0s autopkgtest [17:14:03]: starting date and time: 2024-03-16 17:14:03+0000 0s autopkgtest [17:14:03]: git checkout: b506e79c ssh-setup/nova: fix ARCH having two lines of data 0s autopkgtest [17:14:03]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.rz0aqww8/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:htslib,src:curl,src:gnutls28,src:libpsl,src:nettle,src:openssl --apt-upgrade pbbam --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=htslib/1.19+ds-1.1build2 curl/8.5.0-2ubuntu7 gnutls28/3.8.3-1.1ubuntu2 libpsl/0.21.2-1.1 nettle/3.9.1-2.2 openssl/3.0.13-0ubuntu1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos02-arm64-12.secgroup --name adt-noble-arm64-pbbam-20240316-171403-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_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,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 1006s autopkgtest [17:30:49]: testbed dpkg architecture: arm64 1009s autopkgtest [17:30:52]: testbed apt version: 2.7.12 1009s autopkgtest [17:30:52]: @@@@@@@@@@@@@@@@@@@@ test bed setup 1022s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 1028s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 1028s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [473 kB] 1030s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [51.4 kB] 1030s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3670 kB] 1037s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 Packages [646 kB] 1038s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 c-n-f Metadata [3144 B] 1039s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 Packages [33.6 kB] 1039s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 c-n-f Metadata [116 B] 1039s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 Packages [3995 kB] 1045s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 c-n-f Metadata [8528 B] 1046s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 Packages [55.6 kB] 1046s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 c-n-f Metadata [116 B] 1180s Fetched 9060 kB in 1min 2s (145 kB/s) 1187s Reading package lists... 1240s Reading package lists... 1245s Building dependency tree... 1245s Reading state information... 1251s Calculating upgrade... 1255s The following packages will be REMOVED: 1255s libssl3 1255s The following NEW packages will be installed: 1255s libssl3t64 1255s The following packages have been kept back: 1255s curl 1255s The following packages will be upgraded: 1255s openssl 1256s 1 upgraded, 1 newly installed, 1 to remove and 1 not upgraded. 1256s Need to get 2753 kB of archives. 1256s After this operation, 72.7 kB of additional disk space will be used. 1256s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 openssl arm64 3.0.13-0ubuntu1 [983 kB] 1257s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libssl3t64 arm64 3.0.13-0ubuntu1 [1770 kB] 1266s Fetched 2753 kB in 2s (1211 kB/s) 1271s (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 ... 75850 files and directories currently installed.) 1271s Preparing to unpack .../openssl_3.0.13-0ubuntu1_arm64.deb ... 1271s Unpacking openssl (3.0.13-0ubuntu1) over (3.0.10-1ubuntu4) ... 1277s dpkg: libssl3:arm64: dependency problems, but removing anyway as you requested: 1277s wget depends on libssl3 (>= 3.0.0). 1277s u-boot-tools depends on libssl3 (>= 3.0.0). 1277s tnftp depends on libssl3 (>= 3.0.0). 1277s tcpdump depends on libssl3 (>= 3.0.0). 1277s systemd-resolved depends on libssl3 (>= 3.0.0). 1277s systemd depends on libssl3 (>= 3.0.0). 1277s sudo depends on libssl3 (>= 3.0.0). 1277s sbsigntool depends on libssl3 (>= 3.0.0). 1277s rsync depends on libssl3 (>= 3.0.0). 1277s python3-cryptography depends on libssl3 (>= 3.0.0). 1277s openssh-server depends on libssl3 (>= 3.0.10). 1277s openssh-client depends on libssl3 (>= 3.0.10). 1277s mtd-utils depends on libssl3 (>= 3.0.0). 1277s mokutil depends on libssl3 (>= 3.0.0). 1277s linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0). 1277s libsystemd-shared:arm64 depends on libssl3 (>= 3.0.0). 1277s libssh-4:arm64 depends on libssl3 (>= 3.0.0). 1277s libsasl2-modules:arm64 depends on libssl3 (>= 3.0.0). 1277s libsasl2-2:arm64 depends on libssl3 (>= 3.0.0). 1277s libpython3.12-minimal:arm64 depends on libssl3 (>= 3.0.0). 1277s libpython3.11-minimal:arm64 depends on libssl3 (>= 3.0.0). 1277s libnvme1 depends on libssl3 (>= 3.0.0). 1277s libkrb5-3:arm64 depends on libssl3 (>= 3.0.0). 1277s libkmod2:arm64 depends on libssl3 (>= 3.0.0). 1277s libfido2-1:arm64 depends on libssl3 (>= 3.0.0). 1277s libcurl4:arm64 depends on libssl3 (>= 3.0.0). 1277s libcryptsetup12:arm64 depends on libssl3 (>= 3.0.0). 1277s kmod depends on libssl3 (>= 3.0.0). 1277s dhcpcd-base depends on libssl3 (>= 3.0.0). 1277s bind9-libs:arm64 depends on libssl3 (>= 3.0.0). 1277s 1278s (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 ... 75850 files and directories currently installed.) 1278s Removing libssl3:arm64 (3.0.10-1ubuntu4) ... 1280s Selecting previously unselected package libssl3t64:arm64. 1281s (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 ... 75839 files and directories currently installed.) 1281s Preparing to unpack .../libssl3t64_3.0.13-0ubuntu1_arm64.deb ... 1281s Unpacking libssl3t64:arm64 (3.0.13-0ubuntu1) ... 1283s Setting up libssl3t64:arm64 (3.0.13-0ubuntu1) ... 1283s Setting up openssl (3.0.13-0ubuntu1) ... 1284s Processing triggers for man-db (2.12.0-3) ... 1306s Processing triggers for libc-bin (2.39-0ubuntu2) ... 1313s Reading package lists... 1318s Building dependency tree... 1318s Reading state information... 1328s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded. 1332s Hit:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease 1332s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease 1332s Hit:3 http://ftpmaster.internal/ubuntu noble-updates InRelease 1332s Hit:4 http://ftpmaster.internal/ubuntu noble-security InRelease 1385s Reading package lists... 1387s Reading package lists... 1393s Building dependency tree... 1393s Reading state information... 1412s Calculating upgrade... 1421s The following packages have been kept back: 1421s curl 1422s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded. 1424s Reading package lists... 1434s Building dependency tree... 1434s Reading state information... 1456s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded. 1503s autopkgtest [17:39:06]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP PREEMPT_DYNAMIC Wed Feb 14 02:53:31 UTC 2024 1506s autopkgtest [17:39:09]: @@@@@@@@@@@@@@@@@@@@ apt-source pbbam 1589s Get:1 http://ftpmaster.internal/ubuntu noble/universe pbbam 2.4.0+dfsg-1build1 (dsc) [2320 B] 1589s Get:2 http://ftpmaster.internal/ubuntu noble/universe pbbam 2.4.0+dfsg-1build1 (tar) [7826 kB] 1589s Get:3 http://ftpmaster.internal/ubuntu noble/universe pbbam 2.4.0+dfsg-1build1 (diff) [9060 B] 1603s gpgv: Signature made Sun Feb 18 18:22:10 2024 UTC 1603s gpgv: using RSA key 4D0BE12F0E4776D8AACE9696E66C775AEBFE6C7D 1603s gpgv: Can't check signature: No public key 1603s dpkg-source: warning: cannot verify inline signature for ./pbbam_2.4.0+dfsg-1build1.dsc: no acceptable signature found 1626s autopkgtest [17:41:09]: testing package pbbam version 2.4.0+dfsg-1build1 1628s autopkgtest [17:41:11]: build not needed 1658s autopkgtest [17:41:41]: test command1: preparing testbed 1693s Reading package lists... 