0s autopkgtest [04:01:07]: starting date and time: 2026-02-10 04:01:07+0000
  0s autopkgtest [04:01:07]: git checkout: 4b346b80 nova: make wait_reboot return success even when a no-op
  0s autopkgtest [04:01:07]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.h0z6w19f/out --timeout-copy=6000 --needs-internet=try --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:r-cran-ggplot2 --apt-upgrade qcumber --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=r-cran-ggplot2/4.0.2+dfsg-1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-cpu2-ram4-disk20-amd64 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@sto01-8.secgroup --name adt-resolute-amd64-qcumber-20260210-040107-juju-7f2275-prod-proposed-migration-environment-2-5189d0fa-6847-48a2-b3ef-5941d422178d --image adt/ubuntu-resolute-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-autopkgtest-workers-amd64 -e TERM=linux --mirror=http://ftpmaster.internal/ubuntu/
  4s Creating nova instance adt-resolute-amd64-qcumber-20260210-040107-juju-7f2275-prod-proposed-migration-environment-2-5189d0fa-6847-48a2-b3ef-5941d422178d from image adt/ubuntu-resolute-amd64-server-20260204.img (UUID fedf54b4-458b-493e-8072-6425c19717b4)...
 77s autopkgtest [04:02:24]: testbed dpkg architecture: amd64
 78s autopkgtest [04:02:25]: testbed apt version: 3.1.14
 78s autopkgtest [04:02:25]: @@@@@@@@@@@@@@@@@@@@ test bed setup
 78s autopkgtest [04:02:25]: testbed release detected to be: None
 79s autopkgtest [04:02:26]: updating testbed package index (apt update)
 79s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease [124 kB]
 79s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease
 79s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease
 79s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease
 79s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse Sources [31.1 kB]
 79s Get:6 http://ftpmaster.internal/ubuntu resolute-proposed/main Sources [181 kB]
 79s Get:7 http://ftpmaster.internal/ubuntu resolute-proposed/universe Sources [1735 kB]
 80s Get:8 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 Packages [268 kB]
 80s Get:9 http://ftpmaster.internal/ubuntu resolute-proposed/main i386 Packages [220 kB]
 80s Get:10 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 c-n-f Metadata [5980 B]
 80s Get:11 http://ftpmaster.internal/ubuntu resolute-proposed/restricted amd64 c-n-f Metadata [120 B]
 80s Get:12 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 Packages [1791 kB]
 80s Get:13 http://ftpmaster.internal/ubuntu resolute-proposed/universe i386 Packages [768 kB]
 80s Get:14 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 c-n-f Metadata [32.6 kB]
 80s Get:15 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse i386 Packages [5020 B]
 80s Get:16 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse amd64 Packages [26.4 kB]
 80s Get:17 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse amd64 c-n-f Metadata [996 B]
 81s Fetched 5189 kB in 1s (5467 kB/s)
 81s Reading package lists...
 82s Hit:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease
 82s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease
 82s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease
 82s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease
 82s Reading package lists...
 82s Reading package lists...
 82s Building dependency tree...
 82s Reading state information...
 83s Calculating upgrade...
 83s The following package was automatically installed and is no longer required:
 83s   libpython3.13
 83s Use 'sudo apt autoremove' to remove it.
 83s The following NEW packages will be installed:
 83s   gcc-16-base libpython3.14 libpython3.14-minimal libpython3.14-stdlib
 83s   linux-headers-6.19.0-3 linux-headers-6.19.0-3-generic
 83s   linux-image-6.19.0-3-generic linux-modules-6.19.0-3-generic
 83s   linux-tools-6.19.0-3 linux-tools-6.19.0-3-generic
 83s The following packages will be upgraded:
 83s   3cpio amd64-microcode apt bpftool busybox-initramfs busybox-static
 83s   cryptsetup-bin dash dbus dbus-bin dbus-daemon dbus-session-bus-common
 83s   dbus-system-bus-common dbus-user-session debianutils dmsetup dracut-install
 83s   ethtool findutils gir1.2-girepository-3.0 gir1.2-glib-2.0 hwdata iproute2
 83s   iptables less libapt-pkg7.0 libatomic1 libattr1 libbpf1 libbsd0
 83s   libcryptsetup12 libdbus-1-3 libdevmapper1.02.1 libdrm-amdgpu1 libdrm-common
 83s   libdrm2 libevent-core-2.1-7t64 libgcc-s1 libgdbm-compat4t64 libgdbm6t64
 83s   libgirepository-2.0-0 libglib2.0-0t64 libglib2.0-data libgpm2 libgudev-1.0-0
 83s   libidn2-0 libip4tc2 libip6tc2 libjansson4 libkeyutils1 liblsof0
 83s   libmaxminddb0 libnetfilter-conntrack3 libnpth0t64 libonig5 libpcap0.8t64
 83s   libpci3 libsensors-config libsensors5 libstdc++6 libusb-1.0-0 libwrap0
 83s   libxau6 libxkbcommon0 libxtables12 linux-generic linux-headers-generic
 83s   linux-headers-virtual linux-image-generic linux-image-virtual linux-perf
 83s   linux-tools-common linux-virtual lsof man-db mawk patch pciutils pnp.ids
 83s   pollinate python3-linkify-it python3-markdown-it python3-referencing sed
 83s   shared-mime-info tar tcpdump ubuntu-kernel-accessories ubuntu-standard wget
 83s 90 upgraded, 10 newly installed, 0 to remove and 0 not upgraded.
 83s Need to get 237 MB of archives.
 83s After this operation, 339 MB of additional disk space will be used.
