Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/c/circlator/circlator_1.5.6-5_amd64.buildinfo
Use metasnap for getting required timestamps
New buildinfo file: /tmp/circlator-1.5.6-5ihkrgntx/circlator_1.5.6-5_amd64.buildinfo
Get source package info: circlator=1.5.6-5
Source URL: http://snapshot.notset.fr/mr/package/circlator/1.5.6-5/srcfiles?fileinfo=1
env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=adduser=3.118 adwaita-icon-theme=3.38.0-1 aglfn=1.7+git20191031.4036a9c-2 autoconf=2.69-14 automake=1:1.16.3-2 autopoint=0.21-4 autotools-dev=20180224.1+nmu1 bamtools=2.5.1+dfsg-8 base-files=11 base-passwd=3.5.49 bash=5.1-2 binfmt-support=2.2.1-1 binutils=2.35.1-7 binutils-common=2.35.1-7 binutils-x86-64-linux-gnu=2.35.1-7 bsdextrautils=2.36.1-7 bsdutils=1:2.36.1-7 build-essential=12.9 bwa=0.7.17-6 bzip2=1.0.8-4 ca-certificates=20210119 ca-certificates-java=20190909 canu=2.0+dfsg-1 coreutils=8.32-4+b1 cpp=4:10.2.1-1 cpp-10=10.2.1-6 dash=0.5.11+git20200708+dd9ef66-5 dbus=1.12.20-1 dbus-user-session=1.12.20-1 dconf-gsettings-backend=0.38.0-2 dconf-service=0.38.0-2 debconf=1.5.74 debhelper=13.3.3 debianutils=4.11.2 default-jre-headless=2:1.11-72 dh-autoreconf=20 dh-python=4.20201102 dh-strip-nondeterminism=1.11.0-1 diffutils=1:3.7-5 dmsetup=2:1.02.175-2 dpkg=1.20.7.1 dpkg-dev=1.20.7.1 dwz=0.13+20210201-1 fastaq=3.17.0-3 fastjar=2:0.98-7 file=1:5.39-3 findutils=4.8.0-1 fontconfig=2.13.1-4.2 fontconfig-config=2.13.1-4.2 fonts-dejavu-core=2.37-2 g++=4:10.2.1-1 g++-10=10.2.1-6 gawk=1:5.1.0-1 gcc=4:10.2.1-1 gcc-10=10.2.1-6 gcc-10-base=10.2.1-6 gettext=0.21-4 gettext-base=0.21-4 glib-networking=2.66.0-2 glib-networking-common=2.66.0-2 glib-networking-services=2.66.0-2 gnuplot=5.4.1+dfsg1-1 gnuplot-data=5.4.1+dfsg1-1 gnuplot-qt=5.4.1+dfsg1-1 grep=3.6-1 groff-base=1.22.4-6 gsettings-desktop-schemas=3.38.0-2 gtk-update-icon-cache=3.24.24-2 gzip=1.10-2 hicolor-icon-theme=0.17-2 hostname=3.23 init-system-helpers=1.60 intltool-debian=0.35.0+20060710.5 jaligner=1.0+dfsg-7 jarwrapper=0.78 java-common=0.72 libacl1=2.2.53-10 libapache-pom-java=18-1 libapparmor1=2.13.6-9 libarchive-zip-perl=1.68-1 libargon2-1=0~20171227-0.2 libasan6=10.2.1-6 libasound2=1.2.4-1.1 libasound2-data=1.2.4-1.1 libatinject-jsr330-api-java=1.0+ds1-5 libatk-bridge2.0-0=2.38.0-1 libatk1.0-0=2.36.0-2 libatk1.0-data=2.36.0-2 libatomic1=10.2.1-6 libatspi2.0-0=2.38.0-2 libattr1=1:2.4.48-6 libaudit-common=1:3.0-2 libaudit1=1:3.0-2 libavahi-client3=0.8-5 libavahi-common-data=0.8-5 libavahi-common3=0.8-5 libbamtools2.5.1=2.5.1+dfsg-8 libbinutils=2.35.1-7 libblkid1=2.36.1-7 libbrotli1=1.0.9-2+b2 libbsd0=0.11.3-1 