpack .../111-python3-six_1.16.0-6_all.deb ... Unpacking python3-six (1.16.0-6) ... Selecting previously unselected package python3-urllib3. Preparing to unpack .../112-python3-urllib3_1.26.18-2_all.deb ... Unpacking python3-urllib3 (1.26.18-2) ... Selecting previously unselected package python3-requests. Preparing to unpack .../113-python3-requests_2.31.0+dfsg-1_all.deb ... Unpacking python3-requests (2.31.0+dfsg-1) ... Selecting previously unselected package python3-scipy. Preparing to unpack .../114-python3-scipy_1.11.4-6_armhf.deb ... Unpacking python3-scipy (1.11.4-6) ... Selecting previously unselected package python3-snowballstemmer. Preparing to unpack .../115-python3-snowballstemmer_2.2.0-4_all.deb ... Unpacking python3-snowballstemmer (2.2.0-4) ... Selecting previously unselected package sphinx-common. Preparing to unpack .../116-sphinx-common_7.2.6-6_all.deb ... Unpacking sphinx-common (7.2.6-6) ... Selecting previously unselected package python3-sphinx. Preparing to unpack .../117-python3-sphinx_7.2.6-6_all.deb ... Unpacking python3-sphinx (7.2.6-6) ... Selecting previously unselected package sphinx-rtd-theme-common. Preparing to unpack .../118-sphinx-rtd-theme-common_2.0.0+dfsg-1_all.deb ... Unpacking sphinx-rtd-theme-common (2.0.0+dfsg-1) ... Selecting previously unselected package python3-sphinx-argparse. Preparing to unpack .../119-python3-sphinx-argparse_0.4.0-1_all.deb ... Unpacking python3-sphinx-argparse (0.4.0-1) ... Selecting previously unselected package python3-sphinxcontrib.jquery. Preparing to unpack .../120-python3-sphinxcontrib.jquery_4.1-5_all.deb ... Unpacking python3-sphinxcontrib.jquery (4.1-5) ... Selecting previously unselected package python3-sphinx-rtd-theme. Preparing to unpack .../121-python3-sphinx-rtd-theme_2.0.0+dfsg-1_all.deb ... Unpacking python3-sphinx-rtd-theme (2.0.0+dfsg-1) ... Selecting previously unselected package python3-tqdm. Preparing to unpack .../122-python3-tqdm_4.66.4-1_all.deb ... Unpacking python3-tqdm (4.66.4-1) ... Selecting previously unselected package sphinx-doc. Preparing to unpack .../123-sphinx-doc_7.2.6-6_all.deb ... Unpacking sphinx-doc (7.2.6-6) ... Setting up media-types (10.1.0) ... Setting up libpipeline1:armhf (1.5.7-2) ... Setting up libkeyutils1:armhf (1.6.3-3) ... Setting up fonts-lato (2.015-1) ... Setting up fonts-mathjax (2.7.9+dfsg-1) ... Setting up libicu72:armhf (72.1-4+b1) ... Setting up docutils-doc (0.20.1+dfsg-3) ... Setting up bsdextrautils (2.40-8) ... Setting up libjs-mathjax (2.7.9+dfsg-1) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.15.3) ... Setting up libbrotli1:armhf (1.1.0-2+b3) ... Setting up libmagic1t64:armhf (1:5.45-3) ... Setting up libpython3.12-minimal:armhf (3.12.3-1) ... Setting up libpsl5t64:armhf (0.21.2-1.1) ... Setting up libnghttp2-14:armhf (1.61.0-1+b1) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up libcom-err2:armhf (1.47.1~rc2-1) ... Setting up file (1:5.45-3) ... Setting up libaec0:armhf (1.1.3-1) ... Setting up libelf1t64:armhf (0.191-1+b1) ... Setting up python-babel-localedata (2.14.0-1) ... Setting up libkrb5support0:armhf (1.20.1-6+b1) ... Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' Local time is now: Sun May 5 05:42:36 UTC 2024. Universal Time is now: Sun May 5 05:42:36 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... Setting up libblas3:armhf (3.12.0-3) ... 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 (2.6.2-1) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b4) ... Setting up liblzf1:armhf (3.6-4+b1) ... Setting up autopoint (0.21-14) ... Setting up libk5crypto3:armhf (1.20.1-6+b1) ... Setting up libgfortran5:armhf (14-20240429-1) ... Setting up autoconf (2.71-3) ... Setting up zlib1g-dev:armhf (1:1.3.dfsg-3.1) ... Setting up dwz (0.15-1+b2) ... Setting up sensible-utils (0.0.22) ... Setting up libuchardet0:armhf (0.0.8-1+b1) ... Setting up libjson-perl (4.10000-1) ... Setting up libsub-override-perl (0.10-1) ... Setting up netbase (6.4) ... Setting up sgml-base (1.31) ... Setting up libkrb5-3:armhf (1.20.1-6+b1) ... Setting up libssh2-1t64:armhf (1.11.0-4.1+b2) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up openssl (3.2.1-3) ... Setting up readline-common (8.2-4) ... Setting up libxml2:armhf (2.9.14+dfsg-1.3+b3) ... Setting up fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... Setting up sphinx-rtd-theme-common (2.0.0+dfsg-1) ... Setting up libsz2:armhf (1.1.3-1) ... 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 python3.12-minimal (3.12.3-1) ... Setting up liblapack3:armhf (3.12.0-3) ... 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 (0.21-14+b1) ... Setting up libtool (2.4.7-7) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 146 added, 0 removed; done. Setting up python3.11-doc (3.11.9-1) ... Setting up libgssapi-krb5-2:armhf (1.20.1-6+b1) ... Setting up libjs-sphinxdoc (7.2.6-6) ... Setting up python-requests-doc (2.31.0+dfsg-1) ... Setting up libreadline8t64:armhf (8.2-4) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up groff-base (1.23.0-4) ... Setting up xml-core (0.19) ... Setting up python3-doc (3.11.8-1) ... Setting up liblbfgsb0:armhf (3.0+dfsg.4-1+b1) ... Setting up sphinx-doc (7.2.6-6) ... Setting up libpython3.12-stdlib:armhf (3.12.3-1) ... Setting up libcurl4t64:armhf (8.7.1-5) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:armhf (3.11.9-1) ... Setting up python3.12 (3.12.3-1) ... Setting up libpython3.11t64:armhf (3.11.9-1) ... Setting up man-db (2.12.