1s autopkgtest [09:27:27]: starting date and time: 2024-03-23 09:27:27+0000 1s autopkgtest [09:27:27]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 1s autopkgtest [09:27:27]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.7xr003vz/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --setup-commands /home/ubuntu/autopkgtest/setup-commands/setup-testbed --apt-pocket=proposed=src:samtools,src:curl,src:gnutls28,src:htslib,src:libpsl,src:nettle,src:openssl --apt-upgrade flye --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=samtools/1.19.2-1build1 curl/8.5.0-2ubuntu7 gnutls28/3.8.3-1.1ubuntu2 htslib/1.19+ds-1.1build2 libpsl/0.21.2-1.1 nettle/3.9.1-2.2 openssl/3.0.13-0ubuntu2' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos02-s390x-3.secgroup --name adt-noble-s390x-flye-20240323-092726-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-s390x-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/ 130s autopkgtest [09:29:36]: testbed dpkg architecture: s390x 130s autopkgtest [09:29:36]: testbed apt version: 2.7.12 130s autopkgtest [09:29:36]: @@@@@@@@@@@@@@@@@@@@ test bed setup 131s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 131s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [494 kB] 131s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3972 kB] 132s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [56.9 kB] 132s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 132s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main s390x Packages [651 kB] 132s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main s390x c-n-f Metadata [3032 B] 132s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x Packages [1372 B] 132s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x c-n-f Metadata [116 B] 132s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x Packages [4148 kB] 132s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x c-n-f Metadata [7292 B] 132s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x Packages [46.8 kB] 132s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x c-n-f Metadata [116 B] 134s Fetched 9504 kB in 3s (3665 kB/s) 134s Reading package lists... 137s Reading package lists... 137s Building dependency tree... 137s Reading state information... 137s Calculating upgrade... 137s The following packages will be REMOVED: 137s libssl3 137s The following NEW packages will be installed: 137s libssl3t64 137s The following packages have been kept back: 137s curl 137s The following packages will be upgraded: 137s libbsd0 libc-bin libc6 locales openssl 138s 5 upgraded, 1 newly installed, 1 to remove and 1 not upgraded. 138s Need to get 10.5 MB of archives. 138s After this operation, 241 kB of additional disk space will be used. 138s Get:1 http://ftpmaster.internal/ubuntu noble/main s390x libc6 s390x 2.39-0ubuntu6 [2847 kB] 138s Get:2 http://ftpmaster.internal/ubuntu noble/main s390x libc-bin s390x 2.39-0ubuntu6 [654 kB] 138s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main s390x openssl s390x 3.0.13-0ubuntu2 [1010 kB] 138s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libssl3t64 s390x 3.0.13-0ubuntu2 [1675 kB] 138s Get:5 http://ftpmaster.internal/ubuntu noble/main s390x libbsd0 s390x 0.12.1-1 [46.7 kB] 138s Get:6 http://ftpmaster.internal/ubuntu noble/main s390x locales all 2.39-0ubuntu6 [4232 kB] 139s Preconfiguring packages ... 139s Fetched 10.5 MB in 1s (10.1 MB/s) 139s (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 ... 52170 files and directories currently installed.) 139s Preparing to unpack .../libc6_2.39-0ubuntu6_s390x.deb ... 139s Unpacking libc6:s390x (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 139s Setting up libc6:s390x (2.39-0ubuntu6) ... 140s (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 ... 52170 files and directories currently installed.) 140s Preparing to unpack .../libc-bin_2.39-0ubuntu6_s390x.deb ... 140s Unpacking libc-bin (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 140s Setting up libc-bin (2.39-0ubuntu6) ... 140s (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 ... 52170 files and directories currently installed.) 140s Preparing to unpack .../openssl_3.0.13-0ubuntu2_s390x.deb ... 140s Unpacking openssl (3.0.13-0ubuntu2) over (3.0.10-1ubuntu4) ... 140s dpkg: libssl3:s390x: dependency problems, but removing anyway as you requested: 140s wget depends on libssl3 (>= 3.0.0). 140s tnftp depends on libssl3 (>= 3.0.0). 140s tcpdump depends on libssl3 (>= 3.0.0). 140s systemd-resolved depends on libssl3 (>= 3.0.0). 