1704s Building dependency tree... 1704s Reading state information... 1722s Starting pkgProblemResolver with broken count: 0 1726s Starting 2 pkgProblemResolver with broken count: 0 1726s Done 1752s The following additional packages will be installed: 1752s autoconf automake autopoint autotools-dev build-essential cmake cmake-data 1752s cpp cpp-13 cpp-13-aarch64-linux-gnu cpp-aarch64-linux-gnu curl d-shlibs 1752s debhelper debugedit dh-autoreconf dh-exec dh-strip-nondeterminism dwz g++ 1752s g++-13 g++-13-aarch64-linux-gnu g++-aarch64-linux-gnu gcc gcc-13 1752s gcc-13-aarch64-linux-gnu gcc-aarch64-linux-gnu gettext googletest 1752s intltool-debian libarchive-zip-perl libasan8 libatomic1 libboost-dev 1752s libboost1.83-dev libc-dev-bin libc6-dev libcc1-0 libcrypt-dev 1752s libcurl3t64-gnutls libcurl4-gnutls-dev libcurl4t64 libdebhelper-perl 1752s libdeflate-dev libdeflate0 libdw1 libfile-stripnondeterminism-perl 1752s libgcc-13-dev libgnutls30t64 libgomp1 libgtest-dev libhogweed6t64 libhts-dev 1752s libhts3t64 libhtscodecs2 libhwasan0 libisl23 libitm1 libjsoncpp25 liblsan0 1752s liblzma-dev libmpc3 libnettle8t64 libnsl-dev libpbbam2.4.0 libpbcopper-dev 1752s libpbcopper2.3.0 libpkgconf3 libpsl5t64 librhash0 libssl-dev 1752s libstdc++-13-dev libsub-override-perl libtirpc-dev libtool libtsan2 1752s libubsan1 linux-libc-dev m4 meson ninja-build pbbamtools pkg-config pkgconf 1752s pkgconf-bin po-debconf python3-cram rpcsvc-proto samtools zlib1g-dev 1753s Suggested packages: 1753s autoconf-archive gnu-standards autoconf-doc cmake-doc cmake-format 1753s elpa-cmake-mode cpp-doc gcc-13-locales cpp-13-doc dh-make gcc-13-doc 1753s gcc-multilib manpages-dev flex bison gdb gcc-doc gdb-aarch64-linux-gnu 1753s gettext-doc libasprintf-dev libgettextpo-dev libboost-doc libboost1.83-doc 1753s libboost-atomic1.83-dev libboost-chrono1.83-dev libboost-container1.83-dev 1753s libboost-context1.83-dev libboost-contract1.83-dev 1753s libboost-coroutine1.83-dev libboost-date-time1.83-dev 1753s libboost-exception1.83-dev libboost-fiber1.83-dev 1753s libboost-filesystem1.83-dev libboost-graph-parallel1.83-dev 1753s libboost-graph1.83-dev libboost-iostreams1.83-dev libboost-json1.83-dev 1753s libboost-locale1.83-dev libboost-log1.83-dev libboost-math1.83-dev 1753s libboost-mpi-python1.83-dev libboost-mpi1.83-dev libboost-nowide1.83-dev 1753s libboost-numpy1.83-dev libboost-program-options1.83-dev 1753s libboost-python1.83-dev libboost-random1.83-dev libboost-regex1.83-dev 1753s libboost-serialization1.83-dev libboost-stacktrace1.83-dev 1753s libboost-system1.83-dev libboost-test1.83-dev libboost-thread1.83-dev 1753s libboost-timer1.83-dev libboost-type-erasure1.83-dev libboost-url1.83-dev 1753s libboost-wave1.83-dev libboost1.83-tools-dev libmpfrc++-dev libntl-dev 1753s glibc-doc libcurl4-doc libgnutls28-dev libidn-dev libkrb5-dev libldap2-dev 1753s librtmp-dev libssh2-1-dev gnutls-bin liblzma-doc libssl-doc libstdc++-13-doc 1753s libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc libmail-box-perl 1753s cwltool 1753s Recommended packages: 1753s manpages manpages-dev libc-devtools libarchive-cpio-perl libltdl-dev 1753s libmail-sendmail-perl 1758s The following packages will be REMOVED: 1758s libcurl3-gnutls libcurl4 libgnutls30 libhogweed6 libnettle8 libpsl5 1758s The following NEW packages will be installed: 1758s autoconf automake autopkgtest-satdep autopoint autotools-dev build-essential 1758s cmake cmake-data cpp cpp-13 cpp-13-aarch64-linux-gnu cpp-aarch64-linux-gnu 1758s d-shlibs debhelper debugedit dh-autoreconf dh-exec dh-strip-nondeterminism 1758s dwz g++ g++-13 g++-13-aarch64-linux-gnu g++-aarch64-linux-gnu gcc gcc-13 1758s gcc-13-aarch64-linux-gnu gcc-aarch64-linux-gnu gettext googletest 1758s intltool-debian libarchive-zip-perl libasan8 libatomic1 libboost-dev 1758s libboost1.83-dev libc-dev-bin libc6-dev libcc1-0 libcrypt-dev 1758s libcurl3t64-gnutls libcurl4-gnutls-dev libcurl4t64 libdebhelper-perl 1758s libdeflate-dev libdeflate0 libdw1 libfile-stripnondeterminism-perl 1758s libgcc-13-dev libgnutls30t64 libgomp1 libgtest-dev libhogweed6t64 libhts-dev 1758s libhts3t64 libhtscodecs2 libhwasan0 libisl23 libitm1 libjsoncpp25 liblsan0 1758s liblzma-dev libmpc3 libnettle8t64 libnsl-dev libpbbam2.4.0 libpbcopper-dev 1758s libpbcopper2.3.0 libpkgconf3 libpsl5t64 librhash0 libssl-dev 1758s libstdc++-13-dev libsub-override-perl libtirpc-dev libtool libtsan2 1758s libubsan1 linux-libc-dev m4 meson ninja-build pbbamtools pkg-config pkgconf 1758s pkgconf-bin po-debconf python3-cram rpcsvc-proto samtools zlib1g-dev 1758s The following packages will be upgraded: 1758s curl 1761s 1 upgraded, 90 newly installed, 6 to remove and 0 not upgraded. 1761s Need to get 111 MB/111 MB of archives. 1761s After this operation, 495 MB of additional disk space will be used. 1761s Get:1 /tmp/autopkgtest.40Kcls/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [832 B] 1761s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libnettle8t64 arm64 3.9.1-2.2 [192 kB] 1762s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libhogweed6t64 arm64 3.9.1-2.2 [199 kB] 1763s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libgnutls30t64 arm64 3.8.3-1.1ubuntu2 [1042 kB] 1765s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libcurl4t64 arm64 8.5.0-2ubuntu7 [332 kB] 1765s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 curl arm64 8.5.0-2ubuntu7 [222 kB] 1766s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libpsl5t64 arm64 0.21.2-1.1 [57.4 kB] 1766s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libcurl3t64-gnutls arm64 8.5.0-2ubuntu7 [327 kB] 1766s Get:9 http://ftpmaster.internal/ubuntu noble/main arm64 m4 arm64 1.4.19-4 [240 kB] 1767s Get:10 http://ftpmaster.internal/ubuntu noble/main arm64 autoconf all 2.71-3 [339 kB] 1768s Get:11 http://ftpmaster.internal/ubuntu noble/main arm64 autotools-dev all 20220109.1 [44.9 kB] 1768s Get:12 http://ftpmaster.internal/ubuntu noble/main arm64 automake all 1:1.16.5-1.3ubuntu1 [558 kB] 1769s Get:13 http://ftpmaster.internal/ubuntu noble/main arm64 autopoint all 0.21-14ubuntu1 [422 kB] 1770s Get:14 http://ftpmaster.internal/ubuntu noble/main arm64 libc-dev-bin arm64 2.39-0ubuntu2 [19.7 kB] 1770s Get:15 http://ftpmaster.internal/ubuntu noble/main arm64 linux-libc-dev arm64 6.8.0-11.11 [1569 kB] 1772s Get:16 http://ftpmaster.internal/ubuntu noble/main arm64 libcrypt-dev arm64 1:4.4.36-4 [136 kB] 1772s Get:17 http://ftpmaster.internal/ubuntu noble/main arm64 libtirpc-dev arm64 1.3.4+ds-1build1 [232 kB] 1772s Get:18 http://ftpmaster.internal/ubuntu noble/main arm64 libnsl-dev arm64 1.3.0-3 [71.9 kB] 1773s Get:19 http://ftpmaster.internal/ubuntu noble/main arm64 rpcsvc-proto arm64 1.4.2-0ubuntu6 [65.4 kB] 1773s Get:20 http://ftpmaster.internal/ubuntu noble/main arm64 libc6-dev arm64 2.39-0ubuntu2 [1596 kB] 1775s Get:21 http://ftpmaster.internal/ubuntu noble/main arm64 libisl23 arm64 0.26-3 [713 kB] 1775s Get:22 http://ftpmaster.internal/ubuntu noble/main arm64 libmpc3 arm64 1.3.1-1 [55.3 kB] 1775s Get:23 http://ftpmaster.internal/ubuntu noble/main arm64 cpp-13-aarch64-linux-gnu arm64 13.2.0-17ubuntu2 [10.3 MB] 1787s Get:24 http://ftpmaster.internal/ubuntu noble/main