0s autopkgtest [22:53:49]: starting date and time: 2026-02-09 22:53:49+0000 0s autopkgtest [22:53:49]: git checkout: 4b346b80 nova: make wait_reboot return success even when a no-op 0s autopkgtest [22:53:49]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.ejoq3yq8/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 assemblytics --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-ppc64el --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@sto01-ppc64el-19.secgroup --name adt-resolute-ppc64el-assemblytics-20260209-225349-juju-7f2275-prod-proposed-migration-environment-2-4934600b-75ce-42df-863c-613df05c542a --image adt/ubuntu-resolute-ppc64el-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-autopkgtest-workers-ppc64el -e TERM=linux --mirror=http://ftpmaster.internal/ubuntu/ 4s Creating nova instance adt-resolute-ppc64el-assemblytics-20260209-225349-juju-7f2275-prod-proposed-migration-environment-2-4934600b-75ce-42df-863c-613df05c542a from image adt/ubuntu-resolute-ppc64el-server-20260209.img (UUID f7f31435-4cd1-4090-aa55-59cfefa097ca)... 118s autopkgtest [22:55:47]: testbed dpkg architecture: ppc64el 118s autopkgtest [22:55:47]: testbed apt version: 3.1.15 119s autopkgtest [22:55:48]: @@@@@@@@@@@@@@@@@@@@ test bed setup 119s autopkgtest [22:55:48]: testbed release detected to be: None 119s autopkgtest [22:55:48]: updating testbed package index (apt update) 120s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease [124 kB] 120s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 120s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 120s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 120s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/main Sources [176 kB] 120s Get:6 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse Sources [29.4 kB] 120s Get:7 http://ftpmaster.internal/ubuntu resolute-proposed/universe Sources [1645 kB] 123s Get:8 http://ftpmaster.internal/ubuntu resolute-proposed/main ppc64el Packages [246 kB] 123s Get:9 http://ftpmaster.internal/ubuntu resolute-proposed/universe ppc64el Packages [1534 kB] 126s Get:10 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse ppc64el Packages [19.4 kB] 126s Fetched 3774 kB in 6s (586 kB/s) 127s Reading package lists... 127s Hit:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease 127s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 128s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 128s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 128s Reading package lists... 128s Reading package lists... 129s Building dependency tree... 129s Reading state information... 129s Calculating upgrade... 129s The following packages will be upgraded: 129s cryptsetup-bin dracut-install iproute2 iptables libcryptsetup12 libip4tc2 129s libip6tc2 libxtables12 wget 129s 9 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 129s Need to get 3125 kB of archives. 129s After this operation, 78.8 kB of additional disk space will be used. 129s Get:1 http://ftpmaster.internal/ubuntu resolute/main ppc64el iptables ppc64el 1.8.11-2ubuntu3 [464 kB] 129s Get:2 http://ftpmaster.internal/ubuntu resolute/main ppc64el libip4tc2 ppc64el 1.8.11-2ubuntu3 [27.8 kB] 129s Get:3 http://ftpmaster.internal/ubuntu resolute/main ppc64el libip6tc2 ppc64el 1.8.11-2ubuntu3 [28.2 kB] 129s Get:4 http://ftpmaster.internal/ubuntu resolute/main ppc64el libxtables12 ppc64el 1.8.11-2ubuntu3 [41.2 kB] 129s Get:5 http://ftpmaster.internal/ubuntu resolute/main ppc64el iproute2 ppc64el 6.18.0-1ubuntu1 [1458 kB] 131s Get:6 http://ftpmaster.internal/ubuntu resolute/main ppc64el libcryptsetup12 ppc64el 2:2.8.0-1ubuntu3 [404 kB] 131s Get:7 http://ftpmaster.internal/ubuntu resolute/main ppc64el wget ppc64el 1.25.0-2ubuntu4 [401 kB] 131s Get:8 http://ftpmaster.internal/ubuntu resolute/main ppc64el cryptsetup-bin ppc64el 2:2.8.0-1ubuntu3 [250 kB] 131s Get:9 http://ftpmaster.internal/ubuntu resolute/main ppc64el dracut-install ppc64el 109-11ubuntu1 [51.3 kB] 131s dpkg-preconfigure: unable to re-open stdin: No such file or directory 131s Fetched 3125 kB in 2s (1487 kB/s) 132s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 122003 files and directories currently installed.) 132s Preparing to unpack .../0-iptables_1.8.11-2ubuntu3_ppc64el.deb ... 132s Unpacking iptables (1.8.11-2ubuntu3) over (1.8.11-2ubuntu2) ... 132s Preparing to unpack .../1-libip4tc2_1.8.11-2ubuntu3_ppc64el.deb ... 132s Unpacking libip4tc2:ppc64el (1.8.11-2ubuntu3) over (1.8.11-2ubuntu2) ... 132s Preparing to unpack .../2-libip6tc2_1.8.11-2ubuntu3_ppc64el.deb ... 132s Unpacking libip6tc2:ppc64el (1.8.11-2ubuntu3) over (1.8.11-2ubuntu2) ... 132s Preparing to unpack .../3-libxtables12_1.8.11-2ubuntu3_ppc64el.deb ... 