0s autopkgtest [19:37:28]: starting date and time: 2024-04-02 19:37:28+0000 0s autopkgtest [19:37:28]: git checkout: 31124158 autopkgtest: take Paride's WIP change regarding wrong src pkg selection 0s autopkgtest [19:37:28]: host juju-7f2275-prod-proposed-migration-environment-3; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.x_r3vva8/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:shapeit4 --apt-upgrade shapeit4 --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=shapeit4/4.2.2+dfsg-1build3 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-3@bos02-ppc64el-19.secgroup --name adt-noble-ppc64el-shapeit4-20240402-193727-juju-7f2275-prod-proposed-migration-environment-3-4e24f3c6-6f04-42d1-b1bc-3f73c8ffcfa3 --image adt/ubuntu-noble-ppc64el-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-3 --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/ 138s autopkgtest [19:39:46]: testbed dpkg architecture: ppc64el 138s autopkgtest [19:39:46]: testbed apt version: 2.7.14 138s autopkgtest [19:39:46]: @@@@@@@@@@@@@@@@@@@@ test bed setup 139s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 140s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [469 kB] 140s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3883 kB] 142s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [7348 B] 142s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [61.8 kB] 142s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el Packages [654 kB] 142s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el c-n-f Metadata [3116 B] 142s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el Packages [1192 B] 142s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el c-n-f Metadata [116 B] 142s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el Packages [3962 kB] 143s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el c-n-f Metadata [8652 B] 143s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el Packages [30.7 kB] 143s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el c-n-f Metadata [116 B] 147s Fetched 9198 kB in 5s (2019 kB/s) 147s Reading package lists... 150s Reading package lists... 151s Building dependency tree... 151s Reading state information... 151s Calculating upgrade... 151s The following packages will be upgraded: 151s dash ftp kbd libmbim-glib4 libmbim-proxy libnewt0.52 libpipeline1 151s libprotobuf-c1 libreiserfscore0t64 librtmp1 libsensors-config libsensors5 151s libtext-charwidth-perl libvolume-key1 python3-newt python3-pyrsistent tnftp 151s ubuntu-kernel-accessories ubuntu-minimal ubuntu-standard whiptail 151s 21 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 151s Need to get 1236 kB of archives. 151s After this operation, 70.7 kB disk space will be freed. 151s Get:1 http://ftpmaster.internal/ubuntu noble/main ppc64el dash ppc64el 0.5.12-6ubuntu5 [108 kB] 152s Get:2 http://ftpmaster.internal/ubuntu noble/main ppc64el kbd ppc64el 2.6.4-2ubuntu2 [245 kB] 152s Get:3 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-newt ppc64el 0.52.24-2ubuntu2 [21.9 kB] 152s Get:4 http://ftpmaster.internal/ubuntu noble/main ppc64el libnewt0.52 ppc64el 0.52.24-2ubuntu2 [61.9 kB] 152s Get:5 http://ftpmaster.internal/ubuntu noble/main ppc64el libtext-charwidth-perl ppc64el 0.04-11build3 [9536 B] 152s Get:6 http://ftpmaster.internal/ubuntu noble/main ppc64el whiptail ppc64el 0.52.24-2ubuntu2 [19.7 kB] 152s Get:7 http://ftpmaster.internal/ubuntu noble/main ppc64el ubuntu-minimal ppc64el 1.538build1 [10.9 kB] 152s Get:8 http://ftpmaster.internal/ubuntu noble/main ppc64el tnftp ppc64el 20230507-2build2 [116 kB] 152s Get:9 http://ftpmaster.internal/ubuntu noble/main ppc64el ftp all 20230507-2build2 [4724 B] 152s Get:10 http://ftpmaster.internal/ubuntu noble/main ppc64el libpipeline1 ppc64el 1.5.7-2 [26.9 kB] 152s Get:11 http://ftpmaster.internal/ubuntu noble/main ppc64el ubuntu-standard ppc64el 1.538build1 [10.9 kB] 152s Get:12 http://ftpmaster.internal/ubuntu noble/main ppc64el libmbim-proxy ppc64el 1.31.2-0ubuntu3 [6290 B] 152s Get:13 http://ftpmaster.internal/ubuntu noble/main ppc64el libmbim-glib4 ppc64el 1.31.2-0ubuntu3 [254 kB] 152s Get:14 http://ftpmaster.internal/ubuntu noble/main ppc64el libprotobuf-c1 ppc64el 1.4.1-1ubuntu4 [26.0 kB] 152s Get:15 http://ftpmaster.internal/ubuntu noble/main ppc64el libreiserfscore0t64 ppc64el 1:3.6.27-7.1build1 [92.8 kB] 152s Get:16 http://ftpmaster.internal/ubuntu noble/main ppc64el librtmp1 ppc64el 2.4+20151223.gitfa8646d.1-2build7 [64.4 kB] 152s Get:17 http://ftpmaster.internal/ubuntu noble/main ppc64el libsensors-config all 1:3.6.0-9build1 [5546 B] 152s Get:18 http://ftpmaster.internal/ubuntu noble/main ppc64el libsensors5 ppc64el 1:3.6.0-9build1 [32.4 kB] 152s Get:19 http://ftpmaster.internal/ubuntu noble/main ppc64el libvolume-key1 ppc64el 0.3.12-7build2 [47.9 kB] 152s Get:20 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-pyrsistent ppc64el 0.20.0-1build2 [60.4 kB] 152s Get:21 http://ftpmaster.internal/ubuntu noble/main ppc64el ubuntu-kernel-accessories ppc64el 1.538build1 [10.7 kB] 152s Fetched 1236 kB in 1s (1765 kB/s) 152s (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 ... 