 83s Get:1 http://ftpmaster.internal/ubuntu resolute/main amd64 debianutils amd64 5.23.2build1 [93.3 kB]
 83s Get:2 http://ftpmaster.internal/ubuntu resolute/main amd64 dash amd64 0.5.12-12ubuntu3 [96.0 kB]
 83s Get:3 http://ftpmaster.internal/ubuntu resolute/main amd64 findutils amd64 4.10.0-3build2 [307 kB]
 83s Get:4 http://ftpmaster.internal/ubuntu resolute/main amd64 sed amd64 4.9-2build3 [195 kB]
 83s Get:5 http://ftpmaster.internal/ubuntu resolute/main amd64 tar amd64 1.35+dfsg-3.1build2 [257 kB]
 83s Get:6 http://ftpmaster.internal/ubuntu resolute/main amd64 libattr1 amd64 1:2.5.2-3build2 [11.4 kB]
 83s Get:7 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc-16-base amd64 16-20260208-1ubuntu1 [59.7 kB]
 83s Get:8 http://ftpmaster.internal/ubuntu resolute/main amd64 libgcc-s1 amd64 16-20260208-1ubuntu1 [80.3 kB]
 83s Get:9 http://ftpmaster.internal/ubuntu resolute/main amd64 libbsd0 amd64 0.12.2-2build2 [42.3 kB]
 83s Get:10 http://ftpmaster.internal/ubuntu resolute/main amd64 mawk amd64 1.3.4.20260129-1 [133 kB]
 83s Get:11 http://ftpmaster.internal/ubuntu resolute/main amd64 libstdc++6 amd64 16-20260208-1ubuntu1 [844 kB]
 83s Get:12 http://ftpmaster.internal/ubuntu resolute/main amd64 libapt-pkg7.0 amd64 3.1.15 [1151 kB]
 83s Get:13 http://ftpmaster.internal/ubuntu resolute/main amd64 apt amd64 3.1.15 [1479 kB]
 83s Get:14 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-system-bus-common all 1.16.2-2ubuntu3 [55.8 kB]
 83s Get:15 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-session-bus-common all 1.16.2-2ubuntu3 [54.4 kB]
 83s Get:16 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-user-session amd64 1.16.2-2ubuntu3 [9696 B]
 83s Get:17 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-daemon amd64 1.16.2-2ubuntu3 [119 kB]
 83s Get:18 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-bin amd64 1.16.2-2ubuntu3 [40.1 kB]
 83s Get:19 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus amd64 1.16.2-2ubuntu3 [24.2 kB]
 83s Get:20 http://ftpmaster.internal/ubuntu resolute/main amd64 libdbus-1-3 amd64 1.16.2-2ubuntu3 [185 kB]
 83s Get:21 http://ftpmaster.internal/ubuntu resolute/main amd64 libdevmapper1.02.1 amd64 2:1.02.205-2ubuntu3 [142 kB]
 83s Get:22 http://ftpmaster.internal/ubuntu resolute/main amd64 dmsetup amd64 2:1.02.205-2ubuntu3 [79.4 kB]
 83s Get:23 http://ftpmaster.internal/ubuntu resolute/main amd64 ethtool amd64 1:6.15-3build1 [318 kB]
 83s Get:24 http://ftpmaster.internal/ubuntu resolute/main amd64 gir1.2-girepository-3.0 amd64 2.87.2-2 [25.2 kB]
 83s Get:25 http://ftpmaster.internal/ubuntu resolute/main amd64 libgirepository-2.0-0 amd64 2.87.2-2 [76.1 kB]
 83s Get:26 http://ftpmaster.internal/ubuntu resolute/main amd64 libatomic1 amd64 16-20260208-1ubuntu1 [11.4 kB]
 83s Get:27 http://ftpmaster.internal/ubuntu resolute/main amd64 gir1.2-glib-2.0 amd64 2.87.2-2 [182 kB]
 83s Get:28 http://ftpmaster.internal/ubuntu resolute/main amd64 libglib2.0-0t64 amd64 2.87.2-2 [1613 kB]
 83s Get:29 http://ftpmaster.internal/ubuntu resolute/main amd64 libbpf1 amd64 1:1.6.2-1build1 [184 kB]
 83s Get:30 http://ftpmaster.internal/ubuntu resolute/main amd64 iptables amd64 1.8.11-2ubuntu3 [381 kB]
 83s Get:31 http://ftpmaster.internal/ubuntu resolute/main amd64 libip4tc2 amd64 1.8.11-2ubuntu3 [24.2 kB]
 83s Get:32 http://ftpmaster.internal/ubuntu resolute/main amd64 libip6tc2 amd64 1.8.11-2ubuntu3 [24.4 kB]
 83s Get:33 http://ftpmaster.internal/ubuntu resolute/main amd64 libnetfilter-conntrack3 amd64 1.1.1-1 [47.5 kB]
 83s Get:34 http://ftpmaster.internal/ubuntu resolute/main amd64 libxtables12 amd64 1.8.11-2ubuntu3 [36.6 kB]
 83s Get:35 http://ftpmaster.internal/ubuntu resolute/main amd64 iproute2 amd64 6.18.0-1ubuntu1 [1178 kB]
 83s Get:36 http://ftpmaster.internal/ubuntu resolute/main amd64 less amd64 668-1build1 [172 kB]
 83s Get:37 http://ftpmaster.internal/ubuntu resolute/main amd64 libcryptsetup12 amd64 2:2.8.0-1ubuntu3 [283 kB]
 83s Get:38 http://ftpmaster.internal/ubuntu resolute/main amd64 libglib2.0-data all 2.87.2-2 [58.2 kB]
 83s Get:39 http://ftpmaster.internal/ubuntu resolute/main amd64 libidn2-0 amd64 2.3.8-4build1 [67.6 kB]
 83s Get:40 http://ftpmaster.internal/ubuntu resolute/main amd64 libkeyutils1 amd64 1.6.3-6ubuntu3 [10.6 kB]
 83s Get:41 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-linkify-it all 2.0.3-1ubuntu3 [19.4 kB]
 83s Get:42 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-markdown-it all 3.0.0-3build1 [54.4 kB]
 83s Get:43 http://ftpmaster.internal/ubuntu resolute/main amd64 shared-mime-info amd64 2.4-5build3 [476 kB]
 83s Get:44 http://ftpmaster.internal/ubuntu resolute/main amd64 busybox-static amd64 1:1.37.0-7ubuntu1 [1034 kB]
 83s Get:45 http://ftpmaster.internal/ubuntu resolute/main amd64 libdrm-common all 2.4.131-1 [9774 B]
 83s Get:46 http://ftpmaster.internal/ubuntu resolute/main amd64 libdrm2 amd64 2.4.131-1 [42.3 kB]
 83s Get:47 http://ftpmaster.internal/ubuntu resolute/main amd64 libgdbm6t64 amd64 1.26-1build1 [36.5 kB]
 83s Get:48 http://ftpmaster.internal/ubuntu resolute/main amd64 libgpm2 amd64 1.20.7-12build1 [14.4 kB]
 83s Get:49 http://ftpmaster.internal/ubuntu resolute/main amd64 libjansson4 amd64 2.14-2build4 [33.2 kB]
 83s Get:50 http://ftpmaster.internal/ubuntu resolute/main amd64 lsof amd64 4.99.4+dfsg-2build2 [239 kB]
 83s Get:51 http://ftpmaster.internal/ubuntu resolute/main amd64 liblsof0 amd64 4.99.4+dfsg-2build2 [56.5 kB]
 83s Get:52 http://ftpmaster.internal/ubuntu resolute/main amd64 libmaxminddb0 amd64 1.12.2-1build2 [18.9 kB]
 83s Get:53 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcap0.8t64 amd64 1.10.5-2ubuntu3 [154 kB]
 83s Get:54 http://ftpmaster.internal/ubuntu resolute/main amd64 pciutils amd64 1:3.14.0-1build2 [95.5 kB]
 83s Get:55 http://ftpmaster.internal/ubuntu resolute/main amd64 libpci3 amd64 1:3.14.0-1build2 [38.1 kB]
 83s Get:56 http://ftpmaster.internal/ubuntu resolute/main amd64 libsensors-config all 1:3.6.2-2build1 [6862 B]
 83s Get:57 http://ftpmaster.internal/ubuntu resolute/main amd64 libsensors5 amd64 1:3.6.2-2build1 [28.9 kB]
 83s Get:58 http://ftpmaster.internal/ubuntu resolute/main amd64 libusb-1.0-0 amd64 2:1.0.29-2build1 [56.9 kB]
 83s Get:59 http://ftpmaster.internal/ubuntu resolute/main amd64 libxau6 amd64 1:1.0.11-1build2 [7502 B]
 83s Get:60 http://ftpmaster.internal/ubuntu resolute/main amd64 libxkbcommon0 amd64 1.13.1-1 [159 kB]
 83s Get:61 http://ftpmaster.internal/ubuntu resolute/main amd64 man-db amd64 2.13.1-1build1 [1392 kB]
 83s Get:62 http://ftpmaster.internal/ubuntu resolute/main amd64 tcpdump amd64 4.99.5-2ubuntu3 [477 kB]
 83s Get:63 http://ftpmaster.internal/ubuntu resolute/main amd64 wget amd64 1.25.0-2ubuntu4 [353 kB]
 83s Get:64 http://ftpmaster.internal/ubuntu resolute/main amd64 ubuntu-standard amd64 1.564 [13.3 kB]
 83s Get:65 http://ftpmaster.internal/ubuntu resolute/main amd64 3cpio amd64 0.14.0-1ubuntu1 [285 kB]