132s Unpacking libxtables12:ppc64el (1.8.11-2ubuntu3) over (1.8.11-2ubuntu2) ... 132s Preparing to unpack .../4-iproute2_6.18.0-1ubuntu1_ppc64el.deb ... 132s Unpacking iproute2 (6.18.0-1ubuntu1) over (6.16.0-1ubuntu3) ... 132s Preparing to unpack .../5-libcryptsetup12_2%3a2.8.0-1ubuntu3_ppc64el.deb ... 132s Unpacking libcryptsetup12:ppc64el (2:2.8.0-1ubuntu3) over (2:2.8.0-1ubuntu2) ... 133s Preparing to unpack .../6-wget_1.25.0-2ubuntu4_ppc64el.deb ... 133s Unpacking wget (1.25.0-2ubuntu4) over (1.25.0-2ubuntu3) ... 133s Preparing to unpack .../7-cryptsetup-bin_2%3a2.8.0-1ubuntu3_ppc64el.deb ... 133s Unpacking cryptsetup-bin (2:2.8.0-1ubuntu3) over (2:2.8.0-1ubuntu2) ... 133s Preparing to unpack .../8-dracut-install_109-11ubuntu1_ppc64el.deb ... 133s Unpacking dracut-install (109-11ubuntu1) over (109-9ubuntu1) ... 133s Setting up libip4tc2:ppc64el (1.8.11-2ubuntu3) ... 133s Setting up wget (1.25.0-2ubuntu4) ... 133s Setting up libip6tc2:ppc64el (1.8.11-2ubuntu3) ... 133s Setting up libxtables12:ppc64el (1.8.11-2ubuntu3) ... 133s Setting up dracut-install (109-11ubuntu1) ... 133s Setting up libcryptsetup12:ppc64el (2:2.8.0-1ubuntu3) ... 133s Setting up cryptsetup-bin (2:2.8.0-1ubuntu3) ... 133s Setting up iptables (1.8.11-2ubuntu3) ... 133s Setting up iproute2 (6.18.0-1ubuntu1) ... 133s Processing triggers for man-db (2.13.1-1build1) ... 135s Processing triggers for install-info (7.2-5) ... 135s Processing triggers for libc-bin (2.42-2ubuntu4) ... 135s autopkgtest [22:56:04]: upgrading testbed (apt dist-upgrade and autopurge) 135s Reading package lists... 135s Building dependency tree... 135s Reading state information... 135s Calculating upgrade... 136s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 136s Reading package lists... 136s Building dependency tree... 136s Reading state information... 136s Solving dependencies... 136s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 138s autopkgtest [22:56:07]: testbed running kernel: Linux 6.19.0-3-generic #3-Ubuntu SMP PREEMPT_DYNAMIC Fri Jan 23 20:13:51 UTC 2026 138s autopkgtest [22:56:07]: @@@@@@@@@@@@@@@@@@@@ apt-source assemblytics 140s Get:1 http://ftpmaster.internal/ubuntu resolute/universe assemblytics 1.2.1+dfsg-2build1 (dsc) [2075 B] 140s Get:2 http://ftpmaster.internal/ubuntu resolute/universe assemblytics 1.2.1+dfsg-2build1 (tar) [15.5 kB] 140s Get:3 http://ftpmaster.internal/ubuntu resolute/universe assemblytics 1.2.1+dfsg-2build1 (diff) [4728 B] 140s gpgv: Signature made Tue Dec 9 22:06:16 2025 UTC 140s gpgv: using RSA key 25E3FF2D7F469DBE7D0D4E50AFCFEC8E669CE1C2 140s gpgv: Can't check signature: No public key 140s dpkg-source: warning: cannot verify inline signature for ./assemblytics_1.2.1+dfsg-2build1.dsc: no acceptable signature found 140s autopkgtest [22:56:09]: testing package assemblytics version 1.2.1+dfsg-2build1 140s autopkgtest [22:56:09]: build not needed 140s autopkgtest [22:56:09]: test run-unit-test: preparing testbed 140s Reading package lists... 141s Building dependency tree... 141s Reading state information... 141s Solving dependencies... 141s The following NEW packages will be installed: 141s assemblytics fontconfig fontconfig-config fonts-dejavu-core 141s fonts-dejavu-mono libblas3 libcairo2 libdatrie1 libdeflate0 libfontconfig1 141s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libice6 libjbig0 141s libjpeg-turbo8 libjpeg8 liblapack3 liblerc4 libpango-1.0-0 141s libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper2 libpixman-1-0 141s libsharpyuv0 libsm6 libtcl8.6 libthai-data libthai0 libtiff6 libtk8.6 141s libwebp7 libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxss1 libxt6t64 141s python-is-python3 python3-all python3-numpy python3-numpy-dev python3.14 141s python3.14-minimal r-base-core r-cran-cli r-cran-farver r-cran-ggplot2 141s r-cran-glue r-cran-gtable r-cran-isoband r-cran-labeling r-cran-lifecycle 141s r-cran-littler r-cran-pkgkitten r-cran-plyr r-cran-r6 r-cran-rcolorbrewer 141s r-cran-rcpp r-cran-rlang r-cran-s7 r-cran-scales r-cran-vctrs 141s r-cran-viridislite r-cran-withr unzip x11-common xdg-utils zip 141s 0 upgraded, 71 newly installed, 0 to remove and 0 not upgraded. 141s Need to get 69.8 MB of archives. 