103426 files and directories currently installed.) 152s Preparing to unpack .../dash_0.5.12-6ubuntu5_ppc64el.deb ... 152s Unpacking dash (0.5.12-6ubuntu5) over (0.5.12-6ubuntu4) ... 152s Setting up dash (0.5.12-6ubuntu5) ... 153s (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 ... 103426 files and directories currently installed.) 153s Preparing to unpack .../00-kbd_2.6.4-2ubuntu2_ppc64el.deb ... 153s Unpacking kbd (2.6.4-2ubuntu2) over (2.6.4-2ubuntu1) ... 153s Preparing to unpack .../01-python3-newt_0.52.24-2ubuntu2_ppc64el.deb ... 153s Unpacking python3-newt:ppc64el (0.52.24-2ubuntu2) over (0.52.24-2ubuntu1) ... 153s Preparing to unpack .../02-libnewt0.52_0.52.24-2ubuntu2_ppc64el.deb ... 153s Unpacking libnewt0.52:ppc64el (0.52.24-2ubuntu2) over (0.52.24-2ubuntu1) ... 153s Preparing to unpack .../03-libtext-charwidth-perl_0.04-11build3_ppc64el.deb ... 153s Unpacking libtext-charwidth-perl:ppc64el (0.04-11build3) over (0.04-11build2) ... 153s Preparing to unpack .../04-whiptail_0.52.24-2ubuntu2_ppc64el.deb ... 153s Unpacking whiptail (0.52.24-2ubuntu2) over (0.52.24-2ubuntu1) ... 153s Preparing to unpack .../05-ubuntu-minimal_1.538build1_ppc64el.deb ... 153s Unpacking ubuntu-minimal (1.538build1) over (1.538) ... 153s Preparing to unpack .../06-tnftp_20230507-2build2_ppc64el.deb ... 153s Unpacking tnftp (20230507-2build2) over (20230507-2build1) ... 153s Preparing to unpack .../07-ftp_20230507-2build2_all.deb ... 153s Unpacking ftp (20230507-2build2) over (20230507-2build1) ... 153s Preparing to unpack .../08-libpipeline1_1.5.7-2_ppc64el.deb ... 153s Unpacking libpipeline1:ppc64el (1.5.7-2) over (1.5.7-1) ... 153s Preparing to unpack .../09-ubuntu-standard_1.538build1_ppc64el.deb ... 153s Unpacking ubuntu-standard (1.538build1) over (1.538) ... 153s Preparing to unpack .../10-libmbim-proxy_1.31.2-0ubuntu3_ppc64el.deb ... 153s Unpacking libmbim-proxy (1.31.2-0ubuntu3) over (1.31.2-0ubuntu2) ... 153s Preparing to unpack .../11-libmbim-glib4_1.31.2-0ubuntu3_ppc64el.deb ... 153s Unpacking libmbim-glib4:ppc64el (1.31.2-0ubuntu3) over (1.31.2-0ubuntu2) ... 153s Preparing to unpack .../12-libprotobuf-c1_1.4.1-1ubuntu4_ppc64el.deb ... 153s Unpacking libprotobuf-c1:ppc64el (1.4.1-1ubuntu4) over (1.4.1-1ubuntu3) ... 153s Preparing to unpack .../13-libreiserfscore0t64_1%3a3.6.27-7.1build1_ppc64el.deb ... 153s Unpacking libreiserfscore0t64 (1:3.6.27-7.1build1) over (1:3.6.27-7.1) ... 153s Preparing to unpack .../14-librtmp1_2.4+20151223.gitfa8646d.1-2build7_ppc64el.deb ... 153s Unpacking librtmp1:ppc64el (2.4+20151223.gitfa8646d.1-2build7) over (2.4+20151223.gitfa8646d.1-2build6) ... 153s Preparing to unpack .../15-libsensors-config_1%3a3.6.0-9build1_all.deb ... 153s Unpacking libsensors-config (1:3.6.0-9build1) over (1:3.6.0-9) ... 153s Preparing to unpack .../16-libsensors5_1%3a3.6.0-9build1_ppc64el.deb ... 153s Unpacking libsensors5:ppc64el (1:3.6.0-9build1) over (1:3.6.0-9) ... 153s Preparing to unpack .../17-libvolume-key1_0.3.12-7build2_ppc64el.deb ... 153s Unpacking libvolume-key1:ppc64el (0.3.12-7build2) over (0.3.12-7build1) ... 153s Preparing to unpack .../18-python3-pyrsistent_0.20.0-1build2_ppc64el.deb ... 153s Unpacking python3-pyrsistent:ppc64el (0.20.0-1build2) over (0.20.0-1) ... 153s Preparing to unpack .../19-ubuntu-kernel-accessories_1.538build1_ppc64el.deb ... 153s Unpacking ubuntu-kernel-accessories (1.538build1) over (1.538) ... 153s Setting up libpipeline1:ppc64el (1.5.7-2) ... 153s Setting up libtext-charwidth-perl:ppc64el (0.04-11build3) ... 153s Setting up ubuntu-kernel-accessories (1.538build1) ... 153s Setting up libnewt0.52:ppc64el (0.52.24-2ubuntu2) ... 153s Setting up libsensors-config (1:3.6.0-9build1) ... 153s Setting up libreiserfscore0t64 (1:3.6.27-7.1build1) ... 153s Setting up python3-newt:ppc64el (0.52.24-2ubuntu2) ... 154s Setting up libprotobuf-c1:ppc64el (1.4.1-1ubuntu4) ... 154s Setting up librtmp1:ppc64el (2.4+20151223.gitfa8646d.1-2build7) ... 154s Setting up libsensors5:ppc64el (1:3.6.0-9build1) ... 154s Setting up python3-pyrsistent:ppc64el (0.20.0-1build2) ... 154s Setting up whiptail (0.52.24-2ubuntu2) ... 154s Setting up kbd (2.6.4-2ubuntu2) ... 154s Setting up libvolume-key1:ppc64el (0.3.12-7build2) ... 154s Setting up tnftp (20230507-2build2) ... 154s Setting up libmbim-glib4:ppc64el (1.31.2-0ubuntu3) ... 154s Setting up ubuntu-minimal (1.538build1) ... 154s Setting up libmbim-proxy (1.31.2-0ubuntu3) ... 154s Setting up ubuntu-standard (1.538build1) ... 154s Setting up ftp (20230507-2build2) ... 154s Processing triggers for initramfs-tools (0.142ubuntu23) ... 