Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/t/tombo/tombo_1.5.1-2+b2_amd64.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/tombo-1.5.1-2+b2leu9a3nc/tombo_1.5.1-2+b2_amd64.buildinfo Get source package info: tombo=1.5.1-2 Source URL: http://snapshot.notset.fr/mr/package/tombo/1.5.1-2/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=autoconf=2.69-11.1 automake=1:1.16.3-1 autopoint=0.19.8.1-10 autotools-dev=20180224.1 base-files=11 base-passwd=3.5.48 bash=5.1~rc3-1 binutils=2.35.1-4 binutils-common=2.35.1-4 binutils-x86-64-linux-gnu=2.35.1-4 bsdextrautils=2.36.1-2 bsdutils=1:2.36.1-2 build-essential=12.8 bzip2=1.0.8-4 ca-certificates=20200601 coreutils=8.32-4+b1 cpp=4:10.2.0-1 cpp-10=10.2.0-23 cython3=0.29.21-3 dash=0.5.11+git20200708+dd9ef66-2 debconf=1.5.74 debhelper=13.3 debianutils=4.11.2 dh-autoreconf=19 dh-python=4.20201102 dh-strip-nondeterminism=1.9.0-1 diffutils=1:3.7-3 docutils-common=0.16+dfsg-3 docutils-doc=0.16+dfsg-3 dpkg=1.20.5 dpkg-dev=1.20.5 dwz=0.13+20201015-2 file=1:5.39-3 findutils=4.7.0+git20201010-2 fonts-font-awesome=5.0.10+really4.7.0~dfsg-2 fonts-lato=2.0-2 fonts-mathjax=2.7.9+dfsg-1 g++=4:10.2.0-1 g++-10=10.2.0-23 gcc=4:10.2.0-1 gcc-10=10.2.0-23 gcc-10-base=10.2.0-23 gettext=0.19.8.1-10 gettext-base=0.19.8.1-10 grep=3.6-1 groff-base=1.22.4-5 gzip=1.10-2 hostname=3.23 init-system-helpers=1.59 intltool-debian=0.35.0+20060710.5 libacl1=2.2.53-8 libaec0=1.0.4-1 libarchive-zip-perl=1.68-1 libasan6=10.2.0-23 libatomic1=10.2.0-23 libattr1=1:2.4.48-5 libaudit-common=1:2.8.5-3.1 libaudit1=1:2.8.5-3.1 libbinutils=2.35.1-4 libblas3=3.9.0-3 libblkid1=2.36.1-2 libbz2-1.0=1.0.8-4 libc-bin=2.31-5 libc-dev-bin=2.31-5 libc6=2.31-5 libc6-dev=2.31-5 libcap-ng0=0.7.9-2.2+b1 libcc1-0=10.2.0-23 libcom-err2=1.45.6-1 libcroco3=0.6.13-1 libcrypt-dev=1:4.4.17-1 libcrypt1=1:4.4.17-1 libctf-nobfd0=2.35.1-4 libctf0=2.35.1-4 libdb5.3=5.3.28+dfsg1-0.6 libdebconfclient0=0.255 libdebhelper-perl=13.3 libdpkg-perl=1.20.5 libelf1=0.182-1 libexpat1=2.2.10-1 libexpat1-dev=2.2.10-1 libffi7=3.3-5 libfile-stripnondeterminism-perl=1.9.0-1 libgcc-10-dev=10.2.0-23 libgcc-s1=10.2.0-23 libgcrypt20=1.8.7-2 libgdbm-compat4=1.18.1-5.1 libgdbm6=1.18.1-5.1 libgfortran5=10.2.0-23 libglib2.0-0=2.66.3-2 libgmp10=2:6.2.1+dfsg-1 libgomp1=10.2.0-23 libgpg-error0=1.38-2 libgssapi-krb5-2=1.18.3-4 libhdf5-103-1=1.10.6+repack-2 libhdf5-hl-100=1.10.6+repack-2 libicu67=67.1-4 libisl23=0.23-1 libitm1=10.2.0-23 libjs-jquery=3.5.1+dfsg+~3.5.4-3 libjs-mathjax=2.7.9+dfsg-1 libjs-sphinxdoc=3.3.1-1 libjs-underscore=1.9.1~dfsg-1 libk5crypto3=1.18.3-4 libkeyutils1=1.6.1-2 libkrb5-3=1.18.3-4 libkrb5support0=1.18.3-4 liblapack3=3.9.0-3 liblbfgsb0=3.0+dfsg.3-9 liblsan0=10.2.0-23 liblz4-1=1.9.2-2 liblzf1=3.6-3 liblzma5=5.2.4-1+b1 libmagic-mgc=1:5.39-3 libmagic1=1:5.39-3 libmount1=2.36.1-2 libmpc3=1.2.0-1 libmpfr6=4.1.0-3 libncursesw6=6.2+20201114-1 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libpam-modules=1.3.1-5 libpam-modules-bin=1.3.1-5 libpam-runtime=1.3.1-5 libpam0g=1.3.1-5 libpcre2-8-0=10.35-2 libpcre3=2:8.39-13 libperl5.32=5.32.0-5 libpipeline1=1.5.3-1 libpython3-all-dev=3.9.0-4 libpython3-dev=3.9.0-4 libpython3-stdlib=3.9.0-4 libpython3.8-minimal=3.8.6-1 libpython3.8-stdlib=3.8.6-1 libpython3.9=3.9.1~rc1-2 libpython3.9-dev=3.9.1~rc1-2 libpython3.9-minimal=3.9.1~rc1-2 libpython3.9-stdlib=3.9.1~rc1-2 libquadmath0=10.2.0-23 libreadline8=8.1~rc3-1 libseccomp2=2.5.0-3 libselinux1=3.1-2+b1 libsigsegv2=2.12-2 libsmartcols1=2.36.1-2 libsqlite3-0=3.34.0-1 libssl1.1=1.1.1h-1 libstdc++-10-dev=10.2.0-23 libstdc++6=10.2.0-23 libsub-override-perl=0.09-2 libsystemd0=247.1-3 libsz2=1.0.4-1 libtinfo6=6.2+20201114-1 libtirpc-common=1.2.6-3 libtirpc-dev=1.2.6-3 libtirpc3=1.2.6-3 libtool=2.4.6-14 libtsan0=10.2.0-23 libubsan1=10.2.0-23 libuchardet0=0.0.7-1 libudev1=247.1-3 libunistring2=0.9.10-4 libuuid1=2.36.1-2 libxml2=2.9.10+dfsg-6.3 libzstd1=1.4.5+dfsg-4 linux-libc-dev=5.9.11-1 login=1:4.8.1-1 lsb-base=11.1.0 m4=1.4.18-4 mailcap=3.67 make=4.3-4 man-db=2.9.3-2 mawk=1.3.4.20200120-2 media-types=1.0.1 mime-support=3.66 ncurses-base=6.2+20201114-1 