libbz2-1.0=1.0.8-4 libc-bin=2.31-9 libc-dev-bin=2.31-9 libc6=2.31-9 libc6-dev=2.31-9 libcairo-gobject2=1.16.0-5 libcairo2=1.16.0-5 libcap-ng0=0.7.9-2.2+b1 libcap2=1:2.44-1 libcc1-0=10.2.1-6 libcolord2=1.4.5-3 libcom-err2=1.46.1-1 libcommons-compress-java=1.20-1 libcommons-parent-java=43-1 libcrypt-dev=1:4.4.17-1 libcrypt1=1:4.4.17-1 libcryptsetup12=2:2.3.4-2 libctf-nobfd0=2.35.1-7 libctf0=2.35.1-7 libcups2=2.3.3op2-3 libcurl3-gnutls=7.74.0-1.1 libdatrie1=0.2.13-1 libdb5.3=5.3.28+dfsg1-0.8 libdbus-1-3=1.12.20-1 libdconf1=0.38.0-2 libdebconfclient0=0.256 libdebhelper-perl=13.3.3 libdeflate0=1.7-1 libdevmapper1.02.1=2:1.02.175-2 libdouble-conversion3=3.1.5-6.1 libdpkg-perl=1.20.7.1 libdrm-amdgpu1=2.4.104-1 libdrm-common=2.4.104-1 libdrm-intel1=2.4.104-1 libdrm-nouveau2=2.4.104-1 libdrm-radeon1=2.4.104-1 libdrm2=2.4.104-1 libedit2=3.1-20191231-2+b1 libegl-mesa0=20.3.4-1 libegl1=1.3.2-1 libelf1=0.183-1 libepoxy0=1.5.5-1 libevdev2=1.11.0+dfsg-1 libexpat1=2.2.10-1 libfastutil-java=8.4.4-1 libffi7=3.3-5 libfile-stripnondeterminism-perl=1.11.0-1 libfilesys-df-perl=0.92-6+b6 libfontconfig1=2.13.1-4.2 libfreetype6=2.10.4+dfsg-1 libfribidi0=1.0.8-2 libgbm1=20.3.4-1 libgcc-10-dev=10.2.1-6 libgcc-s1=10.2.1-6 libgcrypt20=1.8.7-3 libgd3=2.3.0-2 libgdbm-compat4=1.19-2 libgdbm6=1.19-2 libgdk-pixbuf-2.0-0=2.42.2+dfsg-1 libgdk-pixbuf-xlib-2.0-0=2.40.2-2 libgdk-pixbuf2.0-0=2.40.2-2 libgdk-pixbuf2.0-common=2.42.2+dfsg-1 libgl1=1.3.2-1 libgl1-mesa-dri=20.3.4-1 libglapi-mesa=20.3.4-1 libglib2.0-0=2.66.7-1 libglvnd0=1.3.2-1 libglx-mesa0=20.3.4-1 libglx0=1.3.2-1 libgmp10=2:6.2.1+dfsg-1 libgnutls30=3.7.0-7 libgomp1=10.2.1-6 libgpg-error0=1.38-2 libgraphite2-3=1.3.14-1 libgssapi-krb5-2=1.18.3-4 libgtk-3-0=3.24.24-2 libgtk-3-common=3.24.24-2 libguava-java=29.0-6 libgudev-1.0-0=234-1 libharfbuzz0b=2.7.4-1 libhat-trie0=0.1.2-2 libhogweed6=3.7-2 libhts3=1.11-4 libice6=2:1.0.10-1 libicu67=67.1-6 libidn2-0=2.3.0-5 libinput-bin=1.16.4-3 libinput10=1.16.4-3 libip4tc2=1.8.7-1 libisl23=0.23-1 libitm1=10.2.1-6 libjbig0=2.1-3.1+b2 libjpeg62-turbo=1:2.0.6-1 libjson-c5=0.15-2 libjson-glib-1.0-0=1.6.2-1 libjson-glib-1.0-common=1.6.2-1 libjsoncpp24=1.9.4-4 libjsr305-java=0.1~+svn49-11 libk5crypto3=1.18.3-4 libkeyutils1=1.6.1-2 libkmod2=28-1 libkrb5-3=1.18.3-4 libkrb5support0=1.18.3-4 liblcms2-2=2.12~rc1-2 libldap-2.4-2=2.4.57+dfsg-2 libllvm11=1:11.0.1-2 liblsan0=10.2.1-6 liblua5.4-0=5.4.2-2 liblz4-1=1.9.3-1 liblzma5=5.2.5-1.0 libmagic-mgc=1:5.39-3 libmagic1=1:5.39-3 libmd0=1.0.3-3 libmd4c0=0.4.7-1 libmount1=2.36.1-7 libmpc3=1.2.0-1 libmpdec3=2.5.1-1 libmpfr6=4.1.0-3 libmtdev1=1.1.6-1 libncurses6=6.2+20201114-2 