154s update-initramfs: Generating /boot/initrd.img-6.8.0-20-generic 154s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 162s Processing triggers for libc-bin (2.39-0ubuntu6) ... 162s Processing triggers for man-db (2.12.0-3build4) ... 163s Processing triggers for debianutils (5.17) ... 164s Reading package lists... 164s Building dependency tree... 164s Reading state information... 164s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 165s Hit:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease 165s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease 165s Hit:3 http://ftpmaster.internal/ubuntu noble-updates InRelease 165s Hit:4 http://ftpmaster.internal/ubuntu noble-security InRelease 167s Reading package lists... 167s Reading package lists... 167s Building dependency tree... 167s Reading state information... 167s Calculating upgrade... 167s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 167s Reading package lists... 168s Building dependency tree... 168s Reading state information... 168s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 168s autopkgtest [19:40:16]: rebooting testbed after setup commands that affected boot 349s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds... 364s autopkgtest [19:43:32]: testbed running kernel: Linux 6.8.0-20-generic #20-Ubuntu SMP Mon Mar 18 11:46:05 UTC 2024 367s autopkgtest [19:43:35]: @@@@@@@@@@@@@@@@@@@@ apt-source shapeit4 373s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/universe shapeit4 4.2.2+dfsg-1build3 (dsc) [2237 B] 373s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/universe shapeit4 4.2.2+dfsg-1build3 (tar) [59.0 MB] 373s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe shapeit4 4.2.2+dfsg-1build3 (diff) [5424 B] 373s gpgv: Signature made Mon Apr 1 08:00:11 2024 UTC 373s gpgv: using RSA key A089FB36AAFBDAD5ACC1325069F790171A210984 373s gpgv: Can't check signature: No public key 373s dpkg-source: warning: cannot verify inline signature for ./shapeit4_4.2.2+dfsg-1build3.dsc: no acceptable signature found 375s autopkgtest [19:43:43]: testing package shapeit4 version 4.2.2+dfsg-1build3 375s autopkgtest [19:43:43]: build not needed 389s autopkgtest [19:43:57]: test run-sample-analysis: preparing testbed 392s Reading package lists... 392s Building dependency tree... 392s Reading state information... 392s Starting pkgProblemResolver with broken count: 0 393s Starting 2 pkgProblemResolver with broken count: 0 393s Done 393s The following additional packages will be installed: 393s libboost-iostreams1.83.0 libboost-program-options1.83.0 libhts3t64 393s libhtscodecs2 shapeit4 shapeit4-example 393s The following NEW packages will be installed: 393s autopkgtest-satdep libboost-iostreams1.83.0 libboost-program-options1.83.0 393s libhts3t64 libhtscodecs2 shapeit4 shapeit4-example 393s 0 upgraded, 7 newly installed, 0 to remove and 0 not upgraded. 393s Need to get 53.9 MB/53.9 MB of archives. 393s After this operation, 59.8 MB of additional disk space will be used. 393s Get:1 /tmp/autopkgtest.Egwraj/1-autopkgtest-satdep.deb autopkgtest-satdep ppc64el 0 [712 B] 393s Get:2 http://ftpmaster.internal/ubuntu noble/main ppc64el libboost-iostreams1.83.0 ppc64el 1.83.0-2ubuntu1 [340 kB] 394s Get:3 http://ftpmaster.internal/ubuntu noble/main ppc64el libboost-program-options1.83.0 ppc64el 1.83.0-2ubuntu1 [421 kB] 394s Get:4 http://ftpmaster.internal/ubuntu noble/universe ppc64el libhtscodecs2 ppc64el 1.6.0-1 [110 kB] 394s Get:5 http://ftpmaster.internal/ubuntu noble/universe ppc64el libhts3t64 ppc64el 1.19+ds-1.1build2 [569 kB] 394s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el shapeit4 ppc64el 4.2.2+dfsg-1build3 [188 kB] 394s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el shapeit4-example all 4.2.2+dfsg-1build3 [52.3 MB] 397s Fetched 53.9 MB in 4s (13.0 MB/s) 397s Selecting previously unselected package libboost-iostreams1.83.0:ppc64el. 397s (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 ... 103425 files and directories currently installed.) 397s Preparing to unpack .../0-libboost-iostreams1.83.0_1.83.0-2ubuntu1_ppc64el.deb ... 397s Unpacking libboost-iostreams1.83.0:ppc64el (1.83.0-2ubuntu1) ... 397s Selecting previously unselected package libboost-program-options1.83.0:ppc64el. 397s Preparing to unpack .../1-libboost-program-options1.83.0_1.83.0-2ubuntu1_ppc64el.deb ... 397s Unpacking libboost-program-options1.83.0:ppc64el (1.83.0-2ubuntu1) ... 397s Selecting previously unselected package libhtscodecs2:ppc64el. 398s Preparing to unpack .../2-libhtscodecs2_1.6.0-1_ppc64el.deb ... 398s Unpacking libhtscodecs2:ppc64el (1.6.0-1) ... 398s Selecting previously unselected package libhts3t64:ppc64el. 398s Preparing to unpack .../3-libhts3t64_1.19+ds-1.1build2_ppc64el.deb ... 398s Unpacking libhts3t64:ppc64el (1.19+ds-1.1build2) ... 398s Selecting previously unselected package shapeit4. 398s Preparing to unpack .../4-shapeit4_4.2.2+dfsg-1build3_ppc64el.deb ... 