0s autopkgtest [05:48:46]: starting date and time: 2026-02-05 05:48:46+0000 0s autopkgtest [05:48:46]: git checkout: 4b346b80 nova: make wait_reboot return success even when a no-op 0s autopkgtest [05:48:46]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.j7hdk6pp/out --timeout-copy=6000 --needs-internet=try --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:glibc,src:chiark-tcl --apt-upgrade qtltools --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=glibc/2.42-2ubuntu5 chiark-tcl/1.3.7build1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-cpu2-ram4-disk20-arm64 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@sto01-arm64-3.secgroup --name adt-resolute-arm64-qtltools-20260205-054846-juju-7f2275-prod-proposed-migration-environment-2-5a6b1d83-7958-4e95-b7f8-188aa82ce99a --image adt/ubuntu-resolute-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-autopkgtest-workers-arm64 -e TERM=linux --mirror=http://ftpmaster.internal/ubuntu/ 4s Creating nova instance adt-resolute-arm64-qtltools-20260205-054846-juju-7f2275-prod-proposed-migration-environment-2-5a6b1d83-7958-4e95-b7f8-188aa82ce99a from image adt/ubuntu-resolute-arm64-server-20260204.img (UUID f58d981d-b271-4157-b9b1-fd704695563c)... 115s autopkgtest [05:50:41]: testbed dpkg architecture: arm64 115s autopkgtest [05:50:41]: testbed apt version: 3.1.14 116s autopkgtest [05:50:42]: @@@@@@@@@@@@@@@@@@@@ test bed setup 116s autopkgtest [05:50:42]: testbed release detected to be: None 117s autopkgtest [05:50:43]: updating testbed package index (apt update) 117s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease [124 kB] 117s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 117s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 117s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 117s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/universe Sources [1719 kB] 119s Get:6 http://ftpmaster.internal/ubuntu resolute-proposed/main Sources [228 kB] 119s Get:7 http://ftpmaster.internal/ubuntu resolute-proposed/restricted Sources [5260 B] 119s Get:8 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse Sources [35.4 kB] 119s Get:9 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 Packages [269 kB] 119s Get:10 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 c-n-f Metadata [7264 B] 119s Get:11 http://ftpmaster.internal/ubuntu resolute-proposed/restricted arm64 Packages [52.9 kB] 119s Get:12 http://ftpmaster.internal/ubuntu resolute-proposed/restricted arm64 c-n-f Metadata [328 B] 119s Get:13 http://ftpmaster.internal/ubuntu resolute-proposed/universe arm64 Packages [1556 kB] 120s Get:14 http://ftpmaster.internal/ubuntu resolute-proposed/universe arm64 c-n-f Metadata [41.9 kB] 120s Get:15 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse arm64 Packages [26.0 kB] 120s Get:16 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse arm64 c-n-f Metadata [792 B] 124s Fetched 4067 kB in 3s (1413 kB/s) 124s Reading package lists... 126s Hit:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease 126s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 126s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 126s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 127s Reading package lists... 127s Reading package lists... 127s Building dependency tree... 127s Reading state information... 127s Calculating upgrade... 128s The following packages will be upgraded: 128s libc-bin libc-gconv-modules-extra libc6 locales pollinate python3-linkify-it 128s python3-referencing sed 128s 8 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 128s Need to get 8110 kB of archives. 128s After this operation, 0 B of additional disk space will be used. 128s Get:1 http://ftpmaster.internal/ubuntu resolute/main arm64 sed arm64 4.9-2build3 [193 kB] 128s Get:2 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 libc-gconv-modules-extra arm64 2.42-2ubuntu5 [1413 kB] 130s Get:3 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 libc6 arm64 2.42-2ubuntu5 [1594 kB] 132s Get:4 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 libc-bin arm64 2.42-2ubuntu5 [599 kB] 133s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 locales all 2.42-2ubuntu5 [4255 kB] 139s Get:6 http://ftpmaster.internal/ubuntu resolute/main arm64 python3-linkify-it all 2.0.3-1ubuntu3 [19.4 kB] 139s Get:7 http://ftpmaster.internal/ubuntu resolute/main arm64 pollinate all 4.33-4ubuntu5 [14.0 kB] 139s Get:8 http://ftpmaster.internal/ubuntu resolute/main arm64 python3-referencing all 0.36.2-1ubuntu2 [22.2 kB] 139s dpkg-preconfigure: unable to re-open stdin: No such file or directory 139s Fetched 8110 kB in 11s (721 kB/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 ... 89360 files and directories currently installed.) 139s Preparing to unpack .../sed_4.9-2build3_arm64.deb ... 