libncursesw6=6.2+20201114-2 libnettle8=3.7-2 libnghttp2-14=1.43.0-1 libnlopt0=2.7.0-4+b2 libnotify4=0.7.9-3 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libnspr4=2:4.29-1 libnss3=2:3.61-1 libp11-kit0=0.23.22-1 libpam-modules=1.4.0-4 libpam-modules-bin=1.4.0-4 libpam-runtime=1.4.0-4 libpam-systemd=247.3-1 libpam0g=1.4.0-4 libpango-1.0-0=1.46.2-3 libpangocairo-1.0-0=1.46.2-3 libpangoft2-1.0-0=1.46.2-3 libpciaccess0=0.16-1 libpcre2-16-0=10.36-2 libpcre2-8-0=10.36-2 libpcre3=2:8.39-13 libpcsclite1=1.9.1-1 libperl5.32=5.32.1-2 libpipeline1=1.5.3-1 libpixman-1-0=0.40.0-1 libpng16-16=1.6.37-3 libprocps8=2:3.3.17-4 libproxy1v5=0.4.17-1 libpsl5=0.21.0-1.2 libpython3-stdlib=3.9.1-1 libpython3.9-minimal=3.9.1-4 libpython3.9-stdlib=3.9.1-4 libqt5core5a=5.15.2+dfsg-4 libqt5dbus5=5.15.2+dfsg-4 libqt5gui5=5.15.2+dfsg-4 libqt5network5=5.15.2+dfsg-4 libqt5printsupport5=5.15.2+dfsg-4 libqt5svg5=5.15.2-2 libqt5widgets5=5.15.2+dfsg-4 libquadmath0=10.2.1-6 libreadline8=8.1-1 librest-0.7-0=0.8.1-1.1 librtmp1=2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2=2.1.27+dfsg-2.1 libsasl2-modules-db=2.1.27+dfsg-2.1 libseccomp2=2.5.1-1 libselinux1=3.1-3 libsemanage-common=3.1-1 libsemanage1=3.1-1+b2 libsensors-config=1:3.6.0-7 libsensors5=1:3.6.0-7 libsepol1=3.1-1 libsigsegv2=2.13-1 libsm6=2:1.2.3-1 libsmartcols1=2.36.1-7 libsoup-gnome2.4-1=2.72.0-2 libsoup2.4-1=2.72.0-2 libsqlite3-0=3.34.1-2 libssh2-1=1.9.0-2 libssl1.1=1.1.1j-1 libssw-java=1.1-12+b1 libssw0=1.1-12+b1 libstdc++-10-dev=10.2.1-6 libstdc++6=10.2.1-6 libsub-override-perl=0.09-2 libsystemd0=247.3-1 libtasn1-6=4.16.0-2 libthai-data=0.1.28-3 libthai0=0.1.28-3 libtiff5=4.2.0-1 libtinfo6=6.2+20201114-2 libtirpc-common=1.3.1-1 libtirpc-dev=1.3.1-1 libtirpc3=1.3.1-1 libtool=2.4.6-15 libtsan0=10.2.1-6 libubsan1=10.2.1-6 libuchardet0=0.0.7-1 libudev1=247.3-1 libunistring2=0.9.10-4 libuuid1=2.36.1-7 libvulkan1=1.2.162.0-1 libwacom-common=1.8-2 libwacom2=1.8-2 libwayland-client0=1.18.0-2~exp1.1 libwayland-cursor0=1.18.0-2~exp1.1 libwayland-egl1=1.18.0-2~exp1.1 libwayland-server0=1.18.0-2~exp1.1 libwebp6=0.6.1-2+b1 libwxbase3.0-0v5=3.0.5.1+dfsg-2 libwxgtk3.0-gtk3-0v5=3.0.5.1+dfsg-2 libx11-6=2:1.7.0-2 libx11-data=2:1.7.0-2 libx11-xcb1=2:1.7.0-2 libxau6=1:1.0.9-1 libxcb-dri2-0=1.14-3 libxcb-dri3-0=1.14-3 libxcb-glx0=1.14-3 libxcb-icccm4=0.4.1-1.1 libxcb-image0=0.4.0-1+b3 libxcb-keysyms1=0.4.0-1+b2 libxcb-present0=1.14-3 libxcb-randr0=1.14-3 libxcb-render-util0=0.3.9-1+b1 libxcb-render0=1.14-3 libxcb-shape0=1.14-3 libxcb-shm0=1.14-3 libxcb-sync1=1.14-3 libxcb-util1=0.4.0-1+b1 libxcb-xfixes0=1.14-3 libxcb-xinerama0=1.14-3 libxcb-xinput0=1.14-3 