 83s Get:66 http://ftpmaster.internal/ubuntu resolute/main amd64 bpftool amd64 7.7.0+6.19.0-3.3 [1229 kB]
 84s Get:67 http://ftpmaster.internal/ubuntu resolute/main amd64 busybox-initramfs amd64 1:1.37.0-7ubuntu1 [191 kB]
 84s Get:68 http://ftpmaster.internal/ubuntu resolute/main amd64 cryptsetup-bin amd64 2:2.8.0-1ubuntu3 [228 kB]
 84s Get:69 http://ftpmaster.internal/ubuntu resolute/main amd64 dracut-install amd64 109-11ubuntu1 [45.8 kB]
 84s Get:70 http://ftpmaster.internal/ubuntu resolute/main amd64 hwdata all 0.394-1build1 [1566 B]
 84s Get:71 http://ftpmaster.internal/ubuntu resolute/main amd64 pnp.ids all 0.394-1build1 [29.6 kB]
 84s Get:72 http://ftpmaster.internal/ubuntu resolute/main amd64 libdrm-amdgpu1 amd64 2.4.131-1 [23.2 kB]
 84s Get:73 http://ftpmaster.internal/ubuntu resolute/main amd64 libevent-core-2.1-7t64 amd64 2.1.12-stable-10build2 [93.1 kB]
 84s Get:74 http://ftpmaster.internal/ubuntu resolute/main amd64 libgdbm-compat4t64 amd64 1.26-1build1 [6796 B]
 84s Get:75 http://ftpmaster.internal/ubuntu resolute/main amd64 libgudev-1.0-0 amd64 1:238-7build1 [15.9 kB]
 84s Get:76 http://ftpmaster.internal/ubuntu resolute/main amd64 libnpth0t64 amd64 1.8-3build1 [9302 B]
 84s Get:77 http://ftpmaster.internal/ubuntu resolute/main amd64 libonig5 amd64 6.9.10-1build1 [174 kB]
 84s Get:78 http://ftpmaster.internal/ubuntu resolute/main amd64 libpython3.14-minimal amd64 3.14.2-1 [920 kB]
 84s Get:79 http://ftpmaster.internal/ubuntu resolute/main amd64 libpython3.14-stdlib amd64 3.14.2-1 [2398 kB]
 84s Get:80 http://ftpmaster.internal/ubuntu resolute/main amd64 libpython3.14 amd64 3.14.2-1 [2568 kB]
 84s Get:81 http://ftpmaster.internal/ubuntu resolute/main amd64 libwrap0 amd64 7.6.q-36build2 [48.5 kB]
 84s Get:82 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-modules-6.19.0-3-generic amd64 6.19.0-3.3 [171 MB]
 87s Get:83 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-image-6.19.0-3-generic amd64 6.19.0-3.3+1 [16.8 MB]
 87s Get:84 http://ftpmaster.internal/ubuntu resolute/main amd64 amd64-microcode amd64 3.20251202.1ubuntu1 [459 kB]
 87s Get:85 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-generic amd64 6.19.0-3.3 [1698 B]
 87s Get:86 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-image-generic amd64 6.19.0-3.3 [12.2 kB]
 87s Get:87 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-virtual amd64 6.19.0-3.3 [1700 B]
 87s Get:88 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-image-virtual amd64 6.19.0-3.3 [12.1 kB]
 87s Get:89 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-virtual amd64 6.19.0-3.3 [1646 B]
 87s Get:90 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-6.19.0-3 all 6.19.0-3.3 [14.9 MB]
 88s Get:91 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-6.19.0-3-generic amd64 6.19.0-3.3 [4330 kB]
 88s Get:92 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-generic amd64 6.19.0-3.3 [12.0 kB]
 88s Get:93 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-perf amd64 6.19.0-3.3 [4480 kB]
 88s Get:94 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-tools-common all 6.19.0-3.3 [345 kB]
 88s Get:95 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-tools-6.19.0-3 amd64 6.19.0-3.3 [1455 kB]
 88s Get:96 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-tools-6.19.0-3-generic amd64 6.19.0-3.3 [1612 B]
 88s Get:97 http://ftpmaster.internal/ubuntu resolute/main amd64 patch amd64 2.8-2build1 [95.7 kB]
 88s Get:98 http://ftpmaster.internal/ubuntu resolute/main amd64 pollinate all 4.33-4ubuntu5 [14.0 kB]
 88s Get:99 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-referencing all 0.36.2-1ubuntu2 [22.2 kB]
 88s Get:100 http://ftpmaster.internal/ubuntu resolute/main amd64 ubuntu-kernel-accessories amd64 1.564 [13.1 kB]
 88s dpkg-preconfigure: unable to re-open stdin: No such file or directory
 88s Fetched 237 MB in 5s (46.0 MB/s)
 88s (Reading database ... 
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(Reading database ... 83957 files and directories currently installed.)
 88s Preparing to unpack .../debianutils_5.23.2build1_amd64.deb ...
 88s Unpacking debianutils (5.23.2build1) over (5.23.2) ...
 88s Setting up debianutils (5.23.2build1) ...
 89s (Reading database ... 
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 89s Preparing to unpack .../dash_0.5.12-12ubuntu3_amd64.deb ...
 89s Unpacking dash (0.5.12-12ubuntu3) over (0.5.12-12ubuntu2) ...
 89s Setting up dash (0.5.12-12ubuntu3) ...
 89s (Reading database ... 
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(Reading database ... 83957 files and directories currently installed.)
 89s Preparing to unpack .../findutils_4.10.0-3build2_amd64.deb ...
 89s Unpacking findutils (4.10.0-3build2) over (4.10.0-3build1) ...
 89s Setting up findutils (4.10.0-3build2) ...
 89s (Reading database ... 
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(Reading database ... 83957 files and directories currently installed.)
 89s Preparing to unpack .../sed_4.9-2build3_amd64.deb ...
 89s Unpacking sed (4.9-2build3) over (4.9-2build2) ...
 89s Setting up sed (4.9-2build3) ...
 89s (Reading database ... 
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(Reading database ... 83957 files and directories currently installed.)
 89s Preparing to unpack .../tar_1.35+dfsg-3.1build2_amd64.deb ...
 89s Unpacking tar (1.35+dfsg-3.1build2) over (1.35+dfsg-3.1build1) ...
 89s Setting up tar (1.35+dfsg-3.1build2) ...
 89s (Reading database ... 
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 99s Setting up libglib2.0-data (2.87.2-2) ...
 99s Setting up pollinate (4.33-4ubuntu5) ...
109s Setting up busybox-static (1:1.37.0-7ubuntu1) ...
109s Setting up libwrap0:amd64 (7.6.q-36build2) ...
109s Setting up linux-image-6.19.0-3-generic (6.19.0-3.3+1) ...
111s I: /boot/vmlinuz is now a symlink to vmlinuz-6.19.0-3-generic
111s I: /boot/initrd.img is now a symlink to initrd.img-6.19.0-3-generic
111s Setting up libdbus-1-3:amd64 (1.16.2-2ubuntu3) ...
111s Setting up libatomic1:amd64 (16-20260208-1ubuntu1) ...
111s Setting up patch (2.8-2build1) ...
111s Setting up libsensors5:amd64 (1:3.6.2-2build1) ...
111s Setting up busybox-initramfs (1:1.37.0-7ubuntu1) ...
111s Setting up libxtables12:amd64 (1.8.11-2ubuntu3) ...
111s Setting up lsof (4.99.4+dfsg-2build2) ...
111s Setting up libpci3:amd64 (1:3.14.0-1build2) ...
111s Setting up libdevmapper1.02.1:amd64 (2:1.02.205-2ubuntu3) ...
111s Setting up dracut-install (109-11ubuntu1) ...
111s Setting up dmsetup (2:1.02.205-2ubuntu3) ...
111s Setting up libnetfilter-conntrack3:amd64 (1.1.1-1) ...
111s Setting up pnp.ids (0.394-1build1) ...
111s Setting up dbus-session-bus-common (1.16.2-2ubuntu3) ...
111s Setting up python3-linkify-it (2.0.3-1ubuntu3) ...
111s Setting up libpcap0.8t64:amd64 (1.10.5-2ubuntu3) ...
111s Setting up libcryptsetup12:amd64 (2:2.8.0-1ubuntu3) ...
111s Setting up mawk (1.3.4.20260129-1) ...
111s Setting up libevent-core-2.1-7t64:amd64 (2.1.12-stable-10build2) ...