139s Unpacking sed (4.9-2build3) over (4.9-2build2) ... 140s Setting up sed (4.9-2build3) ... 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 ... 89360 files and directories currently installed.) 140s Preparing to unpack .../libc-gconv-modules-extra_2.42-2ubuntu5_arm64.deb ... 140s Unpacking libc-gconv-modules-extra:arm64 (2.42-2ubuntu5) over (2.42-2ubuntu4) ... 140s Setting up libc-gconv-modules-extra:arm64 (2.42-2ubuntu5) ... 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 ... 89360 files and directories currently installed.) 140s Preparing to unpack .../libc6_2.42-2ubuntu5_arm64.deb ... 140s Unpacking libc6:arm64 (2.42-2ubuntu5) over (2.42-2ubuntu4) ... 140s Setting up libc6:arm64 (2.42-2ubuntu5) ... 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 ... 89360 files and directories currently installed.) 140s Preparing to unpack .../libc-bin_2.42-2ubuntu5_arm64.deb ... 140s Unpacking libc-bin (2.42-2ubuntu5) over (2.42-2ubuntu4) ... 140s Setting up libc-bin (2.42-2ubuntu5) ... 141s (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 ... 89360 files and directories currently installed.) 141s Preparing to unpack .../locales_2.42-2ubuntu5_all.deb ... 141s Unpacking locales (2.42-2ubuntu5) over (2.42-2ubuntu4) ... 141s Preparing to unpack .../python3-linkify-it_2.0.3-1ubuntu3_all.deb ... 141s Unpacking python3-linkify-it (2.0.3-1ubuntu3) over (2.0.3-1ubuntu2) ... 141s Preparing to unpack .../pollinate_4.33-4ubuntu5_all.deb ... 141s Unpacking pollinate (4.33-4ubuntu5) over (4.33-4ubuntu4) ... 141s Preparing to unpack .../python3-referencing_0.36.2-1ubuntu2_all.deb ... 141s Unpacking python3-referencing (0.36.2-1ubuntu2) over (0.36.2-1ubuntu1) ... 141s Setting up locales (2.42-2ubuntu5) ... 142s Generating locales (this might take a while)... 144s en_US.UTF-8... done 144s Generation complete. 144s Setting up pollinate (4.33-4ubuntu5) ... 154s Setting up python3-linkify-it (2.0.3-1ubuntu3) ... 154s Setting up python3-referencing (0.36.2-1ubuntu2) ... 154s Processing triggers for man-db (2.13.1-1) ... 155s Processing triggers for install-info (7.2-5) ... 155s Processing triggers for systemd (259-1ubuntu3) ... 156s autopkgtest [05:51:22]: upgrading testbed (apt dist-upgrade and autopurge) 157s Reading package lists... 157s Building dependency tree... 157s Reading state information... 157s Calculating upgrade... 158s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 158s Reading package lists... 158s Building dependency tree... 158s Reading state information... 158s Solving dependencies... 158s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 159s autopkgtest [05:51:25]: rebooting testbed after setup commands that affected boot 195s autopkgtest [05:52:01]: testbed running kernel: Linux 6.18.0-9-generic #9-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 12 16:41:39 UTC 2026 199s autopkgtest [05:52:05]: @@@@@@@@@@@@@@@@@@@@ apt-source qtltools 223s Get:1 http://ftpmaster.internal/ubuntu resolute/universe qtltools 1.3.1+dfsg-4build6 (dsc) [2293 B] 223s Get:2 http://ftpmaster.internal/ubuntu resolute/universe qtltools 1.3.1+dfsg-4build6 (tar) [141 kB] 223s Get:3 http://ftpmaster.internal/ubuntu resolute/universe qtltools 1.3.1+dfsg-4build6 (diff) [13.6 MB] 223s gpgv: Signature made Wed Aug 6 15:09:47 2025 UTC 223s gpgv: using RSA key 568BF22A66337CBFC9A6B9B72C83DBC8E9BD0E37 223s gpgv: Can't check signature: No public key 223s dpkg-source: warning: cannot verify inline signature for ./qtltools_1.3.1+dfsg-4build6.dsc: no acceptable signature found 224s autopkgtest [05:52:30]: testing package qtltools version 1.3.1+dfsg-4build6 227s autopkgtest [05:52:33]: build not needed 228s autopkgtest [05:52:34]: test run-sample-analysis: preparing testbed 228s Reading package lists... 228s Building dependency tree... 228s Reading state information... 228s Solving dependencies... 229s The following NEW packages will be installed: 229s fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono libblas3 229s libboost-iostreams1.88.0 libboost-program-options1.88.0 libcairo2 libdatrie1 229s libdeflate0 libfontconfig1 libgfortran5 libgomp1 libgraphite2-3 libgsl28 229s libgslcblas0 libharfbuzz0b libhts3t64 libhtscodecs2 libice6 libjbig0 229s libjpeg-turbo8 libjpeg8 liblapack3 liblerc4 libpango-1.0-0 229s libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper2 libpixman-1-0 229s libsharpyuv0 libsm6 libtcl8.6 libthai-data libthai0 libtiff6 libtk8.6 229s libwebp7 libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxss1 libxt6t64 229s qtltools qtltools-example r-base-core r-mathlib unzip x11-common xdg-utils 229s zip 230s 0 upgraded, 53 newly installed, 0 to remove and 0 not upgraded. 230s Need to get 57.7 MB of archives. 