libxcb-xkb1=1.14-3 libxcb1=1.14-3 libxcomposite1=1:0.4.5-1 libxcursor1=1:1.2.0-2 libxdamage1=1:1.1.5-2 libxdmcp6=1:1.1.2-3 libxext6=2:1.3.3-1.1 libxfixes3=1:5.0.3-2 libxi6=2:1.7.10-1 libxinerama1=2:1.1.4-2 libxkbcommon-x11-0=1.0.3-2 libxkbcommon0=1.0.3-2 libxml2=2.9.10+dfsg-6.3+b1 libxpm4=1:3.5.12-1 libxrandr2=2:1.5.1-1 libxrender1=1:0.9.10-1 libxshmfence1=1.3-1 libxslt1.1=1.1.34-4 libxtst6=2:1.2.3-1 libxxf86vm1=1:1.1.4-1+b2 libyaml-0-2=0.2.2-1 libz3-4=4.8.10-1 libzstd1=1.4.8+dfsg-1 linux-libc-dev=5.10.13-1 login=1:4.8.1-1 lsb-base=11.1.0 m4=1.4.18-5 make=4.3-4 man-db=2.9.4-2 mawk=1.3.4.20200120-2 media-types=4.0.0 mhap=2.1.3+dfsg-3 mount=2.36.1-7 mummer=3.23+dfsg-7 ncurses-base=6.2+20201114-2 ncurses-bin=6.2+20201114-2 openjdk-11-jre-headless=11.0.10+9-1 openssl=1.1.1j-1 passwd=1:4.8.1-1 patch=2.7.6-7 perl=5.32.1-2 perl-base=5.32.1-2 perl-modules-5.32=5.32.1-2 po-debconf=1.0.21+nmu1 procps=2:3.3.17-4 prodigal=1:2.6.3-4 python3=3.9.1-1 python3-all=3.9.1-1 python3-distutils=3.9.1-2 python3-et-xmlfile=1.0.1-2.1 python3-jdcal=1.0-1.3 python3-joblib=0.17.0-2 python3-lib2to3=3.9.1-2 python3-lxml=4.6.2-1 python3-minimal=3.9.1-1 python3-nose=1.3.7-7 python3-openpyxl=3.0.3-1 python3-pkg-resources=52.0.0-1 python3-pymummer=0.11.0-2 python3-pysam=0.15.4+ds-3+b2 python3-setuptools=52.0.0-1 python3-yaml=5.3.1-3+b1 python3.9=3.9.1-4 python3.9-minimal=3.9.1-4 readline-common=8.1-1 samtools=1.11-1 sed=4.7-1 sensible-utils=0.0.14 shared-mime-info=2.0-1 spades=3.13.1+dfsg-2+b2 systemd=247.3-1 systemd-sysv=247.3-1 systemd-timesyncd=247.3-1 sysvinit-utils=2.96-5 tar=1.34+dfsg-1 tzdata=2021a-1 ucf=3.0043 util-linux=2.36.1-7 x11-common=1:7.7+22 xkb-data=2.29-2 xz-utils=5.2.5-1.0 zlib1g=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/20210223T083359Z/ unstable main
deb http://snapshot.notset.fr/archive/debian/20210218T111050Z/ 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 circlator=1.5.6-5 && mkdir -p /build/circlator-FGgvXD && dpkg-source --no-check -x /*.dsc /build/circlator-FGgvXD/circlator-1.5.6 && chown -R builduser:builduser /build/circlator-FGgvXD" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/circlator-FGgvXD/circlator-1.5.6 && env DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1613803665" dpkg-buildpackage -uc -a amd64 --build=any" --customize-hook=sync-out /build/circlator-FGgvXD /tmp/circlator-1.5.6-5ihkrgntx bullseye /dev/null deb http://snapshot.notset.fr/archive/debian/20210218T111050Z 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.pl5hk3s9RQ 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.pl5hk3s9RQ
Reading package lists...