arm64 cpp-13 arm64 13.2.0-17ubuntu2 [1028 B] 1788s Get:25 http://ftpmaster.internal/ubuntu noble/main arm64 cpp-aarch64-linux-gnu arm64 4:13.2.0-7ubuntu1 [5316 B] 1788s Get:26 http://ftpmaster.internal/ubuntu noble/main arm64 cpp arm64 4:13.2.0-7ubuntu1 [22.4 kB] 1788s Get:27 http://ftpmaster.internal/ubuntu noble/main arm64 libcc1-0 arm64 14-20240303-1ubuntu1 [44.7 kB] 1788s Get:28 http://ftpmaster.internal/ubuntu noble/main arm64 libgomp1 arm64 14-20240303-1ubuntu1 [144 kB] 1789s Get:29 http://ftpmaster.internal/ubuntu noble/main arm64 libitm1 arm64 14-20240303-1ubuntu1 [27.7 kB] 1789s Get:30 http://ftpmaster.internal/ubuntu noble/main arm64 libatomic1 arm64 14-20240303-1ubuntu1 [11.4 kB] 1789s Get:31 http://ftpmaster.internal/ubuntu noble/main arm64 libasan8 arm64 14-20240303-1ubuntu1 [2919 kB] 1792s Get:32 http://ftpmaster.internal/ubuntu noble/main arm64 liblsan0 arm64 14-20240303-1ubuntu1 [1282 kB] 1794s Get:33 http://ftpmaster.internal/ubuntu noble/main arm64 libtsan2 arm64 14-20240303-1ubuntu1 [2687 kB] 1796s Get:34 http://ftpmaster.internal/ubuntu noble/main arm64 libubsan1 arm64 14-20240303-1ubuntu1 [1151 kB] 1797s Get:35 http://ftpmaster.internal/ubuntu noble/main arm64 libhwasan0 arm64 14-20240303-1ubuntu1 [1597 kB] 1798s Get:36 http://ftpmaster.internal/ubuntu noble/main arm64 libgcc-13-dev arm64 13.2.0-17ubuntu2 [2464 kB] 1800s Get:37 http://ftpmaster.internal/ubuntu noble/main arm64 gcc-13-aarch64-linux-gnu arm64 13.2.0-17ubuntu2 [20.1 MB] 1816s Get:38 http://ftpmaster.internal/ubuntu noble/main arm64 gcc-13 arm64 13.2.0-17ubuntu2 [467 kB] 1818s Get:39 http://ftpmaster.internal/ubuntu noble/main arm64 gcc-aarch64-linux-gnu arm64 4:13.2.0-7ubuntu1 [1198 B] 1818s Get:40 http://ftpmaster.internal/ubuntu noble/main arm64 gcc arm64 4:13.2.0-7ubuntu1 [5018 B] 1818s Get:41 http://ftpmaster.internal/ubuntu noble/main arm64 libstdc++-13-dev arm64 13.2.0-17ubuntu2 [2322 kB] 1821s Get:42 http://ftpmaster.internal/ubuntu noble/main arm64 g++-13-aarch64-linux-gnu arm64 13.2.0-17ubuntu2 [11.7 MB] 1832s Get:43 http://ftpmaster.internal/ubuntu noble/main arm64 g++-13 arm64 13.2.0-17ubuntu2 [14.4 kB] 1832s Get:44 http://ftpmaster.internal/ubuntu noble/main arm64 g++-aarch64-linux-gnu arm64 4:13.2.0-7ubuntu1 [962 B] 1833s Get:45 http://ftpmaster.internal/ubuntu noble/main arm64 g++ arm64 4:13.2.0-7ubuntu1 [1082 B] 1833s Get:46 http://ftpmaster.internal/ubuntu noble/main arm64 build-essential arm64 12.10ubuntu1 [4932 B] 1833s Get:47 http://ftpmaster.internal/ubuntu noble/main arm64 libjsoncpp25 arm64 1.9.5-6 [76.0 kB] 1834s Get:48 http://ftpmaster.internal/ubuntu noble/main arm64 librhash0 arm64 1.4.3-3 [125 kB] 1834s Get:49 http://ftpmaster.internal/ubuntu noble/main arm64 cmake-data all 3.28.3-1 [2155 kB] 1837s Get:50 http://ftpmaster.internal/ubuntu noble/main arm64 cmake arm64 3.28.3-1 [10.3 MB] 1845s Get:51 http://ftpmaster.internal/ubuntu noble/universe arm64 d-shlibs all 0.106 [11.2 kB] 1846s Get:52 http://ftpmaster.internal/ubuntu noble/main arm64 libdebhelper-perl all 13.14.1ubuntu1 [89.5 kB] 1846s Get:53 http://ftpmaster.internal/ubuntu noble/main arm64 libtool all 2.4.7-7 [166 kB] 1847s Get:54 http://ftpmaster.internal/ubuntu noble/main arm64 dh-autoreconf all 20 [16.1 kB] 1847s Get:55 http://ftpmaster.internal/ubuntu noble/main arm64 libarchive-zip-perl all 1.68-1 [90.2 kB] 1847s Get:56 http://ftpmaster.internal/ubuntu noble/main arm64 libsub-override-perl all 0.10-1 [10.0 kB] 1847s Get:57 http://ftpmaster.internal/ubuntu noble/main arm64 libfile-stripnondeterminism-perl all 1.13.1-1 [18.1 kB] 1847s Get:58 http://ftpmaster.internal/ubuntu noble/main arm64 dh-strip-nondeterminism all 1.13.1-1 [5362 B] 1847s Get:59 http://ftpmaster.internal/ubuntu noble/main arm64 libdw1 arm64 0.190-1 [254 kB] 1848s Get:60 http://ftpmaster.internal/ubuntu noble/main arm64 debugedit arm64 1:5.0-5 [45.9 kB] 1848s Get:61 http://ftpmaster.internal/ubuntu noble/main arm64 dwz arm64 0.15-1 [110 kB] 1849s Get:62 http://ftpmaster.internal/ubuntu noble/main arm64 gettext arm64 0.21-14ubuntu1 [846 kB] 1850s Get:63 http://ftpmaster.internal/ubuntu noble/main arm64 intltool-debian all 0.35.0+20060710.6 [23.2 kB] 1850s Get:64 http://ftpmaster.internal/ubuntu noble/main arm64 po-debconf all 1.0.21+nmu1 [233 kB] 1851s Get:65 http://ftpmaster.internal/ubuntu noble/main arm64 debhelper all 13.14.1ubuntu1 [869 kB] 1853s Get:66 http://ftpmaster.internal/ubuntu noble/universe arm64 googletest all 1.14.0-1 [521 kB] 1854s Get:67 http://ftpmaster.internal/ubuntu noble/main arm64 libboost1.83-dev arm64 1.83.0-2ubuntu1 [15.3 MB] 1869s Get:68 http://ftpmaster.internal/ubuntu noble/main arm64 libboost-dev arm64 1.83.0.1ubuntu2 [4308 B] 1869s Get:69 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libcurl4-gnutls-dev arm64 8.5.0-2ubuntu7 [448 kB] 1870s Get:70 http://ftpmaster.internal/ubuntu noble/main arm64 libdeflate0 arm64 1.19-1 [43.4 kB] 1870s Get:71 http://ftpmaster.internal/ubuntu noble/main arm64 libdeflate-dev arm64 1.19-1 [51.2 kB] 1870s Get:72 http://ftpmaster.internal/ubuntu noble/universe arm64 libgtest-dev arm64 1.14.0-1 [266 kB] 1871s Get:73 http://ftpmaster.internal/ubuntu noble/universe arm64 libhtscodecs2 arm64 1.6.0-1 [78.1 kB] 1871s Get:74 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 libhts3t64 arm64 1.19+ds-1.1build2 [429 kB] 1872s Get:75 http://ftpmaster.internal/ubuntu noble/main arm64 liblzma-dev arm64 5.4.5-0.3 [209 kB] 1873s Get:76 http://ftpmaster.internal/ubuntu noble/main arm64 zlib1g-dev arm64 1:1.3.dfsg-3ubuntu1 [895 kB] 1874s Get:77 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 libhts-dev arm64 1.19+ds-1.1build2 [5879 kB] 1877s Get:78 http://ftpmaster.internal/ubuntu noble/universe arm64 libpbcopper2.3.0 arm64 2.3.0+dfsg-2 [516 kB] 1878s Get:79 http://ftpmaster.internal/ubuntu noble/universe arm64 libpbbam2.4.0 arm64 2.4.0+dfsg-1build1 [634 kB] 1879s Get:80 http://ftpmaster.internal/ubuntu noble/universe arm64 libpbcopper-dev arm64 2.3.0+dfsg-2 [1089 kB] 1879s Get:81 http://ftpmaster.internal/ubuntu noble/main arm64 libpkgconf3 arm64 1.8.1-2 [31.2 kB] 1880s Get:82 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libssl-dev arm64 3.0.13-0ubuntu1 [2335 kB] 1881s Get:83 http://ftpmaster.internal/ubuntu noble/universe arm64 ninja-build arm64 1.11.1-2 [125 kB] 1882s Get:84 http://ftpmaster.internal/ubuntu noble/universe arm64 meson all 1.3.2-1ubuntu1 [604 kB] 1883s Get:85 http://ftpmaster.internal/ubuntu noble/universe arm64 pbbamtools arm64 2.4.0+dfsg-1build1 [104 kB] 1883s Get:86 http://ftpmaster.internal/ubuntu noble/main arm64 pkgconf-bin arm64 1.8.1-2 [20.4 kB] 1883s Get:87 http://ftpmaster.internal/ubuntu noble/main arm64 pkgconf arm64 1.8.1-2 [16.7 kB] 1883s Get:88 http://ftpmaster.internal/ubuntu noble/main arm64 pkg-config arm64 1.8.1-2 [7170 B] 1883s Get:89 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-cram all 0.7-5 [17.9 kB] 1884s Get:90 http://ftpmaster.internal/ubuntu noble/universe arm64 samtools arm64 1.19.2-1 [584 kB] 1884s Get:91 http://ftpmaster.internal/ubuntu noble/main arm64 dh-exec arm64 0.29 [25.6 kB] 1905s Fetched 111 MB in 2min 5s (893 kB/s) 1905s dpkg: libhogweed6:arm64: dependency problems, but removing anyway as you requested: 1905s librtmp1:arm64 depends on libhogweed6. 1905s libjcat1:arm64 depends on libhogweed6. 