398s Unpacking shapeit4 (4.2.2+dfsg-1build3) ... 398s Selecting previously unselected package shapeit4-example. 398s Preparing to unpack .../5-shapeit4-example_4.2.2+dfsg-1build3_all.deb ... 398s Unpacking shapeit4-example (4.2.2+dfsg-1build3) ... 398s Selecting previously unselected package autopkgtest-satdep. 398s Preparing to unpack .../6-1-autopkgtest-satdep.deb ... 398s Unpacking autopkgtest-satdep (0) ... 398s Setting up libhtscodecs2:ppc64el (1.6.0-1) ... 398s Setting up libboost-program-options1.83.0:ppc64el (1.83.0-2ubuntu1) ... 398s Setting up shapeit4-example (4.2.2+dfsg-1build3) ... 398s Setting up libboost-iostreams1.83.0:ppc64el (1.83.0-2ubuntu1) ... 398s Setting up libhts3t64:ppc64el (1.19+ds-1.1build2) ... 398s Setting up shapeit4 (4.2.2+dfsg-1build3) ... 398s Setting up autopkgtest-satdep (0) ... 398s Processing triggers for man-db (2.12.0-3build4) ... 400s Processing triggers for libc-bin (2.39-0ubuntu6) ... 403s (Reading database ... 103484 files and directories currently installed.) 403s Removing autopkgtest-satdep (0) ... 404s autopkgtest [19:44:12]: test run-sample-analysis: [----------------------- 404s 404s SHAPEIT 404s * Author : Olivier DELANEAU, University of Lausanne 404s * Contact : olivier.delaneau@gmail.com 404s * Version : 4.2.2 404s * Run date : 02/04/2024 - 19:44:12 404s 404s Files: 404s * Input VCF : [unphased.vcf.gz] 404s * Genetic Map : [chr20.b37.gmap.gz] 404s * Output VCF : [phased.vcf.gz] 404s 404s Parameters: 404s * Seed : 15052011 404s * Threads : 4 threads 404s * MCMC : 15 iterations [5b + 1p + 1b + 1p + 1b + 1p + 5m] 404s * PBWT : Depth of PBWT neighbours to condition on: 4 404s * PBWT : Store indexes at variants [MAC>=2 / MDR<=0.5 / Dist=0.02 cM] 404s * HMM : K is variable / min W is 2.50cM / Ne is 15000 404s * HMM : Recombination rates given by genetic map 404s * HMM : AVX2 optimization inactive / Activating AVX2 substantially improves performance 404s 404s Initialization: 404s * VCF/BCF scanning ... + shapeit4 --input unphased.vcf.gz --map chr20.b37.gmap.gz --region 20:2000000-3000000 --thread 4 --output phased.vcf.gz 404s * VCF/BCF scanning [N=203 / L=8651 / Reg=20:2000000-3000000] (0.09s) 404s * VCF/BCF parsing [0%] * VCF/BCF parsing [1%] * VCF/BCF parsing [2%] * VCF/BCF parsing [3%] * VCF/BCF parsing [4%] * VCF/BCF parsing [5%] * VCF/BCF parsing [6%] * VCF/BCF parsing [7%] * VCF/BCF parsing [8%] * VCF/BCF parsing [9%] * VCF/BCF parsing [10%] * VCF/BCF parsing 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VCF/BCF parsing [95%] * VCF/BCF parsing [96%] * VCF/BCF parsing [97%] * VCF/BCF parsing [98%] * VCF/BCF parsing [99%] * VCF/BCF parsing [100%] * VCF/BCF parsing [Hom=89.3% / Het=10.7% / Mis=0.0%] (0.14s) 404s * GMAP parsing [n=82962] (0.07s) 404s * cM interpolation [s=1236 / i=7415] (0.00s) 404s * Region length [999850 bp / 2.5 cM] 404s * HMM parameters [Ne=15000 / Error=0.0001 / #rare=2243] 404s * PBWT indexing [l=120] (0.00s) 404s * HAP update (0.01s) 404s * H2V transpose (0.00s) 404s * PBWT phase sweep [0%] * PBWT phase sweep [1%] * PBWT phase sweep [2%] * PBWT phase sweep [3%] * PBWT phase sweep [4%] * PBWT phase sweep [5%] * PBWT phase sweep [6%] * PBWT phase sweep [7%] * PBWT phase sweep [8%] * PBWT phase sweep [9%] * PBWT phase sweep [10%] * PBWT phase sweep [11%] * PBWT phase sweep [12%] * PBWT phase sweep [13%] * PBWT phase sweep [14%] * PBWT phase sweep [15%] * PBWT phase sweep [16%] * PBWT phase sweep [17%] * PBWT phase sweep [18%] * PBWT phase sweep [19%] * PBWT phase sweep 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selection [99%] * PBWT selection [100%] * PBWT selection (0.02s) 418s * C2H transpose (0.00s) 421s * HMM computations [0%] * HMM computations [1%] * HMM computations [2%] * HMM computations [3%] * HMM computations [4%] * HMM computations [5%] * HMM computations [6%] * HMM computations [7%] * HMM computations [8%] * HMM computations [9%] * HMM computations [10%] * HMM computations [11%] * HMM computations [12%] * HMM computations [13%] * HMM computations [14%] * HMM computations [15%] * HMM computations [16%] * HMM computations [17%] * HMM computations [18%] * HMM computations [19%] * HMM computations [20%] * HMM computations [21%] * HMM computations [22%] * HMM computations [23%] * HMM computations [24%] * HMM computations [25%] * HMM computations [26%] * HMM computations [27%] * HMM computations [28%] * HMM computations [29%] * HMM computations [30%] * HMM computations [31%] * HMM computations [32%] * HMM computations [33%] * HMM computations [34%] * HMM computations [35%] * HMM 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constraints [#inds=0 / #contraints=0 / #merged = 0] 428s * HAP update (0.01s) 428s * H2V transpose (0.00s) 428s 428s Pruning iteration [1/1] 428s * V2H transpose (0.00s) 428s * PBWT selection [0%] * PBWT selection [1%] * PBWT selection [2%] * PBWT