111s Setting up libusb-1.0-0:amd64 (2:1.0.29-2build1) ...
111s Setting up linux-image-virtual (6.19.0-3.3) ...
111s Setting up dbus-system-bus-common (1.16.2-2ubuntu3) ...
111s Setting up libbsd0:amd64 (0.12.2-2build2) ...
111s Setting up libdrm-common (2.4.131-1) ...
111s Setting up libstdc++6:amd64 (16-20260208-1ubuntu1) ...
111s Setting up dbus-bin (1.16.2-2ubuntu3) ...
111s Setting up libonig5:amd64 (6.9.10-1build1) ...
111s Setting up libbpf1:amd64 (1:1.6.2-1build1) ...
111s Setting up ethtool (1:6.15-3build1) ...
111s Setting up python3-referencing (0.36.2-1ubuntu2) ...
111s Setting up libxkbcommon0:amd64 (1.13.1-1) ...
111s Setting up cryptsetup-bin (2:2.8.0-1ubuntu3) ...
111s Setting up linux-headers-6.19.0-3-generic (6.19.0-3.3) ...
111s Setting up tcpdump (4.99.5-2ubuntu3) ...
111s Setting up linux-image-generic (6.19.0-3.3) ...
111s Setting up wget (1.25.0-2ubuntu4) ...
111s Setting up libpython3.14-stdlib:amd64 (3.14.2-1) ...
111s Setting up iptables (1.8.11-2ubuntu3) ...
111s Setting up iproute2 (6.18.0-1ubuntu1) ...
111s Setting up linux-headers-generic (6.19.0-3.3) ...
111s Setting up dbus-daemon (1.16.2-2ubuntu3) ...
111s Setting up hwdata (0.394-1build1) ...
111s Setting up dbus-user-session (1.16.2-2ubuntu3) ...
111s Setting up libglib2.0-0t64:amd64 (2.87.2-2) ...
111s No schema files found: doing nothing.
111s Setting up dbus (1.16.2-2ubuntu3) ...
111s A reboot is required to replace the running dbus-daemon.
111s Please reboot the system when convenient.
112s Setting up shared-mime-info (2.4-5build3) ...
113s Setting up gir1.2-glib-2.0:amd64 (2.87.2-2) ...
113s Setting up pciutils (1:3.14.0-1build2) ...
113s Setting up python3-markdown-it (3.0.0-3build1) ...
113s Setting up libdrm2:amd64 (2.4.131-1) ...
113s Setting up libpython3.14:amd64 (3.14.2-1) ...
113s Setting up libapt-pkg7.0:amd64 (3.1.15) ...
113s Setting up linux-tools-common (6.19.0-3.3) ...
113s Setting up libgudev-1.0-0:amd64 (1:238-7build1) ...
113s Setting up libdrm-amdgpu1:amd64 (2.4.131-1) ...
113s Setting up apt (3.1.15) ...
113s Setting up linux-headers-virtual (6.19.0-3.3) ...
113s Setting up linux-generic (6.19.0-3.3) ...
113s Setting up libgirepository-2.0-0:amd64 (2.87.2-2) ...
113s Setting up linux-tools-6.19.0-3 (6.19.0-3.3) ...
113s Setting up ubuntu-standard (1.564) ...
113s Setting up gir1.2-girepository-3.0:amd64 (2.87.2-2) ...
113s Setting up linux-virtual (6.19.0-3.3) ...
113s Setting up linux-perf (6.19.0-3.3) ...
113s Setting up linux-tools-6.19.0-3-generic (6.19.0-3.3) ...
113s Processing triggers for debianutils (5.23.2build1) ...
113s Processing triggers for install-info (7.2-5) ...
113s Processing triggers for initramfs-tools (0.150ubuntu7) ...
113s update-initramfs: Generating /boot/initrd.img-6.18.0-9-generic
118s Processing triggers for libc-bin (2.42-2ubuntu4) ...
118s Processing triggers for linux-image-6.19.0-3-generic (6.19.0-3.3+1) ...
118s /etc/kernel/postinst.d/initramfs-tools:
118s update-initramfs: Generating /boot/initrd.img-6.19.0-3-generic
123s /etc/kernel/postinst.d/zz-update-grub:
123s Sourcing file `/etc/default/grub'
123s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg'
123s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg'
123s Generating grub configuration file ...
123s Found linux image: /boot/vmlinuz-6.19.0-3-generic
123s Found initrd image: /boot/initrd.img-6.19.0-3-generic
123s Found linux image: /boot/vmlinuz-6.18.0-9-generic
123s Found initrd image: /boot/initrd.img-6.18.0-9-generic
123s Warning: os-prober will not be executed to detect other bootable partitions.
123s Systems on them will not be added to the GRUB boot configuration.
123s Check GRUB_DISABLE_OS_PROBER documentation entry.
123s Adding boot menu entry for UEFI Firmware Settings ...
123s done
123s autopkgtest [04:03:10]: upgrading testbed (apt dist-upgrade and autopurge)
124s Reading package lists...
124s Building dependency tree...
124s Reading state information...
124s Calculating upgrade...
125s The following package was automatically installed and is no longer required:
125s   libpython3.13
125s Use 'sudo apt autoremove' to remove it.
125s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
125s Reading package lists...
125s Building dependency tree...
125s Reading state information...
125s Solving dependencies...
125s The following packages will be REMOVED:
125s   libpython3.13*
125s 0 upgraded, 0 newly installed, 1 to remove and 0 not upgraded.
125s After this operation, 7599 kB disk space will be freed.
125s (Reading database ... 
(Reading database ... 5%
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(Reading database ... 45%
(Reading database ... 50%
(Reading database ... 55%
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(Reading database ... 65%
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(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 125273 files and directories currently installed.)
125s Removing libpython3.13:amd64 (3.13.11-1) ...
125s Processing triggers for libc-bin (2.42-2ubuntu4) ...
126s autopkgtest [04:03:13]: rebooting testbed after setup commands that affected boot
155s autopkgtest [04:03:42]: testbed running kernel: Linux 6.19.0-3-generic #3-Ubuntu SMP PREEMPT_DYNAMIC Fri Jan 23 20:01:24 UTC 2026
158s autopkgtest [04:03:45]: @@@@@@@@@@@@@@@@@@@@ apt-source qcumber
159s Get:1 http://ftpmaster.internal/ubuntu resolute/universe qcumber 2.3.0-3 (dsc) [1784 B]
159s Get:2 http://ftpmaster.internal/ubuntu resolute/universe qcumber 2.3.0-3 (tar) [262 kB]
159s Get:3 http://ftpmaster.internal/ubuntu resolute/universe qcumber 2.3.0-3 (diff) [130 kB]
159s gpgv: Signature made Thu Nov 20 17:33:23 2025 UTC
159s gpgv:                using RSA key D54C3BFAFFB042DE382DA5D741CE7F0B9F1B8B32
159s gpgv: Can't check signature: No public key
159s dpkg-source: warning: cannot verify inline signature for ./qcumber_2.3.0-3.dsc: no acceptable signature found
159s autopkgtest [04:03:46]: testing package qcumber version 2.3.0-3
160s autopkgtest [04:03:47]: build not needed
162s autopkgtest [04:03:49]: test run-unit-test: preparing testbed
162s Reading package lists...
162s Building dependency tree...
162s Reading state information...
163s Solving dependencies...