1905s libgnutls30:arm64 depends on libhogweed6 (>= 3.6). 1905s 1907s (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 ... 75852 files and directories currently installed.) 1907s Removing libhogweed6:arm64 (3.9.1-2) ... 1907s dpkg: libnettle8:arm64: dependency problems, but removing anyway as you requested: 1907s librtmp1:arm64 depends on libnettle8. 1907s libgnutls30:arm64 depends on libnettle8 (>= 3.9~). 1907s libcurl3-gnutls:arm64 depends on libnettle8. 1907s libarchive13:arm64 depends on libnettle8. 1907s 1907s Removing libnettle8:arm64 (3.9.1-2) ... 1909s Selecting previously unselected package libnettle8t64:arm64. 1910s (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 ... 75840 files and directories currently installed.) 1910s Preparing to unpack .../libnettle8t64_3.9.1-2.2_arm64.deb ... 1910s Unpacking libnettle8t64:arm64 (3.9.1-2.2) ... 1912s Selecting previously unselected package libhogweed6t64:arm64. 1912s Preparing to unpack .../libhogweed6t64_3.9.1-2.2_arm64.deb ... 1912s Unpacking libhogweed6t64:arm64 (3.9.1-2.2) ... 1913s dpkg: libgnutls30:arm64: dependency problems, but removing anyway as you requested: 1913s u-boot-tools depends on libgnutls30 (>= 3.7.3). 1913s librtmp1:arm64 depends on libgnutls30 (>= 3.7.2). 1913s libldap2:arm64 depends on libgnutls30 (>= 3.8.2). 1913s libjcat1:arm64 depends on libgnutls30 (>= 3.7.3). 1913s libcurl3-gnutls:arm64 depends on libgnutls30 (>= 3.8.2). 1913s fwupd depends on libgnutls30 (>= 3.7.3). 1913s dirmngr depends on libgnutls30 (>= 3.8.1). 1913s apt depends on libgnutls30 (>= 3.8.1). 1913s 1914s (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 ... 75854 files and directories currently installed.) 1914s Removing libgnutls30:arm64 (3.8.3-1ubuntu1) ... 1915s Selecting previously unselected package libgnutls30t64:arm64. 1916s (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 ... 75845 files and directories currently installed.) 1917s Preparing to unpack .../libgnutls30t64_3.8.3-1.1ubuntu2_arm64.deb ... 1917s Unpacking libgnutls30t64:arm64 (3.8.3-1.1ubuntu2) ... 1919s dpkg: libcurl4:arm64: dependency problems, but removing anyway as you requested: 1919s curl depends on libcurl4 (= 8.5.0-2ubuntu2). 1919s 1921s (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 ... 75873 files and directories currently installed.) 1921s Removing libcurl4:arm64 (8.5.0-2ubuntu2) ... 1922s Selecting previously unselected package libcurl4t64:arm64. 1923s (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 ... 75868 files and directories currently installed.) 1923s Preparing to unpack .../libcurl4t64_8.5.0-2ubuntu7_arm64.deb ... 1923s Unpacking libcurl4t64:arm64 (8.5.0-2ubuntu7) ... 1924s Preparing to unpack .../curl_8.5.0-2ubuntu7_arm64.deb ... 1924s Unpacking curl (8.5.0-2ubuntu7) over (8.5.0-2ubuntu2) ... 1925s dpkg: libpsl5:arm64: dependency problems, but removing anyway as you requested: 1925s wget depends on libpsl5 (>= 0.16.0). 1925s libcurl3-gnutls:arm64 depends on libpsl5 (>= 0.16.0). 1925s 1927s (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 ... 75874 files and directories currently installed.) 1927s Removing libpsl5:arm64 (0.21.2-1build1) ... 1928s Selecting previously unselected package libpsl5t64:arm64. 1929s (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 ... 75869 files and directories currently installed.) 1929s Preparing to unpack .../libpsl5t64_0.21.2-1.1_arm64.deb ... 1929s Unpacking libpsl5t64:arm64 (0.21.2-1.1) ... 1931s dpkg: libcurl3-gnutls:arm64: dependency problems, but removing anyway as you requested: 1931s libfwupd2:arm64 depends on libcurl3-gnutls (>= 7.63.0). 1931s fwupd depends on libcurl3-gnutls (>= 7.63.0). 1931s 1932s (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 ... 75875 files and directories currently installed.) 1932s Removing libcurl3-gnutls:arm64 (8.5.0-2ubuntu2) ... 1933s Selecting previously unselected package libcurl3t64-gnutls:arm64. 1935s (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 ... 75868 files and directories currently installed.) 1935s Preparing to unpack .../00-libcurl3t64-gnutls_8.5.0-2ubuntu7_arm64.deb ... 1935s Unpacking libcurl3t64-gnutls:arm64 (8.5.0-2ubuntu7) ... 1935s Selecting previously unselected package m4. 1936s Preparing to unpack .../01-m4_1.4.19-4_arm64.deb ... 1936s Unpacking m4 (1.4.19-4) ... 1936s Selecting previously unselected package autoconf. 1936s Preparing to unpack .../02-autoconf_2.71-3_all.deb ... 1936s Unpacking autoconf (2.71-3) ... 1938s Selecting previously unselected package autotools-dev. 1938s Preparing to unpack .../03-autotools-dev_20220109.1_all.deb ... 1938s Unpacking autotools-dev (20220109.1) ... 1938s Selecting previously unselected package automake. 1939s Preparing to unpack .../04-automake_1%3a1.16.5-1.3ubuntu1_all.deb ... 1939s Unpacking automake (1:1.16.5-1.3ubuntu1) ... 1940s Selecting previously unselected package autopoint. 1940s Preparing to unpack .../05-autopoint_0.21-14ubuntu1_all.deb ... 1940s Unpacking autopoint (0.21-14ubuntu1) ... 1941s Selecting previously unselected package libc-dev-bin. 1941s Preparing to unpack .../06-libc-dev-bin_2.39-0ubuntu2_arm64.deb ... 1941s Unpacking libc-dev-bin (2.39-0ubuntu2) ... 1942s Selecting previously unselected package linux-libc-dev:arm64. 1942s Preparing to unpack .../07-linux-libc-dev_6.8.0-11.11_arm64.deb ... 1942s Unpacking linux-libc-dev:arm64 (6.8.0-11.11) ... 1952s Selecting previously unselected package libcrypt-dev:arm64. 1952s Preparing to unpack .../08-libcrypt-dev_1%3a4.4.36-4_arm64.deb ... 1952s Unpacking libcrypt-dev:arm64 (1:4.4.36-4) ... 1953s Selecting previously unselected package libtirpc-dev:arm64. 1953s Preparing to unpack .../09-libtirpc-dev_1.3.4+ds-1build1_arm64.deb ... 1953s Unpacking libtirpc-dev:arm64 (1.3.4+ds-1build1) ... 1954s Selecting previously unselected package libnsl-dev:arm64. 1954s Preparing to unpack .../10-libnsl-dev_1.3.0-3_arm64.deb ... 1954s Unpacking libnsl-dev:arm64 (1.3.0-3) ... 1955s Selecting previously unselected package rpcsvc-proto. 1955s Preparing to unpack .../11-rpcsvc-proto_1.4.2-0ubuntu6_arm64.deb ... 1955s Unpacking rpcsvc-proto (1.4.2-0ubuntu6) ... 1956s Selecting previously unselected package libc6-dev:arm64. 1956s Preparing to unpack .../12-libc6-dev_2.39-0ubuntu2_arm64.deb ... 1956s Unpacking libc6-dev:arm64 (2.39-0ubuntu2) ... 1962s Selecting previously unselected package libisl23:arm64. 1963s Preparing to unpack .../13-libisl23_0.26-3_arm64.deb ... 1963s Unpacking libisl23:arm64 (0.26-3) ... 1964s Selecting previously unselected package libmpc3:arm64. 1964s Preparing to unpack .../14-libmpc3_1.3.1-1_arm64.deb ... 1964s Unpacking libmpc3:arm64 (1.3.1-1) ... 1965s Selecting previously unselected package cpp-13-aarch64-linux-gnu. 1965s Preparing to unpack .../15-cpp-13-aarch64-linux-gnu_13.2.0-17ubuntu2_arm64.deb ... 1965s Unpacking cpp-13-aarch64-linux-gnu (13.2.0-17ubuntu2) ... 1976s Selecting previously unselected package cpp-13. 1976s Preparing to unpack .../16-cpp-13_13.2.0-17ubuntu2_arm64.deb ... 1976s Unpacking cpp-13 (13.2.0-17ubuntu2) ... 1977s Selecting previously unselected package cpp-aarch64-linux-gnu. 1977s Preparing to unpack .../17-cpp-aarch64-linux-gnu_4%3a13.2.0-7ubuntu1_arm64.deb ... 1977s Unpacking cpp-aarch64-linux-gnu (4:13.2.0-7ubuntu1) ... 