141s After this operation, 175 MB of additional disk space will be used. 141s Get:1 http://ftpmaster.internal/ubuntu resolute/main ppc64el python3-numpy-dev ppc64el 1:2.3.5+ds-3 [153 kB] 141s Get:2 http://ftpmaster.internal/ubuntu resolute/main ppc64el libblas3 ppc64el 3.12.1-7ubuntu1 [291 kB] 141s Get:3 http://ftpmaster.internal/ubuntu resolute/main ppc64el libgfortran5 ppc64el 15.2.0-12ubuntu1 [620 kB] 142s Get:4 http://ftpmaster.internal/ubuntu resolute/main ppc64el liblapack3 ppc64el 3.12.1-7ubuntu1 [2960 kB] 146s Get:5 http://ftpmaster.internal/ubuntu resolute/main ppc64el python3-numpy ppc64el 1:2.3.5+ds-3 [5722 kB] 154s Get:6 http://ftpmaster.internal/ubuntu resolute/main ppc64el python3.14-minimal ppc64el 3.14.2-1 [2712 kB] 158s Get:7 http://ftpmaster.internal/ubuntu resolute/main ppc64el zip ppc64el 3.0-15ubuntu3 [198 kB] 158s Get:8 http://ftpmaster.internal/ubuntu resolute/main ppc64el unzip ppc64el 6.0-29ubuntu1 [200 kB] 158s Get:9 http://ftpmaster.internal/ubuntu resolute/main ppc64el libpaper2 ppc64el 2.2.5-0.3build1 [18.1 kB] 158s Get:10 http://ftpmaster.internal/ubuntu resolute/main ppc64el libpaper-utils ppc64el 2.2.5-0.3build1 [15.7 kB] 158s Get:11 http://ftpmaster.internal/ubuntu resolute/main ppc64el xdg-utils all 1.2.1-2ubuntu2 [66.1 kB] 158s Get:12 http://ftpmaster.internal/ubuntu resolute/main ppc64el fonts-dejavu-mono all 2.37-8build1 [502 kB] 158s Get:13 http://ftpmaster.internal/ubuntu resolute/main ppc64el fonts-dejavu-core all 2.37-8build1 [834 kB] 159s Get:14 http://ftpmaster.internal/ubuntu resolute/main ppc64el fontconfig-config ppc64el 2.17.1-3ubuntu1 [38.5 kB] 159s Get:15 http://ftpmaster.internal/ubuntu resolute/main ppc64el libfontconfig1 ppc64el 2.17.1-3ubuntu1 [193 kB] 159s Get:16 http://ftpmaster.internal/ubuntu resolute/main ppc64el libpixman-1-0 ppc64el 0.46.4-1 [347 kB] 159s Get:17 http://ftpmaster.internal/ubuntu resolute/main ppc64el libxcb-render0 ppc64el 1.17.0-2ubuntu1 [17.4 kB] 159s Get:18 http://ftpmaster.internal/ubuntu resolute/main ppc64el libxcb-shm0 ppc64el 1.17.0-2ubuntu1 [6072 B] 159s Get:19 http://ftpmaster.internal/ubuntu resolute/main ppc64el libxrender1 ppc64el 1:0.9.12-1 [23.0 kB] 159s Get:20 http://ftpmaster.internal/ubuntu resolute/main ppc64el libcairo2 ppc64el 1.18.4-3 [759 kB] 161s Get:21 http://ftpmaster.internal/ubuntu resolute/main ppc64el libdeflate0 ppc64el 1.23-2build1 [64.1 kB] 161s Get:22 http://ftpmaster.internal/ubuntu resolute/main ppc64el libgomp1 ppc64el 15.2.0-12ubuntu1 [169 kB] 161s Get:23 http://ftpmaster.internal/ubuntu resolute/main ppc64el libjpeg-turbo8 ppc64el 2.1.5-4ubuntu3 [214 kB] 161s Get:24 http://ftpmaster.internal/ubuntu resolute/main ppc64el libjpeg8 ppc64el 8c-2ubuntu11 [2148 B] 161s Get:25 http://ftpmaster.internal/ubuntu resolute/main ppc64el fontconfig ppc64el 2.17.1-3ubuntu1 [182 kB] 161s Get:26 http://ftpmaster.internal/ubuntu resolute/main ppc64el libgraphite2-3 ppc64el 1.3.14-11ubuntu1 [85.3 kB] 161s Get:27 http://ftpmaster.internal/ubuntu resolute/main ppc64el libharfbuzz0b ppc64el 12.3.2-1 [663 kB] 162s Get:28 http://ftpmaster.internal/ubuntu resolute/main ppc64el libthai-data all 0.1.30-1 [155 kB] 162s Get:29 http://ftpmaster.internal/ubuntu resolute/main ppc64el libdatrie1 ppc64el 0.2.14-1 [22.7 kB] 162s Get:30 http://ftpmaster.internal/ubuntu resolute/main ppc64el libthai0 ppc64el 0.1.30-1 [22.5 kB] 162s Get:31 http://ftpmaster.internal/ubuntu resolute/main ppc64el libpango-1.0-0 ppc64el 1.57.0-1 [283 kB] 162s Get:32 http://ftpmaster.internal/ubuntu resolute/main ppc64el libpangoft2-1.0-0 ppc64el 1.57.0-1 [61.2 kB] 162s Get:33 http://ftpmaster.internal/ubuntu resolute/main ppc64el libpangocairo-1.0-0 ppc64el 1.57.0-1 [31.0 kB] 162s Get:34 http://ftpmaster.internal/ubuntu resolute/main ppc64el libtcl8.6 ppc64el 8.6.17+dfsg-1build1 [1239 kB] 165s Get:35 http://ftpmaster.internal/ubuntu resolute/main ppc64el libjbig0 ppc64el 2.1-6.1ubuntu3 [37.1 kB] 165s Get:36 http://ftpmaster.internal/ubuntu resolute/main ppc64el liblerc4 ppc64el 4.0.0+ds-5ubuntu2 [315 kB] 165s Get:37 http://ftpmaster.internal/ubuntu resolute/main ppc64el libsharpyuv0 ppc64el 1.5.0-0.1build1 [24.7 kB] 165s Get:38 http://ftpmaster.internal/ubuntu resolute/main ppc64el libwebp7 ppc64el 1.5.0-0.1build1 [330 kB] 165s Get:39 http://ftpmaster.internal/ubuntu resolute/main ppc64el libtiff6 ppc64el 4.7.0-3ubuntu3 [307 kB] 165s Get:40 http://ftpmaster.internal/ubuntu resolute/main ppc64el libxft2 ppc64el 2.3.6-1build2 [61.6 kB] 165s Get:41 http://ftpmaster.internal/ubuntu resolute/main ppc64el x11-common all 1:7.7+24ubuntu1 [22.4 kB] 165s Get:42 http://ftpmaster.internal/ubuntu resolute/main ppc64el libxss1 ppc64el 1:1.2.3-1build4 [7470 B] 165s Get:43 http://ftpmaster.internal/ubuntu resolute/main ppc64el libtk8.6 ppc64el 8.6.17-1 [968 kB] 167s Get:44 http://ftpmaster.internal/ubuntu resolute/main ppc64el libice6 ppc64el 2:1.1.1-1build1 [51.9 kB] 167s Get:45 http://ftpmaster.internal/ubuntu resolute/main ppc64el libsm6 ppc64el 2:1.2.6-1build1 [18.6 kB] 167s Get:46 http://ftpmaster.internal/ubuntu resolute/main ppc64el libxt6t64 ppc64el 1:1.2.1-1.3 [203 kB] 167s Get:47 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-base-core