0s autopkgtest [18:47:53]: starting date and time: 2024-11-14 18:47:53+0000 0s autopkgtest [18:47:53]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [18:47:53]: host juju-7f2275-prod-proposed-migration-environment-9; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.kgd79411/out --timeout-copy=6000 --setup-commands 'ln -s /dev/null /etc/systemd/system/bluetooth.service; printf "http_proxy=http://squid.internal:3128\nhttps_proxy=http://squid.internal:3128\nno_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com\n" >> /etc/environment' --apt-pocket=proposed=src:numpy --apt-upgrade libslow5lib --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=numpy/1:1.26.4+ds-11ubuntu1 -- lxd -r lxd-armhf-10.145.243.141 lxd-armhf-10.145.243.141:autopkgtest/ubuntu/plucky/armhf 53s autopkgtest [18:48:46]: testbed dpkg architecture: armhf 55s autopkgtest [18:48:48]: testbed apt version: 2.9.8 55s autopkgtest [18:48:48]: @@@@@@@@@@@@@@@@@@@@ test bed setup 62s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 62s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 63s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [14.0 kB] 63s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [103 kB] 63s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [933 kB] 63s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf Packages [105 kB] 63s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf Packages [663 kB] 63s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf Packages [3564 B] 63s Fetched 1903 kB in 1s (2114 kB/s) 63s Reading package lists... 80s tee: /proc/self/fd/2: Permission denied 102s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 102s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 102s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 102s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 103s Reading package lists... 103s Reading package lists... 104s Building dependency tree... 104s Reading state information... 104s Calculating upgrade... 105s The following packages were automatically installed and are no longer required: 105s libperl5.38t64 perl-modules-5.38 python3-netifaces 105s Use 'apt autoremove' to remove them. 105s The following NEW packages will be installed: 105s libperl5.40 perl-modules-5.40 systemd-cryptsetup 105s The following packages will be upgraded: 105s apport apport-core-dump-handler base-files base-passwd bash-completion 105s dhcpcd-base distro-info-data dpkg dpkg-dev fwupd gcc-14-base info 105s install-info iproute2 libarchive13t64 libatomic1 libattr1 105s libblockdev-crypto3 libblockdev-fs3 libblockdev-loop3 libblockdev-mdraid3 105s libblockdev-nvme3 libblockdev-part3 libblockdev-swap3 libblockdev-utils3 105s libblockdev3 libbpf1 libbsd0 libbytesize-common libbytesize1 libcap-ng0 105s libdb5.3t64 libdpkg-perl libdrm-common libdrm2 libdw1t64 libedit2 libelf1t64 105s libevdev2 libfastjson4 libflashrom1 libftdi1-2 libfwupd2 libgcc-s1 105s libgnutls30t64 libgpgme11t64 libinih1 libjson-c5 libjson-glib-1.0-0 105s libjson-glib-1.0-common libkeyutils1 libldap-common libldap2 105s liblocale-gettext-perl libmaxminddb0 libmnl0 libnetfilter-conntrack3 105s libnetplan1 libnewt0.52 libnghttp2-14 libnspr4 libnss-systemd libnvme1t64 105s libpam-systemd libpipeline1 libplymouth5 libpng16-16t64 libpopt0 105s libpython3.12-minimal libpython3.12-stdlib libsgutils2-1.46-2 libssh2-1t64 105s libstdc++6 libsystemd-shared libsystemd0 libtext-charwidth-perl 105s libtext-iconv-perl libtraceevent1 libtraceevent1-plugin libudev1 105s libudisks2-0 liburcu8t64 libutempter0 libuv1t64 libx11-6 libx11-data libxau6 105s libxmlb2 mawk motd-news-config nano netplan-generator netplan.io 105s openssh-client openssh-server openssh-sftp-server pastebinit pci.ids perl 105s perl-base plymouth plymouth-theme-ubuntu-text python3-apport python3-certifi 105s python3-cffi-backend python3-configobj python3-gi python3-idna 105s python3-jaraco.functools python3-json-pointer python3-jsonpatch 105s python3-lazr.restfulclient python3-lazr.uri python3-more-itertools 105s python3-netifaces python3-netplan python3-newt python3-oauthlib 105s python3-problem-report python3-systemd python3-typeguard python3-urllib3 105s python3-wadllib python3-zipp python3.12 python3.12-gdbm python3.12-minimal 105s sg3-utils sg3-utils-udev ssh-import-id systemd systemd-resolved systemd-sysv 105s systemd-timesyncd tzdata udev udisks2 ufw usbutils vim-common vim-tiny 105s whiptail xxd 105s 143 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. 105s Need to get 45.5 MB of archives. 105s After this operation, 43.2 MB of additional disk space will be used. 105s Get:1 http://ftpmaster.internal/ubuntu plucky/main armhf motd-news-config all 13.5ubuntu3 [5190 B] 105s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf base-files armhf 13.5ubuntu3 [75.1 kB] 105s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf dpkg armhf 1.22.11ubuntu3 [1247 kB] 106s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf perl-modules-5.40 all 5.40.0-7 [3214 kB] 106s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf libperl5.40 armhf 5.40.0-7 [4139 kB] 106s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf perl armhf 5.40.0-7 [263 kB] 106s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf perl-base armhf 5.40.0-7 [1674 kB] 106s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf liblocale-gettext-perl armhf 1.07-7build1 [15.0 kB] 106s Get:9 http://ftpmaster.internal/ubuntu plucky/main armhf libtext-iconv-perl armhf 1.7-8build4 [12.8 kB] 106s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf libtext-charwidth-perl armhf 0.04-11build4 [9128 B] 106s Get:11 http://ftpmaster.internal/ubuntu plucky/main armhf libdb5.3t64 armhf 5.3.28+dfsg2-9 [655 kB] 106s Get:12 http://ftpmaster.internal/ubuntu plucky/main armhf base-passwd armhf 3.6.5 [53.2 kB] 106s Get:13 http://ftpmaster.internal/ubuntu plucky/main armhf python3.12 armhf 3.12.7-3 [661 kB] 106s Get:14 http://ftpmaster.internal/ubuntu plucky/main armhf python3.12-minimal armhf 3.12.7-3 [2012 kB] 106s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf libpython3.12-stdlib armhf 3.12.7-3 [1934 kB] 106s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf libpython3.12-minimal armhf 3.12.7-3 [822 kB] 106s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf tzdata all 2024b-1ubuntu2 [274 kB] 106s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf libnss-systemd armhf 256.5-2ubuntu4 [155 kB] 106s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf systemd-timesyncd armhf 256.5-2ubuntu4 [40.7 kB] 106s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf systemd-resolved armhf 256.5-2ubuntu4 [309 kB] 106s Get:21 http://ftpmaster.internal/ubuntu plucky/main armhf libsystemd-shared armhf 256.5-2ubuntu4 [2129 kB] 106s Get:22 http://ftpmaster.internal/ubuntu plucky/main armhf libsystemd0 armhf 256.5-2ubuntu4 [428 kB] 106s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf systemd-sysv armhf 256.5-2ubuntu4 [11.9 kB] 106s Get:24 http://ftpmaster.internal/ubuntu plucky/main armhf libpam-systemd armhf 256.5-2ubuntu4 [226 kB] 106s Get:25 http://ftpmaster.internal/ubuntu plucky/main armhf systemd armhf 256.5-2ubuntu4 [3442 kB] 106s Get:26 http://ftpmaster.internal/ubuntu plucky/main armhf udev armhf 256.5-2ubuntu4 [1949 kB] 106s Get:27 http://ftpmaster.internal/ubuntu plucky/main armhf libudev1 armhf 256.5-2ubuntu4 [188 kB] 106s Get:28 http://ftpmaster.internal/ubuntu plucky/main armhf python3-problem-report all 2.30.0-0ubuntu5 [25.0 kB] 106s Get:29 http://ftpmaster.internal/ubuntu plucky/main armhf python3-apport all 2.30.0-0ubuntu5 [93.2 kB] 106s Get:30 http://ftpmaster.internal/ubuntu plucky/main armhf python3-gi armhf 3.50.0-3 [227 kB] 106s Get:31 http://ftpmaster.internal/ubuntu plucky/main armhf apport-core-dump-handler all 2.30.0-0ubuntu5 [17.9 kB] 106s Get:32 http://ftpmaster.internal/ubuntu plucky/main armhf apport all 2.30.0-0ubuntu5 [83.0 kB] 106s Get:33 http://ftpmaster.internal/ubuntu plucky/main armhf libbsd0 armhf 0.12.2-2 [36.8 kB] 106s Get:34 http://ftpmaster.internal/ubuntu plucky/main armhf libedit2 armhf 3.1-20240808-1 [79.0 kB] 106s Get:35 http://ftpmaster.internal/ubuntu plucky/main armhf openssh-sftp-server armhf 1:9.7p1-7ubuntu5 [35.4 kB] 106s Get:36 http://ftpmaster.internal/ubuntu plucky/main armhf openssh-server armhf 1:9.7p1-7ubuntu5 [505 kB] 106s Get:37 http://ftpmaster.internal/ubuntu plucky/main armhf openssh-client armhf 1:9.7p1-7ubuntu5 [889 kB] 106s Get:38 http://ftpmaster.internal/ubuntu plucky/main armhf libatomic1 armhf 14.2.0-8ubuntu1 [7846 B] 106s Get:39 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14-base armhf 14.2.0-8ubuntu1 [51.5 kB] 106s Get:40 http://ftpmaster.internal/ubuntu plucky/main armhf libstdc++6 armhf 14.2.0-8ubuntu1 [711 kB] 106s Get:41 http://ftpmaster.internal/ubuntu plucky/main armhf libgcc-s1 armhf 14.2.0-8ubuntu1 [40.8 kB] 106s Get:42 http://ftpmaster.internal/ubuntu plucky/main armhf libattr1 armhf 1:2.5.2-2 [10.5 kB] 106s Get:43 http://ftpmaster.internal/ubuntu plucky/main armhf libcap-ng0 armhf 0.8.5-3build1 [13.8 kB] 106s Get:44 http://ftpmaster.internal/ubuntu plucky/main armhf libgnutls30t64 armhf 3.8.8-2ubuntu1 [955 kB] 106s Get:45 http://ftpmaster.internal/ubuntu plucky/main armhf install-info armhf 7.1.1-1 [61.4 kB] 106s Get:46 http://ftpmaster.internal/ubuntu plucky/main armhf mawk armhf 1.3.4.20240905-1 [116 kB] 106s Get:47 http://ftpmaster.internal/ubuntu plucky/main armhf dhcpcd-base armhf 1:10.1.0-2 [188 kB] 106s Get:48 http://ftpmaster.internal/ubuntu plucky/main armhf distro-info-data all 0.63 [6588 B] 106s Get:49 http://ftpmaster.internal/ubuntu plucky/main armhf libdw1t64 armhf 0.192-4 [243 kB] 106s Get:50 http://ftpmaster.internal/ubuntu plucky/main armhf libelf1t64 armhf 0.192-4 [50.2 kB] 106s Get:51 http://ftpmaster.internal/ubuntu plucky/main armhf libbpf1 armhf 1:1.5.0-1 [158 kB] 106s Get:52 http://ftpmaster.internal/ubuntu plucky/main armhf libmnl0 armhf 1.0.5-3 [10.7 kB] 106s Get:53 http://ftpmaster.internal/ubuntu plucky/main armhf iproute2 armhf 6.10.0-2ubuntu1 [1082 kB] 106s Get:54 http://ftpmaster.internal/ubuntu plucky/main armhf libfastjson4 armhf 1.2304.0-2 [20.2 kB] 106s Get:55 http://ftpmaster.internal/ubuntu plucky/main armhf libjson-c5 armhf 0.18+ds-1 [33.2 kB] 106s Get:56 http://ftpmaster.internal/ubuntu plucky/main armhf libkeyutils1 armhf 1.6.3-4ubuntu2 [8712 B] 106s Get:57 http://ftpmaster.internal/ubuntu plucky/main armhf netplan-generator armhf 1.1.1-1 [60.4 kB] 106s Get:58 http://ftpmaster.internal/ubuntu plucky/main armhf python3-cffi-backend armhf 1.17.1-2 [68.7 kB] 106s Get:59 http://ftpmaster.internal/ubuntu plucky/main armhf python3-netplan armhf 1.1.1-1 [24.1 kB] 106s Get:60 http://ftpmaster.internal/ubuntu plucky/main armhf netplan.io armhf 1.1.1-1 [66.4 kB] 106s Get:61 http://ftpmaster.internal/ubuntu plucky/main armhf libnetplan1 armhf 1.1.1-1 [122 kB] 106s Get:62 http://ftpmaster.internal/ubuntu plucky/main armhf python3-newt armhf 0.52.24-2ubuntu4 [19.7 kB] 106s Get:63 http://ftpmaster.internal/ubuntu plucky/main armhf libnewt0.52 armhf 0.52.24-2ubuntu4 [39.2 kB] 106s Get:64 http://ftpmaster.internal/ubuntu plucky/main armhf libpopt0 armhf 1.19+dfsg-2 [25.4 kB] 107s Get:65 http://ftpmaster.internal/ubuntu plucky/main armhf python3-netifaces armhf 0.11.0-2build4 [17.6 kB] 107s Get:66 http://ftpmaster.internal/ubuntu plucky/main armhf vim-tiny armhf 2:9.1.0777-1ubuntu1 [693 kB] 107s Get:67 http://ftpmaster.internal/ubuntu plucky/main armhf vim-common all 2:9.1.0777-1ubuntu1 [394 kB] 107s Get:68 http://ftpmaster.internal/ubuntu plucky/main armhf whiptail armhf 0.52.24-2ubuntu4 [17.2 kB] 107s Get:69 http://ftpmaster.internal/ubuntu plucky/main armhf xxd armhf 2:9.1.0777-1ubuntu1 [66.8 kB] 107s Get:70 http://ftpmaster.internal/ubuntu plucky/main armhf bash-completion all 1:2.14.0-2 [210 kB] 107s Get:71 http://ftpmaster.internal/ubuntu plucky/main armhf info armhf 7.1.1-1 [126 kB] 107s Get:72 http://ftpmaster.internal/ubuntu plucky/main armhf libdrm-common all 2.4.123-1 [8436 B] 107s Get:73 http://ftpmaster.internal/ubuntu plucky/main armhf libdrm2 armhf 2.4.123-1 [36.5 kB] 107s Get:74 http://ftpmaster.internal/ubuntu plucky/main armhf libevdev2 armhf 1.13.3+dfsg-1 [29.7 kB] 107s Get:75 http://ftpmaster.internal/ubuntu plucky/main armhf libmaxminddb0 armhf 1.11.0-1 [16.8 kB] 107s Get:76 http://ftpmaster.internal/ubuntu plucky/main armhf libnetfilter-conntrack3 armhf 1.1.0-1 [38.4 kB] 107s Get:77 http://ftpmaster.internal/ubuntu plucky/main armhf libnghttp2-14 armhf 1.64.0-1 [68.9 kB] 107s Get:78 http://ftpmaster.internal/ubuntu plucky/main armhf libpipeline1 armhf 1.5.8-1 [26.9 kB] 107s Get:79 http://ftpmaster.internal/ubuntu plucky/main armhf libpng16-16t64 armhf 1.6.44-2 [168 kB] 107s Get:80 http://ftpmaster.internal/ubuntu plucky/main armhf libplymouth5 armhf 24.004.60-1ubuntu11 [140 kB] 107s Get:81 http://ftpmaster.internal/ubuntu plucky/main armhf libtraceevent1-plugin armhf 1:1.8.3-1ubuntu1 [18.1 kB] 107s Get:82 http://ftpmaster.internal/ubuntu plucky/main armhf libtraceevent1 armhf 1:1.8.3-1ubuntu1 [52.1 kB] 107s Get:83 http://ftpmaster.internal/ubuntu plucky/main armhf liburcu8t64 armhf 0.14.1-1 [56.6 kB] 107s Get:84 http://ftpmaster.internal/ubuntu plucky/main armhf libuv1t64 armhf 1.48.0-7 [83.3 kB] 107s Get:85 http://ftpmaster.internal/ubuntu plucky/main armhf libx11-data all 2:1.8.10-2 [116 kB] 107s Get:86 http://ftpmaster.internal/ubuntu plucky/main armhf libx11-6 armhf 2:1.8.10-2 [587 kB] 107s Get:87 http://ftpmaster.internal/ubuntu plucky/main armhf libxau6 armhf 1:1.0.11-1 [6558 B] 107s Get:88 http://ftpmaster.internal/ubuntu plucky/main armhf nano armhf 8.2-1 [276 kB] 107s Get:89 http://ftpmaster.internal/ubuntu plucky/main armhf pci.ids all 0.0~2024.10.24-1 [279 kB] 107s Get:90 http://ftpmaster.internal/ubuntu plucky/main armhf plymouth-theme-ubuntu-text armhf 24.004.60-1ubuntu11 [9920 B] 107s Get:91 http://ftpmaster.internal/ubuntu plucky/main armhf plymouth armhf 24.004.60-1ubuntu11 [142 kB] 107s Get:92 http://ftpmaster.internal/ubuntu plucky/main armhf python3.12-gdbm armhf 3.12.7-3 [28.7 kB] 107s Get:93 http://ftpmaster.internal/ubuntu plucky/main armhf ufw all 0.36.2-8 [170 kB] 107s Get:94 http://ftpmaster.internal/ubuntu plucky/main armhf usbutils armhf 1:018-1 [76.1 kB] 107s Get:95 http://ftpmaster.internal/ubuntu plucky/main armhf dpkg-dev all 1.22.11ubuntu3 [1088 kB] 107s Get:96 http://ftpmaster.internal/ubuntu plucky/main armhf libdpkg-perl all 1.22.11ubuntu3 [279 kB] 107s Get:97 http://ftpmaster.internal/ubuntu plucky/main armhf libarchive13t64 armhf 3.7.4-1.1 [331 kB] 107s Get:98 http://ftpmaster.internal/ubuntu plucky/main armhf libftdi1-2 armhf 1.5-7 [25.7 kB] 107s Get:99 http://ftpmaster.internal/ubuntu plucky/main armhf libflashrom1 armhf 1.4.0-3ubuntu1 [141 kB] 107s Get:100 http://ftpmaster.internal/ubuntu plucky/main armhf libjson-glib-1.0-common all 1.10.0+ds-3 [5586 B] 107s Get:101 http://ftpmaster.internal/ubuntu plucky/main armhf libjson-glib-1.0-0 armhf 1.10.0+ds-3 [61.7 kB] 107s Get:102 http://ftpmaster.internal/ubuntu plucky/main armhf libfwupd2 armhf 1.9.26-2 [125 kB] 107s Get:103 http://ftpmaster.internal/ubuntu plucky/main armhf libxmlb2 armhf 0.3.21-1 [57.7 kB] 107s Get:104 http://ftpmaster.internal/ubuntu plucky/main armhf fwupd armhf 1.9.26-2 [4404 kB] 108s Get:105 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-utils3 armhf 3.2.1-1 [17.4 kB] 108s Get:106 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-crypto3 armhf 3.2.1-1 [22.4 kB] 108s Get:107 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-fs3 armhf 3.2.1-1 [34.3 kB] 108s Get:108 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-loop3 armhf 3.2.1-1 [6552 B] 108s Get:109 http://ftpmaster.internal/ubuntu plucky/main armhf libbytesize1 armhf 2.11-1ubuntu1 [12.0 kB] 108s Get:110 http://ftpmaster.internal/ubuntu plucky/main armhf libbytesize-common all 2.11-1ubuntu1 [3584 B] 108s Get:111 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-mdraid3 armhf 3.2.1-1 [13.4 kB] 108s Get:112 http://ftpmaster.internal/ubuntu plucky/main armhf libnvme1t64 armhf 1.11-1 [73.8 kB] 108s Get:113 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-nvme3 armhf 3.2.1-1 [17.6 kB] 108s Get:114 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-part3 armhf 3.2.1-1 [16.5 kB] 108s Get:115 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-swap3 armhf 3.2.1-1 [8952 B] 108s Get:116 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev3 armhf 3.2.1-1 [44.2 kB] 108s Get:117 http://ftpmaster.internal/ubuntu plucky/main armhf libgpgme11t64 armhf 1.23.2-5ubuntu4 [123 kB] 108s Get:118 http://ftpmaster.internal/ubuntu plucky/main armhf libinih1 armhf 58-1ubuntu1 [6750 B] 108s