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libpython3.12t64:armhf (3.12.3-1) ... Setting up libpython3.11-dev:armhf (3.11.9-1) ... Setting up sphinx-common (7.2.6-6) ... Setting up libhdf5-103-1t64:armhf (1.10.10+repack-3.3) ... Setting up libpython3-stdlib:armhf (3.11.8-1) ... Setting up libhdf5-hl-100t64:armhf (1.10.10+repack-3.3) ... Setting up python3.11 (3.11.9-1) ... Setting up libpython3-dev:armhf (3.11.8-1) ... Setting up python3.11-dev (3.11.9-1) ... Setting up debhelper (13.15.3) ... Setting up python3 (3.11.8-1) ... Setting up libpython3.12-dev:armhf (3.12.3-1) ... Setting up python3-markupsafe (2.1.5-1) ... Setting up python3-six (1.16.0-6) ... Setting up python3-roman (3.3-3) ... Setting up python3-decorator (5.1.1-5) ... Setting up python3-jinja2 (3.1.3-1) ... Setting up python3-packaging (24.0-1) ... Setting up python3-certifi (2023.11.17-1) ... Setting up python3-snowballstemmer (2.2.0-4) ... Setting up libpython3-all-dev:armhf (3.11.8-1) ... Setting up python3-idna (3.6-2) ... Setting up python3.12-dev (3.12.3-1) ... Setting up cython3 (3.0.10+dfsg-5) ... Setting up python3-urllib3 (1.26.18-2) ... Setting up python3-lib2to3 (3.12.3-1) ... Setting up python3-imagesize (1.4.1-1) ... Setting up python3-pkg-resources (68.1.2-2) ... Setting up python3-distutils (3.12.3-1) ... python3.12: can't get files for byte-compilation Setting up python3-setuptools (68.1.2-2) ... Setting up python3-babel (2.14.0-1) ... update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up python3-charset-normalizer (3.3.2-1) ... Setting up python3-alabaster (0.7.12-1) ... Setting up python3-tqdm (4.66.4-1) ... Setting up python3-all (3.11.8-1) ... Setting up python3-mappy (2.27+dfsg-1) ... Setting up python3-nose2 (0.14.0-2) ... Setting up python3-pygments (2.17.2+dfsg-1) ... Setting up python3-chardet (5.2.0+dfsg-1) ... Setting up python3-dev (3.11.8-1) ... Setting up python3-requests (2.31.0+dfsg-1) ... Setting up python3-numpy (1:1.26.4+ds-8) ... Setting up dh-python (6.20240422) ... Setting up python3-all-dev (3.11.8-1) ... Setting up python3-scipy (1.11.4-6) ... Setting up python3-h5py-serial (3.10.0-1+b2) ... Setting up python3-h5py (3.10.0-1) ... Processing triggers for libc-bin (2.38-7) ... Processing triggers for sgml-base (1.31) ... Setting up docutils-common (0.20.1+dfsg-3) ... Processing triggers for sgml-base (1.31) ... Setting up python3-docutils (0.20.1+dfsg-3) ... Setting up python3-sphinx (7.2.6-6) ... Setting up python3-sphinxcontrib.jquery (4.1-5) ... Setting up python3-sphinx-argparse (0.4.0-1) ... Setting up python3-sphinx-rtd-theme (2.0.0+dfsg-1) ... Processing triggers for ca-certificates (20240203) ... 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 I: Building the package I: Running cd /build/reproducible-path/tombo-1.5.1/ && 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 > ../tombo_1.5.1-6_source.changes dpkg-buildpackage: info: source package tombo dpkg-buildpackage: info: source version 1.5.1-6 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:311: python3.12 setup.py clean running clean removing '/build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build' (and everything under it) 'build/bdist.linux-armv7l' does not exist -- can't clean it 'build/scripts-3.12' does not exist -- can't clean it I: pybuild base:311: python3.11 setup.py clean running clean removing '/build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build' (and everything under it) 'build/bdist.linux-armv7l' 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:311: python3.12 setup.py config running config I: pybuild base:311: python3.11 setup.py config running config debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/tombo-1.5.1' dh_auto_build I: pybuild base:311: /usr/bin/python3.12 setup.py build running build running build_py creating /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo copying tombo/_preprocess.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo copying tombo/_default_parameters.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo copying tombo/tombo_stats.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo copying tombo/_event_resquiggle.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo copying tombo/_filter_reads.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo copying tombo/_version.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo copying tombo/_option_parsers.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo copying tombo/__main__.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo copying tombo/__init__.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo copying tombo/resquiggle.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo copying tombo/_text_output_commands.