ppc64el 4.5.2-1ubuntu2 [29.3 MB] 212s Get:48 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-cran-cli ppc64el 3.6.4-1 [1411 kB] 214s Get:49 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-cran-glue ppc64el 1.8.0-1 [165 kB] 214s Get:50 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-cran-rlang ppc64el 1.1.5-3 [1738 kB] 217s Get:51 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-cran-lifecycle all 1.0.5+dfsg-1 [120 kB] 217s Get:52 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-cran-gtable all 0.3.6+dfsg-1 [199 kB] 217s Get:53 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-cran-isoband ppc64el 0.2.7-1 [1486 kB] 219s Get:54 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-cran-s7 ppc64el 0.2.0-1 [330 kB] 219s Get:55 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-cran-farver ppc64el 2.1.2-1 [1389 kB] 221s Get:56 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-cran-labeling all 0.4.3-1 [62.1 kB] 221s Get:57 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-cran-r6 all 2.6.1-1 [101 kB] 221s Get:58 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-cran-rcolorbrewer all 1.1-3-1build2 [54.0 kB] 221s Get:59 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-cran-viridislite all 0.4.3-1 [1088 kB] 223s Get:60 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-cran-scales all 1.4.0-1 [725 kB] 224s Get:61 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-cran-vctrs ppc64el 0.6.5-1 [1399 kB] 226s Get:62 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-cran-withr all 3.0.2+dfsg-1 [214 kB] 226s Get:63 http://ftpmaster.internal/ubuntu resolute-proposed/universe ppc64el r-cran-ggplot2 all 4.0.2+dfsg-1 [4941 kB] 233s Get:64 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-cran-littler ppc64el 0.3.22-1 [85.5 kB] 233s Get:65 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-cran-pkgkitten all 0.2.4-1 [27.2 kB] 233s Get:66 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-cran-rcpp ppc64el 1.1.0-1 [2037 kB] 238s Get:67 http://ftpmaster.internal/ubuntu resolute/universe ppc64el r-cran-plyr ppc64el 1.8.9-1 [834 kB] 240s Get:68 http://ftpmaster.internal/ubuntu resolute/universe ppc64el assemblytics all 1.2.1+dfsg-2build1 [19.2 kB] 240s Get:69 http://ftpmaster.internal/ubuntu resolute/main ppc64el python-is-python3 all 3.13.3-1+build1 [2832 B] 240s Get:70 http://ftpmaster.internal/ubuntu resolute/main ppc64el python3.14 ppc64el 3.14.2-1 [816 kB] 242s Get:71 http://ftpmaster.internal/ubuntu resolute/main ppc64el python3-all ppc64el 3.13.9-3 [890 B] 242s Preconfiguring packages ... 242s Fetched 69.8 MB in 1min 41s (690 kB/s) 242s Selecting previously unselected package python3-numpy-dev:ppc64el. 242s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 122006 files and directories currently installed.) 242s Preparing to unpack .../00-python3-numpy-dev_1%3a2.3.5+ds-3_ppc64el.deb ... 242s Unpacking python3-numpy-dev:ppc64el (1:2.3.5+ds-3) ... 242s Selecting previously unselected package libblas3:ppc64el. 242s Preparing to unpack .../01-libblas3_3.12.1-7ubuntu1_ppc64el.deb ... 242s Unpacking libblas3:ppc64el (3.12.1-7ubuntu1) ... 242s Selecting previously unselected package libgfortran5:ppc64el. 242s Preparing to unpack .../02-libgfortran5_15.2.0-12ubuntu1_ppc64el.deb ... 242s Unpacking libgfortran5:ppc64el (15.2.0-12ubuntu1) ... 242s Selecting previously unselected package liblapack3:ppc64el. 242s Preparing to unpack .../03-liblapack3_3.12.1-7ubuntu1_ppc64el.deb ... 242s Unpacking liblapack3:ppc64el (3.12.1-7ubuntu1) ... 242s Selecting previously unselected package python3-numpy. 242s Preparing to unpack .../04-python3-numpy_1%3a2.3.5+ds-3_ppc64el.deb ... 242s Unpacking python3-numpy (1:2.3.5+ds-3) ... 243s Selecting previously unselected package python3.14-minimal. 243s Preparing to unpack .../05-python3.14-minimal_3.14.2-1_ppc64el.deb ... 243s Unpacking python3.14-minimal (3.14.2-1) ... 243s Selecting previously unselected package zip. 243s Preparing to unpack .../06-zip_3.0-15ubuntu3_ppc64el.deb ... 243s Unpacking zip (3.0-15ubuntu3) ... 243s Selecting previously unselected package unzip. 243s Preparing to unpack .../07-unzip_6.0-29ubuntu1_ppc64el.deb ... 243s Unpacking unzip (6.0-29ubuntu1) ... 243s Selecting previously unselected package libpaper2:ppc64el. 243s Preparing to unpack .../08-libpaper2_2.2.5-0.3build1_ppc64el.deb ... 243s Unpacking libpaper2:ppc64el (2.2.5-0.3build1) ... 243s Selecting previously unselected package libpaper-utils. 243s Preparing to unpack .../09-libpaper-utils_2.2.5-0.3build1_ppc64el.deb ... 243s Unpacking libpaper-utils (2.2.5-0.3build1) ... 243s Selecting previously unselected package xdg-utils. 