ncurses-bin=6.2+20201114-1 node-html5shiv=3.7.3+dfsg-3 node-jquery=3.5.1+dfsg+~3.5.4-3 openssl=1.1.1h-1 patch=2.7.6-6 perl=5.32.0-5 perl-base=5.32.0-5 perl-modules-5.32=5.32.0-5 po-debconf=1.0.21 python-babel-localedata=2.8.0+dfsg.1-4 python3=3.9.0-4 python3-alabaster=0.7.8-1.1 python3-all=3.9.0-4 python3-all-dev=3.9.0-4 python3-babel=2.8.0+dfsg.1-4 python3-certifi=2020.6.20-1 python3-chardet=3.0.4-7 python3-coverage=5.1+dfsg.1-2+b1 python3-decorator=4.4.2-2 python3-dev=3.9.0-4 python3-distutils=3.8.6-1 python3-doc=3.9.0-4 python3-docutils=0.16+dfsg-3 python3-h5py=2.10.0-9 python3-h5py-serial=2.10.0-9+b1 python3-idna=2.10-1 python3-imagesize=1.2.0-2 python3-jinja2=2.11.2-1 python3-lib2to3=3.8.6-1 python3-mappy=2.17+dfsg-12+b1 python3-markupsafe=1.1.1-1+b2 python3-minimal=3.9.0-4 python3-nose2=0.9.2-1 python3-numpy=1:1.19.4-1 python3-packaging=20.4-1 python3-pkg-resources=50.3.0-1 python3-pygments=2.7.1+dfsg-1 python3-pyparsing=2.4.7-1 python3-requests=2.24.0+dfsg-1 python3-roman=2.0.0-5 python3-scipy=1.5.4-1 python3-setuptools=50.3.0-1 python3-six=1.15.0-2 python3-snowballstemmer=2.0.0-2 python3-sphinx=3.3.1-1 python3-sphinx-argparse=0.2.2-3 python3-sphinx-rtd-theme=0.5.0+dfsg-1 python3-tqdm=4.51.0-1 python3-tz=2020.4-2 python3-urllib3=1.25.11-1 python3.8=3.8.6-1 python3.8-minimal=3.8.6-1 python3.9=3.9.1~rc1-2 python3.9-dev=3.9.1~rc1-2 python3.9-doc=3.9.1~rc1-2 python3.9-minimal=3.9.1~rc1-2 readline-common=8.1~rc3-1 sed=4.7-1 sensible-utils=0.0.12+nmu1 sgml-base=1.30 sphinx-common=3.3.1-1 sphinx-doc=3.3.1-1 sphinx-rtd-theme-common=0.5.0+dfsg-1 sysvinit-utils=2.96-5 tar=1.32+dfsg-1 tzdata=2020d-1 util-linux=2.36.1-2 xml-core=0.18+nmu1 xz-utils=5.2.4-1+b1 zlib1g=1:1.2.11.dfsg-2 zlib1g-dev=1:1.2.11.dfsg-2 --variant=apt --aptopt=Acquire::Check-Valid-Until "false" --aptopt=Acquire::http::Dl-Limit "1000"; --aptopt=Acquire::https::Dl-Limit "1000"; --aptopt=Acquire::Retries "5"; --aptopt=APT::Get::allow-downgrades "true"; --keyring=/usr/share/keyrings/ --essential-hook=chroot "$1" sh -c "apt-get --yes install fakeroot util-linux" --essential-hook=copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ --essential-hook=chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20201207T085039Z/ unstable main' >> /etc/apt/sources.list && apt-get update" --customize-hook=chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash --customize-hook=chroot "$1" env sh -c "apt-get source --only-source -d tombo=1.5.1-2 && mkdir -p /build/tombo-IZKr8v && dpkg-source --no-check -x /*.dsc /build/tombo-IZKr8v/tombo-1.5.1 && cd /build/tombo-IZKr8v/tombo-1.5.1 && { printf '%s' 'tombo (1.5.1-2+b2) sid; urgency=low, binary-only=yes * Binary-only non-maintainer upload for amd64; no source changes. * Python 3.9 only -- amd64 / i386 Build Daemon (x86-ubc-01) Mon, 07 Dec 2020 08:08:22 +0000 '; cat debian/changelog; } > debian/changelog.debrebuild && mv debian/changelog.debrebuild debian/changelog && chown -R builduser:builduser /build/tombo-IZKr8v" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/tombo-IZKr8v/tombo-1.5.1 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1607328502" dpkg-buildpackage -uc -a amd64 --build=any" --customize-hook=sync-out /build/tombo-IZKr8v /tmp/tombo-1.5.1-2+b2leu9a3nc bullseye /dev/null deb http://snapshot.notset.fr/archive/debian/20201207T085039Z unstable main I: automatically chosen mode: root I: chroot architecture amd64 is equal to the host's architecture I: automatically chosen format: tar I: using /tmp/mmdebstrap.WndCk5Ongt as tempdir I: running apt-get update... I: downloading packages with apt... I: extracting archives... I: installing essential packages... I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "apt-get --yes install fakeroot util-linux"' exec /tmp/mmdebstrap.WndCk5Ongt Reading package lists... Building dependency tree... util-linux is already the newest version (2.36.1-2). The following NEW packages will be installed: fakeroot libfakeroot 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 134 kB of archives. After this operation, 397 kB of additional disk space will be used. Get:1 http://snapshot.notset.fr/archive/debian/20201207T085039Z unstable/main amd64 libfakeroot amd64 1.25.3-1.1 [47.0 kB] Get:2 http://snapshot.notset.fr/archive/debian/20201207T085039Z unstable/main amd64 fakeroot amd64 1.25.3-1.1 [87.