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo copying tombo/tombo_helper.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo copying tombo/_plot_commands.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/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:204: _Warning: Package 'tombo.R_scripts' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'tombo.R_scripts' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'tombo.R_scripts' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'tombo.R_scripts' to be distributed and are already explicitly excluding 'tombo.R_scripts' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'tombo.tombo_models' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'tombo.tombo_models' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'tombo.tombo_models' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'tombo.tombo_models' to be distributed and are already explicitly excluding 'tombo.tombo_models' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) copying tombo/_c_dynamic_programming.pyx -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo copying tombo/_c_helper.pyx -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo creating /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts copying tombo/R_scripts/debugDP.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts copying tombo/R_scripts/debugFit.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts copying tombo/R_scripts/debugRawDP.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts copying tombo/R_scripts/plotGroupComp.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts copying tombo/R_scripts/plotKmerDist.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts copying tombo/R_scripts/plotModelComp.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts copying tombo/R_scripts/plotMotifStats.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts copying tombo/R_scripts/plotMultiReadCorr.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts copying tombo/R_scripts/plotPerReadStats.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts copying tombo/R_scripts/plotROC.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts copying tombo/R_scripts/plotROCPerRead.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts copying tombo/R_scripts/plotReadCorr.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts copying tombo/R_scripts/plotSigMDS.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts copying tombo/R_scripts/plotSingleRead.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts copying tombo/R_scripts/plotSingleRun.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts creating /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.5mC.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.6mA.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.CpG.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.dam.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.dcm.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_models copying tombo/tombo_models/tombo.RNA.180mV.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_models copying tombo/tombo_models/tombo.RNA.200mV.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_models copying tombo/tombo_models/tombo.RNA.5mC.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_models running build_ext /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/tombo-1.5.1/tombo/_c_dynamic_programming.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling tombo/_c_dynamic_programming.pyx because it changed. [1/1] Cythonizing tombo/_c_dynamic_programming.pyx building 'tombo._c_dynamic_programming' extension creating build creating build/temp.linux-armv7l-cpython-312 creating build/temp.linux-armv7l-cpython-312/tombo arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tombo-1.5.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.12 -c tombo/_c_dynamic_programming.cpp -o build/temp.linux-armv7l-cpython-312/tombo/_c_dynamic_programming.o cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 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:1262: /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 " \ | ^~~~~~~ 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*)', inlined from 'PyObject* __pyx_pw_5tombo_22_c_dynamic_programming_3c_reg_z_scores(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)' at tombo/_c_dynamic_programming.cpp:5869:69: tombo/_c_dynamic_programming.cpp:6684:36: warning: '__pyx_v_np_max_half_z_score' may be used uninitialized [-Wmaybe-uninitialized] 6684 | __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: In function 'PyObject* __pyx_pw_5tombo_22_c_dynamic_programming_3c_reg_z_scores(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)': tombo/_c_dynamic_programming.cpp:5895:51: note: '__pyx_v_np_max_half_z_score' was declared here 5895 | __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 -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tombo-1.5.