Get:119 http://ftpmaster.internal/ubuntu plucky/main armhf libldap-common all 2.6.8+dfsg-1~exp4ubuntu3 [32.3 kB] 108s Get:120 http://ftpmaster.internal/ubuntu plucky/main armhf libldap2 armhf 2.6.8+dfsg-1~exp4ubuntu3 [173 kB] 108s Get:121 http://ftpmaster.internal/ubuntu plucky/main armhf libnspr4 armhf 2:4.35-1.1ubuntu2 [94.1 kB] 108s Get:122 http://ftpmaster.internal/ubuntu plucky/main armhf libsgutils2-1.46-2 armhf 1.46-3ubuntu5 [82.5 kB] 108s Get:123 http://ftpmaster.internal/ubuntu plucky/main armhf libssh2-1t64 armhf 1.11.1-1 [116 kB] 108s Get:124 http://ftpmaster.internal/ubuntu plucky/main armhf udisks2 armhf 2.10.1-11ubuntu1 [278 kB] 108s Get:125 http://ftpmaster.internal/ubuntu plucky/main armhf libudisks2-0 armhf 2.10.1-11ubuntu1 [142 kB] 108s Get:126 http://ftpmaster.internal/ubuntu plucky/main armhf libutempter0 armhf 1.2.1-4 [9062 B] 108s Get:127 http://ftpmaster.internal/ubuntu plucky/main armhf pastebinit all 1.7.1-1 [14.9 kB] 108s Get:128 http://ftpmaster.internal/ubuntu plucky/main armhf python3-certifi all 2024.8.30+dfsg-1 [9742 B] 108s Get:129 http://ftpmaster.internal/ubuntu plucky/main armhf python3-configobj all 5.0.9-1 [33.9 kB] 108s Get:130 http://ftpmaster.internal/ubuntu plucky/main armhf python3-idna all 3.8-2 [47.0 kB] 108s Get:131 http://ftpmaster.internal/ubuntu plucky/main armhf python3-more-itertools all 10.5.0-1 [56.2 kB] 108s Get:132 http://ftpmaster.internal/ubuntu plucky/main armhf python3-jaraco.functools all 4.1.0-1 [11.8 kB] 108s Get:133 http://ftpmaster.internal/ubuntu plucky/main armhf python3-json-pointer all 2.4-2 [8396 B] 108s Get:134 http://ftpmaster.internal/ubuntu plucky/main armhf python3-jsonpatch all 1.32-4 [12.2 kB] 108s Get:135 http://ftpmaster.internal/ubuntu plucky/main armhf python3-lazr.uri all 1.0.6-4 [13.6 kB] 108s Get:136 http://ftpmaster.internal/ubuntu plucky/main armhf python3-wadllib all 2.0.0-1 [36.7 kB] 108s Get:137 http://ftpmaster.internal/ubuntu plucky/main armhf python3-oauthlib all 3.2.2-2 [89.8 kB] 108s Get:138 http://ftpmaster.internal/ubuntu plucky/main armhf python3-lazr.restfulclient all 0.14.6-2 [50.9 kB] 108s Get:139 http://ftpmaster.internal/ubuntu plucky/main armhf python3-systemd armhf 235-1build5 [44.0 kB] 108s Get:140 http://ftpmaster.internal/ubuntu plucky/main armhf python3-typeguard all 4.4.1-1 [29.0 kB] 108s Get:141 http://ftpmaster.internal/ubuntu plucky/main armhf python3-urllib3 all 2.0.7-2ubuntu0.1 [93.1 kB] 108s Get:142 http://ftpmaster.internal/ubuntu plucky/main armhf python3-zipp all 3.21.0-1 [10.2 kB] 108s Get:143 http://ftpmaster.internal/ubuntu plucky/main armhf sg3-utils armhf 1.46-3ubuntu5 [816 kB] 108s Get:144 http://ftpmaster.internal/ubuntu plucky/main armhf sg3-utils-udev all 1.46-3ubuntu5 [5916 B] 108s Get:145 http://ftpmaster.internal/ubuntu plucky/main armhf systemd-cryptsetup armhf 256.5-2ubuntu4 [122 kB] 108s Get:146 http://ftpmaster.internal/ubuntu plucky/main armhf ssh-import-id all 5.11-0ubuntu3 [10.1 kB] 109s Preconfiguring packages ... 109s Fetched 45.5 MB in 3s (14.1 MB/s) 109s (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 ... 59386 files and directories currently installed.) 109s Preparing to unpack .../motd-news-config_13.5ubuntu3_all.deb ... 109s Unpacking motd-news-config (13.5ubuntu3) over (13.3ubuntu6) ... 109s Preparing to unpack .../base-files_13.5ubuntu3_armhf.deb ... 109s Unpacking base-files (13.5ubuntu3) over (13.3ubuntu6) ... 109s Setting up base-files (13.5ubuntu3) ... 109s Installing new version of config file /etc/issue ... 109s Installing new version of config file /etc/issue.net ... 109s Installing new version of config file /etc/lsb-release ... 110s motd-news.service is a disabled or a static unit not running, not starting it. 110s (Reading database ... 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... 131s update-initramfs: deferring update (trigger activated) 131s Setting up libperl5.40:armhf (5.40.0-7) ... 131s Setting up perl (5.40.0-7) ... 131s Setting up systemd-cryptsetup (256.5-2ubuntu4) ... 131s Setting up libnvme1t64 (1.11-1) ... 131s Setting up systemd-timesyncd (256.5-2ubuntu4) ... 132s systemd-time-wait-sync.service is a disabled or a static unit not running, not starting it. 132s Setting up udev (256.5-2ubuntu4) ... 133s Setting up libdpkg-perl (1.22.11ubuntu3) ... 133s Setting up libblockdev-nvme3:armhf (3.2.1-1) ... 133s Setting up libdrm2:armhf (2.4.123-1) ... 133s Setting up whiptail (0.52.24-2ubuntu4) ... 133s Setting up libtraceevent1-plugin:armhf (1:1.8.3-1ubuntu1) ... 133s Setting up libplymouth5:armhf (24.004.60-1ubuntu11) ... 133s Setting up python3-netplan (1.1.1-1) ... 133s Setting up netplan-generator (1.1.1-1) ... 133s Removing 'diversion of /lib/systemd/system-generators/netplan to /lib/systemd/system-generators/netplan.usr-is-merged by netplan-generator' 133s Setting up systemd-resolved (256.5-2ubuntu4) ... 133s Setting up openssh-sftp-server (1:9.7p1-7ubuntu5) ... 133s Setting up udisks2 (2.10.1-11ubuntu1) ... 133s vda: Failed to write 'change' to '/sys/devices/pci0000:00/0000:00:01.3/0000:04:00.0/virtio2/block/vda/uevent': Permission denied 133s vda1: Failed to write 'change' to '/sys/devices/pci0000:00/0000:00:01.3/0000:04:00.0/virtio2/block/vda/vda1/uevent': Permission denied 133s vda15: Failed to write 'change' to '/sys/devices/pci0000:00/0000:00:01.3/0000:04:00.0/virtio2/block/vda/vda15/uevent': Permission denied 133s vda2: Failed to write 'change' to '/sys/devices/pci0000:00/0000:00:01.3/0000:04:00.0/virtio2/block/vda/vda2/uevent': Permission denied 133s loop0: Failed to write 'change' to '/sys/devices/virtual/block/loop0/uevent': Permission denied 133s loop1: Failed to write 'change' to '/sys/devices/virtual/block/loop1/uevent': Permission denied 133s loop2: Failed to write 'change' to '/sys/devices/virtual/block/loop2/uevent': Permission denied 133s loop3: Failed to write 'change' to '/sys/devices/virtual/block/loop3/uevent': Permission denied 133s loop4: Failed to write 'change' to '/sys/devices/virtual/block/loop4/uevent': Permission denied 133s loop5: Failed to write 'change' to '/sys/devices/virtual/block/loop5/uevent': Permission denied 133s loop6: Failed to write 'change' to '/sys/devices/virtual/block/loop6/uevent': Permission denied 133s loop7: Failed to write 'change' to '/sys/devices/virtual/block/loop7/uevent': Permission denied 133s loop8: Failed to write 'change' to '/sys/devices/virtual/block/loop8/uevent': Permission denied 134s Setting up systemd-sysv (256.5-2ubuntu4) ... 134s Setting up openssh-server (1:9.7p1-7ubuntu5) ... 135s Setting up plymouth (24.004.60-1ubuntu11) ... 135s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 135s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 136s Setting up libfwupd2:armhf (1.9.26-2) ... 136s Setting up libnss-systemd:armhf (256.5-2ubuntu4) ... 136s Setting up dpkg-dev (1.22.11ubuntu3) ... 136s Setting up netplan.io (1.1.1-1) ... 136s Setting up plymouth-theme-ubuntu-text (24.004.60-1ubuntu11) ... 136s update-initramfs: deferring update (trigger activated) 136s Setting up libpam-systemd:armhf (256.5-2ubuntu4) ... 136s Setting up fwupd (1.9.26-2) ... 136s fwupd-offline-update.service is a disabled or a static unit not running, not starting it. 136s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 136s fwupd.service is a disabled or a static unit not running, not starting it. 137s Setting up apport-core-dump-handler (2.30.0-0ubuntu5) ... 137s Setting up apport (2.30.0-0ubuntu5) ... 137s Installing new version of config file /etc/apport/crashdb.conf ... 138s apport-autoreport.service is a disabled or a static unit not running, not starting it. 138s Processing triggers for dbus (1.14.10-4ubuntu5) ... 138s Processing triggers for shared-mime-info (2.4-5) ... 138s Processing triggers for install-info (7.1.1-1) ... 139s Processing triggers for initramfs-tools (0.142ubuntu34) ... 139s Processing triggers for libc-bin (2.40-1ubuntu3) ... 139s Processing triggers for rsyslog (8.2406.0-1ubuntu2) ... 139s Processing triggers for man-db (2.12.1-3) ... 141s Reading package lists... 141s Building dependency tree... 141s Reading state information... 142s The following packages will be REMOVED: 142s libperl5.38t64* perl-modules-5.38* python3-netifaces* 142s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 142s After this operation, 41.7 MB disk space will be freed. 142s (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 ... 61506 files and directories currently installed.) 142s Removing libperl5.38t64:armhf (5.38.2-5) ... 142s Removing perl-modules-5.38 (5.38.2-5) ... 143s Removing python3-netifaces:armhf (0.11.0-2build4) ... 143s Processing triggers for man-db (2.12.1-3) ... 143s Processing triggers for libc-bin (2.40-1ubuntu3) ... 145s autopkgtest [18:50:18]: rebooting testbed after setup commands that affected boot 211s autopkgtest [18:51:24]: testbed running kernel: Linux 6.8.0-47-generic #47~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Oct 2 16:39:14 UTC 2 238s autopkgtest [18:51:51]: @@@@@@@@@@@@@@@@@@@@ apt-source libslow5lib 256s Get:1 http://ftpmaster.internal/ubuntu plucky/universe libslow5lib 0.7.0+dfsg-3 (dsc) [2584 B] 256s Get:2 http://ftpmaster.internal/ubuntu plucky/universe libslow5lib 0.7.0+dfsg-3 (tar) [2014 kB] 256s Get:3 http://ftpmaster.internal/ubuntu plucky/universe libslow5lib 0.7.0+dfsg-3 (diff) [8348 B] 256s gpgv: Signature made Wed Jul 24 20:44:11 2024 UTC 256s gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA 256s gpgv: issuer "emollier@debian.org" 256s gpgv: Can't check signature: No public key 256s dpkg-source: warning: cannot verify inline signature for ./libslow5lib_0.7.0+dfsg-3.dsc: no acceptable signature found 256s autopkgtest [18:52:09]: testing package libslow5lib version 0.7.0+dfsg-3 258s autopkgtest [18:52:11]: build not needed 261s autopkgtest [18:52:14]: test run-pybinding-test: preparing testbed 270s Reading package lists... 271s Building dependency tree... 271s Reading state information... 271s Starting pkgProblemResolver with broken count: 0 271s Starting 2 pkgProblemResolver with broken count: 0 271s Done 272s The following additional packages will be installed: 272s libblas3 libgfortran5 liblapack3 libslow5-0t64 libslow5-dev libstreamvbyte0 272s python3-all python3-numpy python3-slow5 272s Suggested packages: 272s gcc gfortran python-numpy-doc python3-dev python3-pytest 272s The following NEW packages will be installed: 272s autopkgtest-satdep libblas3 libgfortran5 liblapack3 libslow5-0t64 272s libslow5-dev libstreamvbyte0 python3-all python3-numpy python3-slow5 272s 0 upgraded, 10 newly installed, 0 to remove and 0 not upgraded. 272s Need to get 7111 kB/7112 kB of archives. 272s After this operation, 34.9 MB of additional disk space will be used. 272s Get:1 /tmp/autopkgtest.1fuPb8/1-autopkgtest-satdep.deb autopkgtest-satdep armhf 0 [728 B] 272s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf libblas3 armhf 3.12.0-3build2 [126 kB] 273s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf libgfortran5 armhf 14.2.0-8ubuntu1 [311 kB] 273s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf liblapack3 armhf 3.12.0-3build2 [2086 kB] 273s Get:5 http://ftpmaster.internal/ubuntu plucky/universe armhf libslow5-0t64 armhf 0.7.0+dfsg-3 [62.9 kB] 273s Get:6 http://ftpmaster.internal/ubuntu plucky/universe armhf libslow5-dev armhf 0.7.0+dfsg-3 [84.5 kB] 273s Get:7 http://ftpmaster.internal/ubuntu plucky/universe armhf libstreamvbyte0 armhf 0.4.1-4ubuntu1 [5742 B] 273s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf python3-all armhf 3.12.6-0ubuntu1 [886 B] 273s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf python3-numpy armhf 1:1.26.4+ds-11ubuntu1 [3975 kB] 273s Get:10 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-slow5 armhf 0.7.0+dfsg-3 [460 kB] 273s Fetched 7111 kB in 1s (8997 kB/s) 273s Selecting previously unselected package libblas3:armhf. 273s (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 ... 59565 files and directories currently installed.) 273s Preparing to unpack .../0-libblas3_3.12.0-3build2_armhf.deb ... 273s Unpacking libblas3:armhf (3.12.0-3build2) ... 273s Selecting previously unselected package libgfortran5:armhf. 273s Preparing to unpack .../1-libgfortran5_14.2.0-8ubuntu1_armhf.deb ... 273s Unpacking libgfortran5:armhf (14.2.0-8ubuntu1) ... 273s Selecting previously unselected package liblapack3:armhf. 273s Preparing to unpack .../2-liblapack3_3.12.0-3build2_armhf.deb ... 273s Unpacking liblapack3:armhf (3.12.0-3build2) ... 274s Selecting previously unselected package libslow5-0t64:armhf. 274s Preparing to unpack .../3-libslow5-0t64_0.7.0+dfsg-3_armhf.deb ... 274s Unpacking libslow5-0t64:armhf (0.7.0+dfsg-3) ... 274s Selecting previously unselected package libslow5-dev:armhf. 274s Preparing to unpack .../4-libslow5-dev_0.7.0+dfsg-3_armhf.deb ... 274s Unpacking libslow5-dev:armhf (0.7.0+dfsg-3) ... 274s Selecting previously unselected package libstreamvbyte0:armhf. 274s Preparing to unpack .../5-libstreamvbyte0_0.4.1-4ubuntu1_armhf.deb ... 274s Unpacking libstreamvbyte0:armhf (0.4.1-4ubuntu1) ... 274s Selecting previously unselected package python3-all. 274s Preparing to unpack .../6-python3-all_3.12.6-0ubuntu1_armhf.deb ... 274s Unpacking python3-all (3.12.6-0ubuntu1) ... 274s Selecting previously unselected package python3-numpy. 274s Preparing to unpack .../7-python3-numpy_1%3a1.26.4+ds-11ubuntu1_armhf.deb ... 274s Unpacking python3-numpy (1:1.26.4+ds-11ubuntu1) ... 274s Selecting previously unselected package python3-slow5. 274s Preparing to unpack .../8-python3-slow5_0.7.0+dfsg-3_armhf.deb ... 274s Unpacking python3-slow5 (0.7.0+dfsg-3) ... 274s Selecting previously unselected package autopkgtest-satdep. 274s Preparing to unpack .../9-1-autopkgtest-satdep.deb ... 274s Unpacking autopkgtest-satdep (0) ... 274s Setting up libstreamvbyte0:armhf (0.4.1-4ubuntu1) ... 274s Setting up python3-all (3.12.6-0ubuntu1) ... 274s Setting up libblas3:armhf (3.12.0-3build2) ... 274s update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode 274s Setting up libslow5-0t64:armhf (0.7.0+dfsg-3) ... 274s Setting up libgfortran5:armhf (14.2.0-8ubuntu1) ... 274s Setting up liblapack3:armhf (3.12.0-3build2) ... 274s update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode 274s Setting up libslow5-dev:armhf (0.7.0+dfsg-3) ... 274s Setting up python3-numpy (1:1.26.4+ds-11ubuntu1) ... 276s Setting up python3-slow5 (0.7.0+dfsg-3) ... 276s Setting up autopkgtest-satdep (0) ... 276s Processing triggers for man-db (2.12.1-3) ... 277s Processing triggers for libc-bin (2.40-1ubuntu3) ... 292s (Reading database ... 60523 files and directories currently installed.) 292s Removing autopkgtest-satdep (0) ... 298s autopkgtest [18:52:51]: test run-pybinding-test: [----------------------- 301s Testing with python3.12 in /tmp/autopkgtest.1fuPb8/autopkgtest_tmp: 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example.slow5, mode: r 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: b'examples/example.slow5', mode: b'r' 301s 14-Nov-24 18:52:54 - [DEBUG]: Number of read_groups: 1 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example.slow5, mode: r 301s 14-Nov-24 18:52:54 - [DEBUG]: Creating/loading index... 301s [slow5_idx_init::INFO] Index file not found. Creating an index at 'examples/example.slow5.idx'. 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_names starting 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_names aux_len: 0 301s 14-Nov-24 18:52:54 - [WARNING]: get_aux_names ret is NULL 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_types starting 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_types aux_len: 0 301s 14-Nov-24 18:52:54 - [WARNING]: get_aux_types self.s5_aux_type is NULL 301s 14-Nov-24 18:52:54 - [WARNING]: get_read unknown aux name: blah 301s 14-Nov-24 18:52:54 - [WARNING]: get_read unknown aux name: read_number 301s 14-Nov-24 18:52:54 - [WARNING]: get_read unknown aux name: start_mux 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: -1 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 301s [slow5_idx_get::ERROR] Read ID 'null_read' was not found. At src/slow5_idx.c:441 301s 14-Nov-24 18:52:54 - [DEBUG]: get_read return not 0: -7 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_hdr_keys head_len: 32 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_hdr_keys head_len: 32 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example.slow5 closed 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example2.slow5, mode: r 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 301s 14-Nov-24 18:52:54 - [DEBUG]: Number of read_groups: 4 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example2.slow5, mode: r 301s 14-Nov-24 18:52:54 - [DEBUG]: Creating/loading index... 