163s The following NEW packages will be installed:
163s   coinor-cbc coinor-libcbc3.1 coinor-libcgl1 coinor-libclp1
163s   coinor-libcoinutils3v5 coinor-libosi1v5 docutils-common dwgsim
163s   fontconfig-config fonts-dejavu-core fonts-dejavu-extra fonts-dejavu-mono
163s   fonts-glyphicons-halflings fonts-urw-base35 git git-man libblas3 libcairo2
163s   libdatrie1 libdeflate0 liberror-perl libfontconfig1 libfontenc1 libgfortran5
163s   libgomp1 libgraphite2-3 libharfbuzz0b libimagequant0 libjbig0 libjpeg-turbo8
163s   libjpeg8 libjs-bootstrap libjs-jquery liblapack3 liblcms2-2 liblerc4
163s   libopenjp2-7 libpixman-1-0 libraqm0 libsharpyuv0 libtiff6 libwebp7
163s   libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 libxrender1
163s   python3-biopython python3-cairo python3-charset-normalizer
163s   python3-configargparse python3-connection-pool python3-datrie
163s   python3-decorator python3-docutils python3-dpath python3-fastjsonschema
163s   python3-freetype python3-git python3-gitdb python3-humanfriendly
163s   python3-jupyter-core python3-nbformat python3-numpy python3-numpy-dev
163s   python3-pandas python3-pandas-lib python3-pil python3-plac
163s   python3-platformdirs python3-psutil python3-pulp python3-pytz
163s   python3-reportlab python3-retry python3-rlpycairo python3-roman-numerals
163s   python3-smart-open python3-smmap python3-stopit python3-tabulate
163s   python3-throttler python3-toposort python3-traitlets python3-wrapt
163s   python3-yte sgml-base snakemake w3c-sgml-lib x11-common xfonts-encodings
163s   xfonts-utils xml-core
163s 0 upgraded, 93 newly installed, 0 to remove and 0 not upgraded.
163s Need to get 55.7 MB of archives.
163s After this operation, 233 MB of additional disk space will be used.
163s Get:1 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-numpy-dev amd64 1:2.3.5+ds-3 [147 kB]
163s Get:2 http://ftpmaster.internal/ubuntu resolute/main amd64 libblas3 amd64 3.12.1-7ubuntu1 [260 kB]
163s Get:3 http://ftpmaster.internal/ubuntu resolute/main amd64 libgfortran5 amd64 16-20260208-1ubuntu1 [957 kB]
163s Get:4 http://ftpmaster.internal/ubuntu resolute/main amd64 liblapack3 amd64 3.12.1-7ubuntu1 [2739 kB]
163s Get:5 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-numpy amd64 1:2.3.5+ds-3 [8129 kB]
164s Get:6 http://ftpmaster.internal/ubuntu resolute/universe amd64 coinor-libcoinutils3v5 amd64 2.11.12+ds-1 [491 kB]
164s Get:7 http://ftpmaster.internal/ubuntu resolute/universe amd64 coinor-libosi1v5 amd64 0.108.11+ds-1 [291 kB]
164s Get:8 http://ftpmaster.internal/ubuntu resolute/universe amd64 coinor-libclp1 amd64 1.17.10+ds-1build1 [933 kB]
164s Get:9 http://ftpmaster.internal/ubuntu resolute/universe amd64 coinor-libcgl1 amd64 0.60.9+ds-1build1 [439 kB]
164s Get:10 http://ftpmaster.internal/ubuntu resolute/universe amd64 coinor-libcbc3.1 amd64 2.10.12+ds-1build1 [788 kB]
164s Get:11 http://ftpmaster.internal/ubuntu resolute/main amd64 sgml-base all 1.31+nmu1build1 [11.2 kB]
164s Get:12 http://ftpmaster.internal/ubuntu resolute/main amd64 xml-core all 0.19build1 [20.3 kB]
164s Get:13 http://ftpmaster.internal/ubuntu resolute/main amd64 docutils-common all 0.22.4+dfsg-1 [130 kB]
164s Get:14 http://ftpmaster.internal/ubuntu resolute/universe amd64 dwgsim amd64 0.1.14-4build1 [45.9 kB]
164s Get:15 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-dejavu-mono all 2.37-8build1 [502 kB]
164s Get:16 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-dejavu-core all 2.37-8build1 [834 kB]
164s Get:17 http://ftpmaster.internal/ubuntu resolute/main amd64 libfontenc1 amd64 1:1.1.8-1build2 [14.1 kB]
164s Get:18 http://ftpmaster.internal/ubuntu resolute/main amd64 x11-common all 1:7.7+24ubuntu1 [22.4 kB]
164s Get:19 http://ftpmaster.internal/ubuntu resolute/main amd64 xfonts-encodings all 1:1.0.5-0ubuntu3 [576 kB]
164s Get:20 http://ftpmaster.internal/ubuntu resolute/main amd64 xfonts-utils amd64 1:7.7+7build1 [97.1 kB]
164s Get:21 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-urw-base35 all 20200910-8build1 [10.9 MB]
165s Get:22 http://ftpmaster.internal/ubuntu resolute/main amd64 fontconfig-config amd64 2.17.1-3ubuntu1 [38.5 kB]
165s Get:23 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-dejavu-extra all 2.37-8build1 [1944 kB]
165s Get:24 http://ftpmaster.internal/ubuntu resolute/universe amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-6 [119 kB]
165s Get:25 http://ftpmaster.internal/ubuntu resolute/main amd64 liberror-perl all 0.17030-1 [23.5 kB]
165s Get:26 http://ftpmaster.internal/ubuntu resolute/main amd64 git-man all 1:2.51.0-1ubuntu1 [1179 kB]
165s Get:27 http://ftpmaster.internal/ubuntu resolute/main amd64 git amd64 1:2.51.0-1ubuntu1 [4414 kB]
165s Get:28 http://ftpmaster.internal/ubuntu resolute/main amd64 libfontconfig1 amd64 2.17.1-3ubuntu1 [144 kB]
165s Get:29 http://ftpmaster.internal/ubuntu resolute/main amd64 libpixman-1-0 amd64 0.46.4-1 [287 kB]
165s Get:30 http://ftpmaster.internal/ubuntu resolute/main amd64 libxcb-render0 amd64 1.17.0-2ubuntu1 [16.2 kB]
165s Get:31 http://ftpmaster.internal/ubuntu resolute/main amd64 libxcb-shm0 amd64 1.17.0-2ubuntu1 [5808 B]
165s Get:32 http://ftpmaster.internal/ubuntu resolute/main amd64 libxrender1 amd64 1:0.9.12-1 [19.8 kB]
165s Get:33 http://ftpmaster.internal/ubuntu resolute/main amd64 libcairo2 amd64 1.18.4-3 [579 kB]
165s Get:34 http://ftpmaster.internal/ubuntu resolute/main amd64 libdatrie1 amd64 0.2.14-1 [19.8 kB]
165s Get:35 http://ftpmaster.internal/ubuntu resolute/main amd64 libdeflate0 amd64 1.23-2build1 [51.6 kB]
165s Get:36 http://ftpmaster.internal/ubuntu resolute/main amd64 libgomp1 amd64 16-20260208-1ubuntu1 [162 kB]
165s Get:37 http://ftpmaster.internal/ubuntu resolute/main amd64 libgraphite2-3 amd64 1.3.14-11ubuntu1 [73.7 kB]
165s Get:38 http://ftpmaster.internal/ubuntu resolute/main amd64 libharfbuzz0b amd64 12.3.2-1 [519 kB]
165s Get:39 http://ftpmaster.internal/ubuntu resolute/main amd64 libimagequant0 amd64 2.18.0-1build1 [36.3 kB]
165s Get:40 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg-turbo8 amd64 2.1.5-4ubuntu3 [156 kB]
165s Get:41 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg8 amd64 8c-2ubuntu12 [2142 B]
165s Get:42 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-bootstrap all 3.4.1+dfsg-6 [129 kB]
165s Get:43 http://ftpmaster.internal/ubuntu resolute/main amd64 libjs-jquery all 3.7.1+dfsg+~3.5.33-1build1 [321 kB]
165s Get:44 http://ftpmaster.internal/ubuntu resolute/main amd64 liblcms2-2 amd64 2.17-1 [170 kB]
165s Get:45 http://ftpmaster.internal/ubuntu resolute/main amd64 liblerc4 amd64 4.0.0+ds-5ubuntu2 [207 kB]
165s Get:46 http://ftpmaster.internal/ubuntu resolute/main amd64 libraqm0 amd64 0.10.4-1 [15.5 kB]
165s Get:47 http://ftpmaster.internal/ubuntu resolute/main amd64 libsharpyuv0 amd64 1.5.0-0.1build1 [17.6 kB]
165s Get:48 http://ftpmaster.internal/ubuntu resolute/main amd64 libjbig0 amd64 2.1-6.1ubuntu3 [30.0 kB]
165s Get:49 http://ftpmaster.internal/ubuntu resolute/main amd64 libwebp7 amd64 1.5.0-0.1build1 [264 kB]
165s Get:50 http://ftpmaster.internal/ubuntu resolute/main amd64 libtiff6 amd64 4.7.0-3ubuntu3 [209 kB]
165s Get:51 http://ftpmaster.internal/ubuntu resolute/main amd64 libwebpdemux2 amd64 1.5.0-0.1build1 [12.8 kB]
165s Get:52 http://ftpmaster.internal/ubuntu resolute/main amd64 libwebpmux3 amd64 1.5.0-0.1build1 [26.4 kB]
165s Get:53 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-charset-normalizer amd64 3.4.4-2 [173 kB]
165s Get:54 http://ftpmaster.internal/ubuntu resolute/main amd64 libopenjp2-7 amd64 2.5.4-1 [188 kB]
165s Get:55 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-pil amd64 12.0.0-1ubuntu1 [494 kB]
165s Get:56 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-cairo amd64 1.27.0-2build1 [140 kB]
165s Get:57 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-freetype all 2.5.1-2 [92.2 kB]
165s Get:58 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-rlpycairo all 0.3.0-4 [9332 B]
165s Get:59 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-reportlab all 4.4.9-1 [1149 kB]
165s Get:60 http://ftpmaster.internal/ubuntu resolute/universe amd64 w3c-sgml-lib all 1.3-3build1 [278 kB]
165s Get:61 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-biopython amd64 1.86+dfsg-1 [1682 kB]
165s Get:62 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-configargparse all 1.7-2 [31.7 kB]