1978s Selecting previously unselected package cpp. 1978s Preparing to unpack .../18-cpp_4%3a13.2.0-7ubuntu1_arm64.deb ... 1978s Unpacking cpp (4:13.2.0-7ubuntu1) ... 1978s Selecting previously unselected package libcc1-0:arm64. 1979s Preparing to unpack .../19-libcc1-0_14-20240303-1ubuntu1_arm64.deb ... 1979s Unpacking libcc1-0:arm64 (14-20240303-1ubuntu1) ... 1979s Selecting previously unselected package libgomp1:arm64. 1979s Preparing to unpack .../20-libgomp1_14-20240303-1ubuntu1_arm64.deb ... 1979s Unpacking libgomp1:arm64 (14-20240303-1ubuntu1) ... 1980s Selecting previously unselected package libitm1:arm64. 1980s Preparing to unpack .../21-libitm1_14-20240303-1ubuntu1_arm64.deb ... 1980s Unpacking libitm1:arm64 (14-20240303-1ubuntu1) ... 1982s Selecting previously unselected package libatomic1:arm64. 1982s Preparing to unpack .../22-libatomic1_14-20240303-1ubuntu1_arm64.deb ... 1982s Unpacking libatomic1:arm64 (14-20240303-1ubuntu1) ... 1983s Selecting previously unselected package libasan8:arm64. 1983s Preparing to unpack .../23-libasan8_14-20240303-1ubuntu1_arm64.deb ... 1983s Unpacking libasan8:arm64 (14-20240303-1ubuntu1) ... 1986s Selecting previously unselected package liblsan0:arm64. 1987s Preparing to unpack .../24-liblsan0_14-20240303-1ubuntu1_arm64.deb ... 1987s Unpacking liblsan0:arm64 (14-20240303-1ubuntu1) ... 1988s Selecting previously unselected package libtsan2:arm64. 1988s Preparing to unpack .../25-libtsan2_14-20240303-1ubuntu1_arm64.deb ... 1988s Unpacking libtsan2:arm64 (14-20240303-1ubuntu1) ... 1992s Selecting previously unselected package libubsan1:arm64. 1992s Preparing to unpack .../26-libubsan1_14-20240303-1ubuntu1_arm64.deb ... 1992s Unpacking libubsan1:arm64 (14-20240303-1ubuntu1) ... 1995s Selecting previously unselected package libhwasan0:arm64. 1995s Preparing to unpack .../27-libhwasan0_14-20240303-1ubuntu1_arm64.deb ... 1995s Unpacking libhwasan0:arm64 (14-20240303-1ubuntu1) ... 1997s Selecting previously unselected package libgcc-13-dev:arm64. 1997s Preparing to unpack .../28-libgcc-13-dev_13.2.0-17ubuntu2_arm64.deb ... 1997s Unpacking libgcc-13-dev:arm64 (13.2.0-17ubuntu2) ... 2001s Selecting previously unselected package gcc-13-aarch64-linux-gnu. 2001s Preparing to unpack .../29-gcc-13-aarch64-linux-gnu_13.2.0-17ubuntu2_arm64.deb ... 2001s Unpacking gcc-13-aarch64-linux-gnu (13.2.0-17ubuntu2) ... 2015s Selecting previously unselected package gcc-13. 2015s Preparing to unpack .../30-gcc-13_13.2.0-17ubuntu2_arm64.deb ... 2015s Unpacking gcc-13 (13.2.0-17ubuntu2) ... 2015s Selecting previously unselected package gcc-aarch64-linux-gnu. 2016s Preparing to unpack .../31-gcc-aarch64-linux-gnu_4%3a13.2.0-7ubuntu1_arm64.deb ... 2016s Unpacking gcc-aarch64-linux-gnu (4:13.2.0-7ubuntu1) ... 2016s Selecting previously unselected package gcc. 2017s Preparing to unpack .../32-gcc_4%3a13.2.0-7ubuntu1_arm64.deb ... 2017s Unpacking gcc (4:13.2.0-7ubuntu1) ... 2017s Selecting previously unselected package libstdc++-13-dev:arm64. 2018s Preparing to unpack .../33-libstdc++-13-dev_13.2.0-17ubuntu2_arm64.deb ... 2018s Unpacking libstdc++-13-dev:arm64 (13.2.0-17ubuntu2) ... 2026s Selecting previously unselected package g++-13-aarch64-linux-gnu. 2026s Preparing to unpack .../34-g++-13-aarch64-linux-gnu_13.2.0-17ubuntu2_arm64.deb ... 2026s Unpacking g++-13-aarch64-linux-gnu (13.2.0-17ubuntu2) ... 2036s Selecting previously unselected package g++-13. 2037s Preparing to unpack .../35-g++-13_13.2.0-17ubuntu2_arm64.deb ... 2037s Unpacking g++-13 (13.2.0-17ubuntu2) ... 2038s Selecting previously unselected package g++-aarch64-linux-gnu. 2038s Preparing to unpack .../36-g++-aarch64-linux-gnu_4%3a13.2.0-7ubuntu1_arm64.deb ... 2038s Unpacking g++-aarch64-linux-gnu (4:13.2.0-7ubuntu1) ... 2038s Selecting previously unselected package g++. 2038s Preparing to unpack .../37-g++_4%3a13.2.0-7ubuntu1_arm64.deb ... 2038s Unpacking g++ (4:13.2.0-7ubuntu1) ... 2039s Selecting previously unselected package build-essential. 2039s Preparing to unpack .../38-build-essential_12.10ubuntu1_arm64.deb ... 2039s Unpacking build-essential (12.10ubuntu1) ... 2040s Selecting previously unselected package libjsoncpp25:arm64. 2041s Preparing to unpack .../39-libjsoncpp25_1.9.5-6_arm64.deb ... 2041s Unpacking libjsoncpp25:arm64 (1.9.5-6) ... 2042s Selecting previously unselected package librhash0:arm64. 2042s Preparing to unpack .../40-librhash0_1.4.3-3_arm64.deb ... 2042s Unpacking librhash0:arm64 (1.4.3-3) ... 2042s Selecting previously unselected package cmake-data. 2042s Preparing to unpack .../41-cmake-data_3.28.3-1_all.deb ... 2043s Unpacking cmake-data (3.28.3-1) ... 2068s Selecting previously unselected package cmake. 2068s Preparing to unpack .../42-cmake_3.28.3-1_arm64.deb ... 2068s Unpacking cmake (3.28.3-1) ... 2078s Selecting previously unselected package d-shlibs. 2078s Preparing to unpack .../43-d-shlibs_0.106_all.deb ... 2078s Unpacking d-shlibs (0.106) ... 2079s Selecting previously unselected package libdebhelper-perl. 2079s Preparing to unpack .../44-libdebhelper-perl_13.14.1ubuntu1_all.deb ... 2079s Unpacking libdebhelper-perl (13.14.1ubuntu1) ... 2080s Selecting previously unselected package libtool. 2081s Preparing to unpack .../45-libtool_2.4.7-7_all.deb ... 2081s Unpacking libtool (2.4.7-7) ... 2082s Selecting previously unselected package dh-autoreconf. 2082s Preparing to unpack .../46-dh-autoreconf_20_all.deb ... 2082s Unpacking dh-autoreconf (20) ... 2083s Selecting previously unselected package libarchive-zip-perl. 2084s Preparing to unpack .../47-libarchive-zip-perl_1.68-1_all.deb ... 2084s Unpacking libarchive-zip-perl (1.68-1) ... 2085s Selecting previously unselected package libsub-override-perl. 2085s Preparing to unpack .../48-libsub-override-perl_0.10-1_all.deb ... 2086s Unpacking libsub-override-perl (0.10-1) ... 2086s Selecting previously unselected package libfile-stripnondeterminism-perl. 2086s Preparing to unpack .../49-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... 2086s Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... 2087s Selecting previously unselected package dh-strip-nondeterminism. 2087s Preparing to unpack .../50-dh-strip-nondeterminism_1.13.1-1_all.deb ... 2087s Unpacking dh-strip-nondeterminism (1.13.1-1) ... 2088s Selecting previously unselected package libdw1:arm64. 2088s Preparing to unpack .../51-libdw1_0.190-1_arm64.deb ... 2088s Unpacking libdw1:arm64 (0.190-1) ... 2089s Selecting previously unselected package debugedit. 2089s Preparing to unpack .../52-debugedit_1%3a5.0-5_arm64.deb ... 2089s Unpacking debugedit (1:5.0-5) ... 2090s Selecting previously unselected package dwz. 2090s Preparing to unpack .../53-dwz_0.15-1_arm64.deb ... 2090s Unpacking dwz (0.15-1) ... 2092s Selecting previously unselected package gettext. 2093s Preparing to unpack .../54-gettext_0.21-14ubuntu1_arm64.deb ... 2093s Unpacking gettext (0.21-14ubuntu1) ... 2094s Selecting previously unselected package intltool-debian. 2094s Preparing to unpack .../55-intltool-debian_0.35.0+20060710.6_all.deb ... 2094s Unpacking intltool-debian (0.35.0+20060710.6) ... 2095s Selecting previously unselected package po-debconf. 2095s Preparing to unpack .../56-po-debconf_1.0.21+nmu1_all.deb ... 2095s Unpacking po-debconf (1.0.21+nmu1) ... 