243s Preparing to unpack .../10-xdg-utils_1.2.1-2ubuntu2_all.deb ... 243s Unpacking xdg-utils (1.2.1-2ubuntu2) ... 243s Selecting previously unselected package fonts-dejavu-mono. 243s Preparing to unpack .../11-fonts-dejavu-mono_2.37-8build1_all.deb ... 243s Unpacking fonts-dejavu-mono (2.37-8build1) ... 243s Selecting previously unselected package fonts-dejavu-core. 243s Preparing to unpack .../12-fonts-dejavu-core_2.37-8build1_all.deb ... 243s Unpacking fonts-dejavu-core (2.37-8build1) ... 243s Selecting previously unselected package fontconfig-config. 243s Preparing to unpack .../13-fontconfig-config_2.17.1-3ubuntu1_ppc64el.deb ... 243s Unpacking fontconfig-config (2.17.1-3ubuntu1) ... 243s Selecting previously unselected package libfontconfig1:ppc64el. 243s Preparing to unpack .../14-libfontconfig1_2.17.1-3ubuntu1_ppc64el.deb ... 243s Unpacking libfontconfig1:ppc64el (2.17.1-3ubuntu1) ... 243s Selecting previously unselected package libpixman-1-0:ppc64el. 243s Preparing to unpack .../15-libpixman-1-0_0.46.4-1_ppc64el.deb ... 243s Unpacking libpixman-1-0:ppc64el (0.46.4-1) ... 243s Selecting previously unselected package libxcb-render0:ppc64el. 243s Preparing to unpack .../16-libxcb-render0_1.17.0-2ubuntu1_ppc64el.deb ... 243s Unpacking libxcb-render0:ppc64el (1.17.0-2ubuntu1) ... 243s Selecting previously unselected package libxcb-shm0:ppc64el. 243s Preparing to unpack .../17-libxcb-shm0_1.17.0-2ubuntu1_ppc64el.deb ... 243s Unpacking libxcb-shm0:ppc64el (1.17.0-2ubuntu1) ... 243s Selecting previously unselected package libxrender1:ppc64el. 243s Preparing to unpack .../18-libxrender1_1%3a0.9.12-1_ppc64el.deb ... 243s Unpacking libxrender1:ppc64el (1:0.9.12-1) ... 243s Selecting previously unselected package libcairo2:ppc64el. 243s Preparing to unpack .../19-libcairo2_1.18.4-3_ppc64el.deb ... 243s Unpacking libcairo2:ppc64el (1.18.4-3) ... 243s Selecting previously unselected package libdeflate0:ppc64el. 243s Preparing to unpack .../20-libdeflate0_1.23-2build1_ppc64el.deb ... 243s Unpacking libdeflate0:ppc64el (1.23-2build1) ... 243s Selecting previously unselected package libgomp1:ppc64el. 243s Preparing to unpack .../21-libgomp1_15.2.0-12ubuntu1_ppc64el.deb ... 243s Unpacking libgomp1:ppc64el (15.2.0-12ubuntu1) ... 243s Selecting previously unselected package libjpeg-turbo8:ppc64el. 243s Preparing to unpack .../22-libjpeg-turbo8_2.1.5-4ubuntu3_ppc64el.deb ... 243s Unpacking libjpeg-turbo8:ppc64el (2.1.5-4ubuntu3) ... 243s Selecting previously unselected package libjpeg8:ppc64el. 243s Preparing to unpack .../23-libjpeg8_8c-2ubuntu11_ppc64el.deb ... 243s Unpacking libjpeg8:ppc64el (8c-2ubuntu11) ... 243s Selecting previously unselected package fontconfig. 243s Preparing to unpack .../24-fontconfig_2.17.1-3ubuntu1_ppc64el.deb ... 243s Unpacking fontconfig (2.17.1-3ubuntu1) ... 243s Selecting previously unselected package libgraphite2-3:ppc64el. 243s Preparing to unpack .../25-libgraphite2-3_1.3.14-11ubuntu1_ppc64el.deb ... 243s Unpacking libgraphite2-3:ppc64el (1.3.14-11ubuntu1) ... 243s Selecting previously unselected package libharfbuzz0b:ppc64el. 243s Preparing to unpack .../26-libharfbuzz0b_12.3.2-1_ppc64el.deb ... 243s Unpacking libharfbuzz0b:ppc64el (12.3.2-1) ... 243s Selecting previously unselected package libthai-data. 243s Preparing to unpack .../27-libthai-data_0.1.30-1_all.deb ... 243s Unpacking libthai-data (0.1.30-1) ... 243s Selecting previously unselected package libdatrie1:ppc64el. 243s Preparing to unpack .../28-libdatrie1_0.2.14-1_ppc64el.deb ... 243s Unpacking libdatrie1:ppc64el (0.2.14-1) ... 243s Selecting previously unselected package libthai0:ppc64el. 243s Preparing to unpack .../29-libthai0_0.1.30-1_ppc64el.deb ... 243s Unpacking libthai0:ppc64el (0.1.30-1) ... 243s Selecting previously unselected package libpango-1.0-0:ppc64el. 243s Preparing to unpack .../30-libpango-1.0-0_1.57.0-1_ppc64el.deb ... 243s Unpacking libpango-1.0-0:ppc64el (1.57.0-1) ... 243s Selecting previously unselected package libpangoft2-1.0-0:ppc64el. 243s Preparing to unpack .../31-libpangoft2-1.0-0_1.57.0-1_ppc64el.deb ... 243s Unpacking libpangoft2-1.0-0:ppc64el (1.57.0-1) ... 243s Selecting previously unselected package libpangocairo-1.0-0:ppc64el. 243s Preparing to unpack .../32-libpangocairo-1.0-0_1.57.0-1_ppc64el.deb ... 243s Unpacking libpangocairo-1.0-0:ppc64el (1.57.0-1) ... 243s Selecting previously unselected package libtcl8.6:ppc64el. 243s Preparing to unpack .../33-libtcl8.6_8.6.17+dfsg-1build1_ppc64el.deb ... 243s Unpacking libtcl8.6:ppc64el (8.6.17+dfsg-1build1) ... 243s Selecting previously unselected package libjbig0:ppc64el. 243s Preparing to unpack .../34-libjbig0_2.1-6.1ubuntu3_ppc64el.deb ... 