230s After this operation, 108 MB of additional disk space will be used. 230s Get:1 http://ftpmaster.internal/ubuntu resolute/main arm64 fonts-dejavu-mono all 2.37-8build1 [502 kB] 230s Get:2 http://ftpmaster.internal/ubuntu resolute/main arm64 fonts-dejavu-core all 2.37-8build1 [834 kB] 231s Get:3 http://ftpmaster.internal/ubuntu resolute/main arm64 fontconfig-config arm64 2.17.1-3ubuntu1 [38.5 kB] 231s Get:4 http://ftpmaster.internal/ubuntu resolute/main arm64 libfontconfig1 arm64 2.17.1-3ubuntu1 [144 kB] 231s Get:5 http://ftpmaster.internal/ubuntu resolute/main arm64 fontconfig arm64 2.17.1-3ubuntu1 [181 kB] 231s Get:6 http://ftpmaster.internal/ubuntu resolute/main arm64 libblas3 arm64 3.12.1-7ubuntu1 [181 kB] 231s Get:7 http://ftpmaster.internal/ubuntu resolute/main arm64 libboost-iostreams1.88.0 arm64 1.88.0-1.4ubuntu3 [261 kB] 231s Get:8 http://ftpmaster.internal/ubuntu resolute/main arm64 libboost-program-options1.88.0 arm64 1.88.0-1.4ubuntu3 [326 kB] 231s Get:9 http://ftpmaster.internal/ubuntu resolute/main arm64 libpixman-1-0 arm64 0.46.4-1 [204 kB] 231s Get:10 http://ftpmaster.internal/ubuntu resolute/main arm64 libxcb-render0 arm64 1.17.0-2ubuntu1 [16.4 kB] 231s Get:11 http://ftpmaster.internal/ubuntu resolute/main arm64 libxcb-shm0 arm64 1.17.0-2ubuntu1 [5938 B] 231s Get:12 http://ftpmaster.internal/ubuntu resolute/main arm64 libxrender1 arm64 1:0.9.12-1 [19.5 kB] 231s Get:13 http://ftpmaster.internal/ubuntu resolute/main arm64 libcairo2 arm64 1.18.4-3 [556 kB] 232s Get:14 http://ftpmaster.internal/ubuntu resolute/main arm64 libdatrie1 arm64 0.2.14-1 [19.6 kB] 232s Get:15 http://ftpmaster.internal/ubuntu resolute/main arm64 libdeflate0 arm64 1.23-2 [46.4 kB] 232s Get:16 http://ftpmaster.internal/ubuntu resolute/main arm64 libgfortran5 arm64 15.2.0-12ubuntu1 [451 kB] 232s Get:17 http://ftpmaster.internal/ubuntu resolute/main arm64 libgomp1 arm64 15.2.0-12ubuntu1 [147 kB] 232s Get:18 http://ftpmaster.internal/ubuntu resolute/main arm64 libgraphite2-3 arm64 1.3.14-11ubuntu1 [72.1 kB] 232s Get:19 http://ftpmaster.internal/ubuntu resolute/universe arm64 libgslcblas0 arm64 2.8+dfsg-6 [93.1 kB] 232s Get:20 http://ftpmaster.internal/ubuntu resolute/universe arm64 libgsl28 arm64 2.8+dfsg-6 [966 kB] 233s Get:21 http://ftpmaster.internal/ubuntu resolute/main arm64 libharfbuzz0b arm64 12.3.2-1 [510 kB] 233s Get:22 http://ftpmaster.internal/ubuntu resolute/universe arm64 libhtscodecs2 arm64 1.6.1-2build1 [83.8 kB] 233s Get:23 http://ftpmaster.internal/ubuntu resolute/universe arm64 libhts3t64 arm64 1.22.1+ds2-1 [442 kB] 233s Get:24 http://ftpmaster.internal/ubuntu resolute/main arm64 x11-common all 1:7.7+24ubuntu1 [22.4 kB] 233s Get:25 http://ftpmaster.internal/ubuntu resolute/main arm64 libice6 arm64 2:1.1.1-1build1 [43.0 kB] 233s Get:26 http://ftpmaster.internal/ubuntu resolute/main arm64 libjpeg-turbo8 arm64 2.1.5-4ubuntu2 [165 kB] 233s Get:27 http://ftpmaster.internal/ubuntu resolute/main arm64 libjpeg8 arm64 8c-2ubuntu11 [2148 B] 233s Get:28 http://ftpmaster.internal/ubuntu resolute/main arm64 liblapack3 arm64 3.12.1-7ubuntu1 [2299 kB] 236s Get:29 http://ftpmaster.internal/ubuntu resolute/main arm64 liblerc4 arm64 4.0.0+ds-5ubuntu2 [174 kB] 236s Get:30 http://ftpmaster.internal/ubuntu resolute/main arm64 libthai-data all 0.1.30-1 [155 kB] 236s Get:31 http://ftpmaster.internal/ubuntu resolute/main arm64 libthai0 arm64 0.1.30-1 [18.3 kB] 236s Get:32 http://ftpmaster.internal/ubuntu resolute/main arm64 libpango-1.0-0 arm64 1.57.0-1 [238 kB] 236s Get:33 http://ftpmaster.internal/ubuntu resolute/main arm64 libpangoft2-1.0-0 arm64 1.57.0-1 [51.5 kB] 236s Get:34 http://ftpmaster.internal/ubuntu resolute/main arm64 libpangocairo-1.0-0 arm64 1.57.0-1 [27.9 kB] 236s Get:35 http://ftpmaster.internal/ubuntu resolute/main arm64 libpaper2 arm64 2.2.5-0.3build1 [17.3 kB] 236s Get:36 http://ftpmaster.internal/ubuntu resolute/main arm64 libpaper-utils arm64 2.2.5-0.3build1 [15.4 kB] 236s Get:37 http://ftpmaster.internal/ubuntu resolute/main arm64 libsharpyuv0 arm64 1.5.0-0.1build1 [16.7 kB] 236s Get:38 http://ftpmaster.internal/ubuntu resolute/main arm64 libsm6 arm64 2:1.2.6-1 [16.6 kB] 236s Get:39 http://ftpmaster.internal/ubuntu resolute/main arm64 libtcl8.6 arm64 8.6.17+dfsg-1build1 [983 kB] 237s Get:40 http://ftpmaster.internal/ubuntu resolute/main arm64 libjbig0 arm64 2.1-6.1ubuntu3 [29.2 kB] 237s Get:41 http://ftpmaster.internal/ubuntu resolute/main arm64 libwebp7 arm64 1.5.0-0.1build1 [205 kB] 237s Get:42 http://ftpmaster.internal/ubuntu resolute/main arm64 libtiff6 arm64 4.7.0-3ubuntu3 [196 kB] 237s Get:43 http://ftpmaster.internal/ubuntu resolute/main arm64 libxft2 arm64 2.3.6-1build2 [43.2 kB] 237s Get:44 http://ftpmaster.internal/ubuntu resolute/main arm64 libxss1 arm64 1:1.2.3-1build4 [7102 B] 237s Get:45 http://ftpmaster.internal/ubuntu resolute/main arm64 libtk8.6 arm64 8.6.17-1 [811 kB] 238s Get:46 http://ftpmaster.internal/ubuntu resolute/main arm64 libxt6t64 arm64 1:1.2.1-1.3 [168 kB] 238s Get:47 