165s Get:63 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-connection-pool all 0.0.3-2build1 [5792 B]
165s Get:64 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-datrie amd64 0.8.3-2 [207 kB]
165s Get:65 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-decorator all 5.2.1-2 [28.1 kB]
165s Get:66 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-roman-numerals all 4.1.0-1 [8660 B]
165s Get:67 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-docutils all 0.22.4+dfsg-1 [439 kB]
165s Get:68 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-dpath all 2.2.0-2 [20.3 kB]
165s Get:69 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-fastjsonschema all 2.21.1-1 [20.4 kB]
165s Get:70 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-smmap all 6.0.0-1build1 [20.7 kB]
166s Get:71 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-gitdb all 4.0.12-1 [46.4 kB]
166s Get:72 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-git all 3.1.46-1 [149 kB]
166s Get:73 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-humanfriendly all 10.0-6build1 [70.9 kB]
166s Get:74 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-platformdirs all 4.5.1-1 [17.1 kB]
166s Get:75 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-traitlets all 5.14.3+really5.14.3-2 [71.7 kB]
166s Get:76 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-jupyter-core all 5.9.1-1 [28.9 kB]
166s Get:77 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-nbformat all 5.10.4-1 [39.2 kB]
166s Get:78 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pytz all 2025.2-5 [32.4 kB]
166s Get:79 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pandas-lib amd64 2.3.3+dfsg-3 [6929 kB]
166s Get:80 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pandas all 2.3.3+dfsg-3 [2948 kB]
166s Get:81 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-plac all 1.4.3-2 [63.2 kB]
166s Get:82 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-psutil amd64 7.1.0-1ubuntu1 [191 kB]
166s Get:83 http://ftpmaster.internal/ubuntu resolute/universe amd64 coinor-cbc amd64 2.10.12+ds-1build1 [14.5 kB]
166s Get:84 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pulp all 2.7.0+dfsg-4 [71.4 kB]
166s Get:85 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-retry all 0.9.2-5 [6160 B]
166s Get:86 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-wrapt amd64 1.17.3-3 [40.5 kB]
166s Get:87 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-smart-open all 7.5.0-1 [56.9 kB]
166s Get:88 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-stopit all 1.1.2-4 [12.9 kB]
166s Get:89 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-tabulate all 0.9.0-1build1 [45.4 kB]
166s Get:90 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-throttler all 1.2.2-4ubuntu1 [7758 B]
166s Get:91 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-toposort all 1.10-2build1 [6454 B]
166s Get:92 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-yte all 1.5.4-1build1 [12.2 kB]
166s Get:93 http://ftpmaster.internal/ubuntu resolute/universe amd64 snakemake all 7.32.4-8.1 [275 kB]
166s Fetched 55.7 MB in 3s (16.7 MB/s)
166s Selecting previously unselected package python3-numpy-dev:amd64.
166s (Reading database ... 
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(Reading database ... 10%
(Reading database ... 15%
(Reading database ... 20%
(Reading database ... 25%
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166s Preparing to unpack .../00-python3-numpy-dev_1%3a2.3.5+ds-3_amd64.deb ...
166s Unpacking python3-numpy-dev:amd64 (1:2.3.5+ds-3) ...
167s Selecting previously unselected package libblas3:amd64.
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167s Selecting previously unselected package libgfortran5:amd64.
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167s Selecting previously unselected package liblapack3:amd64.
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167s Selecting previously unselected package python3-numpy.
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167s Selecting previously unselected package coinor-libcoinutils3v5:amd64.
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167s Selecting previously unselected package coinor-libosi1v5:amd64.
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167s Selecting previously unselected package coinor-libclp1:amd64.
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167s Selecting previously unselected package coinor-libcgl1:amd64.
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167s Selecting previously unselected package coinor-libcbc3.1:amd64.
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167s Selecting previously unselected package sgml-base.
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167s Selecting previously unselected package dwgsim.
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167s Selecting previously unselected package fonts-dejavu-mono.
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167s Selecting previously unselected package fonts-dejavu-core.
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167s Selecting previously unselected package libfontenc1:amd64.
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167s Selecting previously unselected package x11-common.
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167s Selecting previously unselected package xfonts-encodings.
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167s Selecting previously unselected package xfonts-utils.
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167s Selecting previously unselected package fonts-urw-base35.
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167s Selecting previously unselected package fontconfig-config.
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167s Selecting previously unselected package fonts-dejavu-extra.
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167s Selecting previously unselected package fonts-glyphicons-halflings.
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167s Selecting previously unselected package liberror-perl.
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168s Selecting previously unselected package libfontconfig1:amd64.
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168s Selecting previously unselected package libpixman-1-0:amd64.
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168s Selecting previously unselected package libxcb-shm0:amd64.
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168s Selecting previously unselected package libxrender1:amd64.
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168s Selecting previously unselected package libcairo2:amd64.
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168s Selecting previously unselected package libdatrie1:amd64.
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168s Selecting previously unselected package libdeflate0:amd64.
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168s Selecting previously unselected package libgomp1:amd64.
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168s Selecting previously unselected package libgraphite2-3:amd64.
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168s Selecting previously unselected package libharfbuzz0b:amd64.
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168s Selecting previously unselected package libimagequant0:amd64.
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168s Selecting previously unselected package libjpeg-turbo8:amd64.
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168s Selecting previously unselected package libjpeg8:amd64.
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168s Selecting previously unselected package libjs-bootstrap.
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168s Selecting previously unselected package libjs-jquery.
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168s Selecting previously unselected package liblcms2-2:amd64.
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168s Unpacking liblcms2-2:amd64 (2.17-1) ...
168s Selecting previously unselected package liblerc4:amd64.
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168s Selecting previously unselected package libraqm0:amd64.
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168s Unpacking libraqm0:amd64 (0.10.4-1) ...
168s Selecting previously unselected package libsharpyuv0:amd64.