2096s Selecting previously unselected package debhelper. 2096s Preparing to unpack .../57-debhelper_13.14.1ubuntu1_all.deb ... 2096s Unpacking debhelper (13.14.1ubuntu1) ... 2099s Selecting previously unselected package googletest. 2099s Preparing to unpack .../58-googletest_1.14.0-1_all.deb ... 2100s Unpacking googletest (1.14.0-1) ... 2101s Selecting previously unselected package libboost1.83-dev:arm64. 2101s Preparing to unpack .../59-libboost1.83-dev_1.83.0-2ubuntu1_arm64.deb ... 2102s Unpacking libboost1.83-dev:arm64 (1.83.0-2ubuntu1) ... 2209s Selecting previously unselected package libboost-dev:arm64. 2209s Preparing to unpack .../60-libboost-dev_1.83.0.1ubuntu2_arm64.deb ... 2209s Unpacking libboost-dev:arm64 (1.83.0.1ubuntu2) ... 2209s Selecting previously unselected package libcurl4-gnutls-dev:arm64. 2210s Preparing to unpack .../61-libcurl4-gnutls-dev_8.5.0-2ubuntu7_arm64.deb ... 2210s Unpacking libcurl4-gnutls-dev:arm64 (8.5.0-2ubuntu7) ... 2212s Selecting previously unselected package libdeflate0:arm64. 2213s Preparing to unpack .../62-libdeflate0_1.19-1_arm64.deb ... 2213s Unpacking libdeflate0:arm64 (1.19-1) ... 2214s Selecting previously unselected package libdeflate-dev:arm64. 2214s Preparing to unpack .../63-libdeflate-dev_1.19-1_arm64.deb ... 2214s Unpacking libdeflate-dev:arm64 (1.19-1) ... 2214s Selecting previously unselected package libgtest-dev:arm64. 2215s Preparing to unpack .../64-libgtest-dev_1.14.0-1_arm64.deb ... 2215s Unpacking libgtest-dev:arm64 (1.14.0-1) ... 2216s Selecting previously unselected package libhtscodecs2:arm64. 2216s Preparing to unpack .../65-libhtscodecs2_1.6.0-1_arm64.deb ... 2216s Unpacking libhtscodecs2:arm64 (1.6.0-1) ... 2216s Selecting previously unselected package libhts3t64:arm64. 2217s Preparing to unpack .../66-libhts3t64_1.19+ds-1.1build2_arm64.deb ... 2217s Unpacking libhts3t64:arm64 (1.19+ds-1.1build2) ... 2218s Selecting previously unselected package liblzma-dev:arm64. 2218s Preparing to unpack .../67-liblzma-dev_5.4.5-0.3_arm64.deb ... 2218s Unpacking liblzma-dev:arm64 (5.4.5-0.3) ... 2219s Selecting previously unselected package zlib1g-dev:arm64. 2219s Preparing to unpack .../68-zlib1g-dev_1%3a1.3.dfsg-3ubuntu1_arm64.deb ... 2220s Unpacking zlib1g-dev:arm64 (1:1.3.dfsg-3ubuntu1) ... 2222s Selecting previously unselected package libhts-dev:arm64. 2222s Preparing to unpack .../69-libhts-dev_1.19+ds-1.1build2_arm64.deb ... 2222s Unpacking libhts-dev:arm64 (1.19+ds-1.1build2) ... 2225s Selecting previously unselected package libpbcopper2.3.0:arm64. 2225s Preparing to unpack .../70-libpbcopper2.3.0_2.3.0+dfsg-2_arm64.deb ... 2225s Unpacking libpbcopper2.3.0:arm64 (2.3.0+dfsg-2) ... 2226s Selecting previously unselected package libpbbam2.4.0:arm64. 2226s Preparing to unpack .../71-libpbbam2.4.0_2.4.0+dfsg-1build1_arm64.deb ... 2226s Unpacking libpbbam2.4.0:arm64 (2.4.0+dfsg-1build1) ... 2228s Selecting previously unselected package libpbcopper-dev:arm64. 2228s Preparing to unpack .../72-libpbcopper-dev_2.3.0+dfsg-2_arm64.deb ... 2228s Unpacking libpbcopper-dev:arm64 (2.3.0+dfsg-2) ... 2230s Selecting previously unselected package libpkgconf3:arm64. 2230s Preparing to unpack .../73-libpkgconf3_1.8.1-2_arm64.deb ... 2230s Unpacking libpkgconf3:arm64 (1.8.1-2) ... 2231s Selecting previously unselected package libssl-dev:arm64. 2231s Preparing to unpack .../74-libssl-dev_3.0.13-0ubuntu1_arm64.deb ... 2231s Unpacking libssl-dev:arm64 (3.0.13-0ubuntu1) ... 2235s Selecting previously unselected package ninja-build. 2235s Preparing to unpack .../75-ninja-build_1.11.1-2_arm64.deb ... 2235s Unpacking ninja-build (1.11.1-2) ... 2236s Selecting previously unselected package meson. 2236s Preparing to unpack .../76-meson_1.3.2-1ubuntu1_all.deb ... 2236s Unpacking meson (1.3.2-1ubuntu1) ... 2239s Selecting previously unselected package pbbamtools. 2239s Preparing to unpack .../77-pbbamtools_2.4.0+dfsg-1build1_arm64.deb ... 2239s Unpacking pbbamtools (2.4.0+dfsg-1build1) ... 2240s Selecting previously unselected package pkgconf-bin. 2240s Preparing to unpack .../78-pkgconf-bin_1.8.1-2_arm64.deb ... 2240s Unpacking pkgconf-bin (1.8.1-2) ... 2241s Selecting previously unselected package pkgconf:arm64. 2241s Preparing to unpack .../79-pkgconf_1.8.1-2_arm64.deb ... 2241s Unpacking pkgconf:arm64 (1.8.1-2) ... 2242s Selecting previously unselected package pkg-config:arm64. 2242s Preparing to unpack .../80-pkg-config_1.8.1-2_arm64.deb ... 2242s Unpacking pkg-config:arm64 (1.8.1-2) ... 2243s Selecting previously unselected package python3-cram. 2243s Preparing to unpack .../81-python3-cram_0.7-5_all.deb ... 2243s Unpacking python3-cram (0.7-5) ... 2244s Selecting previously unselected package samtools. 2244s Preparing to unpack .../82-samtools_1.19.2-1_arm64.deb ... 2244s Unpacking samtools (1.19.2-1) ... 2245s Selecting previously unselected package dh-exec. 2245s Preparing to unpack .../83-dh-exec_0.29_arm64.deb ... 2246s Unpacking dh-exec (0.29) ... 2246s Selecting previously unselected package autopkgtest-satdep. 2247s Preparing to unpack .../84-1-autopkgtest-satdep.deb ... 2247s Unpacking autopkgtest-satdep (0) ... 2248s Setting up libhtscodecs2:arm64 (1.6.0-1) ... 2248s Setting up libdw1:arm64 (0.190-1) ... 2248s Setting up libarchive-zip-perl (1.68-1) ... 2248s Setting up libdebhelper-perl (13.14.1ubuntu1) ... 2248s Setting up libpsl5t64:arm64 (0.21.2-1.1) ... 2248s Setting up libdeflate0:arm64 (1.19-1) ... 2248s Setting up linux-libc-dev:arm64 (6.8.0-11.11) ... 2248s Setting up m4 (1.4.19-4) ... 2248s Setting up libgomp1:arm64 (14-20240303-1ubuntu1) ... 2248s Setting up googletest (1.14.0-1) ... 2248s Setting up ninja-build (1.11.1-2) ... 2248s Setting up libnettle8t64:arm64 (3.9.1-2.2) ... 2248s Setting up autotools-dev (20220109.1) ... 2248s Setting up libtirpc-dev:arm64 (1.3.4+ds-1build1) ... 2248s Setting up libpkgconf3:arm64 (1.8.1-2) ... 2248s Setting up rpcsvc-proto (1.4.2-0ubuntu6) ... 2248s Setting up libssl-dev:arm64 (3.0.13-0ubuntu1) ... 2248s Setting up libmpc3:arm64 (1.3.1-1) ... 2248s Setting up libatomic1:arm64 (14-20240303-1ubuntu1) ... 2248s Setting up autopoint (0.21-14ubuntu1) ... 2248s Setting up libjsoncpp25:arm64 (1.9.5-6) ... 2248s Setting up d-shlibs (0.106) ... 2248s Setting up pkgconf-bin (1.8.1-2) ... 2248s Setting up autoconf (2.71-3) ... 2248s Setting up liblzma-dev:arm64 (5.4.5-0.3) ... 2248s Setting up libubsan1:arm64 (14-20240303-1ubuntu1) ... 2248s Setting up dwz (0.15-1) ... 2248s Setting up libhogweed6t64:arm64 (3.9.1-2.2) ... 2248s Setting up libnsl-dev:arm64 (1.3.0-3) ... 2248s Setting up libhwasan0:arm64 (14-20240303-1ubuntu1) ... 2248s Setting up librhash0:arm64 (1.4.3-3) ... 2248s Setting up python3-cram (0.7-5) ... 2253s Setting up libcrypt-dev:arm64 (1:4.4.36-4) ... 2253s Setting up libasan8:arm64 (14-20240303-1ubuntu1) ... 2253s Setting up debugedit (1:5.0-5) ... 2253s Setting up libsub-override-perl (0.10-1) ... 2253s Setting up cmake-data (3.28.3-1) ... 2253s Setting up libtsan2:arm64 (14-20240303-1ubuntu1) ... 2253s Setting up libisl23:arm64 (0.26-3) ... 2253s Setting up libc-dev-bin (2.39-0ubuntu2) ... 2253s Setting up libdeflate-dev:arm64 (1.19-1) ... 2253s Setting up libcc1-0:arm64 (14-20240303-1ubuntu1) ... 2253s Setting up liblsan0:arm64 (14-20240303-1ubuntu1) ... 