selection [3%] * PBWT selection [4%] * PBWT selection [5%] * PBWT selection [6%] * PBWT selection [7%] * PBWT selection [8%] * PBWT selection [9%] * PBWT selection [10%] * PBWT selection [11%] * PBWT selection [12%] * PBWT selection [13%] * PBWT selection [14%] * PBWT selection [15%] * PBWT selection [16%] * PBWT selection [17%] * PBWT selection [18%] * PBWT selection [19%] * PBWT selection [20%] * PBWT selection [21%] * PBWT selection [22%] * PBWT selection [23%] * PBWT selection [24%] * PBWT selection [25%] * PBWT selection [26%] * PBWT selection [27%] * PBWT selection [28%] * PBWT selection [29%] * PBWT selection [30%] * PBWT selection [31%] * PBWT selection [32%] * PBWT selection [33%] * PBWT selection [34%] * PBWT selection [35%] * PBWT 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computations [98%] * HMM computations [99%] * HMM computations [100%] * HMM computations [K=218.414+/-15.706 / W=1.00Mb] (2.73s) 430s * IBD2 constraints [#inds=0 / #contraints=0 / #merged = 0] 430s * HAP update (0.01s) 430s * H2V transpose (0.00s) 430s * Trimming [pc=65.06%] 430s 430s Burn-in iteration [1/1] 430s * V2H transpose (0.00s) 430s * PBWT selection [0%] * PBWT selection [1%] * PBWT selection [2%] * PBWT selection [3%] * PBWT selection [4%] * PBWT selection [5%] * PBWT selection [6%] * PBWT selection [7%] * PBWT selection [8%] * PBWT selection [9%] * PBWT selection [10%] * PBWT selection [11%] * PBWT selection [12%] * PBWT selection [13%] * PBWT selection [14%] * PBWT selection [15%] * PBWT selection [16%] * PBWT selection [17%] * PBWT selection [18%] * PBWT selection [19%] * PBWT selection [20%] * PBWT selection [21%] * PBWT selection [22%] * PBWT selection [23%] * PBWT selection [24%] * PBWT selection [25%] * PBWT selection [26%] * PBWT selection [27%] * PBWT selection [28%] 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[95%] * PBWT selection [96%] * PBWT selection [97%] * PBWT selection [98%] * PBWT selection [99%] * PBWT selection [100%] * PBWT selection (0.02s) 437s * C2H transpose (0.00s) 439s * HMM computations [0%] * HMM computations [1%] * HMM computations [2%] * HMM computations [3%] * HMM computations [4%] * HMM computations [5%] * HMM computations [6%] * HMM computations [7%] * HMM computations [8%] * HMM computations [9%] * HMM computations [10%] * HMM computations [11%] * HMM computations [12%] * HMM computations [13%] * HMM computations [14%] * HMM computations [15%] * HMM computations [16%] * HMM computations [17%] * HMM computations [18%] * HMM computations [19%] * HMM computations [20%] * HMM computations [21%] * HMM computations [22%] * HMM computations [23%] * HMM computations [24%] * HMM computations [25%] * HMM computations [26%] * HMM computations [27%] * HMM computations [28%] * HMM computations [29%] * HMM computations [30%] * HMM computations [31%] * HMM computations [32%] * 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[K=212.192+/-16.785 / W=1.00Mb] (2.08s) 444s * IBD2 constraints [#inds=0 / #contraints=0 / #merged = 0] 444s * HAP update (0.01s) 444s * H2V transpose (0.00s) 444s 444s Main iteration [5/5] 444s * V2H transpose (0.00s) 444s * PBWT selection [0%] * PBWT selection [1%] * PBWT selection [2%] * PBWT selection [3%] * PBWT selection [4%] * PBWT selection [5%] * PBWT selection [6%] * PBWT selection [7%] * PBWT selection [8%] * PBWT selection [9%] * PBWT selection [10%] * PBWT selection [11%] * PBWT selection [12%] * PBWT selection [13%] * PBWT selection [14%] * PBWT selection [15%] * PBWT selection [16%] * PBWT selection [17%] * PBWT selection [18%] * PBWT selection [19%] * PBWT selection [20%] * PBWT selection [21%] * PBWT selection [22%] * PBWT selection [23%] * PBWT selection [24%] * PBWT selection [25%] * PBWT selection [26%] * PBWT selection [27%] * PBWT selection [28%] * PBWT selection [29%] * PBWT selection [30%] * PBWT selection [31%] * PBWT selection [32%] * PBWT selection [33%] * 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computations [96%] * HMM computations [97%] * HMM computations [98%] * HMM computations [99%] * HMM computations [100%] * HMM computations [K=209.404+/-16.434 / W=1.00Mb] (2.00s) 446s * IBD2 constraints [#inds=0 / #contraints=0 / #merged = 0] 446s * HAP update (0.01s) 446s * H2V transpose (0.00s) 446s 446s Finalization: 446s * HAP solving (0.02s) 446s * HAP update (0.01s) 446s * H2V transpose (0.00s) 446s * VCF writing [0%] * VCF writing [1%] * VCF writing [2%] * VCF writing [3%] * VCF writing [4%] * VCF writing [5%] * VCF writing [6%] * VCF writing [7%] * VCF writing [8%] * VCF writing [9%] * VCF writing [10%] * VCF writing [11%] * VCF writing [12%] * VCF writing [13%] * VCF writing [14%] * VCF writing [15%] * VCF writing [16%] * VCF writing [17%] * VCF writing [18%] * VCF writing [19%] * VCF writing [20%] * VCF writing [21%] * VCF writing [22%] * VCF writing [23%] * VCF writing [24%] * VCF writing [25%] * VCF