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 134 kB in 0s (677 kB/s) Selecting previously unselected package libfakeroot:amd64. (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 ... 4614 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.25.3-1.1_amd64.deb ... Unpacking libfakeroot:amd64 (1.25.3-1.1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.25.3-1.1_amd64.deb ... Unpacking fakeroot (1.25.3-1.1) ... Setting up libfakeroot:amd64 (1.25.3-1.1) ... Setting up fakeroot (1.25.3-1.1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.31-5) ... I: running special hook: copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20201207T085039Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.WndCk5Ongt Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm InRelease [81.6 kB] Hit:2 http://snapshot.notset.fr/archive/debian/20201207T085039Z unstable InRelease Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources [11.4 MB] Get:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages [11.1 MB] Fetched 22.6 MB in 20s (1149 kB/s) Reading package lists... I: installing remaining packages inside the chroot... I: running --customize-hook in shell: sh -c 'chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash' exec /tmp/mmdebstrap.WndCk5Ongt I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d tombo=1.5.1-2 && mkdir -p /build/tombo-IZKr8v && dpkg-source --no-check -x /*.dsc /build/tombo-IZKr8v/tombo-1.5.1 && cd /build/tombo-IZKr8v/tombo-1.5.1 && { printf '%s' 'tombo (1.5.1-2+b2) sid; urgency=low, binary-only=yes * Binary-only non-maintainer upload for amd64; no source changes. * Python 3.9 only -- amd64 / i386 Build Daemon (x86-ubc-01) Mon, 07 Dec 2020 08:08:22 +0000 '; cat debian/changelog; } > debian/changelog.debrebuild && mv debian/changelog.debrebuild debian/changelog && chown -R builduser:builduser /build/tombo-IZKr8v"' exec /tmp/mmdebstrap.WndCk5Ongt Reading package lists... NOTICE: 'tombo' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/tombo.git Please use: git clone https://salsa.debian.org/med-team/tombo.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 22.3 MB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main tombo 1.5.1-2 (dsc) [2292 B] Get:2 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main tombo 1.5.1-2 (tar) [22.3 MB] Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main tombo 1.5.1-2 (diff) [6344 B] Fetched 22.3 MB in 18s (1249 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'tombo_1.5.1-2.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting tombo in /build/tombo-IZKr8v/tombo-1.5.1 dpkg-source: info: unpacking tombo_1.5.1.orig.tar.gz dpkg-source: info: unpacking tombo_1.5.1-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying no_future.patch dpkg-source: info: applying 2to3.patch dpkg-source: info: applying mathjax.patch I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/tombo-IZKr8v/tombo-1.5.1 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1607328502" dpkg-buildpackage -uc -a amd64 --build=any"' exec /tmp/mmdebstrap.WndCk5Ongt dpkg-buildpackage: info: source package tombo dpkg-buildpackage: info: source version 1.5.1-2+b2 dpkg-buildpackage: info: source distribution sid dpkg-buildpackage: info: source changed by amd64 / i386 Build Daemon (x86-ubc-01) dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --with python3,sphinxdoc --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:232: python3.9 setup.py clean running clean removing '/build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.9' does not exist -- can't clean it dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary-arch dh binary-arch --with python3,sphinxdoc --buildsystem=pybuild dh_update_autotools_config -a -O--buildsystem=pybuild dh_autoreconf -a -O--buildsystem=pybuild dh_auto_configure -a -O--buildsystem=pybuild I: pybuild base:232: python3.9 setup.py config running config debian/rules override_dh_auto_build make[1]: Entering directory '/build/tombo-IZKr8v/tombo-1.5.1' dh_auto_build I: pybuild base:232: /usr/bin/python3 setup.py build running build running build_py creating /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo copying tombo/__init__.py -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo copying tombo/_text_output_commands.py -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo copying tombo/_plot_commands.py -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo copying tombo/_preprocess.py -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo copying tombo/_filter_reads.py -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo copying tombo/tombo_helper.py -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo copying tombo/resquiggle.py -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo copying tombo/_default_parameters.py -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo copying tombo/__main__.py -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo copying tombo/_event_resquiggle.py -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo copying tombo/_version.py -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo copying tombo/tombo_stats.py -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo copying tombo/_option_parsers.py -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/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' writing manifest file 'ont_tombo.egg-info/SOURCES.txt' copying tombo/_c_dynamic_programming.pyx -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo copying tombo/_c_helper.pyx -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo creating /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts copying tombo/R_scripts/debugDP.R -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts copying tombo/R_scripts/debugFit.R -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts copying tombo/R_scripts/debugRawDP.R -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts copying tombo/R_scripts/plotGroupComp.R -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts copying tombo/R_scripts/plotKmerDist.R -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts copying tombo/R_scripts/plotModelComp.R -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts copying tombo/R_scripts/plotMotifStats.R -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts copying tombo/R_scripts/plotMultiReadCorr.R -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts copying tombo/R_scripts/plotPerReadStats.R -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts copying tombo/R_scripts/plotROC.R -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts copying tombo/R_scripts/plotROCPerRead.R -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts copying tombo/R_scripts/plotReadCorr.R -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts copying tombo/R_scripts/plotSigMDS.R -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts copying tombo/R_scripts/plotSingleRead.R -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts copying tombo/R_scripts/plotSingleRun.R -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts creating /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.5mC.model -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.6mA.model -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.CpG.model -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.dam.model -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.dcm.model -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.model -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_models copying tombo/tombo_models/tombo.RNA.180mV.model -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_models copying tombo/tombo_models/tombo.RNA.200mV.model -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_models copying tombo/tombo_models/tombo.RNA.5mC.model -> /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_models