243s Unpacking libjbig0:ppc64el (2.1-6.1ubuntu3) ... 243s Selecting previously unselected package liblerc4:ppc64el. 243s Preparing to unpack .../35-liblerc4_4.0.0+ds-5ubuntu2_ppc64el.deb ... 243s Unpacking liblerc4:ppc64el (4.0.0+ds-5ubuntu2) ... 243s Selecting previously unselected package libsharpyuv0:ppc64el. 243s Preparing to unpack .../36-libsharpyuv0_1.5.0-0.1build1_ppc64el.deb ... 243s Unpacking libsharpyuv0:ppc64el (1.5.0-0.1build1) ... 243s Selecting previously unselected package libwebp7:ppc64el. 243s Preparing to unpack .../37-libwebp7_1.5.0-0.1build1_ppc64el.deb ... 243s Unpacking libwebp7:ppc64el (1.5.0-0.1build1) ... 243s Selecting previously unselected package libtiff6:ppc64el. 243s Preparing to unpack .../38-libtiff6_4.7.0-3ubuntu3_ppc64el.deb ... 243s Unpacking libtiff6:ppc64el (4.7.0-3ubuntu3) ... 243s Selecting previously unselected package libxft2:ppc64el. 243s Preparing to unpack .../39-libxft2_2.3.6-1build2_ppc64el.deb ... 243s Unpacking libxft2:ppc64el (2.3.6-1build2) ... 243s Selecting previously unselected package x11-common. 243s Preparing to unpack .../40-x11-common_1%3a7.7+24ubuntu1_all.deb ... 243s Unpacking x11-common (1:7.7+24ubuntu1) ... 244s Selecting previously unselected package libxss1:ppc64el. 244s Preparing to unpack .../41-libxss1_1%3a1.2.3-1build4_ppc64el.deb ... 244s Unpacking libxss1:ppc64el (1:1.2.3-1build4) ... 244s Selecting previously unselected package libtk8.6:ppc64el. 244s Preparing to unpack .../42-libtk8.6_8.6.17-1_ppc64el.deb ... 244s Unpacking libtk8.6:ppc64el (8.6.17-1) ... 244s Selecting previously unselected package libice6:ppc64el. 244s Preparing to unpack .../43-libice6_2%3a1.1.1-1build1_ppc64el.deb ... 244s Unpacking libice6:ppc64el (2:1.1.1-1build1) ... 244s Selecting previously unselected package libsm6:ppc64el. 244s Preparing to unpack .../44-libsm6_2%3a1.2.6-1build1_ppc64el.deb ... 244s Unpacking libsm6:ppc64el (2:1.2.6-1build1) ... 244s Selecting previously unselected package libxt6t64:ppc64el. 244s Preparing to unpack .../45-libxt6t64_1%3a1.2.1-1.3_ppc64el.deb ... 244s Unpacking libxt6t64:ppc64el (1:1.2.1-1.3) ... 244s Selecting previously unselected package r-base-core. 244s Preparing to unpack .../46-r-base-core_4.5.2-1ubuntu2_ppc64el.deb ... 244s Unpacking r-base-core (4.5.2-1ubuntu2) ... 244s Selecting previously unselected package r-cran-cli. 244s Preparing to unpack .../47-r-cran-cli_3.6.4-1_ppc64el.deb ... 244s Unpacking r-cran-cli (3.6.4-1) ... 244s Selecting previously unselected package r-cran-glue. 244s Preparing to unpack .../48-r-cran-glue_1.8.0-1_ppc64el.deb ... 244s Unpacking r-cran-glue (1.8.0-1) ... 244s Selecting previously unselected package r-cran-rlang. 244s Preparing to unpack .../49-r-cran-rlang_1.1.5-3_ppc64el.deb ... 244s Unpacking r-cran-rlang (1.1.5-3) ... 244s Selecting previously unselected package r-cran-lifecycle. 244s Preparing to unpack .../50-r-cran-lifecycle_1.0.5+dfsg-1_all.deb ... 244s Unpacking r-cran-lifecycle (1.0.5+dfsg-1) ... 244s Selecting previously unselected package r-cran-gtable. 244s Preparing to unpack .../51-r-cran-gtable_0.3.6+dfsg-1_all.deb ... 244s Unpacking r-cran-gtable (0.3.6+dfsg-1) ... 244s Selecting previously unselected package r-cran-isoband. 244s Preparing to unpack .../52-r-cran-isoband_0.2.7-1_ppc64el.deb ... 244s Unpacking r-cran-isoband (0.2.7-1) ... 244s Selecting previously unselected package r-cran-s7. 244s Preparing to unpack .../53-r-cran-s7_0.2.0-1_ppc64el.deb ... 244s Unpacking r-cran-s7 (0.2.0-1) ... 244s Selecting previously unselected package r-cran-farver. 244s Preparing to unpack .../54-r-cran-farver_2.1.2-1_ppc64el.deb ... 244s Unpacking r-cran-farver (2.1.2-1) ... 244s Selecting previously unselected package r-cran-labeling. 244s Preparing to unpack .../55-r-cran-labeling_0.4.3-1_all.deb ... 244s Unpacking r-cran-labeling (0.4.3-1) ... 244s Selecting previously unselected package r-cran-r6. 244s Preparing to unpack .../56-r-cran-r6_2.6.1-1_all.deb ... 244s Unpacking r-cran-r6 (2.6.1-1) ... 244s Selecting previously unselected package r-cran-rcolorbrewer. 244s Preparing to unpack .../57-r-cran-rcolorbrewer_1.1-3-1build2_all.deb ... 244s Unpacking r-cran-rcolorbrewer (1.1-3-1build2) ... 244s Selecting previously unselected package r-cran-viridislite. 244s Preparing to unpack .../58-r-cran-viridislite_0.4.3-1_all.deb ... 244s Unpacking r-cran-viridislite (0.4.3-1) ... 244s Selecting previously unselected package r-cran-scales. 244s Preparing to unpack .../59-r-cran-scales_1.4.0-1_all.deb ... 244s Unpacking r-cran-scales (1.4.0-1) ... 244s Selecting previously unselected package r-cran-vctrs. 244s Preparing to unpack .../60-r-cran-vctrs_0.6.5-1_ppc64el.deb ... 