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168s Selecting previously unselected package libjbig0:amd64.
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168s Selecting previously unselected package libwebp7:amd64.
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168s Selecting previously unselected package libtiff6:amd64.
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168s Selecting previously unselected package libwebpdemux2:amd64.
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168s Selecting previously unselected package libwebpmux3:amd64.
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168s Selecting previously unselected package python3-charset-normalizer.
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168s Selecting previously unselected package libopenjp2-7:amd64.
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168s Selecting previously unselected package python3-pil:amd64.
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168s Selecting previously unselected package python3-cairo.
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168s Selecting previously unselected package python3-freetype.
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168s Selecting previously unselected package python3-rlpycairo.
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168s Selecting previously unselected package python3-reportlab.
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168s Selecting previously unselected package w3c-sgml-lib.
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168s Selecting previously unselected package python3-biopython.
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168s Selecting previously unselected package python3-connection-pool.
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168s Selecting previously unselected package python3-datrie.
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168s Selecting previously unselected package python3-decorator.
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168s Selecting previously unselected package python3-roman-numerals.
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168s Selecting previously unselected package python3-docutils.
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168s Selecting previously unselected package python3-dpath.
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168s Selecting previously unselected package python3-fastjsonschema.
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168s Selecting previously unselected package python3-platformdirs.
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169s Selecting previously unselected package python3-pandas-lib:amd64.
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169s Setting up python3-toposort (1.10-2build1) ...
169s Setting up libgraphite2-3:amd64 (1.3.14-11ubuntu1) ...
169s Setting up python3-configargparse (1.7-2) ...
169s Setting up liblcms2-2:amd64 (2.17-1) ...
169s Setting up libpixman-1-0:amd64 (0.46.4-1) ...
169s Setting up libsharpyuv0:amd64 (1.5.0-0.1build1) ...
169s Setting up liblerc4:amd64 (4.0.0+ds-5ubuntu2) ...
169s Setting up libxrender1:amd64 (1:0.9.12-1) ...
169s Setting up libdatrie1:amd64 (0.2.14-1) ...
169s Setting up libxcb-render0:amd64 (1.17.0-2ubuntu1) ...
169s Setting up python3-charset-normalizer (3.4.4-2) ...
169s Setting up fonts-glyphicons-halflings (1.009~3.4.1+dfsg-6) ...
169s Setting up x11-common (1:7.7+24ubuntu1) ...
170s Setting up libdeflate0:amd64 (1.23-2build1) ...
170s Setting up python3-tabulate (0.9.0-1build1) ...
170s Setting up python3-pytz (2025.2-5) ...
170s Setting up libxcb-shm0:amd64 (1.17.0-2ubuntu1) ...
170s Setting up libgomp1:amd64 (16-20260208-1ubuntu1) ...
170s Setting up python3-freetype (2.5.1-2) ...
170s Setting up libjbig0:amd64 (2.1-6.1ubuntu3) ...
170s Setting up python3-plac (1.4.3-2) ...
170s Setting up python3-platformdirs (4.5.1-1) ...
170s Setting up python3-psutil (7.1.0-1ubuntu1) ...
170s Setting up liberror-perl (0.17030-1) ...
170s Setting up python3-decorator (5.2.1-2) ...
170s Setting up libfontenc1:amd64 (1:1.1.8-1build2) ...
170s Setting up libblas3:amd64 (3.12.1-7ubuntu1) ...
170s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode
170s Setting up python3-humanfriendly (10.0-6build1) ...
170s Setting up xfonts-encodings (1:1.0.5-0ubuntu3) ...
170s Setting up python3-dpath (2.2.0-2) ...
170s Setting up python3-connection-pool (0.0.3-2build1) ...
170s Setting up libimagequant0:amd64 (2.18.0-1build1) ...
170s Setting up fonts-dejavu-mono (2.37-8build1) ...
170s Setting up python3-numpy-dev:amd64 (1:2.3.5+ds-3) ...
170s Setting up python3-wrapt (1.17.3-3) ...
170s Setting up python3-throttler (1.2.2-4ubuntu1) ...
171s Setting up dwgsim (0.1.14-4build1) ...
171s Setting up fonts-dejavu-core (2.37-8build1) ...
171s Setting up python3-retry (0.9.2-5) ...
171s Setting up libjpeg-turbo8:amd64 (2.1.5-4ubuntu3) ...
171s Setting up libgfortran5:amd64 (16-20260208-1ubuntu1) ...
171s Setting up libwebp7:amd64 (1.5.0-0.1build1) ...
171s Setting up python3-fastjsonschema (2.21.1-1) ...
171s Setting up fonts-dejavu-extra (2.37-8build1) ...
171s Setting up python3-stopit (1.1.2-4) ...
171s Setting up python3-traitlets (5.14.3+really5.14.3-2) ...
171s Setting up python3-roman-numerals (4.1.0-1) ...
171s Setting up libopenjp2-7:amd64 (2.5.4-1) ...
171s Setting up git-man (1:2.51.0-1ubuntu1) ...
171s Setting up libharfbuzz0b:amd64 (12.3.2-1) ...
171s Setting up sgml-base (1.31+nmu1build1) ...
171s Setting up python3-datrie (0.8.3-2) ...
171s Setting up libjs-jquery (3.7.1+dfsg+~3.5.33-1build1) ...
171s Setting up libwebpmux3:amd64 (1.5.0-0.1build1) ...
171s Setting up python3-smmap (6.0.0-1build1) ...
171s Setting up python3-jupyter-core (5.9.1-1) ...
171s Setting up libjs-bootstrap (3.4.1+dfsg-6) ...
171s Setting up libjpeg8:amd64 (8c-2ubuntu12) ...
171s Setting up liblapack3:amd64 (3.12.1-7ubuntu1) ...
171s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode
171s Setting up python3-smart-open (7.5.0-1) ...
171s Setting up fontconfig-config (2.17.1-3ubuntu1) ...
171s Setting up libwebpdemux2:amd64 (1.5.0-0.1build1) ...
171s Setting up python3-nbformat (5.10.4-1) ...
171s Setting up python3-gitdb (4.0.12-1) ...
172s Setting up xfonts-utils (1:7.7+7build1) ...
172s Setting up python3-yte (1.5.4-1build1) ...
172s Setting up coinor-libcoinutils3v5:amd64 (2.11.12+ds-1) ...
172s Setting up libraqm0:amd64 (0.10.4-1) ...
172s Setting up git (1:2.51.0-1ubuntu1) ...
172s Setting up python3-numpy (1:2.3.5+ds-3) ...
173s Setting up coinor-libosi1v5:amd64 (0.108.11+ds-1) ...
173s Setting up libtiff6:amd64 (4.7.0-3ubuntu3) ...
173s Setting up xml-core (0.19build1) ...
173s Setting up libfontconfig1:amd64 (2.17.1-3ubuntu1) ...
173s Setting up python3-pandas-lib:amd64 (2.3.3+dfsg-3) ...
173s Setting up fonts-urw-base35 (20200910-8build1) ...
173s Setting up libcairo2:amd64 (1.18.4-3) ...
173s Setting up python3-pil:amd64 (12.0.0-1ubuntu1) ...
173s Setting up python3-pandas (2.3.3+dfsg-3) ...
176s Setting up coinor-libclp1:amd64 (1.17.10+ds-1build1) ...
176s Setting up python3-git (3.1.46-1) ...
176s Setting up coinor-libcgl1:amd64 (0.60.9+ds-1build1) ...
176s Setting up python3-cairo (1.27.0-2build1) ...
176s Setting up python3-rlpycairo (0.3.0-4) ...
176s Setting up coinor-libcbc3.1:amd64 (2.10.12+ds-1build1) ...
176s Setting up python3-reportlab (4.4.9-1) ...
177s Setting up coinor-cbc (2.10.12+ds-1build1) ...
177s Setting up python3-pulp (2.7.0+dfsg-4) ...