301s [slow5_idx_init::INFO] Index file not found. Creating an index at 'examples/example2.slow5.idx'. 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_names starting 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_names aux_len: 5 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_types starting 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_types aux_len: 5 301s 14-Nov-24 18:52:54 - [WARNING]: get_read unknown aux name: blah 301s 14-Nov-24 18:52:54 - [WARNING]: get_read unknown aux name: blah 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_names starting 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_names aux_len: 5 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_types starting 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_types aux_len: 5 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: -1 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example2.slow5 closed 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example_write.slow5, mode: w 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: b'examples/example_write.slow5', mode: b'w' 301s 14-Nov-24 18:52:54 - [DEBUG]: Not writing blow5, skipping compression steps 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example2.slow5, mode: r 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 301s 14-Nov-24 18:52:54 - [DEBUG]: Number of read_groups: 4 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checking header stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: writting header... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: header written 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 305872 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 152707 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 305872 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 152707 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 305872 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 152707 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 305906 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 152741 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: -1 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example_write.slow5 closed 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example2.slow5 closed 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example_write_append.blow5, mode: w 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: b'examples/example_write_append.blow5', mode: b'w' 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example_write.slow5 already closed 301s 14-Nov-24 18:52:54 - [DEBUG]: pathname: examples/example_write.slow5 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_yield_reads: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_single_write_time: 0.0296022891998291 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example2.slow5, mode: r 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 301s 14-Nov-24 18:52:54 - [DEBUG]: Number of read_groups: 4 301s 14-Nov-24 18:52:54 - [DEBUG]: pathname: examples/example2.slow5 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_slow5_get_next: 0.021555662155151367 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_yield_reads: 0.0229189395904541 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_single_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checking header stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: writting header... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: header written 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 152976 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 76384 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 152976 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 76384 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 152976 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 76384 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 153010 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 76418 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: -1 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example2.slow5 closed 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example_write_append.blow5 closed 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example_write_append.blow5, mode: a 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: b'examples/example_write_append.blow5', mode: b'a' 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_hdr_keys head_len: 38 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example2.slow5, mode: r 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 301s 14-Nov-24 18:52:54 - [DEBUG]: Number of read_groups: 4 301s 14-Nov-24 18:52:54 - [DEBUG]: pathname: examples/example2.slow5 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_slow5_get_next: 0.02188277244567871 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_yield_reads: 0.0232999324798584 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_single_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s |==============================================| 301s | pyslow5 test launch | 301s |==============================================| 301s ['__class__', '__delattr__', '__dir__', '__doc__', '__eq__', '__format__', '__ge__', '__getattribute__', '__getstate__', '__gt__', '__hash__', '__init__', '__init_subclass__', '__le__', '__lt__', '__ne__', '__new__', '__reduce__', '__reduce_ex__', '__repr__', '__setattr__', '__setstate__', '__sizeof__', '__str__', '__subclasshook__', '_aux_header_type_validation', '_convert_to_pA', '_get_batches', '_get_read', '_get_read_aux', '_get_read_multi', '_get_seq_read_aux', '_header_type_validation', '_multi_record_type_validation', '_record_type_validation', 'close', 'get_all_headers', 'get_aux_names', 'get_aux_types', 'get_empty_header', 'get_empty_record', 'get_header_names', 'get_header_value', 'get_read', 'get_read_ids', 'get_read_list', 'get_read_list_multi', 'seq_reads', 'seq_reads_multi', 'write_header', 'write_record', 'write_record_batch'] 301s slow5 file opened and object created in: 0.0031 seconds 301s ============================================== 301s get_read check, r1 301s get_read in: 0.0063 seconds 301s read_id: r1 301s read_group: 0 301s digitisation: 8192.0 301s offset: 23.0 301s range: 1467.61 301s sampling_rate: 4000.0 301s len_raw_signal: 59676 301s signal: [1039 588 588 593 586 574 570 585 588 586] 301s pylen of signal: 59676 301s AUX FIELDS: 301s read_number: None 301s start_mux: None 301s blah: None 301s ============================================== 301s get_read check, r4, converte to pA 301s get_read in: 0.0046 seconds 301s read_id: r4 301s read_group: 0 301s digitisation: 8192.0 301s offset: 23.0 301s range: 1467.61 301s sampling_rate: 4000.0 301s len_raw_signal: 59670 301s signal: [190.25902 108.92418 109.46163 109.10333 107.67012 108.38673 301s 108.745026 109.10333 111.074 108.38673 ] 301s pylen of signal: 59670 301s signal value type: 301s ============================================== 301s seq_reads check, all reads 301s seq_reads readIDs: 301s type check reads: 301s r1 301s r2 301s r3 301s r4 301s r5 301s seq_reads in: 0.0157 seconds 301s ============================================== 301s Yield check, selected reads 301s get_read_list in: 0.0 seconds 301s yielded readIDs: 301s r1 r1 301s r3 r3 301s null_read read not found, None returned 301s r5 r5 301s r2 r2 301s r1 r1 301s ============================================== 301s Get headder names 301s header names: 301s ['asic_id', 'asic_id_eeprom', 'asic_temp', 'auto_update', 'auto_update_source', 'bream_core_version', 'bream_is_standard', 'bream_map_version', 'bream_ont_version', 'bream_prod_version', 'bream_rnd_version', 'device_id', 'exp_script_name', 'exp_script_purpose', 'exp_start_time', 'experiment_kit', 'experiment_type', 'file_version', 'filename', 'flow_cell_id', 'heatsink_temp', 'hostname', 'installation_type', 'local_firmware_file', 'operating_system', 'protocol_run_id', 'protocols_version', 'run_id', 'sample_frequency', 'usb_config', 'user_filename_input', 'version'] 301s ============================================== 301s get_all_headers 301s {'asic_id': '3574887596', 'asic_id_eeprom': '0', 'asic_temp': '29.2145729', 'auto_update': '1', 'auto_update_source': 'https://mirror.oxfordnanoportal.com/software/MinKNOW/', 'bream_core_version': '1.1.20.1', 'bream_is_standard': '1', 'bream_map_version': '1.1.20.1', 'bream_ont_version': '1.1.20.1', 'bream_prod_version': '1.1.20.1', 'bream_rnd_version': '0.1.1', 'device_id': 'MN16450', 'exp_script_name': 'python/recipes/nc/NC_48Hr_Sequencing_Run_FLO-MIN106_SQK-LSK108.py', 'exp_script_purpose': 'sequencing_run', 'exp_start_time': '1479433093', 'experiment_kit': 'genomic_dna', 'experiment_type': 'customer_qc', 'file_version': '1', 'filename': 'deamernanopore_20161117_fnfab43577_mn16450_sequencing_run_ma_821_r9_4_na12878_11_17_16_88738', 'flow_cell_id': 'FAB43577', 'heatsink_temp': '33.9921875', 'hostname': 'DEAMERNANOPORE', 'installation_type': 'map', 'local_firmware_file': '0', 'operating_system': 'Windows 6.2', 'protocol_run_id': 'a4429838-103c-497f-a824-7dffa72cfd81', 'protocols_version': '1.1.20', 'run_id': 'd6e473a6d513ec6bfc150c60fd4556d72f0e6d18', 'sample_frequency': '4000', 'usb_config': '1.0.11_ONT#MinION_fpga_1.0.1#ctrl#Auto', 'user_filename_input': 'ma_821_r9.4_na12878_11_17_16', 'version': '1.1.20'} 301s ============================================== 301s Get headder attributes 301s flow_cell_id: FAB43577 301s exp_start_time: 1479433093 301s heatsink_temp: 33.9921875 301s asic_id: 3574887596 301s asic_id_eeprom: 0 301s asic_temp: 29.2145729 301s auto_update: 1 301s auto_update_source: https://mirror.oxfordnanoportal.com/software/MinKNOW/ 301s bream_core_version: 1.1.20.1 301s bream_is_standard: 1 301s bream_map_version: 1.1.20.1 301s bream_ont_version: 1.1.20.1 301s bream_prod_version: 1.1.20.1 301s bream_rnd_version: 0.1.1 301s device_id: MN16450 301s exp_script_name: python/recipes/nc/NC_48Hr_Sequencing_Run_FLO-MIN106_SQK-LSK108.py 301s exp_script_purpose: sequencing_run 301s exp_start_time: 1479433093 301s experiment_kit: genomic_dna 301s experiment_type: customer_qc 301s file_version: 1 301s filename: deamernanopore_20161117_fnfab43577_mn16450_sequencing_run_ma_821_r9_4_na12878_11_17_16_88738 301s flow_cell_id: FAB43577 301s heatsink_temp: 33.9921875 301s hostname: DEAMERNANOPORE 301s installation_type: map 301s local_firmware_file: 0 301s operating_system: Windows 6.2 301s protocol_run_id: a4429838-103c-497f-a824-7dffa72cfd81 301s protocols_version: 1.1.20 301s run_id: d6e473a6d513ec6bfc150c60fd4556d72f0e6d18 301s sample_frequency: 4000 301s usb_config: 1.0.11_ONT#MinION_fpga_1.0.1#ctrl#Auto 301s user_filename_input: ma_821_r9.4_na12878_11_17_16 301s version: 1.1.20 301s ============================================== 301s get_read check, 0d624d4b-671f-40b8-9798-84f2ccc4d7fc 301s read_id: 0d624d4b-671f-40b8-9798-84f2ccc4d7fc 301s read_group: 3 301s digitisation: 8192.0 301s offset: 6.0 301s range: 1444.86 301s sampling_rate: 4000.0 301s len_raw_signal: 38164 301s signal: [1462 1075 795 801 797 788 817 791 801 802] 301s pylen of signal: 38164 301s AUX FIELDS: 301s read_number: 2287 301s start_mux: 2 301s blah: None 301s AUX FIELDS: 301s blah: None 301s AUX FIELDS: 301s read_number: 2287 301s ============================================== 301s Get aux names 301s aux names: 301s ['channel_number', 'median_before', 'read_number', 'start_mux', 'start_time'] 301s ============================================== 301s Get aux types 301s aux types: 301s [22, 9, 2, 4, 7] 301s ============================================== 301s AUX FIELDS: 301s channel_number: 391 301s median_before: 260.557264 301s read_number: 2287 301s start_mux: 2 301s start_time: 36886851 301s ============================================== 301s seq_reads with aux: 301s type check reads: 301s r0 301s read_number 4019 301s r1 301s read_number 2287 301s r2 301s read_number 4019 301s r3 301s read_number 2287 301s r4 301s read_number 4019 301s r5 301s read_number 2287 301s 0a238451-b9ed-446d-a152-badd074006c4 301s read_number 4019 301s 0d624d4b-671f-40b8-9798-84f2ccc4d7fc 301s read_number 2287 301s ============================================== 301s write reads no aux 301s ret: write_header(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ============================================== 301s append reads no aux 301s ret: write_header(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s get_all_headers 301s {'asic_id': 'test_0', 'asic_id_eeprom': 'test_1', 'asic_temp': 'test_2', 'asic_version': 'test_3', 'auto_update': 'test_4', 'auto_update_source': 'test_5', 'barcoding_enabled': 'test_6', 'bream_is_standard': 'test_7', 'configuration_version': 'test_8', 'device_id': 'test_9', 'device_type': 'test_10', 'distribution_status': 'test_11', 'distribution_version': 'test_12', 'exp_script_name': 'test_13', 'exp_script_purpose': 'test_14', 'exp_start_time': 'test_15', 'experiment_duration_set': 'test_16', 'flow_cell_id': 'test_17', 'flow_cell_product_code': 'test_18', 'guppy_version': 'test_19', 'heatsink_temp': 'test_20', 'hostname': 'test_21', 'hublett_board_id': 'test_36', 'installation_type': 'test_22', 'local_basecalling': 'test_23', 'operating_system': 'test_24', 'package': 'test_25', 'protocol_group_id': 'test_26', 'protocol_run_id': 'test_27', 'protocol_start_time': 'test_28', 'protocols_version': 'test_29', 'run_id': 'test_30', 'sample_frequency': 'test_31', 'sample_id': 'test_32', 'satellite_firmware_version': 'test_37', 'sequencing_kit': 'test_33', 'usb_config': 'test_34', 'version': 'test_35'}14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 152983 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 76391 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 152983 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 76391 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 152983 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 76391 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 153017 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 76425 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: -1 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example2.slow5 closed 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example_write_append.blow5 closed 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example_write_aux.blow5, mode: w 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: b'examples/example_write_aux.blow5', mode: b'w' 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example_write_append.blow5 already closed 301s 14-Nov-24 18:52:54 - [DEBUG]: pathname: examples/example_write_append.blow5 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_yield_reads: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_single_write_time: 0.029535531997680664 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example2.slow5, mode: r 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 301s 14-Nov-24 18:52:54 - [DEBUG]: Number of read_groups: 4 301s 14-Nov-24 18:52:54 - [DEBUG]: pathname: examples/example2.slow5 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_slow5_get_next: 0.022902250289916992 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_yield_reads: 0.02434825897216797 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_single_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_names starting 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_names aux_len: 5 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_types starting 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_types aux_len: 5 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checking header stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: writting header... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: header written 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 281 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 4019 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 1 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 78470500 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 67258 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 391 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 2287 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 2 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 36886851 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 32408 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 281 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 4019 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 1 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 78470500 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 67258 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 391 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 2287 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 2 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 36886851 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 32408 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 281 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 4019 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 1 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 78470500 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 67260 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 391 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 2287 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 2 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 36886851 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 32408 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 281 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 4019 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 1 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 78470500 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 67298 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 391 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 2287 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 2 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 36886851 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 32446 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: -1 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example2.slow5 closed 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example_write_aux.blow5 closed 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example_write_append_aux.blow5, mode: w 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: b'examples/example_write_append_aux.blow5', mode: b'w' 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example_write_aux.blow5 already closed 301s 14-Nov-24 18:52:54 - [DEBUG]: pathname: examples/example_write_aux.blow5 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_yield_reads: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_single_write_time: 0.029752254486083984 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example2.slow5, mode: r 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 301s 14-Nov-24 18:52:54 - [DEBUG]: Number of read_groups: 4 301s 14-Nov-24 18:52:54 - [DEBUG]: pathname: examples/example2.slow5 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_slow5_get_next: 0.022307872772216797 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_yield_reads: 0.02412581443786621 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_single_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_names starting 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_names aux_len: 5 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_types starting 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_types aux_len: 5 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checking header stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: writting header... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: header written 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 281 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 4019 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 1 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 78470500 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 153008 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 391 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 2287 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 2 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 36886851 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 76416 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 281 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 4019 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 1 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 78470500 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 153008 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 391 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 2287 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 2 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 36886851 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 76416 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 281 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 4019 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 1 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 78470500 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 153008 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 391 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 2287 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 2 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 36886851 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 76416 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 281 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 4019 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 1 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 78470500 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 153042 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 391 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 2287 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 2 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 36886851 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 76450 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: -1 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example2.slow5 closed 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example_write_append_aux.blow5 closed 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example_write_append_aux.blow5, mode: a 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: b'examples/example_write_append_aux.blow5', mode: b'a' 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example_write_append.blow5 already closed 301s 14-Nov-24 18:52:54 - [DEBUG]: pathname: examples/example_write_append.blow5 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_yield_reads: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_single_write_time: 0.02965688705444336 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example2.slow5, mode: r 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 301s 14-Nov-24 18:52:54 - [DEBUG]: Number of read_groups: 4 301s 14-Nov-24 18:52:54 - [DEBUG]: pathname: examples/example2.slow5 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_slow5_get_next: 0.022231578826904297 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_yield_reads: 0.024074554443359375 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_single_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_names starting 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_names aux_len: 5 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_types starting 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_types aux_len: 5 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 281 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 4019 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 1 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 78470500 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 153015 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 391 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 2287 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 2 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 36886851 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 76423 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 281 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 4019 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 1 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 78470500 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 153015 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 391 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 2287 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 2 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 36886851 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 76423 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 281 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 4019 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 1 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 78470500 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 153015 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 391 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 2287 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 2 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 36886851 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 76423 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 281 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 231.363533 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 4019 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 1 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 78470500 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 153049 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: channel_number: 391 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: median_before: 260.557264 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: read_number: 2287 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_mux: 2 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: checked_aux: start_time: 36886851 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_write() ret: 76457 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: slow5_rec_free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: -1 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example2.slow5 closed 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example_write_append_aux.blow5 closed 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example2.slow5, mode: r 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 301s 14-Nov-24 18:52:54 - [DEBUG]: Number of read_groups: 4 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next_multi return: 3 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_names starting 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_names aux_len: 5 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_types starting 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_types aux_len: 5 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next_multi return: 3 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next_multi return: 2 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next_multi has no more batches - batchsize:3 ret:2 301s 14-Nov-24 18:52:54 - [DEBUG]: seq_reads_multi timings: 301s 14-Nov-24 18:52:54 - [DEBUG]: aux_total_time: 0.00029087066650390625 301s 14-Nov-24 18:52:54 - [DEBUG]: primary_total_time: 0.0003647804260253906 301s 14-Nov-24 18:52:54 - [DEBUG]: pA_total_time: 0.004305362701416016 301s 14-Nov-24 18:52:54 - [DEBUG]: signal_total_time: 0.00032973289489746094 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example2.slow5 closed 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example2.slow5, mode: r 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 301s 14-Nov-24 18:52:54 - [DEBUG]: Number of read_groups: 4 301s 14-Nov-24 18:52:54 - [DEBUG]: pathname: examples/example2.slow5 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_slow5_get_next: 0.017108917236328125 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_yield_reads: 0.005070924758911133 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_single_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example2.slow5, mode: r 301s 14-Nov-24 18:52:54 - [DEBUG]: Creating/loading index... 301s 14-Nov-24 18:52:54 - [DEBUG]: Setting up batching... 301s 14-Nov-24 18:52:54 - [DEBUG]: read_list: ['r0', 'r1', 'r2', 'r3', 'r4', 'r5', '0a238451-b9ed-446d-a152-badd074006c4', '0d624d4b-671f-40b8-9798-84f2ccc4d7fc'] 301s 14-Nov-24 18:52:54 - [DEBUG]: batch for loop start 301s 14-Nov-24 18:52:54 - [DEBUG]: Batch: r0,r1,r2 301s 14-Nov-24 18:52:54 - [DEBUG]: Starting rid assignment 301s 14-Nov-24 18:52:54 - [DEBUG]: readID: r0, bin: b'r0' 301s 14-Nov-24 18:52:54 - [DEBUG]: readID: r1, bin: b'r1' 301s 14-Nov-24 18:52:54 - [DEBUG]: readID: r2, bin: b'r2' 301s 14-Nov-24 18:52:54 - [DEBUG]: rid assignment complete 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_batch: num_reads: 3 301s 14-Nov-24 18:52:54 - [DEBUG]: get_read_multi slow5_get_batch ret: 3 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_names starting 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_names aux_len: 5 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_types starting 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_types aux_len: 5 301s 14-Nov-24 18:52:54 - [DEBUG]: Batch: r3,r4,r5 301s 14-Nov-24 18:52:54 - [DEBUG]: Starting rid assignment 301s 14-Nov-24 18:52:54 - [DEBUG]: readID: r3, bin: b'r3' 301s 14-Nov-24 18:52:54 - [DEBUG]: readID: r4, bin: b'r4' 301s 14-Nov-24 18:52:54 - [DEBUG]: readID: r5, bin: b'r5' 301s 14-Nov-24 18:52:54 - [DEBUG]: rid assignment complete 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_batch: num_reads: 3 301s 14-Nov-24 18:52:54 - [DEBUG]: get_read_multi slow5_get_batch ret: 3 301s 14-Nov-24 18:52:54 - [DEBUG]: Batch: 0a238451-b9ed-446d-a152-badd074006c4,0d624d4b-671f-40b8-9798-84f2ccc4d7fc 301s 14-Nov-24 18:52:54 - [DEBUG]: Starting rid assignment 301s 14-Nov-24 18:52:54 - [DEBUG]: readID: 0a238451-b9ed-446d-a152-badd074006c4, bin: b'0a238451-b9ed-446d-a152-badd074006c4' 301s 14-Nov-24 18:52:54 - [DEBUG]: readID: 0d624d4b-671f-40b8-9798-84f2ccc4d7fc, bin: b'0d624d4b-671f-40b8-9798-84f2ccc4d7fc' 301s 14-Nov-24 18:52:54 - [DEBUG]: rid assignment complete 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_batch: num_reads: 2 301s 14-Nov-24 18:52:54 - [DEBUG]: get_read_multi slow5_get_batch ret: 2 301s 14-Nov-24 18:52:54 - [DEBUG]: seq_reads_multi timings: 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example2.slow5 closed 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example_write_aux_multi.slow5, mode: w 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: b'examples/example_write_aux_multi.slow5', mode: b'w' 301s 14-Nov-24 18:52:54 - [DEBUG]: Not writing blow5, skipping compression steps 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example_write_append_aux.blow5 already closed 301s 14-Nov-24 18:52:54 - [DEBUG]: pathname: examples/example_write_append_aux.blow5 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_yield_reads: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_single_write_time: 0.029892683029174805 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example2.slow5, mode: r 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 301s 14-Nov-24 18:52:54 - [DEBUG]: Number of read_groups: 4 301s 14-Nov-24 18:52:54 - [DEBUG]: pathname: examples/example2.slow5 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_slow5_get_next: 0.022386789321899414 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_yield_reads: 0.024450063705444336 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_single_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_names starting 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_names aux_len: 5 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_types starting 301s 14-Nov-24 18:52:54 - [DEBUG]: get_aux_types aux_len: 5 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: 0 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next return: -1 301s 14-Nov-24 18:52:54 - [DEBUG]: slow5_get_next reached end of file (EOF)(-1): -1: ['SLOW5_ERR_EOF', 'End Of File reached'] 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: Setting up batching... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: batch for loop start 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checking header stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: writting header... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: header written 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: channel_number: 281 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: median_before: 231.363533 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: read_number: 4019 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: start_mux: 1 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: start_time: 78470500 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: channel_number: 391 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: median_before: 260.557264 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: read_number: 2287 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: start_mux: 2 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: start_time: 36886851 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: channel_number: 281 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: median_before: 231.363533 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: read_number: 4019 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: start_mux: 1 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: start_time: 78470500 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_write_batch() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: free() aux 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: channel_number: 391 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: median_before: 260.557264 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: read_number: 2287 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: start_mux: 2 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: start_time: 36886851 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: channel_number: 281 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: median_before: 231.363533 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: read_number: 4019 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: start_mux: 1 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: start_time: 78470500 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: channel_number: 391 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: median_before: 260.557264 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: read_number: 2287 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: start_mux: 2 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: start_time: 36886851 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_write_batch() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: free() aux 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: _record_type_validation running 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: doing aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux passed tests... 301s 14-Nov-24 18:52:54 - [DEBUG]: _record_type_validation: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: _record_type_validation done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: channel_number: 281 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: median_before: 231.363533 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: read_number: 4019 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: start_mux: 1 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: start_time: 78470500 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_rec_init() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write assignments... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write.raw_signal malloc... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write.raw_signal malloc done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write assignments done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write processing raw_signal 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: self.write raw_signal done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: aux stuff... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: channel_number: 391 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string running... 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string type: 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_aux_set_string running done: ret = 0 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: median_before: 260.557264 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: read_number: 2287 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: start_mux: 2 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: checked_aux: start_time: 36886851 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: aux stuff done 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: slow5_write_batch() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: free() 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: free() aux 301s 14-Nov-24 18:52:54 - [DEBUG]: write_record_batch: function complete, returning 0 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example2.slow5 closed 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example_write_aux_multi.slow5 closed 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example2.slow5, mode: r 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: b'examples/example2.slow5', mode: b'r' 301s 14-Nov-24 18:52:54 - [DEBUG]: Number of read_groups: 4 301s 14-Nov-24 18:52:54 - [DEBUG]: pathname: examples/example2.slow5 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_slow5_get_next: 0.021387815475463867 seconds 301s 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ============================================== 301s write reads with aux 301s ret: write_header(): 0 301s ret: write_header(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ============================================== 301s append reads with aux 301s ret: write_header(): 0 301s ret: write_header(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ret: write_record(): 0 301s ============================================== 301s seq_reads_multi with aux: 301s type check reads: 301s r0 301s read_number 4019 301s r1 301s read_number 2287 301s r2 301s read_number 4019 301s r3 301s read_number 2287 301s r4 301s read_number 4019 301s r5 301s read_number 2287 301s 0a238451-b9ed-446d-a152-badd074006c4 301s read_number 4019 301s 0d624d4b-671f-40b8-9798-84f2ccc4d7fc 301s read_number 2287 301s ============================================== 301s get_reads_multi with aux: 301s type check reads: 301s r0 301s read_number 4019 301s r1 301s read_number 2287 301s r2 301s read_number 4019 301s r3 301s read_number 2287 301s r4 301s read_number 4019 301s r5 301s read_number 2287 301s 0a238451-b9ed-446d-a152-badd074006c4 301s read_number 4019 301s 0d624d4b-671f-40b8-9798-84f2ccc4d7fc 301s read_number 2287 301s ============================================== 301s write reads with aux multi 301s ret: write_header(): 0 301s ret: write_header(): 0 301s {'r0': {'read_id': 'r0', 'read_group': 0, 'digitisation': 8192.0, 'offset': 2.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 76460, 'signal': array([1299, 771, 556, ..., 554, 560, 566], dtype=int16)}, 'r1': {'read_id': 'r1', 'read_group': 0, 'digitisation': 8192.0, 'offset': 6.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 38164, 'signal': array([1462, 1075, 795, ..., 696, 706, 702], dtype=int16)}, 'r2': {'read_id': 'r2', 'read_group': 1, 'digitisation': 8192.0, 'offset': 2.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 76460, 'signal': array([1299, 771, 556, ..., 554, 560, 566], dtype=int16)}, 'r3': {'read_id': 'r3', 'read_group': 1, 'digitisation': 8192.0, 'offset': 6.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 38164, 'signal': array([1462, 1075, 795, ..., 696, 706, 702], dtype=int16)}, 'r4': {'read_id': 'r4', 'read_group': 2, 'digitisation': 8192.0, 'offset': 2.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 76460, 'signal': array([1299, 771, 556, ..., 554, 560, 566], dtype=int16)}, 'r5': {'read_id': 'r5', 'read_group': 2, 'digitisation': 8192.0, 'offset': 6.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 38164, 'signal': array([1462, 1075, 795, ..., 696, 706, 702], dtype=int16)}, '0a238451-b9ed-446d-a152-badd074006c4': {'read_id': '0a238451-b9ed-446d-a152-badd074006c4', 'read_group': 3, 'digitisation': 8192.0, 'offset': 2.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 76460, 'signal': array([1299, 771, 556, ..., 554, 560, 566], dtype=int16)}, '0d624d4b-671f-40b8-9798-84f2ccc4d7fc': {'read_id': '0d624d4b-671f-40b8-9798-84f2ccc4d7fc', 'read_group': 3, 'digitisation': 8192.0, 'offset': 6.0, 'range': 1444.86, 'sampling_rate': 4000.0, 'len_raw_signal': 38164, 'signal': array([1462, 1075, 795, ..., 696, 706, 702], dtype=int16)}} 301s {'r0': {'channel_number': '281', 'median_before': 231.363533, 'read_number': 4019, 'start_mux': 1, 'start_time': 78470500}, 'r1': {'channel_number': '391', 'median_before': 260.557264, 'read_number': 2287, 'start_mux': 2, 'start_time': 36886851}, 'r2': {'channel_number': '281', 'median_before': 231.363533, 'read_number': 4019, 'start_mux': 1, 'start_time': 78470500}, 'r3': {'channel_number': '391', 'median_before': 260.557264, 'read_number': 2287, 'start_mux': 2, 'start_time': 36886851}, 'r4': {'channel_number': '281', 'median_before': 231.363533, 'read_number': 4019, 'start_mux': 1, 'start_time': 78470500}, 'r5': {'channel_number': '391', 'median_before': 260.557264, 'read_number': 2287, 'start_mux': 2, 'start_time': 36886851}, '0a238451-b9ed-446d-a152-badd074006c4': {'channel_number': '281', 'median_before': 231.363533, 'read_number': 4019, 'start_mux': 1, 'start_time': 78470500}, '0d624d4b-671f-40b8-9798-84f2ccc4d7fc': {'channel_number': '391', 'median_before': 260.557264, 'read_number': 2287, 'start_mux': 2, 'start_time': 36886851}} 301s ret: write_record(): 0 301s ============================================== 301s get all readIDs from index 301s ['r0', 'r1', 'r2', 'r3', 'r4', 'r5', '0a238451-b9ed-446d-a152-badd074006c4', '0d624d4b-671f-40b8-9798-84f2ccc4d7fc'] 301s number of reads: 8 301s ============================================== 301s done 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_yield_reads: 0.023137807846069336 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_single_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: FILE: examples/example2.slow5, mode: r 301s 14-Nov-24 18:52:54 - [DEBUG]: Creating/loading index... 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example2.slow5 closed 301s 14-Nov-24 18:52:54 - [DEBUG]: pathname: examples/example.slow5 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_slow5_get_next: 0.014681577682495117 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_yield_reads: 0.01559901237487793 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_single_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: pathname: examples/example2.slow5 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_slow5_get_next: 0.02207660675048828 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_yield_reads: 0.029270410537719727 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_single_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example_write_aux_multi.slow5 already closed 301s 14-Nov-24 18:52:54 - [DEBUG]: pathname: examples/example_write_aux_multi.slow5 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_yield_reads: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_single_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_signal_time: 0.031223297119140625 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_time: 0.06288599967956543 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: pathname: examples/example2.slow5 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_yield_reads: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_single_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: examples/example_write_append_aux.blow5 already closed 301s 14-Nov-24 18:52:54 - [DEBUG]: pathname: examples/example_write_append_aux.blow5 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_yield_reads: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_single_write_time: 0.029820680618286133 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: pathname: examples/example2.slow5 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_slow5_get_next: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_time_yield_reads: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_single_write_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_signal_time: 0.0 seconds 301s 14-Nov-24 18:52:54 - [DEBUG]: total_multi_write_time: 0.0 seconds 302s autopkgtest [18:52:55]: test run-pybinding-test: -----------------------] 306s run-pybinding-test PASS 306s autopkgtest [18:52:59]: test run-pybinding-test: - - - - - - - - - - results - - - - - - - - - - 310s autopkgtest [18:53:03]: test run-pkg-test: preparing testbed 364s autopkgtest [18:53:57]: testbed dpkg architecture: armhf 366s autopkgtest [18:53:59]: testbed apt version: 2.9.8 366s autopkgtest [18:53:59]: @@@@@@@@@@@@@@@@@@@@ test bed setup 374s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 374s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [103 kB] 374s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [14.0 kB] 374s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [933 kB] 375s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 375s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf Packages [105 kB] 375s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf Packages [663 kB] 375s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf Packages [3564 B] 375s Fetched 1903 kB in 1s (1983 kB/s) 375s Reading package lists... 390s tee: /proc/self/fd/2: Permission denied 412s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 412s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 413s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 413s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 414s Reading package lists... 414s Reading package lists... 414s Building dependency tree... 414s Reading state information... 415s Calculating upgrade... 416s The following packages were automatically installed and are no longer required: 416s libperl5.38t64 perl-modules-5.38 python3-netifaces 416s Use 'apt autoremove' to remove them. 416s The following NEW packages will be installed: 416s libperl5.40 perl-modules-5.40 systemd-cryptsetup 416s The following packages will be upgraded: 416s apport apport-core-dump-handler base-files base-passwd bash-completion 416s dhcpcd-base distro-info-data dpkg dpkg-dev fwupd gcc-14-base info 416s install-info iproute2 libarchive13t64 libatomic1 libattr1 416s libblockdev-crypto3 libblockdev-fs3 libblockdev-loop3 libblockdev-mdraid3 416s libblockdev-nvme3 libblockdev-part3 libblockdev-swap3 libblockdev-utils3 416s libblockdev3 libbpf1 libbsd0 libbytesize-common libbytesize1 libcap-ng0 416s libdb5.3t64 libdpkg-perl libdrm-common libdrm2 libdw1t64 libedit2 libelf1t64 416s libevdev2 libfastjson4 libflashrom1 libftdi1-2 libfwupd2 libgcc-s1 416s libgnutls30t64 libgpgme11t64 libinih1 libjson-c5 libjson-glib-1.0-0 416s libjson-glib-1.0-common libkeyutils1 libldap-common libldap2 416s liblocale-gettext-perl libmaxminddb0 libmnl0 libnetfilter-conntrack3 416s libnetplan1 libnewt0.52 libnghttp2-14 libnspr4 libnss-systemd libnvme1t64 416s libpam-systemd libpipeline1 libplymouth5 libpng16-16t64 libpopt0 416s libpython3.12-minimal libpython3.12-stdlib libsgutils2-1.46-2 libssh2-1t64 416s libstdc++6 libsystemd-shared libsystemd0 libtext-charwidth-perl 416s libtext-iconv-perl libtraceevent1 libtraceevent1-plugin libudev1 416s libudisks2-0 liburcu8t64 libutempter0 libuv1t64 libx11-6 libx11-data libxau6 416s libxmlb2 mawk motd-news-config nano netplan-generator netplan.io 416s openssh-client openssh-server openssh-sftp-server pastebinit pci.ids perl 416s perl-base plymouth plymouth-theme-ubuntu-text python3-apport python3-certifi 416s python3-cffi-backend python3-configobj python3-gi python3-idna 416s python3-jaraco.functools python3-json-pointer python3-jsonpatch 416s python3-lazr.restfulclient python3-lazr.uri python3-more-itertools 416s python3-netifaces python3-netplan python3-newt python3-oauthlib 416s python3-problem-report python3-systemd python3-typeguard python3-urllib3 416s python3-wadllib python3-zipp python3.12 python3.12-gdbm python3.12-minimal 416s sg3-utils sg3-utils-udev ssh-import-id systemd systemd-resolved systemd-sysv 416s systemd-timesyncd tzdata udev udisks2 ufw usbutils vim-common vim-tiny 416s whiptail xxd 416s 143 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. 416s Need to get 45.5 MB of archives. 