running build_ext cythoning tombo/_c_dynamic_programming.pyx to tombo/_c_dynamic_programming.cpp /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /build/tombo-IZKr8v/tombo-1.5.1/tombo/_c_dynamic_programming.pyx tree = Parsing.p_module(s, pxd, full_module_name) cythoning tombo/_c_helper.pyx to tombo/_c_helper.cpp /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /build/tombo-IZKr8v/tombo-1.5.1/tombo/_c_helper.pyx tree = Parsing.p_module(s, pxd, full_module_name) building 'tombo._c_dynamic_programming' extension creating build creating build/temp.linux-x86_64-3.9 creating build/temp.linux-x86_64-3.9/tombo x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/tombo-IZKr8v/tombo-1.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.9 -c tombo/_c_dynamic_programming.cpp -o build/temp.linux-x86_64-3.9/tombo/_c_dynamic_programming.o In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1822, 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:4, from tombo/_c_dynamic_programming.cpp:624: /usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ tombo/_c_dynamic_programming.cpp: In function ‘PyObject* __pyx_pf_5tombo_22_c_dynamic_programming_2c_reg_z_scores(PyObject*, PyArrayObject*, PyArrayObject*, PyArrayObject*, PyArrayObject*, __pyx_t_5tombo_22_c_dynamic_programming_DTYPE_INT_t, __pyx_t_5tombo_22_c_dynamic_programming_DTYPE_INT_t, __pyx_t_5tombo_22_c_dynamic_programming_DTYPE_INT_t, __pyx_t_5tombo_22_c_dynamic_programming_DTYPE_INT_t, PyObject*)’: tombo/_c_dynamic_programming.cpp:3638:36: warning: ‘__pyx_v_np_max_half_z_score’ may be used uninitialized in this function [-Wmaybe-uninitialized] 3638 | __pyx_t_20 = PyFloat_FromDouble(__pyx_v_np_max_half_z_score); if (unlikely(!__pyx_t_20)) __PYX_ERR(0, 93, __pyx_L1_error) | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ x86_64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/build/tombo-IZKr8v/tombo-1.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.9/tombo/_c_dynamic_programming.o -o /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/_c_dynamic_programming.cpython-39-x86_64-linux-gnu.so building 'tombo._c_helper' extension x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/tombo-IZKr8v/tombo-1.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.9 -c tombo/_c_helper.cpp -o build/temp.linux-x86_64-3.9/tombo/_c_helper.o In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1822, 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:4, from tombo/_c_helper.cpp:624: /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 " \ | ^~~~~~~ x86_64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/build/tombo-IZKr8v/tombo-1.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.9/tombo/_c_helper.o -o /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/_c_helper.cpython-39-x86_64-linux-gnu.so sphinx-build -N -bhtml docs docs/build Running Sphinx v3.3.1 Creating file ./tombo.rst. making output directory... done building [mo]: targets for 0 po files that are out of date building [html]: targets for 11 source files that are out of date updating environment: [new config] 11 added, 0 changed, 0 removed reading sources... [ 9%] examples reading sources... [ 18%] filtering reading sources... [ 27%] index reading sources... [ 36%] model_training reading sources... [ 45%] modified_base_detection reading sources... [ 54%] plotting reading sources... [ 63%] resquiggle reading sources... [ 72%] rna reading sources... [ 81%] text_output reading sources... [ 90%] tombo reading sources... [100%] tutorials WARNING: autodoc: failed to import module 'tombo'; the following exception was raised: No module named 'tombo' WARNING: autodoc: failed to import module 'resquiggle' from module 'tombo'; the following exception was raised: No module named 'tombo' WARNING: autodoc: failed to import module 'tombo_helper' from module 'tombo'; the following exception was raised: No module named 'tombo' WARNING: autodoc: failed to import module 'tombo_stats' from module 'tombo'; the following exception was raised: No module named 