140s systemd depends on libssl3 (>= 3.0.0). 140s sudo depends on libssl3 (>= 3.0.0). 140s s390-tools depends on libssl3 (>= 3.0.0). 140s rsync depends on libssl3 (>= 3.0.0). 140s python3-cryptography depends on libssl3 (>= 3.0.0). 140s openssh-server depends on libssl3 (>= 3.0.10). 140s openssh-client depends on libssl3 (>= 3.0.10). 140s linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0). 140s libsystemd-shared:s390x depends on libssl3 (>= 3.0.0). 140s libssh-4:s390x depends on libssl3 (>= 3.0.0). 140s libsasl2-modules:s390x depends on libssl3 (>= 3.0.0). 140s libsasl2-2:s390x depends on libssl3 (>= 3.0.0). 140s libpython3.12-minimal:s390x depends on libssl3 (>= 3.0.0). 140s libpython3.11-minimal:s390x depends on libssl3 (>= 3.0.0). 140s libnvme1 depends on libssl3 (>= 3.0.0). 140s libkrb5-3:s390x depends on libssl3 (>= 3.0.0). 140s libkmod2:s390x depends on libssl3 (>= 3.0.0). 140s libfido2-1:s390x depends on libssl3 (>= 3.0.0). 140s libcurl4:s390x depends on libssl3 (>= 3.0.0). 140s libcryptsetup12:s390x depends on libssl3 (>= 3.0.0). 140s kmod depends on libssl3 (>= 3.0.0). 140s dhcpcd-base depends on libssl3 (>= 3.0.0). 140s bind9-libs:s390x depends on libssl3 (>= 3.0.0). 140s 140s (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 ... 52170 files and directories currently installed.) 140s Removing libssl3:s390x (3.0.10-1ubuntu4) ... 140s Selecting previously unselected package libssl3t64:s390x. 140s (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 ... 52159 files and directories currently installed.) 140s Preparing to unpack .../libssl3t64_3.0.13-0ubuntu2_s390x.deb ... 140s Unpacking libssl3t64:s390x (3.0.13-0ubuntu2) ... 140s Preparing to unpack .../libbsd0_0.12.1-1_s390x.deb ... 140s Unpacking libbsd0:s390x (0.12.1-1) over (0.11.8-1) ... 140s Preparing to unpack .../locales_2.39-0ubuntu6_all.deb ... 140s Unpacking locales (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 140s Setting up libssl3t64:s390x (3.0.13-0ubuntu2) ... 140s Setting up locales (2.39-0ubuntu6) ... 141s Generating locales (this might take a while)... 142s en_US.UTF-8... done 142s Generation complete. 142s Setting up openssl (3.0.13-0ubuntu2) ... 142s Setting up libbsd0:s390x (0.12.1-1) ... 142s Processing triggers for man-db (2.12.0-3) ... 143s Processing triggers for libc-bin (2.39-0ubuntu6) ... 143s Reading package lists... 143s Building dependency tree... 143s Reading state information... 143s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded. 144s Unknown architecture, assuming PC-style ttyS0 144s sh: Attempting to set up Debian/Ubuntu apt sources automatically 144s sh: Distribution appears to be Ubuntu 145s Reading package lists... 145s Building dependency tree... 145s Reading state information... 145s eatmydata is already the newest version (131-1). 145s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 145s Reading package lists... 145s Building dependency tree... 145s Reading state information... 145s dbus is already the newest version (1.14.10-4ubuntu1). 145s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 145s Reading package lists... 145s Building dependency tree... 145s Reading state information... 146s rng-tools-debian is already the newest version (2.4). 146s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 146s Reading package lists... 146s Building dependency tree... 146s Reading state information... 146s The following packages will be REMOVED: 146s cloud-init* python3-configobj* python3-debconf* 146s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 146s After this operation, 3256 kB disk space will be freed. 146s (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 ... 52172 files and directories currently installed.) 146s Removing cloud-init (24.1.2-0ubuntu1) ... 147s Removing python3-configobj (5.0.8-3) ... 147s Removing python3-debconf (1.5.86) ... 147s Processing triggers for man-db (2.12.0-3) ... 147s (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 ... 51783 files and directories currently installed.) 147s Purging configuration files for cloud-init (24.1.2-0ubuntu1) ... 147s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed 147s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 148s invoke-rc.d: policy-rc.d denied execution of try-restart. 148s Reading package lists... 148s Building dependency tree... 148s Reading state information... 148s linux-generic is already the newest version (6.8.0-11.11+1). 