Building dependency tree...
util-linux is already the newest version (2.36.1-7).
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/20210218T111050Z unstable/main amd64 libfakeroot amd64 1.25.3-1.1 [47.0 kB]
Get:2 http://snapshot.notset.fr/archive/debian/20210218T111050Z 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 (1121 kB/s)
Selecting previously unselected package libfakeroot:amd64.
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(Reading database ... 4662 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 (2.31-9) ...
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/20210223T083359Z/ unstable main
deb http://snapshot.notset.fr/archive/debian/20210218T111050Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.pl5hk3s9RQ
Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm InRelease [81.6 kB]
Get:2 http://snapshot.notset.fr/archive/debian/20210223T083359Z unstable InRelease [153 kB]
Hit:3 http://snapshot.notset.fr/archive/debian/20210218T111050Z unstable InRelease
Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources
Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages
Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources
Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages
Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources
Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages
Get:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources [11.4 MB]
Get:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages [11.1 MB]
Ign:6 http://snapshot.notset.fr/archive/debian/20210223T083359Z unstable/main amd64 Packages
Ign:6 http://snapshot.notset.fr/archive/debian/20210223T083359Z unstable/main amd64 Packages
Ign:6 http://snapshot.notset.fr/archive/debian/20210223T083359Z unstable/main amd64 Packages
Get:6 http://snapshot.notset.fr/archive/debian/20210223T083359Z unstable/main amd64 Packages [11.7 MB]
Fetched 34.4 MB in 29s (1200 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.pl5hk3s9RQ
I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d circlator=1.5.6-5 && mkdir -p /build/circlator-FGgvXD && dpkg-source --no-check -x /*.dsc /build/circlator-FGgvXD/circlator-1.5.6 && chown -R builduser:builduser /build/circlator-FGgvXD"' exec /tmp/mmdebstrap.pl5hk3s9RQ
Reading package lists...
NOTICE: 'circlator' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/circlator.git
Please use:
git clone https://salsa.debian.org/med-team/circlator.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 5731 kB of source archives.
Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main circlator 1.5.6-5 (dsc) [2257 B]
Get:2 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main circlator 1.5.6-5 (tar) [5724 kB]
Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main circlator 1.5.6-5 (diff) [4316 B]
Fetched 5731 kB in 5s (1221 kB/s)
Download complete and in download only mode
W: Download is performed unsandboxed as root as file 'circlator_1.5.6-5.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied)
dpkg-source: info: extracting circlator in /build/circlator-FGgvXD/circlator-1.5.6
dpkg-source: info: unpacking circlator_1.5.6.orig.tar.gz
dpkg-source: info: unpacking circlator_1.5.6-5.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying fix_canu_detection.patch
I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/circlator-FGgvXD/circlator-1.5.6 && env DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1613803665" dpkg-buildpackage -uc -a amd64 --build=any"' exec /tmp/mmdebstrap.pl5hk3s9RQ
dpkg-buildpackage: info: source package circlator
dpkg-buildpackage: info: source version 1.5.6-5
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Andreas Tille <tille@debian.org>
 dpkg-source --before-build .