'tombo' looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done writing output... [ 9%] examples writing output... [ 18%] filtering writing output... [ 27%] index writing output... [ 36%] model_training writing output... [ 45%] modified_base_detection writing output... [ 54%] plotting writing output... [ 63%] resquiggle writing output... [ 72%] rna writing output... [ 81%] text_output writing output... [ 90%] tombo writing output... [100%] tutorials generating indices... genindex done writing additional pages... search done copying images... [ 4%] _images/testing_method_comparison.png copying images... [ 8%] _images/alt_density_est.png copying images... [ 13%] _images/old_correction_plot.png copying images... [ 17%] _images/outlier_robust_llr.gif copying images... [ 21%] _images/dampened_fraction.png copying images... [ 26%] _images/single_samp.png copying images... [ 30%] _images/sample_comp.png copying images... [ 34%] _images/model_comp.png copying images... [ 39%] _images/alt_model_comp.png copying images... [ 43%] _images/boxplot.png copying images... [ 47%] _images/quantile.png copying images... [ 52%] _images/density.png copying images... [ 56%] _images/pre_read_5mC.png copying images... [ 60%] _images/per_read_do_novo.png copying images... [ 65%] _images/stat_dist.png copying images... [ 69%] _images/kmer_levels.png copying images... [ 73%] _images/roc.png copying images... [ 78%] _images/per_read_stat_dist.png copying images... [ 82%] _images/begin_half_z_scores.png copying images... [ 86%] _images/begin_forward_pass.png copying images... [ 91%] _images/adaptive_half_z_scores.png copying images... [ 95%] _images/adaptive_forward_pass.png copying images... [100%] _images/stat_dist_null.png copying static files... done copying extra files... done dumping search index in English (code: en)... done dumping object inventory... done build succeeded, 4 warnings. The HTML pages are in docs/build. make[1]: Leaving directory '/build/tombo-IZKr8v/tombo-1.5.1' dh_auto_test -a -O--buildsystem=pybuild I: pybuild base:232: cd /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build; python3.9 -m nose2 -v ---------------------------------------------------------------------- Ran 0 tests in 0.000s OK create-stamp debian/debhelper-build-stamp dh_testroot -a -O--buildsystem=pybuild dh_prep -a -O--buildsystem=pybuild dh_auto_install -a -O--buildsystem=pybuild I: pybuild base:232: /usr/bin/python3 setup.py install --root /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp running install 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' writing manifest file 'ont_tombo.egg-info/SOURCES.txt' running build_ext skipping 'tombo/_c_dynamic_programming.cpp' Cython extension (up-to-date) skipping 'tombo/_c_helper.cpp' Cython extension (up-to-date) running install_lib creating /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr creating /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib creating /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9 creating /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages creating /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/__init__.py -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/_text_output_commands.py -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/_plot_commands.py -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/_c_helper.pyx -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/_preprocess.py -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/_filter_reads.py -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_helper.py -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo creating /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/R_scripts copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts/plotROCPerRead.R -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/R_scripts copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts/plotGroupComp.R -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/R_scripts copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts/plotMotifStats.R -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/R_scripts copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts/plotSingleRun.R -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/R_scripts copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts/plotModelComp.R -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/R_scripts copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts/plotReadCorr.R -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/R_scripts copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts/debugRawDP.R -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/R_scripts copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts/plotKmerDist.R -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/R_scripts copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts/plotSigMDS.R -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/R_scripts copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts/debugDP.R -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/R_scripts copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts/plotPerReadStats.R -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/R_scripts copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts/plotMultiReadCorr.R -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/R_scripts copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts/debugFit.R -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/R_scripts copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts/plotSingleRead.R -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/R_scripts copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/R_scripts/plotROC.R -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/R_scripts copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/resquiggle.py -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/_default_parameters.py -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/__main__.py -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/_event_resquiggle.py -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/_c_dynamic_programming.cpython-39-x86_64-linux-gnu.so -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/_version.py -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_stats.py -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/_c_dynamic_programming.pyx -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo creating /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/tombo_models copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_models/tombo.DNA.6mA.model -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/tombo_models copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_models/tombo.DNA.CpG.model -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/tombo_models copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_models/tombo.RNA.5mC.model -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/tombo_models copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_models/tombo.RNA.180mV.model -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/tombo_models copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_models/tombo.DNA.5mC.model -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/tombo_models copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_models/tombo.DNA.model -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/tombo_models copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_models/tombo.DNA.dcm.model -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/tombo_models copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_models/tombo.RNA.200mV.model -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/tombo_models copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/tombo_models/tombo.DNA.dam.model -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/tombo_models copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/_option_parsers.py -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo copying /build/tombo-IZKr8v/tombo-1.5.1/.pybuild/cpython3_3.9/build/tombo/_c_helper.cpython-39-x86_64-linux-gnu.so -> /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo byte-compiling /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/__init__.py to __init__.cpython-39.pyc byte-compiling /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/_text_output_commands.py to _text_output_commands.cpython-39.pyc byte-compiling /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/_plot_commands.py to _plot_commands.cpython-39.pyc byte-compiling /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/_preprocess.py to _preprocess.cpython-39.pyc byte-compiling /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/_filter_reads.py to _filter_reads.cpython-39.pyc byte-compiling /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/tombo_helper.py to tombo_helper.cpython-39.pyc byte-compiling /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/resquiggle.py to resquiggle.cpython-39.pyc byte-compiling /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/_default_parameters.py to _default_parameters.cpython-39.pyc byte-compiling /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/__main__.py to __main__.cpython-39.pyc byte-compiling /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/_event_resquiggle.py to _event_resquiggle.cpython-39.pyc byte-compiling /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/_version.py to _version.cpython-39.pyc byte-compiling /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/tombo_stats.py to tombo_stats.cpython-39.pyc byte-compiling /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/tombo/_option_parsers.py to _option_parsers.cpython-39.pyc running install_egg_info Copying ont_tombo.egg-info to /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/lib/python3.9/dist-packages/ont_tombo-1.5.1.egg-info Skipping SOURCES.txt running install_scripts Installing tombo script to /build/tombo-IZKr8v/tombo-1.5.1/debian/tmp/usr/bin dh_install -a -O--buildsystem=pybuild dh_installdocs -a -O--buildsystem=pybuild dh_sphinxdoc -a -O--buildsystem=pybuild dh_sphinxdoc: warning: Sphinx documentation not found dh_installchangelogs -a -O--buildsystem=pybuild dh_installman -a -O--buildsystem=pybuild dh_python3 -a -O--buildsystem=pybuild I: dh_python3 tools:114: replacing shebang in debian/tombo/usr/share/tombo/scripts/dump_per_read_statistics.py dh_installsystemduser -a -O--buildsystem=pybuild dh_perl -a -O--buildsystem=pybuild dh_link -a -O--buildsystem=pybuild dh_strip_nondeterminism -a -O--buildsystem=pybuild dh_compress -a -O--buildsystem=pybuild debian/rules override_dh_fixperms make[1]: Entering directory '/build/tombo-IZKr8v/tombo-1.5.1' dh_fixperms find debian -name "*.model" -exec chmod -x \{\} \; make[1]: Leaving directory '/build/tombo-IZKr8v/tombo-1.5.1' dh_missing -a -O--buildsystem=pybuild dh_dwz -a -a -O--buildsystem=pybuild dh_strip -a -a -O--buildsystem=pybuild dh_makeshlibs -a -a -O--buildsystem=pybuild dh_shlibdeps -a -a -O--buildsystem=pybuild dh_installdeb -a -O--buildsystem=pybuild dh_gencontrol -a -O--buildsystem=pybuild dpkg-gencontrol: warning: package tombo: substitution variable ${python3:Versions} unused, but is defined dpkg-gencontrol: warning: package tombo: substitution variable ${python3:Versions} unused, but is defined dh_md5sums -a -O--buildsystem=pybuild dh_builddeb -a -O--buildsystem=pybuild dpkg-deb: building package 'tombo-dbgsym' in '../tombo-dbgsym_1.5.1-2+b2_amd64.deb'. dpkg-deb: building package 'tombo' in '../tombo_1.5.1-2+b2_amd64.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../tombo_1.5.1-2+b2_amd64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: running special hook: sync-out /build/tombo-IZKr8v /tmp/tombo-1.5.1-2+b2leu9a3nc I: cleaning package lists and apt cache... I: creating tarball... I: done I: removing tempdir /tmp/mmdebstrap.WndCk5Ongt... I: success in 631.2999 seconds md5: tombo-dbgsym_1.5.1-2+b2_amd64.deb: OK md5: tombo_1.5.1-2+b2_amd64.deb: OK sha1: tombo-dbgsym_1.5.1-2+b2_amd64.deb: OK sha1: tombo_1.5.1-2+b2_amd64.deb: OK sha256: tombo-dbgsym_1.5.1-2+b2_amd64.deb: OK sha256: tombo_1.5.1-2+b2_amd64.deb: OK Checksums: OK