148s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 148s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 148s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 149s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 150s Reading package lists... 150s Reading package lists... 150s Building dependency tree... 150s Reading state information... 150s Calculating upgrade... 151s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 151s Reading package lists... 151s Building dependency tree... 151s Reading state information... 151s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 151s autopkgtest [09:29:57]: rebooting testbed after setup commands that affected boot 167s autopkgtest [09:30:13]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP Tue Feb 13 23:45:46 UTC 2024 169s autopkgtest [09:30:15]: @@@@@@@@@@@@@@@@@@@@ apt-source flye 172s Get:1 http://ftpmaster.internal/ubuntu noble/universe flye 2.9.3+dfsg2-1 (dsc) [2110 B] 172s Get:2 http://ftpmaster.internal/ubuntu noble/universe flye 2.9.3+dfsg2-1 (tar) [22.8 MB] 172s Get:3 http://ftpmaster.internal/ubuntu noble/universe flye 2.9.3+dfsg2-1 (diff) [14.4 kB] 172s gpgv: Signature made Fri Feb 2 13:53:41 2024 UTC 172s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 172s gpgv: issuer "tille@debian.org" 172s gpgv: Can't check signature: No public key 172s dpkg-source: warning: cannot verify inline signature for ./flye_2.9.3+dfsg2-1.dsc: no acceptable signature found 173s autopkgtest [09:30:19]: testing package flye version 2.9.3+dfsg2-1 173s autopkgtest [09:30:19]: build not needed 178s autopkgtest [09:30:24]: test run-unit-test: preparing testbed 182s Reading package lists... 182s Building dependency tree... 182s Reading state information... 182s Starting pkgProblemResolver with broken count: 0 182s Starting 2 pkgProblemResolver with broken count: 0 182s Done 182s The following additional packages will be installed: 182s flye libdeflate0 libhts3 libhtscodecs2 minimap2 samtools 182s Suggested packages: 182s cwltool 182s The following NEW packages will be installed: 182s autopkgtest-satdep flye libdeflate0 libhts3 libhtscodecs2 minimap2 samtools 182s 0 upgraded, 7 newly installed, 0 to remove and 0 not upgraded. 182s Need to get 24.9 MB/24.9 MB of archives. 182s After this operation, 40.8 MB of additional disk space will be used. 182s Get:1 /tmp/autopkgtest.GMTlhM/1-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [704 B] 182s Get:2 http://ftpmaster.internal/ubuntu noble/universe s390x minimap2 s390x 2.24+dfsg-3build2 [396 kB] 183s Get:3 http://ftpmaster.internal/ubuntu noble/main s390x libdeflate0 s390x 1.19-1 [46.0 kB] 183s Get:4 http://ftpmaster.internal/ubuntu noble/universe s390x libhtscodecs2 s390x 1.6.0-1 [87.2 kB] 183s Get:5 http://ftpmaster.internal/ubuntu noble/universe s390x libhts3 s390x 1.18+ds-1 [463 kB] 183s Get:6 http://ftpmaster.internal/ubuntu noble/universe s390x samtools s390x 1.19.2-1 [613 kB] 183s Get:7 http://ftpmaster.internal/ubuntu noble/universe s390x flye s390x 2.9.3+dfsg2-1 [23.3 MB] 184s Fetched 24.9 MB in 2s (14.9 MB/s) 184s Selecting previously unselected package minimap2. 184s (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 ... 51728 files and directories currently installed.) 184s Preparing to unpack .../0-minimap2_2.24+dfsg-3build2_s390x.deb ... 184s Unpacking minimap2 (2.24+dfsg-3build2) ... 184s Selecting previously unselected package libdeflate0:s390x. 184s Preparing to unpack .../1-libdeflate0_1.19-1_s390x.deb ... 184s Unpacking libdeflate0:s390x (1.19-1) ... 184s Selecting previously unselected package libhtscodecs2:s390x. 184s Preparing to unpack .../2-libhtscodecs2_1.6.0-1_s390x.deb ... 184s Unpacking libhtscodecs2:s390x (1.6.0-1) ... 184s Selecting previously unselected package libhts3:s390x. 184s Preparing to unpack .../3-libhts3_1.18+ds-1_s390x.deb ... 184s Unpacking libhts3:s390x (1.18+ds-1) ... 184s Selecting previously unselected package samtools. 184s Preparing to unpack .../4-samtools_1.19.2-1_s390x.deb ... 184s Unpacking samtools (1.19.2-1) ... 184s Selecting previously unselected package flye. 184s Preparing to unpack .../5-flye_2.9.3+dfsg2-1_s390x.deb ... 184s Unpacking flye (2.9.3+dfsg2-1) ... 185s Selecting previously unselected package autopkgtest-satdep. 185s Preparing to unpack .../6-1-autopkgtest-satdep.deb ... 185s Unpacking autopkgtest-satdep (0) ... 185s Setting up libhtscodecs2:s390x (1.6.0-1) ... 185s Setting up minimap2 (2.24+dfsg-3build2) ... 185s Setting up libdeflate0:s390x (1.19-1) ... 185s Setting up libhts3:s390x (1.18+ds-1) ... 185s Setting up samtools (1.19.2-1) ... 