http://ftpmaster.internal/ubuntu resolute/universe arm64 r-mathlib arm64 4.5.2-1ubuntu2 [2621 kB] 242s Get:48 http://ftpmaster.internal/ubuntu resolute/main arm64 zip arm64 3.0-15ubuntu2 [175 kB] 242s Get:49 http://ftpmaster.internal/ubuntu resolute/main arm64 unzip arm64 6.0-29ubuntu1 [176 kB] 242s Get:50 http://ftpmaster.internal/ubuntu resolute/main arm64 xdg-utils all 1.2.1-2ubuntu2 [66.1 kB] 242s Get:51 http://ftpmaster.internal/ubuntu resolute/universe arm64 r-base-core arm64 4.5.2-1ubuntu2 [28.6 MB] 262s Get:52 http://ftpmaster.internal/ubuntu resolute/universe arm64 qtltools arm64 1.3.1+dfsg-4build6 [674 kB] 262s Get:53 http://ftpmaster.internal/ubuntu resolute/universe arm64 qtltools-example all 1.3.1+dfsg-4build6 [13.6 MB] 270s Preconfiguring packages ... 270s Fetched 57.7 MB in 41s (1408 kB/s) 270s Selecting previously unselected package fonts-dejavu-mono. 270s (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 ... 89360 files and directories currently installed.) 270s Preparing to unpack .../00-fonts-dejavu-mono_2.37-8build1_all.deb ... 270s Unpacking fonts-dejavu-mono (2.37-8build1) ... 270s Selecting previously unselected package fonts-dejavu-core. 270s Preparing to unpack .../01-fonts-dejavu-core_2.37-8build1_all.deb ... 270s Unpacking fonts-dejavu-core (2.37-8build1) ... 270s Selecting previously unselected package fontconfig-config. 270s Preparing to unpack .../02-fontconfig-config_2.17.1-3ubuntu1_arm64.deb ... 270s Unpacking fontconfig-config (2.17.1-3ubuntu1) ... 270s Selecting previously unselected package libfontconfig1:arm64. 270s Preparing to unpack .../03-libfontconfig1_2.17.1-3ubuntu1_arm64.deb ... 270s Unpacking libfontconfig1:arm64 (2.17.1-3ubuntu1) ... 271s Selecting previously unselected package fontconfig. 271s Preparing to unpack .../04-fontconfig_2.17.1-3ubuntu1_arm64.deb ... 271s Unpacking fontconfig (2.17.1-3ubuntu1) ... 271s Selecting previously unselected package libblas3:arm64. 271s Preparing to unpack .../05-libblas3_3.12.1-7ubuntu1_arm64.deb ... 271s Unpacking libblas3:arm64 (3.12.1-7ubuntu1) ... 271s Selecting previously unselected package libboost-iostreams1.88.0:arm64. 271s Preparing to unpack .../06-libboost-iostreams1.88.0_1.88.0-1.4ubuntu3_arm64.deb ... 271s Unpacking libboost-iostreams1.88.0:arm64 (1.88.0-1.4ubuntu3) ... 271s Selecting previously unselected package libboost-program-options1.88.0:arm64. 271s Preparing to unpack .../07-libboost-program-options1.88.0_1.88.0-1.4ubuntu3_arm64.deb ... 271s Unpacking libboost-program-options1.88.0:arm64 (1.88.0-1.4ubuntu3) ... 271s Selecting previously unselected package libpixman-1-0:arm64. 271s Preparing to unpack .../08-libpixman-1-0_0.46.4-1_arm64.deb ... 271s Unpacking libpixman-1-0:arm64 (0.46.4-1) ... 271s Selecting previously unselected package libxcb-render0:arm64. 271s Preparing to unpack .../09-libxcb-render0_1.17.0-2ubuntu1_arm64.deb ... 271s Unpacking libxcb-render0:arm64 (1.17.0-2ubuntu1) ... 271s Selecting previously unselected package libxcb-shm0:arm64. 271s Preparing to unpack .../10-libxcb-shm0_1.17.0-2ubuntu1_arm64.deb ... 271s Unpacking libxcb-shm0:arm64 (1.17.0-2ubuntu1) ... 271s Selecting previously unselected package libxrender1:arm64. 271s Preparing to unpack .../11-libxrender1_1%3a0.9.12-1_arm64.deb ... 271s Unpacking libxrender1:arm64 (1:0.9.12-1) ... 271s Selecting previously unselected package libcairo2:arm64. 271s Preparing to unpack .../12-libcairo2_1.18.4-3_arm64.deb ... 271s Unpacking libcairo2:arm64 (1.18.4-3) ... 271s Selecting previously unselected package libdatrie1:arm64. 271s Preparing to unpack .../13-libdatrie1_0.2.14-1_arm64.deb ... 271s Unpacking libdatrie1:arm64 (0.2.14-1) ... 271s Selecting previously unselected package libdeflate0:arm64. 271s Preparing to unpack .../14-libdeflate0_1.23-2_arm64.deb ... 271s Unpacking libdeflate0:arm64 (1.23-2) ... 271s Selecting previously unselected package libgfortran5:arm64. 271s Preparing to unpack .../15-libgfortran5_15.2.0-12ubuntu1_arm64.deb ... 271s Unpacking libgfortran5:arm64 (15.2.0-12ubuntu1) ... 271s Selecting previously unselected package libgomp1:arm64. 271s Preparing to unpack .../16-libgomp1_15.2.0-12ubuntu1_arm64.deb ... 271s Unpacking libgomp1:arm64 (15.2.0-12ubuntu1) ... 271s Selecting previously unselected package libgraphite2-3:arm64. 271s Preparing to unpack .../17-libgraphite2-3_1.3.14-11ubuntu1_arm64.deb ... 271s Unpacking 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(2.2.5-0.3build1) ... 273s Setting up libthai0:arm64 (0.1.30-1) ... 273s Setting up libtiff6:arm64 (4.7.0-3ubuntu3) ... 273s Setting up libfontconfig1:arm64 (2.17.1-3ubuntu1) ... 273s Setting up libsm6:arm64 (2:1.2.6-1) ... 273s Setting up fontconfig (2.17.1-3ubuntu1) ... 275s Regenerating fonts cache... done. 275s Setting up libxft2:arm64 (2.3.6-1build2) ... 275s Setting up libtk8.6:arm64 (8.6.17-1) ... 