244s Unpacking r-cran-vctrs (0.6.5-1) ... 244s Selecting previously unselected package r-cran-withr. 244s Preparing to unpack .../61-r-cran-withr_3.0.2+dfsg-1_all.deb ... 244s Unpacking r-cran-withr (3.0.2+dfsg-1) ... 244s Selecting previously unselected package r-cran-ggplot2. 244s Preparing to unpack .../62-r-cran-ggplot2_4.0.2+dfsg-1_all.deb ... 244s Unpacking r-cran-ggplot2 (4.0.2+dfsg-1) ... 244s Selecting previously unselected package r-cran-littler. 244s Preparing to unpack .../63-r-cran-littler_0.3.22-1_ppc64el.deb ... 244s Unpacking r-cran-littler (0.3.22-1) ... 244s Selecting previously unselected package r-cran-pkgkitten. 244s Preparing to unpack .../64-r-cran-pkgkitten_0.2.4-1_all.deb ... 244s Unpacking r-cran-pkgkitten (0.2.4-1) ... 244s Selecting previously unselected package r-cran-rcpp. 244s Preparing to unpack .../65-r-cran-rcpp_1.1.0-1_ppc64el.deb ... 244s Unpacking r-cran-rcpp (1.1.0-1) ... 245s Selecting previously unselected package r-cran-plyr. 245s Preparing to unpack .../66-r-cran-plyr_1.8.9-1_ppc64el.deb ... 245s Unpacking r-cran-plyr (1.8.9-1) ... 245s Selecting previously unselected package assemblytics. 245s Preparing to unpack .../67-assemblytics_1.2.1+dfsg-2build1_all.deb ... 245s Unpacking assemblytics (1.2.1+dfsg-2build1) ... 245s Selecting previously unselected package python-is-python3. 245s Preparing to unpack .../68-python-is-python3_3.13.3-1+build1_all.deb ... 245s Unpacking python-is-python3 (3.13.3-1+build1) ... 245s Selecting previously unselected package python3.14. 245s Preparing to unpack .../69-python3.14_3.14.2-1_ppc64el.deb ... 245s Unpacking python3.14 (3.14.2-1) ... 245s Selecting previously unselected package python3-all. 245s Preparing to unpack .../70-python3-all_3.13.9-3_ppc64el.deb ... 245s Unpacking python3-all (3.13.9-3) ... 245s Setting up libgraphite2-3:ppc64el (1.3.14-11ubuntu1) ... 245s Setting up libpixman-1-0:ppc64el (0.46.4-1) ... 245s Setting up libsharpyuv0:ppc64el (1.5.0-0.1build1) ... 245s Setting up liblerc4:ppc64el (4.0.0+ds-5ubuntu2) ... 245s Setting up libxrender1:ppc64el (1:0.9.12-1) ... 245s Setting up libdatrie1:ppc64el (0.2.14-1) ... 245s Setting up libxcb-render0:ppc64el (1.17.0-2ubuntu1) ... 245s Setting up unzip (6.0-29ubuntu1) ... 245s Setting up x11-common (1:7.7+24ubuntu1) ... 245s Setting up libdeflate0:ppc64el (1.23-2build1) ... 245s Setting up libxcb-shm0:ppc64el (1.17.0-2ubuntu1) ... 245s Setting up libgomp1:ppc64el (15.2.0-12ubuntu1) ... 245s Setting up libjbig0:ppc64el (2.1-6.1ubuntu3) ... 245s Setting up zip (3.0-15ubuntu3) ... 245s Setting up libblas3:ppc64el (3.12.1-7ubuntu1) ... 245s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/blas/libblas.so.3 to provide /usr/lib/powerpc64le-linux-gnu/libblas.so.3 (libblas.so.3-powerpc64le-linux-gnu) in auto mode 245s Setting up fonts-dejavu-mono (2.37-8build1) ... 245s Setting up python3-numpy-dev:ppc64el (1:2.3.5+ds-3) ... 245s Setting up libtcl8.6:ppc64el (8.6.17+dfsg-1build1) ... 245s Setting up fonts-dejavu-core (2.37-8build1) ... 245s Setting up libjpeg-turbo8:ppc64el (2.1.5-4ubuntu3) ... 245s Setting up libgfortran5:ppc64el (15.2.0-12ubuntu1) ... 245s Setting up libwebp7:ppc64el (1.5.0-0.1build1) ... 245s Setting up libharfbuzz0b:ppc64el (12.3.2-1) ... 245s Setting up libthai-data (0.1.30-1) ... 245s Setting up libxss1:ppc64el (1:1.2.3-1build4) ... 245s Setting up libpaper2:ppc64el (2.2.5-0.3build1) ... 245s Setting up python-is-python3 (3.13.3-1+build1) ... 245s Setting up xdg-utils (1.2.1-2ubuntu2) ... 245s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode 245s Setting up python3.14-minimal (3.14.2-1) ... 246s Setting up libjpeg8:ppc64el (8c-2ubuntu11) ... 246s Setting up libice6:ppc64el (2:1.1.1-1build1) ... 246s Setting up liblapack3:ppc64el (3.12.1-7ubuntu1) ... 246s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/powerpc64le-linux-gnu/liblapack.so.3 (liblapack.so.3-powerpc64le-linux-gnu) in auto mode 246s Setting up fontconfig-config (2.17.1-3ubuntu1) ... 247s Setting up libpaper-utils (2.2.5-0.3build1) ... 247s Setting up libthai0:ppc64el (0.1.30-1) ... 247s Setting up python3-numpy (1:2.3.5+ds-3) ... 250s Setting up libtiff6:ppc64el (4.7.0-3ubuntu3) ... 250s Setting up libfontconfig1:ppc64el (2.17.1-3ubuntu1) ... 250s Setting up python3.14 (3.14.2-1) ... 252s Setting up libsm6:ppc64el (2:1.2.6-1build1) ... 252s Setting up fontconfig (2.17.1-3ubuntu1) ... 254s Regenerating fonts cache... done. 254s Setting up libxft2:ppc64el (2.3.6-1build2) ... 254s Setting up libtk8.6:ppc64el (8.6.17-1) ... 254s Setting up libpango-1.0-0:ppc64el (1.57.0-1) ... 254s Setting up python3-all (3.13.9-3) ... 254s Setting up libcairo2:ppc64el (1.18.4-3) ... 254s Setting up libxt6t64:ppc64el (1:1.2.1-1.3) ... 