185s Setting up flye (2.9.3+dfsg2-1) ... 185s Setting up autopkgtest-satdep (0) ... 185s Processing triggers for man-db (2.12.0-3) ... 185s Processing triggers for libc-bin (2.39-0ubuntu6) ... 187s (Reading database ... 51933 files and directories currently installed.) 187s Removing autopkgtest-satdep (0) ... 188s autopkgtest [09:30:34]: test run-unit-test: [----------------------- 188s usage: flye (--pacbio-raw | --pacbio-corr | --pacbio-hifi | --nano-raw | 188s --nano-corr | --nano-hq ) file1 [file_2 ...] 188s --out-dir PATH 188s 188s [--genome-size SIZE] [--threads int] [--iterations int] 188s [--meta] [--polish-target] [--min-overlap SIZE] 188s [--keep-haplotypes] [--debug] [--version] [--help] 188s [--scaffold] [--resume] [--resume-from] [--stop-after] 188s [--read-error float] [--extra-params] 188s [--deterministic] 188s 188s Assembly of long reads with repeat graphs 188s 188s options: 188s -h, --help show this help message and exit 188s --pacbio-raw path [path ...] 188s PacBio regular CLR reads (<20% error) 188s --pacbio-corr path [path ...] 188s PacBio reads that were corrected with other methods 188s (<3% error) 188s --pacbio-hifi path [path ...] 188s PacBio HiFi reads (<1% error) 188s --nano-raw path [path ...] 188s ONT regular reads, pre-Guppy5 (<20% error) 188s --nano-corr path [path ...] 188s ONT reads that were corrected with other methods (<3% 188s error) 188s --nano-hq path [path ...] 188s ONT high-quality reads: Guppy5+ SUP or Q20 (<5% error) 188s --subassemblies path [path ...] 188s [deprecated] high-quality contigs input 188s -g size, --genome-size size 188s estimated genome size (for example, 5m or 2.6g) 188s -o path, --out-dir path 188s Output directory 188s -t int, --threads int 188s number of parallel threads [1] 188s -i int, --iterations int 188s number of polishing iterations [1] 188s -m int, --min-overlap int 188s minimum overlap between reads [auto] 188s --asm-coverage int reduced coverage for initial disjointig assembly [not 188s set] 188s --hifi-error float [deprecated] same as --read-error 188s --read-error float adjust parameters for given read error rate (as 188s fraction e.g. 0.03) 188s --extra-params extra_params 188s extra configuration parameters list (comma-separated) 188s --plasmids unused (retained for backward compatibility) 188s --meta metagenome / uneven coverage mode 188s --keep-haplotypes do not collapse alternative haplotypes 188s --no-alt-contigs do not output contigs representing alternative 188s haplotypes 188s --scaffold enable scaffolding using graph [disabled by default] 188s --trestle [deprecated] enable Trestle [disabled by default] 188s --polish-target path run polisher on the target sequence 188s --resume resume from the last completed stage 188s --resume-from stage_name 188s resume from a custom stage 188s --stop-after stage_name 188s stop after the specified stage completed 188s --debug enable debug output 188s -v, --version show program's version number and exit 188s --deterministic perform disjointig assembly single-threaded 188s 188s Input reads can be in FASTA or FASTQ format, uncompressed 188s or compressed with gz. Currently, PacBio (CLR, HiFi, corrected) 188s and ONT reads (regular, HQ, corrected) are supported. Expected error rates are 188s <15% for PB CLR/regular ONT; <5% for ONT HQ, <3% for corrected, and <1% for HiFi. Note that Flye 188s was primarily developed to run on uncorrected reads. You may specify multiple 188s files with reads (separated by spaces). Mixing different read 188s types is not yet supported. The --meta option enables the mode 188s for metagenome/uneven coverage assembly. 188s 188s To reduce memory consumption for large genome assemblies, 188s you can use a subset of the longest reads for initial disjointig 188s assembly by specifying --asm-coverage and --genome-size options. Typically, 188s 40x coverage is enough to produce good disjointigs. 188s 188s You can run Flye polisher as a standalone tool using 188s --polish-target option. 188s Test is downloading large databases. Set "REALLYRUNTEST=yes" to run this test 188s autopkgtest [09:30:34]: test run-unit-test: -----------------------] 189s run-unit-test PASS 189s autopkgtest [09:30:35]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 189s autopkgtest [09:30:35]: @@@@@@@@@@@@@@@@@@@@ summary 189s run-unit-test PASS 200s Creating nova instance adt-noble-s390x-flye-20240323-092726-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-s390x-server-20240322.img (UUID c8671f9a-0e89-48e3-af4f-3c79b89294e8)...