275s Setting up libpango-1.0-0:arm64 (1.57.0-1) ... 275s Setting up libcairo2:arm64 (1.18.4-3) ... 275s Setting up libxt6t64:arm64 (1:1.2.1-1.3) ... 275s Setting up libpangoft2-1.0-0:arm64 (1.57.0-1) ... 275s Setting up libpangocairo-1.0-0:arm64 (1.57.0-1) ... 275s Setting up r-base-core (4.5.2-1ubuntu2) ... 276s Creating config file /etc/R/Renviron with new version 276s Setting up qtltools (1.3.1+dfsg-4build6) ... 276s Processing triggers for man-db (2.13.1-1) ... 277s Processing triggers for install-info (7.2-5) ... 277s Processing triggers for libc-bin (2.42-2ubuntu5) ... 278s autopkgtest [05:53:24]: test run-sample-analysis: [----------------------- 278s ./genes.50percent.chr22.bed.gz 278s ./genes.50percent.chr22.bed.gz.tbi 278s ./genes.covariates.pc50.txt.gz 278s ./genes.simulated.chr22.bed.gz 278s ./genes.simulated.chr22.bed.gz.tbi 278s ./genotypes.chr22.vcf.gz 279s ./genotypes.chr22.vcf.gz.tbi 279s 279s QTLtools 279s * Authors : Olivier DELANEAU / Halit ONGEN / Emmanouil DERMITZAKIS 279s * Contact : olivier.delaneau@gmail.com / halit.ongen@unige.ch / Emmanouil.Dermitzakis@unige.ch 279s * Webpage : https://qtltools.github.io/qtltools/ 279s * Version : 1.3.1 279s * Date : 05/02/2026 - 05:53:25 279s * Citation: A complete tool set for molecular QTL discovery and analysis, https://doi.org/10.1038/ncomms15452 279s 279s CONDUCT PCA ON DATA 279s 279s Initialize random number generator 279s * Built-in seed is 15112011 279s * First Integer = 30553 279s * First Double = 0.0126695 279s 279s Reading sample list from [genes.50percent.chr22.bed.gz] 279s * #samples = 358 279s 279s Merging sample sets from all input files 279s * #files = 1 279s * #samples in all files = 358 279s 279s Reading phenotype data in [genes.50percent.chr22.bed.gz] 279s * 358 samples included 279s * 608 phenotypes included 279s 279s Calculating PCA with a matrix 358 x 608 279s * Calculated mean and sd 279s * 0 sd==0 columns removed 279s * Variables centered 279s * Variables scaled to unit variance 279s * Running SVD 279s * SVD complete 279s * Calculated sd and var for PCs 279s * Calculated cumulative var for PCs 279s * Done! 279s 279s Running time: 0 seconds 279s 279s QTLtools 279s * Authors : Olivier DELANEAU / Halit ONGEN / Emmanouil DERMITZAKIS 279s * Contact : olivier.delaneau@gmail.com / halit.ongen@unige.ch / Emmanouil.Dermitzakis@unige.ch 279s * Webpage : https://qtltools.github.io/qtltools/ 279s * Version : 1.3.1 279s * Date : 05/02/2026 - 05:53:26 279s * Citation: A complete tool set for molecular QTL discovery and analysis, https://doi.org/10.1038/ncomms15452 279s 279s MAPPING QTL IN CIS 279s * TASK: Report all nominal associations with p <= 0.01 279s * Linear model: Phe ~ Var + Cov 279s * Cis-window size is 1000000 bp 279s * Region = [chr22:17000000-18000000] 279s 279s Initialize random number generator 279s * Built-in seed is 15112011 279s * First Integer = 30553 279s * First Double = 0.0126695 279s 279s Reading sample list from [genes.50percent.chr22.bed.gz] 279s * #samples = 358 279s 279s Read sample list from [genotypes.chr22.vcf.gz] 279s * #samples = 358 279s 279s Reading sample list from [genes.covariates.pc50.txt.gz] 279s * #samples = 358 279s 279s Merging sample sets from all input files 279s * #files = 3 279s * #samples in all files = 358 279s 279s Reading phenotype data in [genes.50percent.chr22.bed.gz] 279s * target region [chr22:17000000-18000000] 279s * 8 phenotypes included 279s * 3 phenotypes are on the negative strand 279s 279s Reading genotype data in [genotypes.chr22.vcf.gz] 279s * File format detected: VCF 279s * target region [chr22:16000000-19000000] 280s * 6404 variants included 280s 280s Reading covariates in [genes.covariates.pc50.txt.gz] 280s * 53 covariates included 280s 280s Residualize phenotypes for covariates 280s * #covariates = 53 280s 280s Processing phenotype [ENSG00000237438.2] [1/8] 280s * #variants in cis = 5095 280s * Best hit: [id=22_17542810, d=25350, pv=1.1864e-25, s=-0.7518] 280s 280s Processing phenotype [ENSG00000273203.1] [2/8] 280s * #variants in cis = 5170 280s * Best hit: [id=22_17517388, d=-31323, pv=5.86611e-06, s=-0.1406] 280s 280s Processing phenotype [ENSG00000273442.1] [3/8] 280s * #variants in cis = 5188 280s * Best hit: [id=22_17553526, d=-8065, pv=0.000244522, s=0.1340] 280s 280s Processing phenotype [ENSG00000177663.9] [4/8] 280s * #variants in cis = 5193 280s * Best hit: [id=22_17513703, d=-52141, pv=8.03358e-14, s=-0.2096] 280s 280s Processing phenotype [ENSG00000183307.3] [5/8] 280s * #variants in cis = 5230 280s * Best hit: [id=22_17587975, d=14282, pv=1.56789e-07, s=-0.0078] 280s 280s Processing phenotype [ENSG00000069998.8] [6/8] 280s * #variants in cis = 5291 280s * Best hit: [id=22_17620429, d=25748, pv=1.37287e-14, s=-1.5147] 280s 280s Processing phenotype [ENSG00000093072.11] [7/8] 280s * #variants in cis = 5293 280s * Best hit: [id=22_17699630, d=3249, pv=0.000578649, s=0.6404] 280s 280s Processing phenotype [ENSG00000099954.14] [8/8] 280s * #variants in cis = 5435 280s * Best hit: [id=22_17175937, d=-664900, pv=0.000866455, s=0.0067] 280s 280s Running time: 0 seconds 280s 280s QTLtools 280s * Authors : Olivier DELANEAU / Halit ONGEN / Emmanouil DERMITZAKIS 280s * Contact : olivier.delaneau@gmail.com / halit.ongen@unige.ch / Emmanouil.Dermitzakis@unige.ch 280s * Webpage : https://qtltools.github.io/qtltools/ 280s * Version : 1.3.1 280s * Date : 05/02/2026 - 05:53:26 280s * Citation: A complete tool set for molecular QTL discovery and analysis, https://doi.org/10.1038/ncomms15452 280s 280s MAPPING QTL IN CIS 280s * TASK: Perform 1000 permutations 280s * Linear model: Phe ~ Var + Cov 280s * Cis-window size is 1000000 bp 280s * Region = [chr22:17000000-18000000] 280s 280s Initialize random number generator 280s * Built-in seed is 15112011 280s * First Integer = 30553 280s * First Double = 0.0126695 280s 280s Reading sample list from [genes.50percent.chr22.bed.gz] 280s * #samples = 358 280s 280s Read sample list from [genotypes.chr22.vcf.gz] 280s * #samples = 358 280s 280s Reading sample list from [genes.covariates.pc50.txt.gz] 280s * #samples = 358 280s 280s Merging sample sets from all input files 280s * #files = 3 280s * #samples in all files = 358 280s 280s Reading phenotype data in [genes.50percent.chr22.bed.gz] 280s * target region [chr22:17000000-18000000] 280s * 8 phenotypes included 280s * 3 phenotypes are on the negative strand 280s 280s Reading genotype data in [genotypes.chr22.vcf.gz] 280s * File format detected: VCF 280s * target region [chr22:16000000-19000000] 280s * 6404 variants included 280s 280s Reading covariates in [genes.covariates.pc50.txt.gz] 280s * 53 covariates included 280s 280s Residualize phenotypes for covariates 280s * #covariates = 53 280s 280s Processing phenotype [ENSG00000237438.2] [1/8] 280s * #variants in cis = 5095 280s * Best hit: [id=22_17542810, d=25350, pv=1.1864e-25, s=-0.7518] 280s * Beta parameters: [s1=1.00995, s2=621.053] 280s * Adjusted p-values: [emp=0.000999001, beta=1.28062e-20] 280s 280s Processing phenotype [ENSG00000273203.1] [2/8] 280s * #variants in cis = 5170 281s * Best hit: [id=22_17517388, d=-31323, pv=5.86611e-06, s=-0.1406] 281s * Beta parameters: [s1=1.11817, s2=641.379] 281s * Adjusted p-values: [emp=0.00799201, beta=0.00751892] 281s 281s Processing phenotype [ENSG00000273442.1] [3/8] 281s * #variants in cis = 5188 281s * Best hit: [id=22_17553526, d=-8065, pv=0.000244522, s=0.1340] 281s * Beta parameters: [s1=1.08364, s2=467.63] 281s * Adjusted p-values: [emp=0.297702, beta=0.293948] 281s 281s Processing phenotype [ENSG00000177663.9] [4/8] 281s * #variants in cis = 5193 282s * Best hit: [id=22_17513703, d=-52141, pv=8.03358e-14, s=-0.2096] 282s * Beta parameters: [s1=0.989061, s2=704.553] 282s * Adjusted p-values: [emp=0.000999001, beta=7.91291e-10] 282s 282s Processing phenotype [ENSG00000183307.3] [5/8] 282s * #variants in cis = 5230 283s * Best hit: [id=22_17587975, d=14282, pv=1.56789e-07, s=-0.0078] 283s * Beta parameters: [s1=1.01322, s2=559.49] 283s * Adjusted p-values: [emp=0.000999001, beta=0.00050707] 283s 283s Processing phenotype [ENSG00000069998.8] [6/8] 283s * #variants in cis = 5291 283s * Best hit: [id=22_17620429, d=25748, pv=1.37287e-14, s=-1.5147] 283s * Beta parameters: [s1=1.02312, s2=563.339] 283s * Adjusted p-values: [emp=0.000999001, beta=2.56935e-10] 283s 283s Processing phenotype [ENSG00000093072.11] [7/8] 283s * #variants in cis = 5293 284s * Best hit: [id=22_17699630, d=3249, pv=0.000578649, s=0.6404] 284s * Beta parameters: [s1=0.957514, s2=559.397] 284s * Adjusted p-values: [emp=0.574426, beta=0.562826] 284s 284s Processing phenotype [ENSG00000099954.14] [8/8] 284s * #variants in cis = 5435 284s * Best hit: [id=22_17175937, d=-664900, pv=0.000866455, s=0.0067] 284s * Beta parameters: [s1=0.938041, s2=226.852] 284s * Adjusted p-values: [emp=0.842158, beta=0.84836] 284s 284s Running time: 4 seconds 284s 284s QTLtools 284s * Authors : Olivier DELANEAU / Halit ONGEN / Emmanouil DERMITZAKIS 284s * Contact : olivier.delaneau@gmail.com / halit.ongen@unige.ch / Emmanouil.Dermitzakis@unige.ch 284s * Webpage : https://qtltools.github.io/qtltools/ 284s * Version : 1.3.1 284s * Date : 05/02/2026 - 05:53:30 284s * Citation: A complete tool set for molecular QTL discovery and analysis, https://doi.org/10.1038/ncomms15452 284s 284s MAPPING QTL IN TRANS 284s * TASK: Perform a full nominal pass, do not adjust p-values 284s * Cis-window size is 5000000 bp 284s * #bins = 1000 284s * threshold = 1e-05 284s 284s Initialize random number generator 284s * Built-in seed is 15112011 284s * First Integer = 30553 284s * First Double = 0.0126695 284s 284s Read sample list from [genotypes.chr22.vcf.gz] 