254s Setting up libpangoft2-1.0-0:ppc64el (1.57.0-1) ... 254s Setting up libpangocairo-1.0-0:ppc64el (1.57.0-1) ... 254s Setting up r-base-core (4.5.2-1ubuntu2) ... 254s Creating config file /etc/R/Renviron with new version 254s Setting up r-cran-labeling (0.4.3-1) ... 254s Setting up r-cran-farver (2.1.2-1) ... 254s Setting up r-cran-viridislite (0.4.3-1) ... 254s Setting up r-cran-r6 (2.6.1-1) ... 254s Setting up r-cran-pkgkitten (0.2.4-1) ... 254s Setting up r-cran-littler (0.3.22-1) ... 254s Setting up r-cran-rcpp (1.1.0-1) ... 254s Setting up r-cran-rlang (1.1.5-3) ... 254s Setting up r-cran-withr (3.0.2+dfsg-1) ... 254s Setting up r-cran-glue (1.8.0-1) ... 254s Setting up r-cran-cli (3.6.4-1) ... 254s Setting up r-cran-lifecycle (1.0.5+dfsg-1) ... 254s Setting up r-cran-s7 (0.2.0-1) ... 254s Setting up r-cran-plyr (1.8.9-1) ... 254s Setting up r-cran-rcolorbrewer (1.1-3-1build2) ... 254s Setting up r-cran-isoband (0.2.7-1) ... 254s Setting up r-cran-scales (1.4.0-1) ... 254s Setting up r-cran-gtable (0.3.6+dfsg-1) ... 254s Setting up r-cran-vctrs (0.6.5-1) ... 254s Setting up r-cran-ggplot2 (4.0.2+dfsg-1) ... 254s Setting up assemblytics (1.2.1+dfsg-2build1) ... 254s Processing triggers for systemd (259-1ubuntu3) ... 254s Processing triggers for man-db (2.13.1-1build1) ... 255s Processing triggers for install-info (7.2-5) ... 255s Processing triggers for libc-bin (2.42-2ubuntu4) ... 256s autopkgtest [22:58:05]: test run-unit-test: [----------------------- 256s script path: /usr/share/assemblytics/bin 256s Input delta file: sample.delta 256s Output prefix: myfirstorganism 256s Unique anchor length: 10000 256s Minimum variant size to call: 10000 256s Maximum variant size to call: 50 256s Logging progress updates in myfirstorganism/progress.log 256s 1. Filter delta file 256s Keeping fully unique alignments even if they are below the unique anchor length of 10000 bp 256s Use --unique-length X to set the unique anchor length requirement. Default is 10000, such that each alignment must have at least 10000 bp from the query that are not included in any other alignments. 256s Detected uncompressed delta file. Reading... 256s 256s 256s Header (2 lines): 256s /seq/schatz/mnattest/Assemblytics/Ecoli/GCF_000005845.2_ASM584v2_genomic.fna /seq/schatz/mnattest/Assemblytics/Ecoli/GCF_000801205.1_ASM80120v1_genomic.fna 256s NUCMER 256s 256s 256s First read through the file: 0 seconds for 0 query-reference combinations 256s Filtering alignments of 1 queries 256s Progress: 100% 256s Progress: 100% 256s Deciding which alignments to keep: 0 seconds for 1 queries 256s Detected uncompressed delta file. Reading... 256s Reading file and recording all the entries we decided to keep: 0 seconds for 54 total lines in file 256s 2. Finding variants between alignments 256s Loaded 6 alignments 256s 3. Finding variants within alignments 256s Detected gzipped delta file. Reading... 256s 256s 256s Header (2 lines): 256s /seq/schatz/mnattest/Assemblytics/Ecoli/GCF_000005845.2_ASM584v2_genomic.fna /seq/schatz/mnattest/Assemblytics/Ecoli/GCF_000801205.1_ASM80120v1_genomic.fna 256s NUCMER 256s 256s 256s 4. Combine variants between and within alignments 257s Error in revalue(bed$type, c(Repeat_expansion = "Repeat expansion", Repeat_contraction = "Repeat contraction", : 257s x is not a factor or a character vector. 257s Execution halted 258s Warning messages: 258s 1: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. 258s ℹ Please use `linewidth` instead. 258s 2: The `size` argument of `element_line()` is deprecated as of ggplot2 3.4.0. 258s ℹ Please use the `linewidth` argument instead. 258s null device 258s 1 260s Warning message: 260s Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. 260s ℹ Please use `linewidth` instead. 260s adding: myfirstorganism.Assemblytics.Dotplot_filtered.png (deflated 11%) 260s adding: myfirstorganism.Assemblytics.Nchart.pdf (deflated 11%) 260s adding: myfirstorganism.Assemblytics.Nchart.png (deflated 6%) 260s adding: myfirstorganism.Assemblytics.unique_length_filtered_l10000.delta.gz (stored 0%) 260s adding: myfirstorganism.Assemblytics_assembly_stats.txt (deflated 58%) 260s adding: myfirstorganism.Assemblytics_structural_variants.bed (deflated 26%) 260s adding: myfirstorganism.Assemblytics_structural_variants.summary (deflated 49%) 260s adding: myfirstorganism.Assemblytics_structural_variants.summary.csv (deflated 35%) 260s PASS 261s autopkgtest [22:58:10]: test run-unit-test: -----------------------] 261s autopkgtest [22:58:10]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 261s run-unit-test PASS 261s autopkgtest [22:58:10]: @@@@@@@@@@@@@@@@@@@@ summary 261s run-unit-test PASS