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-cpython-312/tombo/_c_dynamic_programming.o -L/usr/lib/arm-linux-gnueabihf -o /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/_c_dynamic_programming.cpython-312-arm-linux-gnueabihf.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/tombo-1.5.1/tombo/_c_helper.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling tombo/_c_helper.pyx because it changed. [1/1] Cythonizing tombo/_c_helper.pyx building 'tombo._c_helper' extension arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tombo-1.5.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.12 -c tombo/_c_helper.cpp -o build/temp.linux-armv7l-cpython-312/tombo/_c_helper.o cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 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:1262: /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 -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tombo-1.5.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-cpython-312/tombo/_c_helper.o -L/usr/lib/arm-linux-gnueabihf -o /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/_c_helper.cpython-312-arm-linux-gnueabihf.so I: pybuild base:311: /usr/bin/python3 setup.py build running build running build_py creating /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_preprocess.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_default_parameters.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/tombo_stats.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_event_resquiggle.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_filter_reads.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_version.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_option_parsers.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/__main__.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/__init__.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/resquiggle.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_text_output_commands.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/tombo_helper.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_plot_commands.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo 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:204: _Warning: Package 'tombo.R_scripts' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'tombo.R_scripts' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'tombo.R_scripts' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'tombo.R_scripts' to be distributed and are already explicitly excluding 'tombo.R_scripts' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'tombo.tombo_models' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'tombo.tombo_models' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'tombo.tombo_models' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'tombo.tombo_models' to be distributed and are already explicitly excluding 'tombo.tombo_models' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) copying tombo/_c_dynamic_programming.pyx -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo copying tombo/_c_helper.pyx -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo creating /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/debugDP.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/debugFit.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/debugRawDP.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotGroupComp.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotKmerDist.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotModelComp.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotMotifStats.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotMultiReadCorr.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotPerReadStats.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotROC.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotROCPerRead.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotReadCorr.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotSigMDS.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotSingleRead.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts copying tombo/R_scripts/plotSingleRun.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts creating /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.5mC.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.6mA.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.CpG.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.dam.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.dcm.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.RNA.180mV.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.RNA.200mV.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models copying tombo/tombo_models/tombo.RNA.5mC.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models running build_ext building 'tombo._c_dynamic_programming' extension creating build/temp.linux-armv7l-cpython-311 creating build/temp.linux-armv7l-cpython-311/tombo arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -Werror=implicit-function-declaration -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tombo-1.5.