284s * #samples = 358 284s 284s Checking sample list in [genes.simulated.chr22.bed.gz] 284s * #samples = 358 284s 284s Reading phenotype data in [genes.simulated.chr22.bed.gz] from line 0 to 0 284s * 358 samples included 284s * 608 phenotypes included 284s * 275 phenotypes is on the negative strand 284s 284s Calculate correlation threshold 284s * thres = 1e-05 284s * corr = 0.2311 284s 284s Sweep through genotype data in [genotypes.chr22.vcf.gz] 285s * #variants=1950 #multi_allelic=0 #not_processed=0 #hits=101/1000000 speed=6.62MT/s 285s * #variants=4001 #multi_allelic=0 #not_processed=0 #hits=153/2000000 speed=6.58MT/s 285s * #variants=6187 #multi_allelic=0 #not_processed=0 #hits=244/3000000 speed=6.45MT/s 285s * #variants=8537 #multi_allelic=0 #not_processed=0 #hits=285/4000000 speed=6.37MT/s 285s * #variants=11025 #multi_allelic=0 #not_processed=0 #hits=312/5000000 speed=6.29MT/s 285s * #variants=13621 #multi_allelic=0 #not_processed=0 #hits=320/6000000 speed=6.25MT/s 286s * #variants=16217 #multi_allelic=0 #not_processed=0 #hits=342/7000000 speed=6.25MT/s 286s * #variants=18755 #multi_allelic=0 #not_processed=0 #hits=401/8000000 speed=6.25MT/s 286s * #variants=21237 #multi_allelic=0 #not_processed=0 #hits=402/9000000 speed=6.29MT/s 286s * #variants=23680 #multi_allelic=0 #not_processed=0 #hits=455/10000000 speed=6.29MT/s 286s * #variants=26171 #multi_allelic=0 #not_processed=0 #hits=463/11000000 speed=6.29MT/s 286s * #variants=28609 #multi_allelic=0 #not_processed=0 #hits=469/12000000 speed=6.29MT/s 287s * #variants=30861 #multi_allelic=0 #not_processed=0 #hits=973/13000000 speed=6.25MT/s 287s * #variants=32932 #multi_allelic=0 #not_processed=0 #hits=979/14000000 speed=6.54MT/s 287s * #variants=34974 #multi_allelic=0 #not_processed=0 #hits=1085/15000000 speed=6.58MT/s 287s * #variants=37021 #multi_allelic=0 #not_processed=0 #hits=1086/16000000 speed=6.62MT/s 287s * #variants=39122 #multi_allelic=0 #not_processed=0 #hits=1089/17000000 speed=6.58MT/s 287s * #variants=41334 #multi_allelic=0 #not_processed=0 #hits=1089/18000000 speed=6.45MT/s 287s * #variants=43627 #multi_allelic=0 #not_processed=0 #hits=1096/19000000 speed=6.41MT/s 288s * #variants=45897 #multi_allelic=0 #not_processed=0 #hits=1153/20000000 speed=6.41MT/s 288s * #variants=48114 #multi_allelic=0 #not_processed=0 #hits=1243/21000000 speed=6.41MT/s 288s * #variants=50410 #multi_allelic=0 #not_processed=0 #hits=1249/22000000 speed=6.41MT/s 288s * #variants=52820 #multi_allelic=0 #not_processed=0 #hits=1259/23000000 speed=6.37MT/s 288s * #variants=55279 #multi_allelic=0 #not_processed=0 #hits=1498/24000000 speed=6.25MT/s 288s * #variants=57789 #multi_allelic=0 #not_processed=0 #hits=1724/25000000 speed=6.25MT/s 289s * #variants=60201 #multi_allelic=0 #not_processed=0 #hits=2168/26000000 speed=6.21MT/s 289s * #variants=62476 #multi_allelic=0 #not_processed=0 #hits=2452/27000000 speed=6.33MT/s 289s * #variants=64608 #multi_allelic=0 #not_processed=0 #hits=2544/28000000 speed=6.54MT/s 289s * #variants=66709 #multi_allelic=0 #not_processed=0 #hits=2684/29000000 speed=6.54MT/s 289s * #variants=68871 #multi_allelic=0 #not_processed=0 #hits=2688/30000000 speed=6.54MT/s 289s * #variants=71070 #multi_allelic=0 #not_processed=0 #hits=2720/31000000 speed=6.49MT/s 289s * #variants=73151 #multi_allelic=0 #not_processed=0 #hits=2891/32000000 speed=6.54MT/s 290s * #variants=75122 #multi_allelic=0 #not_processed=0 #hits=3110/33000000 speed=6.62MT/s 290s * #variants=77058 #multi_allelic=0 #not_processed=0 #hits=3209/34000000 speed=6.67MT/s 290s * #variants=78989 #multi_allelic=0 #not_processed=0 #hits=3218/35000000 speed=6.76MT/s 290s * #variants=80903 #multi_allelic=0 #not_processed=0 #hits=3250/36000000 speed=6.71MT/s 290s * #variants=82811 #multi_allelic=0 #not_processed=0 #hits=3463/37000000 speed=6.67MT/s 290s * #variants=84694 #multi_allelic=0 #not_processed=0 #hits=4035/38000000 speed=6.54MT/s 290s * #variants=85485 #multi_allelic=0 #not_processed=0 #hits=4036/38425275 speed=6.86MT/s 290s 290s Running time: 6 seconds 290s 290s QTLtools 290s * Authors : Olivier DELANEAU / Halit ONGEN / Emmanouil DERMITZAKIS 290s * Contact : olivier.delaneau@gmail.com / halit.ongen@unige.ch / Emmanouil.Dermitzakis@unige.ch 290s * Webpage : https://qtltools.github.io/qtltools/ 290s * Version : 1.3.1 290s * Date : 05/02/2026 - 05:53:37 290s * Citation: A complete tool set for molecular QTL discovery and analysis, https://doi.org/10.1038/ncomms15452 290s 290s MAPPING QTL IN TRANS 290s * TASK: Permute randomly chosen phenotypes 1000 times and test 290s * Cis-window size is 5000000 bp 290s * #bins = 1000 290s * threshold = 1e-05 290s 290s Initialize random number generator 290s * Built-in seed is 15112011 290s * First Integer = 30553 290s * First Double = 0.0126695 290s 290s Read sample list from [genotypes.chr22.vcf.gz] 