writing [26%] * VCF writing [27%] * VCF writing [28%] * VCF writing [29%] * VCF writing [30%] * VCF writing [31%] * VCF writing [32%] * VCF writing [33%] * VCF writing [34%] * VCF writing [35%] * VCF writing [36%] * VCF writing [37%] * VCF writing [38%] * VCF writing [39%] * VCF writing [40%] * VCF writing [41%] * VCF writing [42%] * VCF writing [43%] * VCF writing [44%] * VCF writing [45%] * VCF writing [46%] * VCF writing [47%] * VCF writing [48%] * VCF writing [49%] * VCF writing [50%] * VCF writing [51%] * VCF writing [52%] * VCF writing [53%] * VCF writing [54%] * VCF writing [55%] * VCF writing [56%] * VCF writing [57%] * VCF writing [58%] * VCF writing [59%] * VCF writing [60%] * VCF writing [61%] * VCF writing [62%] * VCF writing [63%] * VCF writing [64%] * VCF writing [65%] * VCF writing [66%] * VCF writing [67%] * VCF writing [68%] * VCF writing [69%] * VCF writing [70%] * VCF writing [71%] * VCF writing [72%] * VCF writing [73%] * VCF writing [74%] * VCF writing [75%] * VCF writing [76%] * VCF writing [77%] * VCF writing [78%] * VCF writing [79%] * VCF writing [80%] * VCF writing [81%] * VCF writing [82%] * VCF writing [83%] * VCF writing [84%] * VCF writing [85%] * VCF writing [86%] * VCF writing [87%] * VCF writing [88%] * VCF writing [89%] * VCF writing [90%] * VCF writing [91%] * VCF writing [92%] * VCF writing [93%] * VCF writing [94%] * VCF writing [95%] * VCF writing [96%] * VCF writing [97%] * VCF writing [98%] * VCF writing [99%] * VCF writing [100%] * VCF writing [Compressed / N=203 / L=8651] (0.18s) 446s * Total running time = 42 seconds 446s + shapeit4 --input unphased.bcf --map chr20.b37.gmap.gz --region 20 --reference reference.bcf --scaffold scaffold.bcf --use-PS 0.0001 --thread 4 --log phased.log --output phased.bcf 446s 446s SHAPEIT 446s * Author : Olivier DELANEAU, University of Lausanne 446s * Contact : olivier.delaneau@gmail.com 446s * Version : 4.2.2 446s * Run date : 02/04/2024 - 19:44:54 446s 446s Files: 446s * Input VCF : [unphased.bcf] 446s * Reference VCF : [reference.bcf] 446s * Scaffold VCF : [scaffold.bcf] 446s * Genetic Map : [chr20.b37.gmap.gz] 446s * Output VCF : [phased.bcf] 446s * Output LOG : [phased.log] 446s 446s Parameters: 446s * Seed : 15052011 446s * Threads : 4 threads 446s * MCMC : 15 iterations [5b + 1p + 1b + 1p + 1b + 1p + 5m] 446s * PBWT : Depth of PBWT neighbours to condition on: 4 446s * PBWT : Store indexes at variants [MAC>=2 / MDR<=0.5 / Dist=0.02 cM] 446s * HMM : K is variable / min W is 2.50cM / Ne is 15000 446s * HMM : Recombination rates given by genetic map 446s * HMM : Inform phasing using VCF/PS field / Error rate of PS field is 0.0001 446s * HMM : AVX2 optimization inactive / Activating AVX2 substantially improves performance 446s 446s Initialization: 446s * VCF/BCF scanning ... * VCF/BCF scanning [Nm=203 / Nr=300 / L=24990 / Reg=20] (0.10s) 446s * VCF/BCF parsing [0%] * VCF/BCF parsing [1%] * VCF/BCF parsing [2%] * VCF/BCF parsing [3%] * VCF/BCF parsing [4%] * VCF/BCF parsing [5%] * VCF/BCF parsing [6%] * VCF/BCF parsing [7%] * VCF/BCF 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[91%] * VCF/BCF parsing [92%] * VCF/BCF parsing [93%] * VCF/BCF parsing [94%] * VCF/BCF parsing [95%] * VCF/BCF parsing [96%] * VCF/BCF parsing [97%] * VCF/BCF parsing [98%] * VCF/BCF parsing [99%] * VCF/BCF parsing [100%] * VCF/BCF parsing [Hom=90.0% / Het=10.0% / Pha=2.668% / Sca=0.778% / Mis=0.0%] (0.36s) 446s * GMAP parsing [n=82962] (0.07s) 446s * cM interpolation [s=3296 / i=21694] (0.00s) 446s * Region length [2999624 bp / 6.6 cM] 446s * HMM parameters [Ne=15000 / Error=0.0001 / #rare=9606] 446s * PBWT indexing [l=328] (0.00s) 446s * HAP update (0.04s) 446s * H2V transpose (0.01s) 447s * PBWT phase sweep [0%] * PBWT phase sweep [1%] * PBWT phase sweep [2%] * PBWT phase sweep [3%] * PBWT phase sweep [4%] * PBWT phase sweep [5%] * PBWT phase sweep [6%] * PBWT phase sweep [7%] * PBWT phase sweep [8%] * PBWT phase sweep [9%] * PBWT phase sweep [10%] * PBWT phase sweep [11%] * PBWT phase sweep [12%] * PBWT phase sweep [13%] * PBWT phase sweep [14%] * PBWT phase sweep [15%] * PBWT 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phase sweep [96%] * PBWT phase sweep [97%] * PBWT phase sweep [98%] * PBWT phase sweep [99%] * PBWT phase sweep [100%] * PBWT phase sweep (0.29s) 447s * Build genotype graphs [seg=164449] (0.08s) 447s 447s Burn-in iteration [1/5] 447s * V2H transpose (0.00s) 447s * PBWT selection [0%] * PBWT selection [1%] * PBWT selection [2%] * PBWT selection [3%] * PBWT selection [4%] * PBWT selection [5%] * PBWT selection [6%] * PBWT selection [7%] * PBWT selection [8%] * PBWT selection [9%] * PBWT selection [10%] * PBWT selection [11%] * PBWT selection [12%] * PBWT selection [13%] * PBWT selection [14%] * PBWT selection [15%] * PBWT selection [16%] * PBWT selection [17%] * PBWT selection [18%] * PBWT selection [19%] * PBWT