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -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-armv7l-cpython-311/tombo/_c_dynamic_programming.o cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 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:1262: /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 " \ | ^~~~~~~ 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*)', inlined from 'PyObject* __pyx_pw_5tombo_22_c_dynamic_programming_3c_reg_z_scores(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)' at tombo/_c_dynamic_programming.cpp:5869:69: tombo/_c_dynamic_programming.cpp:6684:36: warning: '__pyx_v_np_max_half_z_score' may be used uninitialized [-Wmaybe-uninitialized] 6684 | __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: In function 'PyObject* __pyx_pw_5tombo_22_c_dynamic_programming_3c_reg_z_scores(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)': tombo/_c_dynamic_programming.cpp:5895:51: note: '__pyx_v_np_max_half_z_score' was declared here 5895 | __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 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tombo-1.5.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-cpython-311/tombo/_c_dynamic_programming.o -L/usr/lib/arm-linux-gnueabihf -o /build/reproducible-path/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 -Werror=implicit-function-declaration -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tombo-1.5.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c tombo/_c_helper.cpp -o build/temp.linux-armv7l-cpython-311/tombo/_c_helper.o cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 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:1262: /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 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tombo-1.5.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-cpython-311/tombo/_c_helper.o -L/usr/lib/arm-linux-gnueabihf -o /build/reproducible-path/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 v7.2.6 making output directory... done building [mo]: targets for 0 po files that are out of date writing output... 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... [ 55%] plotting reading sources... [ 64%] resquiggle reading sources... [ 73%] rna reading sources... [ 82%] text_output reading sources... [ 91%] 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 copying assets... copying static files... done copying extra files... done 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... [ 55%] plotting writing output... [ 64%] resquiggle writing output... [ 73%] rna writing output... [ 82%] text_output writing output... [ 91%] tombo writing output... [100%] tutorials generating indices... genindex done highlighting module code... writing additional pages... search done copying images... [ 4%] _images/testing_method_comparison.png copying images... [ 9%] _images/alt_density_est.png copying images... [ 13%] _images/old_correction_plot.png copying images... [ 17%] _images/outlier_robust_llr.gif copying images... [ 22%] _images/dampened_fraction.png copying images... [ 26%] _images/single_samp.png copying images... [ 30%] _images/sample_comp.png copying images... [ 35%] _images/model_comp.png copying images... [ 39%] _images/alt_model_comp.png copying images... [ 43%] _images/boxplot.png copying images... [ 48%] _images/quantile.png copying images... [ 52%] _images/density.png copying images... [ 57%] _images/pre_read_5mC.png copying images... [ 61%] _images/per_read_do_novo.png copying images... [ 65%] _images/stat_dist.png copying images... [ 70%] _images/kmer_levels.png copying images... [ 74%] _images/roc.png copying images... [ 78%] _images/per_read_stat_dist.png copying images... [ 83%] _images/begin_half_z_scores.png copying images... [ 87%] _images/begin_forward_pass.png copying images... [ 91%] _images/adaptive_half_z_scores.png copying images... [ 96%] _images/adaptive_forward_pass.png copying images... [100%] _images/stat_dist_null.png 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/reproducible-path/tombo-1.5.1' dh_auto_test -O--buildsystem=pybuild I: pybuild base:311: cd /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build; python3.12 -m nose2 -v ---------------------------------------------------------------------- Ran 0 tests in 0.000s OK I: pybuild base:311: cd /build/reproducible-path/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:311: /usr/bin/python3.12 setup.py install --root /build/reproducible-path/tombo-1.5.1/debian/tmp running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() 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:204: _Warning: Package 'tombo.R_scripts' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'tombo.R_scripts' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'tombo.R_scripts' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'tombo.R_scripts' to be distributed and are already explicitly excluding 'tombo.R_scripts' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'tombo.tombo_models' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'tombo.tombo_models' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'tombo.tombo_models' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'tombo.tombo_models' to be distributed and are already explicitly excluding 'tombo.tombo_models' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) running build_ext running install_lib creating /build/reproducible-path/tombo-1.5.1/debian/tmp/usr creating /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib creating /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12 creating /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages creating /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/_preprocess.