177s /usr/lib/python3/dist-packages/pulp/apis/xpress_api.py:325: SyntaxWarning: invalid escape sequence '\ '
177s   otherwise be interpreted by the Tcl shell: \ $ " [
177s Processing triggers for libc-bin (2.42-2ubuntu4) ...
177s Processing triggers for man-db (2.13.1-1build1) ...
178s Processing triggers for sgml-base (1.31+nmu1build1) ...
178s Setting up w3c-sgml-lib (1.3-3build1) ...
195s Setting up docutils-common (0.22.4+dfsg-1) ...
195s Setting up python3-biopython (1.86+dfsg-1) ...
196s Processing triggers for sgml-base (1.31+nmu1build1) ...
196s Setting up python3-docutils (0.22.4+dfsg-1) ...
196s Setting up snakemake (7.32.4-8.1) ...
197s autopkgtest [04:04:24]: test run-unit-test: [-----------------------
197s Running simulators...
197s Prepended http:// to ''
197s http://: Invalid host name.
197s --2026-02-10 04:04:24--  https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/005/845/GCF_000005845.2_ASM584v2/GCF_000005845.2_ASM584v2_genomic.fna.gz
198s Resolving egress.ps7.internal (egress.ps7.internal)... 10.151.41.7, 10.151.41.5, 10.151.41.6
198s Connecting to egress.ps7.internal (egress.ps7.internal)|10.151.41.7|:3128... connected.
199s Proxy request sent, awaiting response... 200 OK
199s Length: 1379902 (1.3M) [application/x-gzip]
199s Saving to: ‘data/GCF_000005845.2_ASM584v2_genomic.fna.gz’
199s 
199s      0K .......... .......... .......... .......... ..........  3%  240K 5s
199s     50K .......... .......... .......... .......... ..........  7% 1.21M 3s
199s    100K .......... .......... .......... .......... .......... 11%  480K 3s
199s    150K .......... .......... .......... .......... .......... 14%  780K 2s
199s    200K .......... .......... .......... .......... .......... 18%  404M 2s
199s    250K .......... .......... .......... .......... .......... 22%  483K 2s
199s    300K .......... .......... .......... .......... .......... 25% 95.3M 1s
199s    350K .......... .......... .......... .......... .......... 29%  545M 1s
199s    400K .......... .......... .......... .......... .......... 33%  762M 1s
199s    450K .......... .......... .......... .......... .......... 37% 1.22M 1s
199s    500K .......... .......... .......... .......... .......... 40%  790K 1s
199s    550K .......... .......... .......... .......... .......... 44% 79.5M 1s
199s    600K .......... .......... .......... .......... .......... 48%  305M 1s
199s    650K .......... .......... .......... .......... .......... 51%  467M 1s
199s    700K .......... .......... .......... .......... .......... 55%  634M 0s
199s    750K .......... .......... .......... .......... .......... 59%  583M 0s
199s    800K .......... .......... .......... .......... .......... 63%  660M 0s
199s    850K .......... .......... .......... .......... .......... 66%  528M 0s
199s    900K .......... .......... .......... .......... .......... 70% 1.24M 0s
199s    950K .......... .......... .......... .......... .......... 74%  192M 0s
199s   1000K .......... .......... .......... .......... .......... 77%  198M 0s
199s   1050K .......... .......... .......... .......... .......... 81%  792K 0s
199s   1100K .......... .......... .......... .......... .......... 85%  112M 0s
199s   1150K .......... .......... .......... .......... .......... 89%  202M 0s
199s   1200K .......... .......... .......... .......... .......... 92%  308M 0s
199s   1250K .......... .......... .......... .......... .......... 96%  701M 0s
199s   1300K .......... .......... .......... .......... .......   100%  789M=0.7s
199s 
199s 2026-02-10 04:04:26 (1.80 MB/s) - ‘data/GCF_000005845.2_ASM584v2_genomic.fna.gz’ saved [1379902/1379902]
199s 
199s FINISHED --2026-02-10 04:04:26--
199s Total wall clock time: 1.8s
199s Downloaded: 1 files, 1.3M in 0.7s (1.80 MB/s)
199s [dwgsim_core] NC_000913.3 length: 4641652
199s [dwgsim_core] 1 sequences, total length: 4641652
199s [dwgsim_core] Currently on: 
200s 0
[dwgsim_core] 0
[dwgsim_core] 1000
200s [dwgsim_core] Complete!
200s Cleanup simulated data...
200s Command 'QCumber encountered an error' returned non-zero exit status 1.
200s Running simulators...
200s FileNotFoundError: [Errno 2] No such file or directory: '/tmp/tmpfdlg0u72/testData42dwgsim-e-coli4cd473993fb5297c262806b154139fd517216272/testData42dwgsim-e-coli4cd473993fb5297c262806b154139fd517216272_S1_L001_R1_001.fastq'
200s Cleanup simulated data...
201s Command 'QCumber encountered an error' returned non-zero exit status 1.
201s Running simulators...
201s FileNotFoundError: [Errno 2] No such file or directory: '/tmp/tmpfdlg0u72/testData42dwgsim-e-colica1f17628ed45b58a10b74a9fe7d8023079a1856/testData42dwgsim-e-colica1f17628ed45b58a10b74a9fe7d8023079a1856_S1_L001_R1_001.fastq'
201s [dwgsim_core] NC_000913.3 length: 4641652
201s [dwgsim_core] 1 sequences, total length: 4641652
201s [dwgsim_core] Currently on: 
213s 0
[dwgsim_core] 0
[dwgsim_core] 10000
[dwgsim_core] 20000
[dwgsim_core] 30000
[dwgsim_core] 40000
[dwgsim_core] 50000
[dwgsim_core] 60000
[dwgsim_core] 70000
[dwgsim_core] 80000
[dwgsim_core] 90000
[dwgsim_core] 100000
213s [dwgsim_core] Complete!
213s Cleanup simulated data...
214s UnicodeDecodeError: 'utf-8' codec can't decode byte 0x8b in position 1: invalid start byte
214s Command 'QCumber encountered an error' returned non-zero exit status 1.
214s wget -Pdata  https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/005/845/GCF_000005845.2_ASM584v2/GCF_000005845.2_ASM584v2_genomic.fna.gz
214s 
214s Run Qcumber: testData42dwgsim-e-coli4cd473993fb5297c262806b154139fd517216272
214s ../QCumber-2 -i/tmp/tmpfdlg0u72/testData42dwgsim-e-coli4cd473993fb5297c262806b154139fd517216272 -t2 -K -otestData42dwgsim-e-coli4cd473993fb5297c262806b154139fd517216272
214s 
214s Run Qcumber: testData42dwgsim-e-colica1f17628ed45b58a10b74a9fe7d8023079a1856
214s ../QCumber-2 -i/tmp/tmpfdlg0u72/testData42dwgsim-e-colica1f17628ed45b58a10b74a9fe7d8023079a1856 -t2 -K --trimBetter mapping -otestData42dwgsim-e-colica1f17628ed45b58a10b74a9fe7d8023079a1856
214s 
214s Run Qcumber: testData42dwgsim-e-colidd57828f1167d5db3d40ca2590a921efd93d508c
214s ../QCumber-2 -i/tmp/tmpfdlg0u72/testData42dwgsim-e-colidd57828f1167d5db3d40ca2590a921efd93d508c -t4 -K -S -otestData42dwgsim-e-colidd57828f1167d5db3d40ca2590a921efd93d508c -rdata/GCF_000005845.2_ASM584v2_genomic.fna.gz
214s autopkgtest [04:04:41]: test run-unit-test: -----------------------]
215s autopkgtest [04:04:42]: test run-unit-test:  - - - - - - - - - - results - - - - - - - - - -
215s run-unit-test        PASS
215s autopkgtest [04:04:42]: @@@@@@@@@@@@@@@@@@@@ summary
215s run-unit-test        PASS