selection [20%] * PBWT selection [21%] * PBWT selection [22%] * PBWT selection [23%] * PBWT selection [24%] * PBWT selection [25%] * PBWT selection [26%] * PBWT selection [27%] * PBWT selection [28%] * PBWT selection [29%] * PBWT selection [30%] * PBWT selection [31%] * PBWT 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#contraints=0 / #merged = 0] 547s * HAP update (0.03s) 547s * H2V transpose (0.01s) 547s * Trimming [pc=42.08%] 547s 547s Burn-in iteration [1/1] 547s * V2H transpose (0.00s) 547s * PBWT selection [0%] * PBWT selection [1%] * PBWT selection [2%] * PBWT selection [3%] * PBWT selection [4%] * PBWT selection [5%] * PBWT selection [6%] * PBWT selection [7%] * PBWT selection [8%] * PBWT selection [9%] * PBWT selection [10%] * PBWT selection [11%] * PBWT selection [12%] * PBWT selection [13%] * PBWT selection [14%] * PBWT selection [15%] * PBWT selection [16%] * PBWT selection [17%] * PBWT selection [18%] * PBWT selection [19%] * PBWT selection [20%] * PBWT selection [21%] * PBWT selection [22%] * PBWT selection [23%] * PBWT selection [24%] * PBWT selection [25%] * PBWT selection [26%] * PBWT selection [27%] * PBWT selection [28%] * PBWT selection [29%] * PBWT selection [30%] * PBWT selection [31%] * PBWT selection [32%] * PBWT selection [33%] * PBWT selection [34%] * PBWT selection [35%] * 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HMM computations [98%] * HMM computations [99%] * HMM computations [100%] * HMM computations [K=408.671+/-117.879 / W=2.11Mb] (13.15s) 561s * IBD2 constraints [#inds=0 / #contraints=0 / #merged = 0] 561s * HAP update (0.01s) 561s * H2V transpose (0.00s) 561s 561s Pruning iteration [1/1] 561s * V2H transpose (0.01s) 561s * PBWT selection [0%] * PBWT selection [1%] * PBWT selection [2%] * PBWT selection [3%] * PBWT selection [4%] * PBWT selection [5%] * PBWT selection [6%] * PBWT selection [7%] * PBWT selection [8%] * PBWT selection [9%] * PBWT selection [10%] * PBWT selection [11%] * PBWT selection [12%] * PBWT selection [13%] * PBWT selection [14%] * PBWT selection [15%] * PBWT selection [16%] * PBWT selection [17%] * PBWT selection [18%] * PBWT selection [19%] * PBWT selection [20%] * PBWT selection [21%] * PBWT selection [22%] * PBWT selection [23%] * PBWT selection [24%] * PBWT selection [25%] * PBWT selection [26%] * PBWT selection [27%] * PBWT selection [28%] * PBWT selection 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PBWT selection [95%] * PBWT selection [96%] * PBWT selection [97%] * PBWT selection [98%] * PBWT selection [99%] * PBWT selection [100%] * PBWT selection (0.05s) 598s * C2H transpose (0.00s) 608s * HMM computations [0%] * HMM computations [1%] * HMM computations [2%] * HMM computations [3%] * HMM computations [4%] * HMM computations [5%] * HMM computations [6%] * HMM computations [7%] * HMM computations [8%] * HMM computations [9%] * HMM computations [10%] * HMM computations [11%] * HMM computations [12%] * HMM computations [13%] * HMM computations [14%] * HMM computations [15%] * HMM computations [16%] * HMM computations [17%] * HMM computations [18%] * HMM computations [19%] * HMM computations [20%] * HMM computations [21%] * HMM computations [22%] * HMM computations [23%] * HMM computations [24%] * HMM computations [25%] * HMM computations [26%] * HMM computations [27%] * HMM computations [28%] * HMM computations [29%] * HMM computations [30%] * HMM computations [31%] * HMM 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computations [66%] * HMM computations [67%] * HMM computations [68%] * HMM computations [69%] * HMM computations [70%] * HMM computations [71%] * HMM computations [72%] * HMM computations [73%] * HMM computations [74%] * HMM computations [75%] * HMM computations [76%] * HMM computations [77%] * HMM computations [78%] * HMM computations [79%] * HMM computations [80%] * HMM computations [81%] * HMM computations [82%] * HMM computations [83%] * HMM computations [84%] * HMM computations [85%] * HMM computations [86%] * HMM computations [87%] * HMM computations [88%] * HMM computations [89%] * HMM computations [90%] * HMM computations [91%] * HMM computations [92%] * HMM computations [93%] * HMM computations [94%] * HMM computations [95%] * HMM computations [96%] * HMM computations [97%] * HMM computations [98%] * HMM computations [99%] * HMM computations [100%] * HMM computations [K=400.535+/-112.973 / W=2.25Mb] (10.46s) 619s * IBD2 constraints [#inds=0 / #contraints=0 / #merged = 0] 619s * HAP update (0.01s) 619s * H2V transpose (0.00s) 619s 619s Main iteration [3/5] 619s * V2H transpose (0.00s) 619s * PBWT selection [0%] * PBWT selection [1%] * PBWT selection [2%] * PBWT selection [3%] * PBWT selection [4%] * PBWT selection [5%] * PBWT selection [6%] * PBWT selection [7%] * PBWT selection [8%] * PBWT selection [9%] * PBWT selection [10%] * PBWT selection [11%] * PBWT selection [12%] * PBWT