dpkg-buildpackage: info: host architecture amd64
 debian/rules clean
dh clean --with python3 --buildsystem=pybuild
   dh_auto_clean -O--buildsystem=pybuild
I: pybuild base:232: python3.9 setup.py clean 
running clean
removing '/build/circlator-FGgvXD/circlator-1.5.6/.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 --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
   dh_auto_build -a -O--buildsystem=pybuild
I: pybuild base:232: /usr/bin/python3 setup.py build 
running build
running build_py
creating /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator
copying circlator/mapping.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator
copying circlator/program.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator
copying circlator/assemble.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator
copying circlator/__init__.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator
copying circlator/assembly.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator
copying circlator/merge.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator
copying circlator/dnaa.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator
copying circlator/versions.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator
copying circlator/common.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator
copying circlator/external_progs.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator
copying circlator/minimus2.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator
copying circlator/bamfilter.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator
copying circlator/start_fixer.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator
copying circlator/clean.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator
creating /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks
copying circlator/tasks/assemble.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks
copying circlator/tasks/__init__.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks
copying circlator/tasks/bam2reads.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks
copying circlator/tasks/merge.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks
copying circlator/tasks/progcheck.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks
copying circlator/tasks/fixstart.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks
copying circlator/tasks/minimus2.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks
copying circlator/tasks/mapreads.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks
copying circlator/tasks/all.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks
copying circlator/tasks/clean.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks
copying circlator/tasks/version.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks
copying circlator/tasks/get_dnaa.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks
copying circlator/tasks/test.py -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks
creating /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/data
copying circlator/data/dnaA.fasta -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/data
copying circlator/data/test_ref.fa.fai -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/data
copying circlator/data/test_contigs.fa -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/data
copying circlator/data/test_reads.fq.gz -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/data
copying circlator/data/test_make_data.sh -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/data
copying circlator/data/test_ref.fa -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/data
copying circlator/data/test_for_reads.fa -> /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/data
running build_scripts
creating build
creating build/scripts-3.9
copying and adjusting scripts/circlator -> build/scripts-3.9
changing mode of build/scripts-3.9/circlator from 644 to 755
   debian/rules override_dh_auto_test
make[1]: Entering directory '/build/circlator-FGgvXD/circlator-1.5.6'
PYTHONPATH=/build/circlator-FGgvXD/circlator-1.5.6 nosetests3 -v --where=circlator/tests
test _build_spades_kmers ... WARNING: SPAdes version 3.13.1 is being used. It will work, but better results are usually obtained from Circlator using SPAdes version 3.7.1. Although 3.7.1 is not the latest version, we recommend it for Circlator.
ok
test _make_canu_command ... WARNING: SPAdes version 3.13.1 is being used. It will work, but better results are usually obtained from Circlator using SPAdes version 3.7.1. Although 3.7.1 is not the latest version, we recommend it for Circlator.
ok
test _make_spades_command ... WARNING: SPAdes version 3.13.1 is being used. It will work, but better results are usually obtained from Circlator using SPAdes version 3.7.1. Although 3.7.1 is not the latest version, we recommend it for Circlator.
ok
test _rename_canu_contigs ... WARNING: SPAdes version 3.13.1 is being used. It will work, but better results are usually obtained from Circlator using SPAdes version 3.7.1. Although 3.7.1 is not the latest version, we recommend it for Circlator.
ok
Test _circular_contigs_from_canu_gfa ... ok
Test _circular_contigs_from_spades_after_3_6_1 ... ok
Test _circular_contigs_from_spades_before_3_6_1 ... ok
Test circular_contigs when input is just fasta ... ok
Test circular_contigs with spades post 3.6.1 ... ok
Test circular_contigs with spades pre 3.6.1 ... ok
Test _circular_edges_to_edge_numbers_dict ... ok
Test get_contigs ... ok
Test _init_file_not_dir ... ok
Test _init_post_3_6_1_ok ... ok
Test _init_pre_3_6_1_ok ... ok
Test _init_raises_error ... ok
Test _spades_contigs_paths_to_dict ... ok
test _all_reads_from_contig ... ok
test _break_reads ... ok
test _check_contigs_to_use ... ok
test _exclude_region ... ok
test _get_all_unmapped_reads ... ok
test _get_contigs_to_use ... ok