2253s Setting up libitm1:arm64 (14-20240303-1ubuntu1) ... 2253s Setting up libpbcopper2.3.0:arm64 (2.3.0+dfsg-2) ... 2253s Setting up libgnutls30t64:arm64 (3.8.3-1.1ubuntu2) ... 2253s Setting up automake (1:1.16.5-1.3ubuntu1) ... 2254s update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode 2254s Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... 2254s Setting up gettext (0.21-14ubuntu1) ... 2254s Setting up libgtest-dev:arm64 (1.14.0-1) ... 2254s Setting up cpp-13-aarch64-linux-gnu (13.2.0-17ubuntu2) ... 2254s Setting up libcurl4t64:arm64 (8.5.0-2ubuntu7) ... 2254s Setting up libcurl3t64-gnutls:arm64 (8.5.0-2ubuntu7) ... 2254s Setting up meson (1.3.2-1ubuntu1) ... 2287s Setting up libcurl4-gnutls-dev:arm64 (8.5.0-2ubuntu7) ... 2287s Setting up pkgconf:arm64 (1.8.1-2) ... 2287s Setting up intltool-debian (0.35.0+20060710.6) ... 2287s Setting up cpp-aarch64-linux-gnu (4:13.2.0-7ubuntu1) ... 2287s Setting up pkg-config:arm64 (1.8.1-2) ... 2287s Setting up libpbcopper-dev:arm64 (2.3.0+dfsg-2) ... 2287s Setting up dh-strip-nondeterminism (1.13.1-1) ... 2287s Setting up libgcc-13-dev:arm64 (13.2.0-17ubuntu2) ... 2287s Setting up cmake (3.28.3-1) ... 2287s Setting up libhts3t64:arm64 (1.19+ds-1.1build2) ... 2287s Setting up libc6-dev:arm64 (2.39-0ubuntu2) ... 2287s Setting up curl (8.5.0-2ubuntu7) ... 2287s Setting up libstdc++-13-dev:arm64 (13.2.0-17ubuntu2) ... 2287s Setting up libboost1.83-dev:arm64 (1.83.0-2ubuntu1) ... 2287s Setting up cpp-13 (13.2.0-17ubuntu2) ... 2287s Setting up po-debconf (1.0.21+nmu1) ... 2287s Setting up libpbbam2.4.0:arm64 (2.4.0+dfsg-1build1) ... 2287s Setting up gcc-13-aarch64-linux-gnu (13.2.0-17ubuntu2) ... 2287s Setting up samtools (1.19.2-1) ... 2287s Setting up gcc-13 (13.2.0-17ubuntu2) ... 2287s Setting up zlib1g-dev:arm64 (1:1.3.dfsg-3ubuntu1) ... 2287s Setting up cpp (4:13.2.0-7ubuntu1) ... 2287s Setting up libboost-dev:arm64 (1.83.0.1ubuntu2) ... 2287s Setting up pbbamtools (2.4.0+dfsg-1build1) ... 2288s Setting up g++-13-aarch64-linux-gnu (13.2.0-17ubuntu2) ... 2288s Setting up gcc-aarch64-linux-gnu (4:13.2.0-7ubuntu1) ... 2288s Setting up g++-13 (13.2.0-17ubuntu2) ... 2288s Setting up libtool (2.4.7-7) ... 2288s Setting up libhts-dev:arm64 (1.19+ds-1.1build2) ... 2288s Setting up gcc (4:13.2.0-7ubuntu1) ... 2289s Setting up dh-autoreconf (20) ... 2289s Setting up g++-aarch64-linux-gnu (4:13.2.0-7ubuntu1) ... 2289s Setting up debhelper (13.14.1ubuntu1) ... 2289s Setting up dh-exec (0.29) ... 2289s Setting up g++ (4:13.2.0-7ubuntu1) ... 2289s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 2289s Setting up build-essential (12.10ubuntu1) ... 2289s Setting up autopkgtest-satdep (0) ... 2289s Processing triggers for man-db (2.12.0-3) ... 2313s Processing triggers for install-info (7.1-3) ... 2319s Processing triggers for libc-bin (2.39-0ubuntu2) ... 2383s (Reading database ... 101441 files and directories currently installed.) 2383s Removing autopkgtest-satdep (0) ... 2391s autopkgtest [17:53:54]: test command1: debian/rules override_dh_auto_test 2391s autopkgtest [17:53:54]: test command1: [----------------------- 2400s sed \ 2400s -e 's/$BAM2SAM/samtools view/g' \ 2400s -e 's/\-\-header\-only/-H/g' \ 2400s -e 's/\-\-no\-header//g' \ 2400s -e 's|@PacBioBAM_BinDir@/||g' \ 2400s -e 's|$TOOLS_BIN/||g' \ 2400s -e 's|@PacBioBAM_TestsDir@|/tmp/autopkgtest.40Kcls/build.ZoQ/src/tests|g' \ 2400s -e 's|@PacBioBAM_VERSION@|2.4.0+dfsg|g' \ 2400s -e 's|@GeneratedTestDataDir@|/tmp/autopkgtest.40Kcls/build.ZoQ/src/gendata|g' \ 2400s -e '/@PG/s|+dfsg||g' \ 2400s -e 's/$SAMTOOLS/samtools/g' \ 2400s tests/src/cram/pbbamify.t.in > tests/src/cram/pbbamify.deb.t 2441s sed \ 2441s -e 's/$BAM2SAM/samtools view/g' \ 2441s -e 's/\-\-header\-only/-H/g' \ 2441s -e 's/\-\-no\-header//g' \ 2441s -e 's|@PacBioBAM_BinDir@/||g' \ 2441s -e 's|$TOOLS_BIN/||g' \ 2441s -e 's|@PacBioBAM_TestsDir@|/tmp/autopkgtest.40Kcls/build.ZoQ/src/tests|g' \ 2441s -e 's|@PacBioBAM_VERSION@|2.4.0+dfsg|g' \ 2441s -e 's|@GeneratedTestDataDir@|/tmp/autopkgtest.40Kcls/build.ZoQ/src/gendata|g' \ 2441s -e '/@PG/s|+dfsg||g' \ 2441s -e 's/$SAMTOOLS/samtools/g' \ 2441s tests/src/cram/pbindexdump_cpp.t.in > tests/src/cram/pbindexdump_cpp.deb.t 2441s sed \ 2441s -e 's/$BAM2SAM/samtools view/g' \ 2441s -e 's/\-\-header\-only/-H/g' \ 2441s -e 's/\-\-no\-header//g' \ 2441s -e 's|@PacBioBAM_BinDir@/||g' \ 2441s -e 's|$TOOLS_BIN/||g' \ 2441s -e 's|@PacBioBAM_TestsDir@|/tmp/autopkgtest.40Kcls/build.ZoQ/src/tests|g' \ 2441s -e 's|@PacBioBAM_VERSION@|2.4.0+dfsg|g' \ 2441s -e 's|@GeneratedTestDataDir@|/tmp/autopkgtest.40Kcls/build.ZoQ/src/gendata|g' \ 2441s -e '/@PG/s|+dfsg||g' \ 2441s -e 's/$SAMTOOLS/samtools/g' \ 2441s tests/src/cram/pbindexdump_json.t.in > tests/src/cram/pbindexdump_json.deb.t 2441s sed \ 2441s -e 's/$BAM2SAM/samtools view/g' \ 2441s -e 's/\-\-header\-only/-H/g' \ 2441s -e 's/\-\-no\-header//g' \ 2441s -e 's|@PacBioBAM_BinDir@/||g' \ 2441s -e 's|$TOOLS_BIN/||g' \ 2441s -e 's|@PacBioBAM_TestsDir@|/tmp/autopkgtest.40Kcls/build.ZoQ/src/tests|g' \ 2441s -e 's|@PacBioBAM_VERSION@|2.4.0+dfsg|g' \ 2441s -e 's|@GeneratedTestDataDir@|/tmp/autopkgtest.40Kcls/build.ZoQ/src/gendata|g' \ 2441s -e '/@PG/s|+dfsg||g' \ 2441s -e 's/$SAMTOOLS/samtools/g' \ 2441s tests/src/cram/pbmerge_aligned_ordering.t.in > tests/src/cram/pbmerge_aligned_ordering.deb.t 2441s sed \ 2441s -e 's/$BAM2SAM/samtools view/g' \ 2441s -e 's/\-\-header\-only/-H/g' \ 2441s -e 's/\-\-no\-header//g' \ 2441s -e 's|@PacBioBAM_BinDir@/||g' \ 2441s -e 's|$TOOLS_BIN/||g' \ 2441s -e 's|@PacBioBAM_TestsDir@|/tmp/autopkgtest.40Kcls/build.ZoQ/src/tests|g' \ 2441s -e 's|@PacBioBAM_VERSION@|2.4.0+dfsg|g' \ 2441s -e 's|@GeneratedTestDataDir@|/tmp/autopkgtest.40Kcls/build.ZoQ/src/gendata|g' \ 2441s -e '/@PG/s|+dfsg||g' \ 2441s -e 's/$SAMTOOLS/samtools/g' \ 2441s tests/src/cram/pbmerge_dataset.t.in > tests/src/cram/pbmerge_dataset.deb.t 2441s sed \ 2441s -e 's/$BAM2SAM/samtools view/g' \ 2441s -e 's/\-\-header\-only/-H/g' \ 2441s -e 's/\-\-no\-header//g' \ 2441s -e 's|@PacBioBAM_BinDir@/||g' \ 2441s -e 's|$TOOLS_BIN/||g' \ 2441s -e 's|@PacBioBAM_TestsDir@|/tmp/autopkgtest.40Kcls/build.ZoQ/src/tests|g' \ 2441s -e 's|@PacBioBAM_VERSION@|2.4.0+dfsg|g' \ 2441s -e 's|@GeneratedTestDataDir@|/tmp/autopkgtest.40Kcls/build.ZoQ/src/gendata|g' \ 2441s -e '/@PG/s|+dfsg||g' \ 2441s -e 's/$SAMTOOLS/samtools/g' \ 2441s tests/src/cram/pbmerge_fofn.t.in > tests/src/cram/pbmerge_fofn.deb.t 2441s sed \ 2441s -e 's/$BAM2SAM/samtools view/g' \ 2441s -e 's/\-\-header\-only/-H/g' \ 2441s -e 's/\-\-no\-header//g' \ 2441s -e 's|@PacBioBAM_BinDir@/||g' \ 2441s -e 's|$TOOLS_BIN/||g' \ 2441s -e 's|@PacBioBAM_TestsDir@|/tmp/autopkgtest.40Kcls/build.ZoQ/src/tests|g' \ 2441s -e 's|@PacBioBAM_VERSION@|2.4.0+dfsg|g' \ 2441s -e 's|@GeneratedTestDataDir@|/tmp/autopkgtest.40Kcls/build.ZoQ/src/gendata|g' \ 2441s -e '/@PG/s|+dfsg||g' \ 2441s -e 's/$SAMTOOLS/samtools/g' \ 2441s tests/src/cram/pbmerge_mixed_ordering.t.in > tests/src/cram/pbmerge_mixed_ordering.deb.t 2441s sed \ 2441s -e 's/$BAM2SAM/samtools view/g' \ 2441s -e 's/\-\-header\-only/-H/g' \ 2441s -e 's/\-\-no\-header//g' \ 2441s -e 's|@PacBioBAM_BinDir@/||g' \ 2441s -e 's|$TOOLS_BIN/||g' \ 2441s -e 's|@PacBioBAM_TestsDir@|/tmp/autopkgtest.40Kcls/build.ZoQ/src/tests|g' \ 