selection [13%] * PBWT selection [14%] * PBWT selection [15%] * PBWT selection [16%] * PBWT selection [17%] * PBWT selection [18%] * PBWT selection [19%] * PBWT selection [20%] * PBWT selection [21%] * PBWT selection [22%] * PBWT selection [23%] * PBWT selection [24%] * PBWT selection [25%] * PBWT selection [26%] * PBWT selection [27%] * PBWT selection [28%] * PBWT selection [29%] * PBWT selection [30%] * PBWT selection [31%] * PBWT selection [32%] * PBWT selection [33%] * PBWT selection [34%] * PBWT selection [35%] * PBWT selection [36%] * PBWT selection [37%] * PBWT selection 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computations [49%] * HMM computations [50%] * HMM computations [51%] * HMM computations [52%] * HMM computations [53%] * HMM computations [54%] * HMM computations [55%] * HMM computations [56%] * HMM computations [57%] * HMM computations [58%] * HMM computations [59%] * HMM computations [60%] * HMM computations [61%] * HMM computations [62%] * HMM computations [63%] * HMM computations [64%] * HMM computations [65%] * HMM computations [66%] * HMM computations [67%] * HMM computations [68%] * HMM computations [69%] * HMM computations [70%] * HMM computations [71%] * HMM computations [72%] * HMM computations [73%] * HMM computations [74%] * HMM computations [75%] * HMM computations [76%] * HMM computations [77%] * HMM computations [78%] * HMM computations [79%] * HMM computations [80%] * HMM computations [81%] * HMM computations [82%] * HMM computations [83%] * HMM computations [84%] * HMM computations [85%] * HMM computations [86%] * HMM computations [87%] * HMM computations [88%] * HMM computations [89%] * HMM computations [90%] * HMM computations [91%] * HMM computations [92%] * HMM computations [93%] * HMM computations [94%] * HMM computations [95%] * HMM computations [96%] * HMM computations [97%] * HMM computations [98%] * HMM computations [99%] * HMM computations [100%] * HMM computations [K=387.317+/-111.745 / W=2.15Mb] (10.40s) 651s * IBD2 constraints [#inds=0 / #contraints=0 / #merged = 0] 651s * HAP update (0.01s) 651s * H2V transpose (0.01s) 651s 651s Finalization: 651s * HAP solving (0.04s) 651s * HAP update (0.01s) 651s * H2V transpose (0.01s) 652s * VCF writing [0%] * VCF writing [1%] * VCF writing [2%] * VCF writing [3%] * VCF writing [4%] * VCF writing [5%] * VCF writing [6%] * VCF writing [7%] * VCF writing [8%] * VCF writing [9%] * VCF writing [10%] * VCF writing [11%] * VCF writing [12%] * VCF writing [13%] * VCF writing [14%] * VCF writing [15%] * VCF writing [16%] * VCF writing [17%] * VCF writing [18%] * VCF writing [19%] * VCF writing [20%] * VCF writing [21%] * VCF writing [22%] * VCF writing [23%] * VCF writing [24%] * VCF writing [25%] * VCF writing [26%] * VCF writing [27%] * VCF writing [28%] * VCF writing [29%] * VCF writing [30%] * VCF writing [31%] * VCF writing [32%] * VCF writing [33%] * VCF writing [34%] * VCF writing [35%] * VCF writing [36%] * VCF writing [37%] * VCF writing [38%] * VCF writing [39%] * VCF writing [40%] * VCF writing [41%] * VCF writing [42%] * VCF writing [43%] * VCF writing [44%] * VCF writing [45%] * VCF writing [46%] * VCF writing [47%] * VCF writing [48%] * VCF writing [49%] * VCF writing [50%] * VCF writing [51%] * VCF writing [52%] * VCF writing [53%] * VCF writing [54%] * VCF writing [55%] * VCF writing [56%] * VCF writing [57%] * VCF writing [58%] * VCF writing [59%] * VCF writing [60%] * VCF writing [61%] * VCF writing [62%] * VCF writing [63%] * VCF writing [64%] * VCF writing [65%] * VCF writing [66%] * VCF writing [67%] * VCF writing [68%] * VCF writing [69%] * VCF writing [70%] * VCF writing [71%] * VCF writing [72%] * VCF writing [73%] * VCF writing [74%] * VCF writing [75%] * VCF writing [76%] * VCF writing [77%] * VCF writing [78%] * VCF writing [79%] * VCF writing [80%] * VCF writing [81%] * VCF writing [82%] * VCF writing [83%] * VCF writing [84%] * VCF writing [85%] * VCF writing [86%] * VCF writing [87%] * VCF writing [88%] * VCF writing [89%] * VCF writing [90%] * VCF writing [91%] * VCF writing [92%] * VCF writing [93%] * VCF writing [94%] * VCF writing [95%] * VCF writing [96%] * VCF writing [97%] * VCF writing [98%] * VCF writing [99%] * VCF writing [100%] * BCF writing [Compressed / N=203 / L=24990] (0.26s) 652s * Total running time = 205 seconds 652s autopkgtest [19:48:20]: test run-sample-analysis: -----------------------] 653s run-sample-analysis PASS 653s autopkgtest [19:48:21]: test run-sample-analysis: - - - - - - - - - - results - - - - - - - - - - 653s autopkgtest [19:48:21]: @@@@@@@@@@@@@@@@@@@@ summary 653s run-sample-analysis PASS 698s Creating nova instance adt-noble-ppc64el-shapeit4-20240402-193727-juju-7f2275-prod-proposed-migration-environment-3-4e24f3c6-6f04-42d1-b1bc-3f73c8ffcfa3 from image adt/ubuntu-noble-ppc64el-server-20240402.img (UUID 67e198d3-b53a-4c90-85e1-65baa46c2da6)...