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/_c_helper.cpython-312-arm-linux-gnueabihf.so -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo creating /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_models/tombo.RNA.180mV.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_models/tombo.DNA.6mA.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_models/tombo.DNA.dam.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_models/tombo.RNA.5mC.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_models/tombo.DNA.CpG.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_models/tombo.DNA.dcm.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_models/tombo.DNA.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_models/tombo.RNA.200mV.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_models/tombo.DNA.5mC.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/_default_parameters.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_stats.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/_event_resquiggle.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/_filter_reads.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/_version.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/_c_dynamic_programming.cpython-312-arm-linux-gnueabihf.so -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo creating /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts/plotReadCorr.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts/plotROC.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts/plotROCPerRead.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts/debugRawDP.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts/plotMotifStats.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts/plotGroupComp.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts/plotSingleRead.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts/plotSingleRun.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts/plotMultiReadCorr.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts/plotSigMDS.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts/plotPerReadStats.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts/debugDP.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts/debugFit.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts/plotKmerDist.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/R_scripts/plotModelComp.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/_option_parsers.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/__main__.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/_c_dynamic_programming.pyx -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/__init__.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/resquiggle.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/_text_output_commands.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/_c_helper.pyx -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/tombo_helper.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.12/build/tombo/_plot_commands.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/_preprocess.py to _preprocess.cpython-312.pyc /usr/lib/python3.12/dist-packages/tombo/_preprocess.py:156: SyntaxWarning: invalid escape sequence '\+' byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/_default_parameters.py to _default_parameters.cpython-312.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/tombo_stats.py to tombo_stats.cpython-312.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/_event_resquiggle.py to _event_resquiggle.cpython-312.pyc /usr/lib/python3.12/dist-packages/tombo/_event_resquiggle.py:68: SyntaxWarning: invalid escape sequence '\d' byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/_filter_reads.py to _filter_reads.cpython-312.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/_version.py to _version.cpython-312.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/_option_parsers.py to _option_parsers.cpython-312.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/__main__.py to __main__.cpython-312.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/resquiggle.py to resquiggle.cpython-312.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/_text_output_commands.py to _text_output_commands.cpython-312.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/tombo_helper.py to tombo_helper.cpython-312.