416s After this operation, 43.2 MB of additional disk space will be used. 416s Get:1 http://ftpmaster.internal/ubuntu plucky/main armhf motd-news-config all 13.5ubuntu3 [5190 B] 416s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf base-files armhf 13.5ubuntu3 [75.1 kB] 416s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf dpkg armhf 1.22.11ubuntu3 [1247 kB] 416s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf perl-modules-5.40 all 5.40.0-7 [3214 kB] 417s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf libperl5.40 armhf 5.40.0-7 [4139 kB] 417s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf perl armhf 5.40.0-7 [263 kB] 417s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf perl-base armhf 5.40.0-7 [1674 kB] 417s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf liblocale-gettext-perl armhf 1.07-7build1 [15.0 kB] 417s Get:9 http://ftpmaster.internal/ubuntu plucky/main armhf libtext-iconv-perl armhf 1.7-8build4 [12.8 kB] 417s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf libtext-charwidth-perl armhf 0.04-11build4 [9128 B] 417s Get:11 http://ftpmaster.internal/ubuntu plucky/main armhf libdb5.3t64 armhf 5.3.28+dfsg2-9 [655 kB] 417s Get:12 http://ftpmaster.internal/ubuntu plucky/main armhf base-passwd armhf 3.6.5 [53.2 kB] 417s Get:13 http://ftpmaster.internal/ubuntu plucky/main armhf python3.12 armhf 3.12.7-3 [661 kB] 417s Get:14 http://ftpmaster.internal/ubuntu plucky/main armhf python3.12-minimal armhf 3.12.7-3 [2012 kB] 417s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf libpython3.12-stdlib armhf 3.12.7-3 [1934 kB] 417s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf libpython3.12-minimal armhf 3.12.7-3 [822 kB] 417s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf tzdata all 2024b-1ubuntu2 [274 kB] 417s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf libnss-systemd armhf 256.5-2ubuntu4 [155 kB] 417s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf systemd-timesyncd armhf 256.5-2ubuntu4 [40.7 kB] 417s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf systemd-resolved armhf 256.5-2ubuntu4 [309 kB] 417s Get:21 http://ftpmaster.internal/ubuntu plucky/main armhf libsystemd-shared armhf 256.5-2ubuntu4 [2129 kB] 417s Get:22 http://ftpmaster.internal/ubuntu plucky/main armhf libsystemd0 armhf 256.5-2ubuntu4 [428 kB] 417s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf systemd-sysv armhf 256.5-2ubuntu4 [11.9 kB] 417s Get:24 http://ftpmaster.internal/ubuntu plucky/main armhf libpam-systemd armhf 256.5-2ubuntu4 [226 kB] 417s Get:25 http://ftpmaster.internal/ubuntu plucky/main armhf systemd armhf 256.5-2ubuntu4 [3442 kB] 417s Get:26 http://ftpmaster.internal/ubuntu plucky/main armhf udev armhf 256.5-2ubuntu4 [1949 kB] 417s Get:27 http://ftpmaster.internal/ubuntu plucky/main armhf libudev1 armhf 256.5-2ubuntu4 [188 kB] 417s Get:28 http://ftpmaster.internal/ubuntu plucky/main armhf python3-problem-report all 2.30.0-0ubuntu5 [25.0 kB] 417s Get:29 http://ftpmaster.internal/ubuntu plucky/main armhf python3-apport all 2.30.0-0ubuntu5 [93.2 kB] 417s Get:30 http://ftpmaster.internal/ubuntu plucky/main armhf python3-gi armhf 3.50.0-3 [227 kB] 417s Get:31 http://ftpmaster.internal/ubuntu plucky/main armhf apport-core-dump-handler all 2.30.0-0ubuntu5 [17.9 kB] 417s Get:32 http://ftpmaster.internal/ubuntu plucky/main armhf apport all 2.30.0-0ubuntu5 [83.0 kB] 417s Get:33 http://ftpmaster.internal/ubuntu plucky/main armhf libbsd0 armhf 0.12.2-2 [36.8 kB] 417s Get:34 http://ftpmaster.internal/ubuntu plucky/main armhf libedit2 armhf 3.1-20240808-1 [79.0 kB] 417s Get:35 http://ftpmaster.internal/ubuntu plucky/main armhf openssh-sftp-server armhf 1:9.7p1-7ubuntu5 [35.4 kB] 417s Get:36 http://ftpmaster.internal/ubuntu plucky/main armhf openssh-server armhf 1:9.7p1-7ubuntu5 [505 kB] 417s Get:37 http://ftpmaster.internal/ubuntu plucky/main armhf openssh-client armhf 1:9.7p1-7ubuntu5 [889 kB] 417s Get:38 http://ftpmaster.internal/ubuntu plucky/main armhf libatomic1 armhf 14.2.0-8ubuntu1 [7846 B] 417s Get:39 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14-base armhf 14.2.0-8ubuntu1 [51.5 kB] 417s Get:40 http://ftpmaster.internal/ubuntu plucky/main armhf libstdc++6 armhf 14.2.0-8ubuntu1 [711 kB] 417s Get:41 http://ftpmaster.internal/ubuntu plucky/main armhf libgcc-s1 armhf 14.2.0-8ubuntu1 [40.8 kB] 417s Get:42 http://ftpmaster.internal/ubuntu plucky/main armhf libattr1 armhf 1:2.5.2-2 [10.5 kB] 417s Get:43 http://ftpmaster.internal/ubuntu plucky/main armhf libcap-ng0 armhf 0.8.5-3build1 [13.8 kB] 417s Get:44 http://ftpmaster.internal/ubuntu plucky/main armhf libgnutls30t64 armhf 3.8.8-2ubuntu1 [955 kB] 417s Get:45 http://ftpmaster.internal/ubuntu plucky/main armhf install-info armhf 7.1.1-1 [61.4 kB] 418s Get:46 http://ftpmaster.internal/ubuntu plucky/main armhf mawk armhf 1.3.4.20240905-1 [116 kB] 418s Get:47 http://ftpmaster.internal/ubuntu plucky/main armhf dhcpcd-base armhf 1:10.1.0-2 [188 kB] 418s Get:48 http://ftpmaster.internal/ubuntu plucky/main armhf distro-info-data all 0.63 [6588 B] 418s Get:49 http://ftpmaster.internal/ubuntu plucky/main armhf libdw1t64 armhf 0.192-4 [243 kB] 418s Get:50 http://ftpmaster.internal/ubuntu plucky/main armhf libelf1t64 armhf 0.192-4 [50.2 kB] 418s Get:51 http://ftpmaster.internal/ubuntu plucky/main armhf libbpf1 armhf 1:1.5.0-1 [158 kB] 418s Get:52 http://ftpmaster.internal/ubuntu plucky/main armhf libmnl0 armhf 1.0.5-3 [10.7 kB] 418s Get:53 http://ftpmaster.internal/ubuntu plucky/main armhf iproute2 armhf 6.10.0-2ubuntu1 [1082 kB] 418s Get:54 http://ftpmaster.internal/ubuntu plucky/main armhf libfastjson4 armhf 1.2304.0-2 [20.2 kB] 418s Get:55 http://ftpmaster.internal/ubuntu plucky/main armhf libjson-c5 armhf 0.18+ds-1 [33.2 kB] 418s Get:56 http://ftpmaster.internal/ubuntu plucky/main armhf libkeyutils1 armhf 1.6.3-4ubuntu2 [8712 B] 418s Get:57 http://ftpmaster.internal/ubuntu plucky/main armhf netplan-generator armhf 1.1.1-1 [60.4 kB] 418s Get:58 http://ftpmaster.internal/ubuntu plucky/main armhf python3-cffi-backend armhf 1.17.1-2 [68.7 kB] 418s Get:59 http://ftpmaster.internal/ubuntu plucky/main armhf python3-netplan armhf 1.1.1-1 [24.1 kB] 418s Get:60 http://ftpmaster.internal/ubuntu plucky/main armhf netplan.io armhf 1.1.1-1 [66.4 kB] 418s Get:61 http://ftpmaster.internal/ubuntu plucky/main armhf libnetplan1 armhf 1.1.1-1 [122 kB] 418s Get:62 http://ftpmaster.internal/ubuntu plucky/main armhf python3-newt armhf 0.52.24-2ubuntu4 [19.7 kB] 418s Get:63 http://ftpmaster.internal/ubuntu plucky/main armhf libnewt0.52 armhf 0.52.24-2ubuntu4 [39.2 kB] 418s Get:64 http://ftpmaster.internal/ubuntu plucky/main armhf libpopt0 armhf 1.19+dfsg-2 [25.4 kB] 418s Get:65 http://ftpmaster.internal/ubuntu plucky/main armhf python3-netifaces armhf 0.11.0-2build4 [17.6 kB] 418s Get:66 http://ftpmaster.internal/ubuntu plucky/main armhf vim-tiny armhf 2:9.1.0777-1ubuntu1 [693 kB] 418s Get:67 http://ftpmaster.internal/ubuntu plucky/main armhf vim-common all 2:9.1.0777-1ubuntu1 [394 kB] 418s Get:68 http://ftpmaster.internal/ubuntu plucky/main armhf whiptail armhf 0.52.24-2ubuntu4 [17.2 kB] 418s Get:69 http://ftpmaster.internal/ubuntu plucky/main armhf xxd armhf 2:9.1.0777-1ubuntu1 [66.8 kB] 418s Get:70 http://ftpmaster.internal/ubuntu plucky/main armhf bash-completion all 1:2.14.0-2 [210 kB] 418s Get:71 http://ftpmaster.internal/ubuntu plucky/main armhf info armhf 7.1.1-1 [126 kB] 418s Get:72 http://ftpmaster.internal/ubuntu plucky/main armhf libdrm-common all 2.4.123-1 [8436 B] 418s Get:73 http://ftpmaster.internal/ubuntu plucky/main armhf libdrm2 armhf 2.4.123-1 [36.5 kB] 418s Get:74 http://ftpmaster.internal/ubuntu plucky/main armhf libevdev2 armhf 1.13.3+dfsg-1 [29.7 kB] 418s Get:75 http://ftpmaster.internal/ubuntu plucky/main armhf libmaxminddb0 armhf 1.11.0-1 [16.8 kB] 418s Get:76 http://ftpmaster.internal/ubuntu plucky/main armhf libnetfilter-conntrack3 armhf 1.1.0-1 [38.4 kB] 418s Get:77 http://ftpmaster.internal/ubuntu plucky/main armhf libnghttp2-14 armhf 1.64.0-1 [68.9 kB] 418s Get:78 http://ftpmaster.internal/ubuntu plucky/main armhf libpipeline1 armhf 1.5.8-1 [26.9 kB] 418s Get:79 http://ftpmaster.internal/ubuntu plucky/main armhf libpng16-16t64 armhf 1.6.44-2 [168 kB] 418s Get:80 http://ftpmaster.internal/ubuntu plucky/main armhf libplymouth5 armhf 24.004.60-1ubuntu11 [140 kB] 418s Get:81 http://ftpmaster.internal/ubuntu plucky/main armhf libtraceevent1-plugin armhf 1:1.8.3-1ubuntu1 [18.1 kB] 418s Get:82 http://ftpmaster.internal/ubuntu plucky/main armhf libtraceevent1 armhf 1:1.8.3-1ubuntu1 [52.1 kB] 418s Get:83 http://ftpmaster.internal/ubuntu plucky/main armhf liburcu8t64 armhf 0.14.1-1 [56.6 kB] 418s Get:84 http://ftpmaster.internal/ubuntu plucky/main armhf libuv1t64 armhf 1.48.0-7 [83.3 kB] 418s Get:85 http://ftpmaster.internal/ubuntu plucky/main armhf libx11-data all 2:1.8.10-2 [116 kB] 418s Get:86 http://ftpmaster.internal/ubuntu plucky/main armhf libx11-6 armhf 2:1.8.10-2 [587 kB] 418s Get:87 http://ftpmaster.internal/ubuntu plucky/main armhf libxau6 armhf 1:1.0.11-1 [6558 B] 418s Get:88 http://ftpmaster.internal/ubuntu plucky/main armhf nano armhf 8.2-1 [276 kB] 418s Get:89 http://ftpmaster.internal/ubuntu plucky/main armhf pci.ids all 0.0~2024.10.24-1 [279 kB] 418s Get:90 http://ftpmaster.internal/ubuntu plucky/main armhf plymouth-theme-ubuntu-text armhf 24.004.60-1ubuntu11 [9920 B] 418s Get:91 http://ftpmaster.internal/ubuntu plucky/main armhf plymouth armhf 24.004.60-1ubuntu11 [142 kB] 418s Get:92 http://ftpmaster.internal/ubuntu plucky/main armhf python3.12-gdbm armhf 3.12.7-3 [28.7 kB] 418s Get:93 http://ftpmaster.internal/ubuntu plucky/main armhf ufw all 0.36.2-8 [170 kB] 418s Get:94 http://ftpmaster.internal/ubuntu plucky/main armhf usbutils armhf 1:018-1 [76.1 kB] 418s Get:95 http://ftpmaster.internal/ubuntu plucky/main armhf dpkg-dev all 1.22.11ubuntu3 [1088 kB] 418s Get:96 http://ftpmaster.internal/ubuntu plucky/main armhf libdpkg-perl all 1.22.11ubuntu3 [279 kB] 418s Get:97 http://ftpmaster.internal/ubuntu plucky/main armhf libarchive13t64 armhf 3.7.4-1.1 [331 kB] 418s Get:98 http://ftpmaster.internal/ubuntu plucky/main armhf libftdi1-2 armhf 1.5-7 [25.7 kB] 418s Get:99 http://ftpmaster.internal/ubuntu plucky/main armhf libflashrom1 armhf 1.4.0-3ubuntu1 [141 kB] 418s Get:100 http://ftpmaster.internal/ubuntu plucky/main armhf libjson-glib-1.0-common all 1.10.0+ds-3 [5586 B] 418s Get:101 http://ftpmaster.internal/ubuntu plucky/main armhf libjson-glib-1.0-0 armhf 1.10.0+ds-3 [61.7 kB] 418s Get:102 http://ftpmaster.internal/ubuntu plucky/main armhf libfwupd2 armhf 1.9.26-2 [125 kB] 419s Get:103 http://ftpmaster.internal/ubuntu plucky/main armhf libxmlb2 armhf 0.3.21-1 [57.7 kB] 419s Get:104 http://ftpmaster.internal/ubuntu plucky/main armhf fwupd armhf 1.9.26-2 [4404 kB] 419s Get:105 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-utils3 armhf 3.2.1-1 [17.4 kB] 419s Get:106 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-crypto3 armhf 3.2.1-1 [22.4 kB] 419s Get:107 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-fs3 armhf 3.2.1-1 [34.3 kB] 419s Get:108 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-loop3 armhf 3.2.1-1 [6552 B] 419s Get:109 http://ftpmaster.internal/ubuntu plucky/main armhf libbytesize1 armhf 2.11-1ubuntu1 [12.0 kB] 419s Get:110 http://ftpmaster.internal/ubuntu plucky/main armhf libbytesize-common all 2.11-1ubuntu1 [3584 B] 419s Get:111 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-mdraid3 armhf 3.2.1-1 [13.4 kB] 419s Get:112 http://ftpmaster.internal/ubuntu plucky/main armhf libnvme1t64 armhf 1.11-1 [73.8 kB] 419s Get:113 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-nvme3 armhf 3.2.1-1 [17.6 kB] 419s Get:114 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-part3 armhf 3.2.1-1 [16.5 kB] 419s Get:115 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-swap3 armhf 3.2.1-1 [8952 B] 419s Get:116 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev3 armhf 3.2.1-1 [44.2 kB] 419s Get:117 http://ftpmaster.internal/ubuntu plucky/main armhf libgpgme11t64 armhf 1.23.2-5ubuntu4 [123 kB] 419s Get:118 http://ftpmaster.internal/ubuntu plucky/main armhf libinih1 armhf 58-1ubuntu1 [6750 B] 419s Get:119 http://ftpmaster.internal/ubuntu plucky/main armhf libldap-common all 2.6.8+dfsg-1~exp4ubuntu3 [32.3 kB] 419s Get:120 http://ftpmaster.internal/ubuntu plucky/main armhf libldap2 armhf 2.6.8+dfsg-1~exp4ubuntu3 [173 kB] 419s Get:121 http://ftpmaster.internal/ubuntu plucky/main armhf libnspr4 armhf 2:4.35-1.1ubuntu2 [94.1 kB] 419s Get:122 http://ftpmaster.internal/ubuntu plucky/main armhf libsgutils2-1.46-2 armhf 1.46-3ubuntu5 [82.5 kB] 419s Get:123 http://ftpmaster.internal/ubuntu plucky/main armhf libssh2-1t64 armhf 1.11.1-1 [116 kB] 419s Get:124 http://ftpmaster.internal/ubuntu plucky/main armhf udisks2 armhf 2.10.1-11ubuntu1 [278 kB] 419s Get:125 http://ftpmaster.internal/ubuntu plucky/main armhf libudisks2-0 armhf 2.10.1-11ubuntu1 [142 kB] 419s Get:126 http://ftpmaster.internal/ubuntu plucky/main armhf libutempter0 armhf 1.2.1-4 [9062 B] 419s Get:127 http://ftpmaster.internal/ubuntu plucky/main armhf pastebinit all 1.7.1-1 [14.9 kB] 419s Get:128 http://ftpmaster.internal/ubuntu plucky/main armhf python3-certifi all 2024.8.30+dfsg-1 [9742 B] 419s Get:129 http://ftpmaster.internal/ubuntu plucky/main armhf python3-configobj all 5.0.9-1 [33.9 kB] 419s Get:130 http://ftpmaster.internal/ubuntu plucky/main armhf python3-idna all 3.8-2 [47.0 kB] 419s Get:131 http://ftpmaster.internal/ubuntu plucky/main armhf python3-more-itertools all 10.5.0-1 [56.2 kB] 419s Get:132 http://ftpmaster.internal/ubuntu plucky/main armhf python3-jaraco.functools all 4.1.0-1 [11.8 kB] 419s Get:133 http://ftpmaster.internal/ubuntu plucky/main armhf python3-json-pointer all 2.4-2 [8396 B] 419s Get:134 http://ftpmaster.internal/ubuntu plucky/main armhf python3-jsonpatch all 1.32-4 [12.2 kB] 419s Get:135 http://ftpmaster.internal/ubuntu plucky/main armhf python3-lazr.uri all 1.0.6-4 [13.6 kB] 419s Get:136 http://ftpmaster.internal/ubuntu plucky/main armhf python3-wadllib all 2.0.0-1 [36.7 kB] 419s Get:137 http://ftpmaster.internal/ubuntu plucky/main armhf python3-oauthlib all 3.2.2-2 [89.8 kB] 419s Get:138 http://ftpmaster.internal/ubuntu plucky/main armhf python3-lazr.restfulclient all 0.14.6-2 [50.9 kB] 419s Get:139 http://ftpmaster.internal/ubuntu plucky/main armhf python3-systemd armhf 235-1build5 [44.0 kB] 419s Get:140 http://ftpmaster.internal/ubuntu plucky/main armhf python3-typeguard all 4.4.1-1 [29.0 kB] 419s Get:141 http://ftpmaster.internal/ubuntu plucky/main armhf python3-urllib3 all 2.0.7-2ubuntu0.1 [93.1 kB] 419s Get:142 http://ftpmaster.internal/ubuntu plucky/main armhf python3-zipp all 3.21.0-1 [10.2 kB] 419s Get:143 http://ftpmaster.internal/ubuntu plucky/main armhf sg3-utils armhf 1.46-3ubuntu5 [816 kB] 419s Get:144 http://ftpmaster.internal/ubuntu plucky/main armhf sg3-utils-udev all 1.46-3ubuntu5 [5916 B] 419s Get:145 http://ftpmaster.internal/ubuntu plucky/main armhf systemd-cryptsetup armhf 256.5-2ubuntu4 [122 kB] 420s Get:146 http://ftpmaster.internal/ubuntu plucky/main armhf ssh-import-id all 5.11-0ubuntu3 [10.1 kB] 421s Preconfiguring packages ... 421s Fetched 45.5 MB in 4s (10.6 MB/s) 421s (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 ... 59386 files and directories currently installed.) 421s Preparing to unpack .../motd-news-config_13.5ubuntu3_all.deb ... 421s Unpacking motd-news-config (13.5ubuntu3) over (13.3ubuntu6) ... 421s Preparing to unpack .../base-files_13.5ubuntu3_armhf.deb ... 421s Unpacking base-files (13.5ubuntu3) over (13.3ubuntu6) ... 422s Setting up base-files (13.5ubuntu3) ... 422s Installing new version of config file /etc/issue ... 422s Installing new version of config file /etc/issue.net ... 422s Installing new version of config file /etc/lsb-release ... 422s motd-news.service is a disabled or a static unit not running, not starting it. 422s (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 ... 59386 files and directories currently installed.) 422s Preparing to unpack .../dpkg_1.22.11ubuntu3_armhf.deb ... 422s Unpacking dpkg (1.22.11ubuntu3) over (1.22.11ubuntu1) ... 422s Setting up dpkg (1.22.11ubuntu3) ... 423s (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 ... 59386 files and directories currently installed.) 423s Preparing to unpack .../perl_5.40.0-7_armhf.deb ... 423s Unpacking perl (5.40.0-7) over (5.38.2-5) ... 423s Selecting previously unselected package perl-modules-5.40. 423s Preparing to unpack .../perl-modules-5.40_5.40.0-7_all.deb ... 423s Unpacking perl-modules-5.40 (5.40.0-7) ... 423s Selecting previously unselected package libperl5.40:armhf. 423s Preparing to unpack .../libperl5.40_5.40.0-7_armhf.deb ... 423s Unpacking libperl5.40:armhf (5.40.0-7) ... 424s Preparing to unpack .../perl-base_5.40.0-7_armhf.deb ... 424s Unpacking perl-base (5.40.0-7) over (5.38.2-5) ... 424s Setting up perl-base (5.40.0-7) ... 424s (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 ... 61464 files and directories currently installed.) 424s Preparing to unpack .../liblocale-gettext-perl_1.07-7build1_armhf.deb ... 424s Unpacking liblocale-gettext-perl (1.07-7build1) over (1.07-7) ... 424s Preparing to unpack .../libtext-iconv-perl_1.7-8build4_armhf.deb ... 424s Unpacking libtext-iconv-perl:armhf (1.7-8build4) over (1.7-8build3) ... 