test _get_ref_lengths ... [E::idx_find_and_load] Could not retrieve index file for '/build/circlator-FGgvXD/circlator-1.5.6/circlator/tests/data/bamfilter_test_get_ref_lengths.bam'
ok
test _get_region end ... ok
test _get_region start ... ok
test run keep unmapped bam has no quality scores ... ok
test run keep unmapped bam has no quality scores ... ok
test run keep unmapped bam has quality scores ... ok
test _clean_contigs ... ok
test _collapse_list_of_sets ... ok
test _containing_contigs ... ok
test _contains ... ok
test _expand_containing_using_transitivity ... ok
test _get_all_containing ... ok
test _get_containing_contigs ... ok
test _get_contigs_to_keep ... ok
test _get_identical_contigs ... ok
test _infinite_recursion ... ok
test _load_nucmer_hits ... ok
test _longest_contig ... ok
test _remove_identical_contigs ... ok
test _remove_small_contigs ... ok
test _write_log ... ok
test check_files_exist ... File not found: "thisisnotafileandshouldcauseanerror"
ok
test _append_stop_to_seq ... ok
test _check_sequence ... ok
test _get_uniprot_url ... ok
test _header_matches_regex ... ok
test _header_to_genus_species ... ok
test _reverse_translate ... ok
Test bwa version ... ok
Test canu version ... ok
Test nucmer version ... ok
Test prodigal version ... ok
Test samtools original version ... ok
Test samtools version ... ok
Test spades version ... ok
test aligned_read_to_read ... ok
test bwa_index ... ok
test bwa_index_clean ... ok
test bwa_mem ... ok
test _can_circularise ... ok
test _contigs_dict_to_file ... ok
test _filter_bridging_contigs ... ok
test _get_hit_nearest_ref_end ... ok
test _get_hit_nearest_ref_start ... ok
test _get_longest_hit_at_qry_end ... ok
test _get_longest_hit_at_qry_start ... ok
test _get_longest_hit_at_ref_end ... ok
test _get_longest_hit_at_ref_start ... ok
test _get_longest_hit_by_ref_length ... ok
test _get_possible_circular_ref_contigs ... ok
test _get_possible_circular_ref_contigs same best hits ... ok
test _get_possible_query_bridging_contigs ... ok
test_get_spades_circular_nodes (merge_test.TestMerge) ... ok
test _has_qry_hit_longer_than ... ok
test _hits_hashed_by_query ... ok
test _hits_have_same_query ... ok
test _hits_have_same_reference ... ok
test _index_fasta ... ok
test _is_at_qry_end ... ok
test _is_at_qry_start ... ok
test _is_at_ref_end ... ok
test _is_at_ref_start ... ok
test _load_nucmer_hits ... ok
test _make_circularised_contig 1 ... ok
test _make_circularised_contig 2 ... ok
test _make_new_contig_from_nucmer_and_spades no hit ... ok
test _make_new_contig_from_nucmer_and_spades with hit ... ok
test _merge_bridged_contig_pair1 ... ok
test _merge_bridged_contig_pair2 ... ok
test _merge_bridged_contig_pair3 ... ok
test _merge_bridged_contig_pair4 ... ok
test _min_qry_hit_length ... ok
test _orientation_ok_to_bridge_contigs ... ok
test _remove_keys_from_dict_with_nonunique_values ... ok
test _write_act_files ... ok
test _run_initial_merge ... SKIP: Amos is not installed
test _run_minimus2 ... SKIP: Amos is not installed
test _run_minimus2_on_each_contig ... SKIP: Amos is not installed
test_run_minimus2_on_one_contig that won't circularise ... SKIP: Amos is not installed
test_run_minimus2_on_one_contig that will circularise ... SKIP: Amos is not installed
test _write_split_contig ... SKIP: Amos is not installed
test _find_circular_using_prodigal ... ok
Test _find_circular_using_promer ... ok
Test init ... ok
Test _max_length_from_fasta_file ... ok
test _rearrange_contigs ... ok
Test _rename_contigs ... ok
test run with promer, prodigal, and ignoring a sequence ... ok
test run when ignoring all sequences ... ok
test run when everthing sorted by promer ... ok
Test _write_fasta_plus_circularized_ends ... ok
Test _write_renamed_contigs ... ok

----------------------------------------------------------------------
Ran 115 tests in 3.391s

OK (SKIP=6)
make[1]: Leaving directory '/build/circlator-FGgvXD/circlator-1.5.6'
   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/circlator-FGgvXD/circlator-1.5.6/debian/circlator 
running install
running build
running build_py
running build_scripts
running install_lib
creating /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr
creating /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib
creating /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9
creating /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages
creating /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/mapping.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/program.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/assemble.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/__init__.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/assembly.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/merge.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator
creating /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks/assemble.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks/__init__.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks/bam2reads.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks/merge.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks/progcheck.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks/fixstart.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks/minimus2.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks/mapreads.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks/all.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks/clean.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks/version.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks/get_dnaa.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/tasks/test.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/dnaa.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/versions.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/common.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/external_progs.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/minimus2.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/bamfilter.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/start_fixer.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/clean.py -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator
creating /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/data
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/data/dnaA.fasta -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/data
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/data/test_ref.fa.fai -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/data
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/data/test_contigs.fa -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/data
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/data/test_reads.fq.gz -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/data
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/data/test_make_data.sh -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/data
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/data/test_ref.fa -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/data
copying /build/circlator-FGgvXD/circlator-1.5.6/.pybuild/cpython3_3.9/build/circlator/data/test_for_reads.fa -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/data
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/mapping.py to mapping.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/program.py to program.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/assemble.py to assemble.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/__init__.py to __init__.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/assembly.py to assembly.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/merge.py to merge.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks/assemble.py to assemble.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks/__init__.py to __init__.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks/bam2reads.py to bam2reads.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks/merge.py to merge.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks/progcheck.py to progcheck.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks/fixstart.py to fixstart.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks/minimus2.py to minimus2.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks/mapreads.py to mapreads.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks/all.py to all.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks/clean.py to clean.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks/version.py to version.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks/get_dnaa.py to get_dnaa.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/tasks/test.py to test.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/dnaa.py to dnaa.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/versions.py to versions.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/common.py to common.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/external_progs.py to external_progs.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/minimus2.py to minimus2.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/bamfilter.py to bamfilter.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/start_fixer.py to start_fixer.cpython-39.pyc
byte-compiling /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator/clean.py to clean.cpython-39.pyc
running install_egg_info
running egg_info
creating circlator.egg-info
writing circlator.egg-info/PKG-INFO
writing dependency_links to circlator.egg-info/dependency_links.txt
writing requirements to circlator.egg-info/requires.txt
writing top-level names to circlator.egg-info/top_level.txt
writing manifest file 'circlator.egg-info/SOURCES.txt'
reading manifest file 'circlator.egg-info/SOURCES.txt'
writing manifest file 'circlator.egg-info/SOURCES.txt'
Copying circlator.egg-info to /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/lib/python3.9/dist-packages/circlator-1.5.5.egg-info
Skipping SOURCES.txt
running install_scripts
creating /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/bin
copying build/scripts-3.9/circlator -> /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/bin
changing mode of /build/circlator-FGgvXD/circlator-1.5.6/debian/circlator/usr/bin/circlator to 755
   dh_installdocs -a -O--buildsystem=pybuild
   dh_installchangelogs -a -O--buildsystem=pybuild
   debian/rules override_dh_installexamples
make[1]: Entering directory '/build/circlator-FGgvXD/circlator-1.5.6'
dh_installexamples
cd debian/circlator/usr/share/doc/circlator/examples && tar caf data.tar.xz data --owner=0 --group=0 --numeric-owner --sort=name --mode=a+rX,og-w && rm -rf data
make[1]: Leaving directory '/build/circlator-FGgvXD/circlator-1.5.6'
   dh_installman -a -O--buildsystem=pybuild
   dh_python3 -a -O--buildsystem=pybuild
   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
   dh_fixperms -a -O--buildsystem=pybuild
   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
   dh_md5sums -a -O--buildsystem=pybuild
   dh_builddeb -a -O--buildsystem=pybuild
dpkg-deb: building package 'circlator' in '../circlator_1.5.6-5_amd64.deb'.
 dpkg-genbuildinfo --build=any
 dpkg-genchanges --build=any >../circlator_1.5.6-5_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/circlator-FGgvXD /tmp/circlator-1.5.6-5ihkrgntx
I: cleaning package lists and apt cache...
W: deleting files in /tmp: hsperfdata_root
I: creating tarball...
I: done
I: removing tempdir /tmp/mmdebstrap.pl5hk3s9RQ...
I: success in 559.7594 seconds
md5: circlator_1.5.6-5_amd64.deb: OK
sha1: circlator_1.5.6-5_amd64.deb: OK
sha256: circlator_1.5.6-5_amd64.deb: OK
Checksums: OK