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/tombo/_plot_commands.py to _plot_commands.cpython-312.pyc /usr/lib/python3.12/dist-packages/tombo/_plot_commands.py:2253: SyntaxWarning: invalid escape sequence '\|' running install_egg_info Copying ont_tombo.egg-info to /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.12/dist-packages/ont_tombo-1.5.1.egg-info Skipping SOURCES.txt running install_scripts Installing tombo script to /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/bin I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/tombo-1.5.1/debian/tmp running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() 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:204: _Warning: Package 'tombo.R_scripts' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'tombo.R_scripts' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'tombo.R_scripts' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'tombo.R_scripts' to be distributed and are already explicitly excluding 'tombo.R_scripts' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'tombo.tombo_models' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'tombo.tombo_models' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'tombo.tombo_models' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'tombo.tombo_models' to be distributed and are already explicitly excluding 'tombo.tombo_models' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) running build_ext running install_lib creating /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11 creating /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages creating /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_preprocess.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo creating /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.RNA.180mV.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.6mA.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.dam.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.RNA.5mC.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.CpG.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.dcm.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.RNA.200mV.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.5mC.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_default_parameters.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_stats.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_event_resquiggle.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_c_dynamic_programming.cpython-311-arm-linux-gnueabihf.so -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_filter_reads.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_version.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo creating /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotReadCorr.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotROC.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotROCPerRead.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/debugRawDP.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotMotifStats.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotGroupComp.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotSingleRead.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotSingleRun.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotMultiReadCorr.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotSigMDS.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotPerReadStats.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/debugDP.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/debugFit.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotKmerDist.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotModelComp.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_option_parsers.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/__main__.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_c_dynamic_programming.pyx -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_c_helper.cpython-311-arm-linux-gnueabihf.so -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/__init__.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/resquiggle.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_text_output_commands.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_c_helper.pyx -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/tombo_helper.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.11/build/tombo/_plot_commands.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_preprocess.py to _preprocess.cpython-311.pyc byte-compiling /build/reproducible-path/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/reproducible-path/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/reproducible-path/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/reproducible-path/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/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_version.py to _version.cpython-311.pyc byte-compiling /build/reproducible-path/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/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/__main__.py to __main__.cpython-311.