424s Preparing to unpack .../libtext-charwidth-perl_0.04-11build4_armhf.deb ... 424s Unpacking libtext-charwidth-perl:armhf (0.04-11build4) over (0.04-11build3) ... 424s Preparing to unpack .../libdb5.3t64_5.3.28+dfsg2-9_armhf.deb ... 424s Unpacking libdb5.3t64:armhf (5.3.28+dfsg2-9) over (5.3.28+dfsg2-7) ... 424s Setting up libdb5.3t64:armhf (5.3.28+dfsg2-9) ... 424s (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 ... 61464 files and directories currently installed.) 424s Preparing to unpack .../base-passwd_3.6.5_armhf.deb ... 424s Unpacking base-passwd (3.6.5) over (3.6.4) ... 424s Setting up base-passwd (3.6.5) ... 424s (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 ... 61465 files and directories currently installed.) 424s Preparing to unpack .../0-python3.12_3.12.7-3_armhf.deb ... 425s Unpacking python3.12 (3.12.7-3) over (3.12.7-1) ... 425s Preparing to unpack .../1-python3.12-minimal_3.12.7-3_armhf.deb ... 425s Unpacking python3.12-minimal (3.12.7-3) over (3.12.7-1) ... 425s Preparing to unpack .../2-libpython3.12-stdlib_3.12.7-3_armhf.deb ... 425s Unpacking libpython3.12-stdlib:armhf (3.12.7-3) over (3.12.7-1) ... 425s Preparing to unpack .../3-libpython3.12-minimal_3.12.7-3_armhf.deb ... 425s Unpacking libpython3.12-minimal:armhf (3.12.7-3) over (3.12.7-1) ... 425s Preparing to unpack .../4-tzdata_2024b-1ubuntu2_all.deb ... 425s Unpacking tzdata (2024b-1ubuntu2) over (2024a-4ubuntu1) ... 425s Preparing to unpack .../5-libnss-systemd_256.5-2ubuntu4_armhf.deb ... 425s Unpacking libnss-systemd:armhf (256.5-2ubuntu4) over (256.5-2ubuntu3) ... 425s Preparing to unpack .../6-systemd-timesyncd_256.5-2ubuntu4_armhf.deb ... 425s Unpacking systemd-timesyncd (256.5-2ubuntu4) over (256.5-2ubuntu3) ... 425s Preparing to unpack .../7-systemd-resolved_256.5-2ubuntu4_armhf.deb ... 425s Unpacking systemd-resolved (256.5-2ubuntu4) over (256.5-2ubuntu3) ... 425s Preparing to unpack .../8-libsystemd-shared_256.5-2ubuntu4_armhf.deb ... 425s Unpacking libsystemd-shared:armhf (256.5-2ubuntu4) over (256.5-2ubuntu3) ... 426s Preparing to unpack .../9-libsystemd0_256.5-2ubuntu4_armhf.deb ... 426s Unpacking libsystemd0:armhf (256.5-2ubuntu4) over (256.5-2ubuntu3) ... 426s Setting up libsystemd0:armhf (256.5-2ubuntu4) ... 426s (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 ... 61464 files and directories currently installed.) 426s Preparing to unpack .../systemd-sysv_256.5-2ubuntu4_armhf.deb ... 426s Unpacking systemd-sysv (256.5-2ubuntu4) over (256.5-2ubuntu3) ... 426s Preparing to unpack .../libpam-systemd_256.5-2ubuntu4_armhf.deb ... 426s Unpacking libpam-systemd:armhf (256.5-2ubuntu4) over (256.5-2ubuntu3) ... 426s Preparing to unpack .../systemd_256.5-2ubuntu4_armhf.deb ... 426s Unpacking systemd (256.5-2ubuntu4) over (256.5-2ubuntu3) ... 426s Preparing to unpack .../udev_256.5-2ubuntu4_armhf.deb ... 426s Unpacking udev (256.5-2ubuntu4) over (256.5-2ubuntu3) ... 426s Preparing to unpack .../libudev1_256.5-2ubuntu4_armhf.deb ... 426s Unpacking libudev1:armhf (256.5-2ubuntu4) over (256.5-2ubuntu3) ... 427s Setting up libudev1:armhf (256.5-2ubuntu4) ... 427s (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 ... 61464 files and directories currently installed.) 427s Preparing to unpack .../0-python3-problem-report_2.30.0-0ubuntu5_all.deb ... 427s Unpacking python3-problem-report (2.30.0-0ubuntu5) over (2.30.0-0ubuntu4) ... 427s Preparing to unpack .../1-python3-apport_2.30.0-0ubuntu5_all.deb ... 427s Unpacking python3-apport (2.30.0-0ubuntu5) over (2.30.0-0ubuntu4) ... 427s Preparing to unpack .../2-python3-gi_3.50.0-3_armhf.deb ... 427s Unpacking python3-gi (3.50.0-3) over (3.48.2-1) ... 427s Preparing to unpack .../3-apport-core-dump-handler_2.30.0-0ubuntu5_all.deb ... 427s Unpacking apport-core-dump-handler (2.30.0-0ubuntu5) over (2.30.0-0ubuntu4) ... 427s Preparing to unpack .../4-apport_2.30.0-0ubuntu5_all.deb ... 427s Unpacking apport (2.30.0-0ubuntu5) over (2.30.0-0ubuntu4) ... 427s Preparing to unpack .../5-libbsd0_0.12.2-2_armhf.deb ... 427s Unpacking libbsd0:armhf (0.12.2-2) over (0.12.2-1) ... 427s Setting up libbsd0:armhf (0.12.2-2) ... 428s (Reading database ... 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.../086-python3-jaraco.functools_4.1.0-1_all.deb ... 434s Unpacking python3-jaraco.functools (4.1.0-1) over (4.0.2-1) ... 434s Preparing to unpack .../087-python3-json-pointer_2.4-2_all.deb ... 434s Unpacking python3-json-pointer (2.4-2) over (2.0-0ubuntu1) ... 434s Preparing to unpack .../088-python3-jsonpatch_1.32-4_all.deb ... 435s Unpacking python3-jsonpatch (1.32-4) over (1.32-3) ... 435s Preparing to unpack .../089-python3-lazr.uri_1.0.6-4_all.deb ... 435s Unpacking python3-lazr.uri (1.0.6-4) over (1.0.6-3) ... 435s Preparing to unpack .../090-python3-wadllib_2.0.0-1_all.deb ... 435s Unpacking python3-wadllib (2.0.0-1) over (1.3.6-5) ... 435s Preparing to unpack .../091-python3-oauthlib_3.2.2-2_all.deb ... 435s Unpacking python3-oauthlib (3.2.2-2) over (3.2.2-1) ... 435s Preparing to unpack .../092-python3-lazr.restfulclient_0.14.6-2_all.deb ... 435s Unpacking python3-lazr.restfulclient (0.14.6-2) over (0.14.6-1) ... 435s Preparing to unpack .../093-python3-systemd_235-1build5_armhf.deb ... 435s Unpacking python3-systemd (235-1build5) over (235-1build4) ... 435s Preparing to unpack .../094-python3-typeguard_4.4.1-1_all.deb ... 435s Unpacking python3-typeguard (4.4.1-1) over (4.3.0-1) ... 435s Preparing to unpack .../095-python3-urllib3_2.0.7-2ubuntu0.1_all.deb ... 436s Unpacking python3-urllib3 (2.0.7-2ubuntu0.1) over (2.0.7-2) ... 436s Preparing to unpack .../096-python3-zipp_3.21.0-1_all.deb ... 436s Unpacking python3-zipp (3.21.0-1) over (3.20.0-1) ... 436s Preparing to unpack .../097-sg3-utils_1.46-3ubuntu5_armhf.deb ... 436s Unpacking sg3-utils (1.46-3ubuntu5) over (1.46-3ubuntu4) ... 436s Preparing to unpack .../098-sg3-utils-udev_1.46-3ubuntu5_all.deb ... 436s Unpacking sg3-utils-udev (1.46-3ubuntu5) over (1.46-3ubuntu4) ... 436s Selecting previously unselected package systemd-cryptsetup. 436s Preparing to unpack .../099-systemd-cryptsetup_256.5-2ubuntu4_armhf.deb ... 436s Unpacking systemd-cryptsetup (256.5-2ubuntu4) ... 436s Preparing to unpack .../100-ssh-import-id_5.11-0ubuntu3_all.deb ... 436s Unpacking ssh-import-id (5.11-0ubuntu3) over (5.11-0ubuntu2) ... 436s Setting up libpipeline1:armhf (1.5.8-1) ... 436s Setting up motd-news-config (13.5ubuntu3) ... 436s Setting up libtext-iconv-perl:armhf (1.7-8build4) ... 436s Setting up python3-more-itertools (10.5.0-1) ... 436s Setting up libtext-charwidth-perl:armhf (0.04-11build4) ... 436s Setting up liburcu8t64:armhf (0.14.1-1) ... 436s Setting up libxau6:armhf (1:1.0.11-1) ... 436s Setting up libkeyutils1:armhf (1.6.3-4ubuntu2) ... 436s Setting up pci.ids (0.0~2024.10.24-1) ... 436s Setting up libnewt0.52:armhf (0.52.24-2ubuntu4) ... 436s Setting up python3-jaraco.functools (4.1.0-1) ... 436s Setting up python3-problem-report (2.30.0-0ubuntu5) ... 436s Setting up distro-info-data (0.63) ... 436s Setting up libfastjson4:armhf (1.2304.0-2) ... 436s Setting up libinih1:armhf (58-1ubuntu1) ... 436s Setting up libmaxminddb0:armhf (1.11.0-1) ... 436s Setting up python3.12-gdbm (3.12.7-3) ... 436s Setting up libxmlb2:armhf (0.3.21-1) ... 436s Setting up libedit2:armhf (3.1-20240808-1) ... 436s Setting up python3-typeguard (4.4.1-1) ... 437s Setting up libuv1t64:armhf (1.48.0-7) ... 437s Setting up libpython3.12-minimal:armhf (3.12.7-3) ... 437s Setting up libnghttp2-14:armhf (1.64.0-1) ... 437s Setting up libsgutils2-1.46-2:armhf (1.46-3ubuntu5) ... 437s Setting up pastebinit (1.7.1-1) ... 437s Setting up ufw (0.36.2-8) ... 438s Setting up python3-lazr.uri (1.0.6-4) ... 438s Setting up python3-zipp (3.21.0-1) ... 438s Setting up libnetplan1:armhf (1.1.1-1) ... 438s Setting up python3-newt:armhf (0.52.24-2ubuntu4) ... 438s Setting up libldap-common (2.6.8+dfsg-1~exp4ubuntu3) ... 438s Setting up usbutils (1:018-1) ... 438s Setting up xxd (2:9.1.0777-1ubuntu1) ... 438s Setting up libelf1t64:armhf (0.192-4) ... 438s Setting up python3-apport (2.30.0-0ubuntu5) ... 438s Setting up libdw1t64:armhf (0.192-4) ... 438s Setting up tzdata (2024b-1ubuntu2) ... 438s 438s Current default time zone: 'Etc/UTC' 438s Local time is now: Thu Nov 14 18:55:11 UTC 2024. 438s Universal Time is now: Thu Nov 14 18:55:11 UTC 2024. 438s Run 'dpkg-reconfigure tzdata' if you wish to change it. 438s 438s Setting up libftdi1-2:armhf (1.5-7) ... 438s Setting up libflashrom1:armhf (1.4.0-3ubuntu1) ... 438s Setting up python3-oauthlib (3.2.2-2) ... 439s Setting up python3-configobj (5.0.9-1) ... 439s Setting up vim-common (2:9.1.0777-1ubuntu1) ... 439s Installing new version of config file /etc/vim/vimrc ... 439s Setting up python3-certifi (2024.8.30+dfsg-1) ... 439s Setting up libx11-data (2:1.8.10-2) ... 439s Setting up libnspr4:armhf (2:4.35-1.1ubuntu2) ... 439s Setting up bash-completion (1:2.14.0-2) ... 439s Setting up python3-wadllib (2.0.0-1) ... 439s Setting up python3-gi (3.50.0-3) ... 439s Setting up libbytesize-common (2.11-1ubuntu1) ... 439s Setting up libblockdev-utils3:armhf (3.2.1-1) ... 439s Setting up libpng16-16t64:armhf (1.6.44-2) ... 439s Setting up libmnl0:armhf (1.0.5-3) ... 439s Setting up libatomic1:armhf (14.2.0-8ubuntu1) ... 439s Setting up python3-idna (3.8-2) ... 440s Setting up libsystemd-shared:armhf (256.5-2ubuntu4) ... 440s Setting up dhcpcd-base (1:10.1.0-2) ... 440s Setting up python3-urllib3 (2.0.7-2ubuntu0.1) ... 440s Setting up python3-netifaces:armhf (0.11.0-2build4) ... 440s Setting up libutempter0:armhf (1.2.1-4) ... 440s Setting up nano (8.2-1) ... 440s Setting up libblockdev-fs3:armhf (3.2.1-1) ... 440s Setting up perl-modules-5.40 (5.40.0-7) ... 440s Setting up libnetfilter-conntrack3:armhf (1.1.0-1) ... 440s Setting up python3-json-pointer (2.4-2) ... 440s Setting up libtraceevent1:armhf (1:1.8.3-1ubuntu1) ... 440s Setting up libx11-6:armhf (2:1.8.10-2) ... 440s Setting up libjson-glib-1.0-common (1.10.0+ds-3) ... 440s Setting up mawk (1.3.4.20240905-1) ... 440s Setting up libbytesize1:armhf (2.11-1ubuntu1) ... 440s Setting up libgpgme11t64:armhf (1.23.2-5ubuntu4) ... 440s Setting up libssh2-1t64:armhf (1.11.1-1) ... 440s Setting up python3-lazr.restfulclient (0.14.6-2) ... 440s Setting up libdrm-common (2.4.123-1) ... 440s Setting up libarchive13t64:armhf (3.7.4-1.1) ... 440s Setting up libjson-c5:armhf (0.18+ds-1) ... 440s Setting up libevdev2:armhf (1.13.3+dfsg-1) ... 440s Setting up libldap2:armhf (2.6.8+dfsg-1~exp4ubuntu3) ... 440s Setting up info (7.1.1-1) ... 440s Setting up liblocale-gettext-perl (1.07-7build1) ... 440s Setting up libbpf1:armhf (1:1.5.0-1) ... 440s Setting up libudisks2-0:armhf (2.10.1-11ubuntu1) ... 440s Setting up python3-systemd (235-1build5) ... 440s Setting up python3-cffi-backend:armhf (1.17.1-2) ... 440s Setting up libpopt0:armhf (1.19+dfsg-2) ... 440s Setting up sg3-utils (1.46-3ubuntu5) ... 440s Setting up python3.12-minimal (3.12.7-3) ... 441s Setting up libpython3.12-stdlib:armhf (3.12.7-3) ... 441s Setting up libblockdev-mdraid3:armhf (3.2.1-1) ... 441s Setting up libblockdev-crypto3:armhf (3.2.1-1) ... 441s Setting up libblockdev-swap3:armhf (3.2.1-1) ... 441s Setting up iproute2 (6.10.0-2ubuntu1) ... 441s Setting up openssh-client (1:9.7p1-7ubuntu5) ... 441s Setting up ssh-import-id (5.11-0ubuntu3) ... 441s Setting up python3-jsonpatch (1.32-4) ... 442s Setting up python3.12 (3.12.7-3) ... 443s Setting up libblockdev-loop3:armhf (3.2.1-1) ... 443s Setting up systemd (256.5-2ubuntu4) ... 443s /usr/lib/tmpfiles.d/legacy.conf:13: Duplicate line for path "/run/lock", ignoring. 443s Created symlink '/run/systemd/system/tmp.mount' → '/dev/null'. 443s /usr/lib/tmpfiles.d/legacy.conf:13: Duplicate line for path "/run/lock", ignoring. 444s Setting up vim-tiny (2:9.1.0777-1ubuntu1) ... 444s Setting up libblockdev3:armhf (3.2.1-1) ... 444s Installing new version of config file /etc/libblockdev/3/conf.d/00-default.cfg ... 444s Setting up libjson-glib-1.0-0:armhf (1.10.0+ds-3) ... 444s Setting up libblockdev-part3:armhf (3.2.1-1) ... 444s Setting up sg3-utils-udev (1.46-3ubuntu5) ... 444s update-initramfs: deferring update (trigger activated) 444s Setting up libperl5.40:armhf (5.40.0-7) ... 444s Setting up perl (5.40.0-7) ... 444s Setting up systemd-cryptsetup (256.5-2ubuntu4) ... 444s Setting up libnvme1t64 (1.11-1) ... 444s Setting up systemd-timesyncd (256.5-2ubuntu4) ... 444s systemd-time-wait-sync.service is a disabled or a static unit not running, not starting it. 444s Setting up udev (256.5-2ubuntu4) ... 445s Setting up libdpkg-perl (1.22.11ubuntu3) ... 445s Setting up libblockdev-nvme3:armhf (3.2.1-1) ... 445s Setting up libdrm2:armhf (2.4.123-1) ... 445s Setting up whiptail (0.52.24-2ubuntu4) ... 445s Setting up libtraceevent1-plugin:armhf (1:1.8.3-1ubuntu1) ... 445s Setting up libplymouth5:armhf (24.004.60-1ubuntu11) ... 445s Setting up python3-netplan (1.1.1-1) ... 445s Setting up netplan-generator (1.1.1-1) ... 445s Removing 'diversion of /lib/systemd/system-generators/netplan to /lib/systemd/system-generators/netplan.usr-is-merged by netplan-generator' 445s Setting up systemd-resolved (256.5-2ubuntu4) ... 446s Setting up openssh-sftp-server (1:9.7p1-7ubuntu5) ... 446s Setting up udisks2 (2.10.1-11ubuntu1) ... 446s vda: Failed to write 'change' to '/sys/devices/pci0000:00/0000:00:01.3/0000:04:00.0/virtio2/block/vda/uevent': Permission denied 446s vda1: Failed to write 'change' to '/sys/devices/pci0000:00/0000:00:01.3/0000:04:00.0/virtio2/block/vda/vda1/uevent': Permission denied 446s vda15: Failed to write 'change' to '/sys/devices/pci0000:00/0000:00:01.3/0000:04:00.0/virtio2/block/vda/vda15/uevent': Permission denied 446s vda2: Failed to write 'change' to '/sys/devices/pci0000:00/0000:00:01.3/0000:04:00.0/virtio2/block/vda/vda2/uevent': Permission denied 446s loop0: Failed to write 'change' to '/sys/devices/virtual/block/loop0/uevent': Permission denied 446s loop1: Failed to write 'change' to '/sys/devices/virtual/block/loop1/uevent': Permission denied 446s loop2: Failed to write 'change' to '/sys/devices/virtual/block/loop2/uevent': Permission denied 446s loop3: Failed to write 'change' to '/sys/devices/virtual/block/loop3/uevent': Permission denied 446s loop4: Failed to write 'change' to '/sys/devices/virtual/block/loop4/uevent': Permission denied 446s loop5: Failed to write 'change' to '/sys/devices/virtual/block/loop5/uevent': Permission denied 446s loop6: Failed to write 'change' to '/sys/devices/virtual/block/loop6/uevent': Permission denied 446s loop7: Failed to write 'change' to '/sys/devices/virtual/block/loop7/uevent': Permission denied 446s loop8: Failed to write 'change' to '/sys/devices/virtual/block/loop8/uevent': Permission denied 447s Setting up systemd-sysv (256.5-2ubuntu4) ... 447s Setting up openssh-server (1:9.7p1-7ubuntu5) ... 448s Setting up plymouth (24.004.60-1ubuntu11) ... 448s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 448s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 448s Setting up libfwupd2:armhf (1.9.26-2) ... 448s Setting up libnss-systemd:armhf (256.5-2ubuntu4) ... 448s Setting up dpkg-dev (1.22.11ubuntu3) ... 448s Setting up netplan.io (1.1.1-1) ... 448s Setting up plymouth-theme-ubuntu-text (24.004.60-1ubuntu11) ... 448s update-initramfs: deferring update (trigger activated) 448s Setting up libpam-systemd:armhf (256.5-2ubuntu4) ... 449s Setting up fwupd (1.9.26-2) ... 449s fwupd-offline-update.service is a disabled or a static unit not running, not starting it. 449s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 449s fwupd.service is a disabled or a static unit not running, not starting it. 449s Setting up apport-core-dump-handler (2.30.0-0ubuntu5) ... 450s Setting up apport (2.30.0-0ubuntu5) ... 450s Installing new version of config file /etc/apport/crashdb.conf ... 451s apport-autoreport.service is a disabled or a static unit not running, not starting it. 451s Processing triggers for dbus (1.14.10-4ubuntu5) ... 451s Processing triggers for shared-mime-info (2.4-5) ... 451s Processing triggers for install-info (7.1.1-1) ... 451s Processing triggers for initramfs-tools (0.142ubuntu34) ... 451s Processing triggers for libc-bin (2.40-1ubuntu3) ... 452s Processing triggers for rsyslog (8.2406.0-1ubuntu2) ... 452s Processing triggers for man-db (2.12.1-3) ... 454s Reading package lists... 454s Building dependency tree... 454s Reading state information... 455s The following packages will be REMOVED: 455s libperl5.38t64* perl-modules-5.38* python3-netifaces* 455s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 455s After this operation, 41.7 MB disk space will be freed. 455s (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 ... 