2441s -e 's|@PacBioBAM_VERSION@|2.4.0+dfsg|g' \ 2441s -e 's|@GeneratedTestDataDir@|/tmp/autopkgtest.40Kcls/build.ZoQ/src/gendata|g' \ 2441s -e '/@PG/s|+dfsg||g' \ 2441s -e 's/$SAMTOOLS/samtools/g' \ 2441s tests/src/cram/pbmerge_pacbio_ordering.t.in > tests/src/cram/pbmerge_pacbio_ordering.deb.t 2441s dh_auto_configure -O--buildsystem=meson 2457s cd obj-aarch64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb LC_ALL=C.UTF-8 meson setup .. --wrap-mode=nodownload --buildtype=plain --prefix=/usr --sysconfdir=/etc --localstatedir=/var --libdir=lib/aarch64-linux-gnu -Dpython.bytecompile=-1 2505s The Meson build system 2505s Version: 1.3.2 2505s Source dir: /tmp/autopkgtest.40Kcls/build.ZoQ/src 2505s Build dir: /tmp/autopkgtest.40Kcls/build.ZoQ/src/obj-aarch64-linux-gnu 2505s Build type: native build 2505s Project name: PacBioBAM 2505s Project version: 2.4.0 2505s C compiler for the host machine: cc (gcc 13.2.0 "cc (Ubuntu 13.2.0-17ubuntu2) 13.2.0") 2505s C linker for the host machine: cc ld.bfd 2.42 2505s C++ compiler for the host machine: c++ (gcc 13.2.0 "c++ (Ubuntu 13.2.0-17ubuntu2) 13.2.0") 2505s C++ linker for the host machine: c++ ld.bfd 2.42 2505s Host machine cpu family: aarch64 2505s Host machine cpu: aarch64 2505s Compiler for C++ supports arguments -Wduplicated-cond: YES 2505s Compiler for C++ supports arguments -Wduplicated-branches: YES 2505s Compiler for C++ supports arguments -Wlogical-op: YES 2505s Compiler for C++ supports arguments -Wrestrict: YES 2505s Compiler for C++ supports arguments -Wnull-dereference: YES 2505s Compiler for C++ supports arguments -Wuseless-cast: YES 2505s Compiler for C++ supports arguments -Wdouble-promotion: YES 2505s Compiler for C++ supports arguments -Wshadow: YES 2505s Compiler for C++ supports arguments -Wformat=1: YES 2505s Run-time dependency threads found: YES 2505s Found pkg-config: YES (/usr/bin/pkg-config) 1.8.1 2505s Run-time dependency Boost found: YES 1.83.0 (/usr/include) 2505s Run-time dependency zlib found: YES 1.3 2505s Run-time dependency htslib found: YES 1.19 2505s Run-time dependency pbcopper found: YES 2.3.0 2505s Configuring PbbamVersion.cpp using configuration 2505s Configuring LibraryVersion.h using configuration 2505s Program tools/check-formatting found: YES (/tmp/autopkgtest.40Kcls/build.ZoQ/src/tools/check-formatting) 2505s Program python3 found: YES (/usr/bin/python3) 2505s Program cram3 found: YES (/usr/bin/cram3) 2505s Run-time dependency GTest found: YES 1.14.0 2505s Configuring group.fofn using configuration 2505s Configuring PbbamTestData.h using configuration 2505s Configuring synthetic_movie_all.subreadset.xml using configuration 2505s Configuring Bam2SamVersion.h using configuration 2505s Configuring bam2sam.t using configuration 2505s Configuring PbIndexVersion.h using configuration 2505s Configuring PbIndexDumpVersion.h using configuration 2505s Configuring pbindexdump_json.t using configuration 2505s Configuring pbindexdump_cpp.t using configuration 2505s Configuring PbMergeVersion.h using configuration 2505s Configuring pbmerge_pacbio_ordering.t using configuration 2505s Configuring pbmerge_aligned_ordering.t using configuration 2505s Configuring pbmerge_mixed_ordering.t using configuration 2505s Configuring pbmerge_dataset.t using configuration 2505s Configuring pbmerge_fofn.t using configuration 2505s Configuring PbBamifyVersion.h using configuration 2505s Program samtools found: YES (/usr/bin/samtools) 2505s Configuring pbbamify.t using configuration 2505s Configuring CcsKineticsBystrandifyVersion.h using configuration 2505s Build targets in project: 12 2505s 2505s PacBioBAM 2.4.0 2505s 2505s User defined options 2505s buildtype : plain 2505s libdir : lib/aarch64-linux-gnu 2505s localstatedir : /var 2505s prefix : /usr 2505s sysconfdir : /etc 2505s wrap_mode : nodownload 2505s python.bytecompile: -1 2505s 2505s Found ninja-1.11.1 at /usr/bin/ninja 2506s mkdir -p /tmp/autopkgtest.40Kcls/build.ZoQ/src/gendata 2506s python3 tests/scripts/generate_data.py /tmp/autopkgtest.40Kcls/build.ZoQ/src/tests/data /tmp/autopkgtest.40Kcls/build.ZoQ/src/gendata 2506s Generating test data in /tmp/autopkgtest.40Kcls/build.ZoQ/src/gendata 2506s - Creating file: truncated.bam...done. 2506s - Creating file: chunking_emptyfilters.subreadset.xml...done. 2506s - Creating file: chunking_missingfilters.subreadset.xml...done. 2506s - Creating file: normal.fa...done. 2506s - Creating file: normal.fq...done. 2506s - Creating symlink: aligned.bam...done. 2506s - Creating symlink: aligned.bam.bai...done. 2506s - Creating symlink: aligned.bam.pbi...done. 2506s - Creating symlink: aligned2.bam...done. 2506s - Creating symlink: aligned2.bam.bai...done. 2506s - Creating symlink: aligned2.bam.pbi...done. 2506s - Creating symlink: m150404_101626_42267_c100807920800000001823174110291514_s1_p0.1.subreads.bam...done. 2506s - Creating symlink: m150404_101626_42267_c100807920800000001823174110291514_s1_p0.1.subreads.bam.pbi...done. 2506s - Creating symlink: m150404_101626_42267_c100807920800000001823174110291514_s1_p0.2.subreads.bam...done. 2506s - Creating symlink: m150404_101626_42267_c100807920800000001823174110291514_s1_p0.2.subreads.bam.pbi...done. 2506s - Creating symlink: m150404_101626_42267_c100807920800000001823174110291514_s1_p0.3.subreads.bam...done. 2506s - Creating symlink: m150404_101626_42267_c100807920800000001823174110291514_s1_p0.3.subreads.bam.pbi...done. 2506s - Creating symlink: missing_pbi.bam...done. 2506s # Fix broken PATH 2507s synthetic_movie_all_path=`find $PWD -name synthetic_movie_all.subreadset.xml` ; \ 2507s sed -i -e "s?.GENERATEDDATADIR/synthetic_movie_all.subreadset.xml?${synthetic_movie_all_path}?" tests/src/cram/pbbamify* 2507s BINDIR=`dirname $(find $PWD -name pbmerge -type f -executable)`; \ 2507s LIBDIR=`find $PWD -name lib -type d`; \ 2507s PATH="$BINDIR:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin" LD_LIBRARY_PATH="$LIBDIR:" \ 2507s cram3 -v --preserve-env tests/src/cram/pbbamify.deb.t tests/src/cram/pbindexdump_cpp.deb.t tests/src/cram/pbindexdump_json.deb.t tests/src/cram/pbmerge_aligned_ordering.deb.t tests/src/cram/pbmerge_dataset.deb.t tests/src/cram/pbmerge_fofn.deb.t tests/src/cram/pbmerge_mixed_ordering.deb.t tests/src/cram/pbmerge_pacbio_ordering.deb.t 2507s dirname: missing operand 2507s Try 'dirname --help' for more information. 2510s tests/src/cram/pbbamify.deb.t: passed 2511s tests/src/cram/pbindexdump_cpp.deb.t: passed 2511s tests/src/cram/pbindexdump_json.deb.t: passed 2516s tests/src/cram/pbmerge_aligned_ordering.deb.t: passed 2519s tests/src/cram/pbmerge_dataset.deb.t: passed 2521s tests/src/cram/pbmerge_fofn.deb.t: passed 2522s tests/src/cram/pbmerge_mixed_ordering.deb.t: passed 2527s tests/src/cram/pbmerge_pacbio_ordering.deb.t: passed 2527s # Ran 8 tests, 0 skipped, 0 failed. 2529s autopkgtest [17:56:12]: test command1: -----------------------] 2531s command1 PASS 2531s autopkgtest [17:56:14]: test command1: - - - - - - - - - - results - - - - - - - - - - 2533s autopkgtest [17:56:16]: @@@@@@@@@@@@@@@@@@@@ summary 2533s command1 PASS 2574s Creating nova instance adt-noble-arm64-pbbam-20240316-171403-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-arm64-server-20240316.img (UUID 9d2e92bf-2787-45c2-ae22-99fb4bcc175e)...