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/resquiggle.py to resquiggle.cpython-311.pyc byte-compiling /build/reproducible-path/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/reproducible-path/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/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_plot_commands.py to _plot_commands.cpython-311.pyc running install_egg_info Copying ont_tombo.egg-info to /build/reproducible-path/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/reproducible-path/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 debian/rules override_dh_python3 make[1]: Entering directory '/build/reproducible-path/tombo-1.5.1' dh_python3 I: dh_python3 tools:113: replacing shebang in debian/tombo/usr/share/tombo/scripts/dump_per_read_statistics.py dh_numpy3 make[1]: Leaving directory '/build/reproducible-path/tombo-1.5.1' 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/reproducible-path/tombo-1.5.1' dh_fixperms find debian -name "*.model" -exec chmod -x \{\} \; make[1]: Leaving directory '/build/reproducible-path/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 ${python3:Depends} unused, but is defined 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' in '../tombo_1.5.1-6_armhf.deb'. dpkg-deb: building package 'tombo-doc' in '../tombo-doc_1.5.1-6_all.deb'. dpkg-deb: building package 'tombo-dbgsym' in '../tombo-dbgsym_1.5.1-6_armhf.deb'. dpkg-genbuildinfo --build=binary -O../tombo_1.5.1-6_armhf.buildinfo dpkg-genchanges --build=binary -O../tombo_1.5.1-6_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: 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/5079 and its subdirectories I: Current time: Sat May 4 17:58:27 -12 2024 I: pbuilder-time-stamp: 1714888707 Sun May 5 05:59:49 UTC 2024 I: 1st build successful. Starting 2nd build on remote node wbq0-armhf-rb.debian.net. Sun May 5 05:59:49 UTC 2024 I: Preparing to do remote build '2' on wbq0-armhf-rb.debian.net. Sun May 5 06:25:13 UTC 2024 I: Deleting $TMPDIR on wbq0-armhf-rb.debian.net. Sun May 5 06:25:16 UTC 2024 I: tombo_1.5.1-6_armhf.changes: Format: 1.8 Date: Mon, 11 Dec 2023 21:22:16 +0100 Source: tombo Binary: tombo tombo-dbgsym tombo-doc Architecture: armhf all Version: 1.5.1-6 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: tombo - identification of modified nucleotides from raw nanopore sequenci tombo-doc - identification of modified nucleotides from raw nanopore sequenci Closes: 1058010 Changes: tombo (1.5.1-6) unstable; urgency=medium . * No runtime dependency from cython Closes: #1058010 * execute dh_numpy3 after dh_python3 to assign python3-numpy-abi Checksums-Sha1: fc8f125489259fba46b4d8cf5de23dbd901ecfea 1025664 tombo-dbgsym_1.5.1-6_armhf.deb 1bd34891bbe47b7891102ee38f73f33020bb3631 21732384 tombo-doc_1.5.1-6_all.deb baf1f7e7a369fa84f2b9fd94a54b5fac9c50c06d 8820 tombo_1.5.1-6_armhf.buildinfo bcbe7da76da83c954ef66db72724e69e5af799a1 496676 tombo_1.5.1-6_armhf.deb Checksums-Sha256: c8422a9c677be15706d676e66db2f2eb3944577a27ee5bd30d4afea48ae311e6 1025664 tombo-dbgsym_1.5.1-6_armhf.deb 838ee0f07edecc62fd0a0b2a88da70050cea139fc96aca3d6701de087b8aaff4 21732384 tombo-doc_1.5.1-6_all.deb 6b9f8a2960712b66f04fbe6500bd34efd075ffc0779a3174dec1ac6256a9fff7 8820 tombo_1.5.1-6_armhf.buildinfo 89f858791feec81b8177b95c6e0bc52aebd30a9315d66a0b01e0ddbc98c40ff2 496676 tombo_1.5.1-6_armhf.deb Files: 2e24e7698ec5c4a08e34d6a9d56b81a1 1025664 debug optional tombo-dbgsym_1.5.1-6_armhf.deb b54facc1fa8cd19ff3a26f8fef71b71f 21732384 doc optional tombo-doc_1.5.1-6_all.deb 24b172a25bed211b0ae1ad3664ab37c9 8820 science optional tombo_1.5.1-6_armhf.buildinfo 0071dbc028b285abbde472e453d37f2f 496676 science optional tombo_1.5.1-6_armhf.deb Sun May 5 06:25:17 UTC 2024 I: diffoscope 265 will be used to compare the two builds: Running as unit: rb-diffoscope-armhf_20-2985.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.Hq2bXAJf/tombo_1.5.1-6.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.Hq2bXAJf/tombo_1.5.1-6.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.Hq2bXAJf/tombo_1.5.1-6.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.Hq2bXAJf/b1/tombo_1.5.1-6_armhf.changes /srv/reproducible-results/rbuild-debian/r-b-build.Hq2bXAJf/b2/tombo_1.5.1-6_armhf.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.639s) 0.639s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.290s) 0.290s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 984ms CPU time consumed: 985ms Sun May 5 06:25:19 UTC 2024 I: diffoscope 265 found no differences in the changes files, and a .buildinfo file also exists. Sun May 5 06:25:19 UTC 2024 I: tombo from unstable built successfully and reproducibly on armhf. Sun May 5 06:25:20 UTC 2024 I: Submitting .buildinfo files to external archives: Sun May 5 06:25:20 UTC 2024 I: Submitting 12K b1/tombo_1.5.1-6_armhf.buildinfo.asc Sun May 5 06:25:21 UTC 2024 I: Submitting 12K b2/tombo_1.5.1-6_armhf.buildinfo.asc Sun May 5 06:25:22 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun May 5 06:25:22 UTC 2024 I: Done submitting .buildinfo files. Sun May 5 06:25:22 UTC 2024 I: Removing signed tombo_1.5.1-6_armhf.buildinfo.asc files: removed './b1/tombo_1.5.1-6_armhf.buildinfo.asc' removed './b2/tombo_1.5.1-6_armhf.buildinfo.asc'