61506 files and directories currently installed.) 455s Removing libperl5.38t64:armhf (5.38.2-5) ... 455s Removing perl-modules-5.38 (5.38.2-5) ... 455s Removing python3-netifaces:armhf (0.11.0-2build4) ... 455s Processing triggers for man-db (2.12.1-3) ... 456s Processing triggers for libc-bin (2.40-1ubuntu3) ... 458s autopkgtest [18:55:31]: rebooting testbed after setup commands that affected boot 563s Reading package lists... 563s Building dependency tree... 563s Reading state information... 564s Starting pkgProblemResolver with broken count: 0 564s Starting 2 pkgProblemResolver with broken count: 0 564s Done 565s The following additional packages will be installed: 565s build-essential cpp cpp-14 cpp-14-arm-linux-gnueabihf 565s cpp-arm-linux-gnueabihf g++ g++-14 g++-14-arm-linux-gnueabihf 565s g++-arm-linux-gnueabihf gcc gcc-14 gcc-14-arm-linux-gnueabihf 565s gcc-arm-linux-gnueabihf libasan8 libblas3 libc-dev-bin libc6-dev libcc1-0 565s libcrypt-dev libgcc-14-dev libgfortran5 libgomp1 libisl23 liblapack3 libmpc3 565s libslow5-0t64 libslow5-dev libstdc++-14-dev libstreamvbyte-dev 565s libstreamvbyte0 libubsan1 linux-libc-dev python3-numpy python3-slow5 565s rpcsvc-proto zlib1g-dev 565s Suggested packages: 565s cpp-doc gcc-14-locales cpp-14-doc gcc-14-doc gcc-multilib manpages-dev 565s autoconf automake libtool flex bison gdb gcc-doc gdb-arm-linux-gnueabihf 565s libc-devtools glibc-doc libstdc++-14-doc gfortran python-numpy-doc 565s python3-dev python3-pytest 565s Recommended packages: 565s manpages manpages-dev 565s The following NEW packages will be installed: 565s autopkgtest-satdep build-essential cpp cpp-14 cpp-14-arm-linux-gnueabihf 565s cpp-arm-linux-gnueabihf g++ g++-14 g++-14-arm-linux-gnueabihf 565s g++-arm-linux-gnueabihf gcc gcc-14 gcc-14-arm-linux-gnueabihf 565s gcc-arm-linux-gnueabihf libasan8 libblas3 libc-dev-bin libc6-dev libcc1-0 565s libcrypt-dev libgcc-14-dev libgfortran5 libgomp1 libisl23 liblapack3 libmpc3 565s libslow5-0t64 libslow5-dev libstdc++-14-dev libstreamvbyte-dev 565s libstreamvbyte0 libubsan1 linux-libc-dev python3-numpy python3-slow5 565s rpcsvc-proto zlib1g-dev 565s 0 upgraded, 37 newly installed, 0 to remove and 0 not upgraded. 565s Need to get 57.7 MB/57.7 MB of archives. 565s After this operation, 181 MB of additional disk space will be used. 565s Get:1 /tmp/autopkgtest.1fuPb8/2-autopkgtest-satdep.deb autopkgtest-satdep armhf 0 [756 B] 565s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf libc-dev-bin armhf 2.40-1ubuntu3 [19.2 kB] 565s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf linux-libc-dev armhf 6.11.0-8.8 [1628 kB] 565s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf libcrypt-dev armhf 1:4.4.36-4build1 [120 kB] 565s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf rpcsvc-proto armhf 1.4.2-0ubuntu7 [62.2 kB] 565s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf libc6-dev armhf 2.40-1ubuntu3 [1370 kB] 565s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf libisl23 armhf 0.27-1 [546 kB] 565s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf libmpc3 armhf 1.3.1-1build2 [47.1 kB] 565s Get:9 http://ftpmaster.internal/ubuntu plucky/main armhf cpp-14-arm-linux-gnueabihf armhf 14.2.0-8ubuntu1 [9219 kB] 566s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf cpp-14 armhf 14.2.0-8ubuntu1 [1032 B] 566s Get:11 http://ftpmaster.internal/ubuntu plucky/main armhf cpp-arm-linux-gnueabihf armhf 4:14.1.0-2ubuntu1 [5464 B] 566s Get:12 http://ftpmaster.internal/ubuntu plucky/main armhf cpp armhf 4:14.1.0-2ubuntu1 [22.4 kB] 566s Get:13 http://ftpmaster.internal/ubuntu plucky/main armhf libcc1-0 armhf 14.2.0-8ubuntu1 [43.3 kB] 566s Get:14 http://ftpmaster.internal/ubuntu plucky/main armhf libgomp1 armhf 14.2.0-8ubuntu1 [125 kB] 566s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf libasan8 armhf 14.2.0-8ubuntu1 [2901 kB] 566s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf libubsan1 armhf 14.2.0-8ubuntu1 [1150 kB] 566s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf libgcc-14-dev armhf 14.2.0-8ubuntu1 [897 kB] 566s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14-arm-linux-gnueabihf armhf 14.2.0-8ubuntu1 [18.0 MB] 566s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14 armhf 14.2.0-8ubuntu1 [498 kB] 566s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-arm-linux-gnueabihf armhf 4:14.1.0-2ubuntu1 [1222 B] 566s Get:21 http://ftpmaster.internal/ubuntu plucky/main armhf gcc armhf 4:14.1.0-2ubuntu1 [5002 B] 566s Get:22 http://ftpmaster.internal/ubuntu plucky/main armhf libstdc++-14-dev armhf 14.2.0-8ubuntu1 [2569 kB] 566s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf g++-14-arm-linux-gnueabihf armhf 14.2.0-8ubuntu1 [10.5 MB] 567s Get:24 http://ftpmaster.internal/ubuntu plucky/main armhf g++-14 armhf 14.2.0-8ubuntu1 [19.9 kB] 567s Get:25 http://ftpmaster.internal/ubuntu plucky/main armhf g++-arm-linux-gnueabihf armhf 4:14.1.0-2ubuntu1 [968 B] 567s Get:26 http://ftpmaster.internal/ubuntu plucky/main armhf g++ armhf 4:14.1.0-2ubuntu1 [1084 B] 567s Get:27 http://ftpmaster.internal/ubuntu plucky/main armhf build-essential armhf 12.10ubuntu1 [4928 B] 567s Get:28 http://ftpmaster.internal/ubuntu plucky/main armhf libblas3 armhf 3.12.0-3build2 [126 kB] 567s Get:29 http://ftpmaster.internal/ubuntu plucky/main armhf libgfortran5 armhf 14.2.0-8ubuntu1 [311 kB] 567s Get:30 http://ftpmaster.internal/ubuntu plucky/main armhf liblapack3 armhf 3.12.0-3build2 [2086 kB] 567s Get:31 http://ftpmaster.internal/ubuntu plucky/universe armhf libslow5-0t64 armhf 0.7.0+dfsg-3 [62.9 kB] 567s Get:32 http://ftpmaster.internal/ubuntu plucky/universe armhf libslow5-dev armhf 0.7.0+dfsg-3 [84.5 kB] 567s Get:33 http://ftpmaster.internal/ubuntu plucky/universe armhf libstreamvbyte0 armhf 0.4.1-4ubuntu1 [5742 B] 567s Get:34 http://ftpmaster.internal/ubuntu plucky/universe armhf libstreamvbyte-dev armhf 0.4.1-4ubuntu1 [6178 B] 567s Get:35 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf python3-numpy armhf 1:1.26.4+ds-11ubuntu1 [3975 kB] 567s Get:36 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-slow5 armhf 0.7.0+dfsg-3 [460 kB] 567s Get:37 http://ftpmaster.internal/ubuntu plucky/main armhf zlib1g-dev armhf 1:1.3.dfsg+really1.3.1-1ubuntu1 [880 kB] 567s Fetched 57.7 MB in 2s (27.8 MB/s) 567s Selecting previously unselected package libc-dev-bin. 567s (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 ... 59565 files and directories currently installed.) 567s Preparing to unpack .../00-libc-dev-bin_2.40-1ubuntu3_armhf.deb ... 567s Unpacking libc-dev-bin (2.40-1ubuntu3) ... 567s Selecting previously unselected package linux-libc-dev:armhf. 567s Preparing to unpack .../01-linux-libc-dev_6.11.0-8.8_armhf.deb ... 567s Unpacking linux-libc-dev:armhf (6.11.0-8.8) ... 567s Selecting previously unselected package libcrypt-dev:armhf. 568s Preparing to unpack .../02-libcrypt-dev_1%3a4.4.36-4build1_armhf.deb ... 568s Unpacking libcrypt-dev:armhf (1:4.4.36-4build1) ... 568s Selecting previously unselected package rpcsvc-proto. 568s Preparing to unpack .../03-rpcsvc-proto_1.4.2-0ubuntu7_armhf.deb ... 568s Unpacking rpcsvc-proto (1.4.2-0ubuntu7) ... 568s Selecting previously unselected package libc6-dev:armhf. 568s Preparing to unpack .../04-libc6-dev_2.40-1ubuntu3_armhf.deb ... 568s Unpacking libc6-dev:armhf (2.40-1ubuntu3) ... 568s Selecting previously unselected package libisl23:armhf. 568s Preparing to unpack .../05-libisl23_0.27-1_armhf.deb ... 568s Unpacking libisl23:armhf (0.27-1) ... 568s Selecting previously unselected package libmpc3:armhf. 568s Preparing to unpack .../06-libmpc3_1.3.1-1build2_armhf.deb ... 568s Unpacking libmpc3:armhf (1.3.1-1build2) ... 568s Selecting previously unselected package cpp-14-arm-linux-gnueabihf. 568s Preparing to unpack .../07-cpp-14-arm-linux-gnueabihf_14.2.0-8ubuntu1_armhf.deb ... 568s Unpacking cpp-14-arm-linux-gnueabihf (14.2.0-8ubuntu1) ... 568s Selecting previously unselected package cpp-14. 568s Preparing to unpack .../08-cpp-14_14.2.0-8ubuntu1_armhf.deb ... 568s Unpacking cpp-14 (14.2.0-8ubuntu1) ... 568s Selecting previously unselected package cpp-arm-linux-gnueabihf. 568s Preparing to unpack .../09-cpp-arm-linux-gnueabihf_4%3a14.1.0-2ubuntu1_armhf.deb ... 568s Unpacking cpp-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 568s Selecting previously unselected package cpp. 568s Preparing to unpack .../10-cpp_4%3a14.1.0-2ubuntu1_armhf.deb ... 568s Unpacking cpp (4:14.1.0-2ubuntu1) ... 568s Selecting previously unselected package libcc1-0:armhf. 568s Preparing to unpack .../11-libcc1-0_14.2.0-8ubuntu1_armhf.deb ... 568s Unpacking libcc1-0:armhf (14.2.0-8ubuntu1) ... 568s Selecting previously unselected package libgomp1:armhf. 568s Preparing to unpack .../12-libgomp1_14.2.0-8ubuntu1_armhf.deb ... 568s Unpacking libgomp1:armhf (14.2.0-8ubuntu1) ... 568s Selecting previously unselected package libasan8:armhf. 568s Preparing to unpack .../13-libasan8_14.2.0-8ubuntu1_armhf.deb ... 568s Unpacking libasan8:armhf (14.2.0-8ubuntu1) ... 568s Selecting previously unselected package libubsan1:armhf. 568s Preparing to unpack .../14-libubsan1_14.2.0-8ubuntu1_armhf.deb ... 568s Unpacking libubsan1:armhf (14.2.0-8ubuntu1) ... 568s Selecting previously unselected package libgcc-14-dev:armhf. 568s Preparing to unpack .../15-libgcc-14-dev_14.2.0-8ubuntu1_armhf.deb ... 568s Unpacking libgcc-14-dev:armhf (14.2.0-8ubuntu1) ... 568s Selecting previously unselected package gcc-14-arm-linux-gnueabihf. 568s Preparing to unpack .../16-gcc-14-arm-linux-gnueabihf_14.2.0-8ubuntu1_armhf.deb ... 568s Unpacking gcc-14-arm-linux-gnueabihf (14.2.0-8ubuntu1) ... 569s Selecting previously unselected package gcc-14. 569s Preparing to unpack .../17-gcc-14_14.2.0-8ubuntu1_armhf.deb ... 569s Unpacking gcc-14 (14.2.0-8ubuntu1) ... 569s Selecting previously unselected package gcc-arm-linux-gnueabihf. 569s Preparing to unpack .../18-gcc-arm-linux-gnueabihf_4%3a14.1.0-2ubuntu1_armhf.deb ... 569s Unpacking gcc-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 569s Selecting previously unselected package gcc. 569s Preparing to unpack .../19-gcc_4%3a14.1.0-2ubuntu1_armhf.deb ... 569s Unpacking gcc (4:14.1.0-2ubuntu1) ... 569s Selecting previously unselected package libstdc++-14-dev:armhf. 569s Preparing to unpack .../20-libstdc++-14-dev_14.2.0-8ubuntu1_armhf.deb ... 569s Unpacking libstdc++-14-dev:armhf (14.2.0-8ubuntu1) ... 569s Selecting previously unselected package g++-14-arm-linux-gnueabihf. 569s Preparing to unpack .../21-g++-14-arm-linux-gnueabihf_14.2.0-8ubuntu1_armhf.deb ... 569s Unpacking g++-14-arm-linux-gnueabihf (14.2.0-8ubuntu1) ... 569s Selecting previously unselected package g++-14. 569s Preparing to unpack .../22-g++-14_14.2.0-8ubuntu1_armhf.deb ... 569s Unpacking g++-14 (14.2.0-8ubuntu1) ... 569s Selecting previously unselected package g++-arm-linux-gnueabihf. 569s Preparing to unpack .../23-g++-arm-linux-gnueabihf_4%3a14.1.0-2ubuntu1_armhf.deb ... 569s Unpacking g++-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 570s Selecting previously unselected package g++. 570s Preparing to unpack .../24-g++_4%3a14.1.0-2ubuntu1_armhf.deb ... 570s Unpacking g++ (4:14.1.0-2ubuntu1) ... 570s Selecting previously unselected package build-essential. 570s Preparing to unpack .../25-build-essential_12.10ubuntu1_armhf.deb ... 570s Unpacking build-essential (12.10ubuntu1) ... 570s Selecting previously unselected package libblas3:armhf. 570s Preparing to unpack .../26-libblas3_3.12.0-3build2_armhf.deb ... 570s Unpacking libblas3:armhf (3.12.0-3build2) ... 570s Selecting previously unselected package libgfortran5:armhf. 570s Preparing to unpack .../27-libgfortran5_14.2.0-8ubuntu1_armhf.deb ... 570s Unpacking libgfortran5:armhf (14.2.0-8ubuntu1) ... 570s Selecting previously unselected package liblapack3:armhf. 570s Preparing to unpack .../28-liblapack3_3.12.0-3build2_armhf.deb ... 570s Unpacking liblapack3:armhf (3.12.0-3build2) ... 570s Selecting previously unselected package libslow5-0t64:armhf. 570s Preparing to unpack .../29-libslow5-0t64_0.7.0+dfsg-3_armhf.deb ... 570s Unpacking libslow5-0t64:armhf (0.7.0+dfsg-3) ... 570s Selecting previously unselected package libslow5-dev:armhf. 570s Preparing to unpack .../30-libslow5-dev_0.7.0+dfsg-3_armhf.deb ... 570s Unpacking libslow5-dev:armhf (0.7.0+dfsg-3) ... 570s Selecting previously unselected package libstreamvbyte0:armhf. 570s Preparing to unpack .../31-libstreamvbyte0_0.4.1-4ubuntu1_armhf.deb ... 570s Unpacking libstreamvbyte0:armhf (0.4.1-4ubuntu1) ... 570s Selecting previously unselected package libstreamvbyte-dev:armhf. 570s Preparing to unpack .../32-libstreamvbyte-dev_0.4.1-4ubuntu1_armhf.deb ... 570s Unpacking libstreamvbyte-dev:armhf (0.4.1-4ubuntu1) ... 570s Selecting previously unselected package python3-numpy. 570s Preparing to unpack .../33-python3-numpy_1%3a1.26.4+ds-11ubuntu1_armhf.deb ... 570s Unpacking python3-numpy (1:1.26.4+ds-11ubuntu1) ... 570s Selecting previously unselected package python3-slow5. 570s Preparing to unpack .../34-python3-slow5_0.7.0+dfsg-3_armhf.deb ... 570s Unpacking python3-slow5 (0.7.0+dfsg-3) ... 570s Selecting previously unselected package zlib1g-dev:armhf. 570s Preparing to unpack .../35-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1ubuntu1_armhf.deb ... 570s Unpacking zlib1g-dev:armhf (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 570s Selecting previously unselected package autopkgtest-satdep. 570s Preparing to unpack .../36-2-autopkgtest-satdep.deb ... 570s Unpacking autopkgtest-satdep (0) ... 570s Setting up libstreamvbyte0:armhf (0.4.1-4ubuntu1) ... 570s Setting up linux-libc-dev:armhf (6.11.0-8.8) ... 570s Setting up libgomp1:armhf (14.2.0-8ubuntu1) ... 570s Setting up libblas3:armhf (3.12.0-3build2) ... 570s update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode 570s Setting up rpcsvc-proto (1.4.2-0ubuntu7) ... 570s Setting up libstreamvbyte-dev:armhf (0.4.1-4ubuntu1) ... 570s Setting up libmpc3:armhf (1.3.1-1build2) ... 570s Setting up libslow5-0t64:armhf (0.7.0+dfsg-3) ... 570s Setting up libgfortran5:armhf (14.2.0-8ubuntu1) ... 570s Setting up libubsan1:armhf (14.2.0-8ubuntu1) ... 570s Setting up libcrypt-dev:armhf (1:4.4.36-4build1) ... 570s Setting up libasan8:armhf (14.2.0-8ubuntu1) ... 570s Setting up libgcc-14-dev:armhf (14.2.0-8ubuntu1) ... 571s Setting up libisl23:armhf (0.27-1) ... 571s Setting up libc-dev-bin (2.40-1ubuntu3) ... 571s Setting up libcc1-0:armhf (14.2.0-8ubuntu1) ... 571s Setting up cpp-14-arm-linux-gnueabihf (14.2.0-8ubuntu1) ... 571s Setting up liblapack3:armhf (3.12.0-3build2) ... 571s update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode 571s Setting up gcc-14-arm-linux-gnueabihf (14.2.0-8ubuntu1) ... 571s Setting up libslow5-dev:armhf (0.7.0+dfsg-3) ... 571s Setting up python3-numpy (1:1.26.4+ds-11ubuntu1) ... 573s Setting up cpp-14 (14.2.0-8ubuntu1) ... 573s Setting up libc6-dev:armhf (2.40-1ubuntu3) ... 573s Setting up libstdc++-14-dev:armhf (14.2.0-8ubuntu1) ... 573s Setting up cpp-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 573s Setting up gcc-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 573s Setting up g++-14-arm-linux-gnueabihf (14.2.0-8ubuntu1) ... 573s Setting up gcc-14 (14.2.0-8ubuntu1) ... 573s Setting up python3-slow5 (0.7.0+dfsg-3) ... 573s Setting up zlib1g-dev:armhf (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 573s Setting up cpp (4:14.1.0-2ubuntu1) ... 573s Setting up g++-14 (14.2.0-8ubuntu1) ... 573s Setting up g++-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 573s Setting up gcc (4:14.1.0-2ubuntu1) ... 573s Setting up g++ (4:14.1.0-2ubuntu1) ... 573s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 573s Setting up build-essential (12.10ubuntu1) ... 573s Setting up autopkgtest-satdep (0) ... 573s Processing triggers for man-db (2.12.1-3) ... 574s Processing triggers for libc-bin (2.40-1ubuntu3) ... 590s (Reading database ... 63278 files and directories currently installed.) 590s Removing autopkgtest-satdep (0) ... 603s autopkgtest [18:57:56]: test run-pkg-test: [----------------------- 605s Checking unit_test_ascii.c 605s Done! 605s Checking unit_test_binary.c 605s Done! 605s Checking unit_test_empty.c 605s Done! 605s Checking unit_test_enum.c 605s Done! 605s Checking unit_test_helpers.c 606s Done! 606s Checking unit_test_lossless.c 606s Done! 606s Checking unit_test_press.c 606s Done! 606s Checking unit_test_two_rg.c 606s Done! 606s autopkgtest [18:57:59]: test run-pkg-test: -----------------------] 610s autopkgtest [18:58:03]: test run-pkg-test: - - - - - - - - - - results - - - - - - - - - - 610s run-pkg-test PASS 614s autopkgtest [18:58:07]: @@@@@@@@@@@@@@@@@@@@ summary 614s run-pybinding-test PASS 614s run-pkg-test PASS