290s * #samples = 358 290s 290s Checking sample list in [genes.simulated.chr22.bed.gz] 290s * #samples = 358 290s 290s Reading phenotype data in [genes.simulated.chr22.bed.gz] from line 0 to 0 290s * 358 samples included 291s * 608 phenotypes included 291s * 275 phenotypes is on the negative strand 291s 291s Normal transform phenotypes 291s 291s Calculate correlation threshold 291s * thres = 1e-05 291s * corr = 0.2311 291s 291s Sweep through genotype data in [genotypes.chr22.vcf.gz] 291s * #variants=1177 #multi_allelic=0 #not_processed=0 #hits=28/1000000 speed=6.99MT/s 291s * #variants=2383 #multi_allelic=0 #not_processed=0 #hits=38/2000000 speed=6.94MT/s 291s * #variants=3633 #multi_allelic=0 #not_processed=0 #hits=53/3000000 speed=6.80MT/s 291s * #variants=4928 #multi_allelic=0 #not_processed=0 #hits=53/4000000 speed=6.76MT/s 291s * #variants=6269 #multi_allelic=0 #not_processed=0 #hits=71/5000000 speed=6.58MT/s 291s * #variants=7675 #multi_allelic=0 #not_processed=0 #hits=72/6000000 speed=6.49MT/s 292s * #variants=9151 #multi_allelic=0 #not_processed=0 #hits=88/7000000 speed=6.33MT/s 292s * #variants=10663 #multi_allelic=0 #not_processed=0 #hits=96/8000000 speed=6.25MT/s 292s * #variants=12202 #multi_allelic=0 #not_processed=0 #hits=96/9000000 speed=6.21MT/s 292s * #variants=13804 #multi_allelic=0 #not_processed=0 #hits=96/10000000 speed=6.13MT/s 292s * #variants=15381 #multi_allelic=0 #not_processed=0 #hits=120/11000000 speed=6.13MT/s 292s * #variants=16946 #multi_allelic=0 #not_processed=0 #hits=123/12000000 speed=6.17MT/s 293s * #variants=18483 #multi_allelic=0 #not_processed=0 #hits=129/13000000 speed=6.21MT/s 293s * #variants=19995 #multi_allelic=0 #not_processed=0 #hits=131/14000000 speed=6.25MT/s 293s * #variants=21489 #multi_allelic=0 #not_processed=0 #hits=132/15000000 speed=6.29MT/s 293s * #variants=22947 #multi_allelic=0 #not_processed=0 #hits=151/16000000 speed=6.33MT/s 293s * #variants=24445 #multi_allelic=0 #not_processed=0 #hits=168/17000000 speed=6.25MT/s 293s * #variants=25965 #multi_allelic=0 #not_processed=0 #hits=175/18000000 speed=6.17MT/s 294s * #variants=27472 #multi_allelic=0 #not_processed=0 #hits=179/19000000 speed=6.25MT/s 294s * #variants=28933 #multi_allelic=0 #not_processed=0 #hits=181/20000000 speed=6.33MT/s 294s * #variants=30325 #multi_allelic=0 #not_processed=0 #hits=181/21000000 speed=6.45MT/s 294s * #variants=31617 #multi_allelic=0 #not_processed=0 #hits=182/22000000 speed=6.71MT/s 294s * #variants=32875 #multi_allelic=0 #not_processed=0 #hits=190/23000000 speed=6.80MT/s 294s * #variants=34127 #multi_allelic=0 #not_processed=0 #hits=192/24000000 speed=6.80MT/s 294s * #variants=35392 #multi_allelic=0 #not_processed=0 #hits=206/25000000 speed=6.76MT/s 295s * #variants=36652 #multi_allelic=0 #not_processed=0 #hits=206/26000000 speed=6.85MT/s 295s * #variants=37940 #multi_allelic=0 #not_processed=0 #hits=213/27000000 speed=6.76MT/s 295s * #variants=39255 #multi_allelic=0 #not_processed=0 #hits=238/28000000 speed=6.67MT/s 295s * #variants=40602 #multi_allelic=0 #not_processed=0 #hits=239/29000000 speed=6.62MT/s 295s * #variants=41998 #multi_allelic=0 #not_processed=0 #hits=245/30000000 speed=6.49MT/s 295s * #variants=43398 #multi_allelic=0 #not_processed=0 #hits=245/31000000 speed=6.54MT/s 295s * #variants=44803 #multi_allelic=0 #not_processed=0 #hits=260/32000000 speed=6.49MT/s 296s * #variants=46187 #multi_allelic=0 #not_processed=0 #hits=261/33000000 speed=6.54MT/s 296s * #variants=47545 #multi_allelic=0 #not_processed=0 #hits=268/34000000 speed=6.58MT/s 296s * #variants=48904 #multi_allelic=0 #not_processed=0 #hits=280/35000000 speed=6.54MT/s 296s * #variants=50309 #multi_allelic=0 #not_processed=0 #hits=306/36000000 speed=6.45MT/s 296s * #variants=51731 #multi_allelic=0 #not_processed=0 #hits=314/37000000 speed=6.41MT/s 296s * #variants=53171 #multi_allelic=0 #not_processed=0 #hits=320/38000000 speed=6.37MT/s 297s * #variants=54621 #multi_allelic=0 #not_processed=0 #hits=323/39000000 speed=6.37MT/s 297s * #variants=56099 #multi_allelic=0 #not_processed=0 #hits=323/40000000 speed=6.33MT/s 297s * #variants=57584 #multi_allelic=0 #not_processed=0 #hits=340/41000000 speed=6.33MT/s 297s * #variants=59032 #multi_allelic=0 #not_processed=0 #hits=344/42000000 speed=6.41MT/s 297s * #variants=60437 #multi_allelic=0 #not_processed=0 #hits=345/43000000 speed=6.49MT/s 297s * #variants=61810 #multi_allelic=0 #not_processed=0 #hits=357/44000000 speed=6.54MT/s 297s * #variants=63129 #multi_allelic=0 #not_processed=0 #hits=384/45000000 speed=6.62MT/s 298s * #variants=64409 #multi_allelic=0 #not_processed=0 #hits=391/46000000 speed=6.76MT/s 298s * #variants=65679 #multi_allelic=0 #not_processed=0 #hits=430/47000000 speed=6.71MT/s 298s * #variants=66953 #multi_allelic=0 #not_processed=0 #hits=436/48000000 speed=6.76MT/s 298s * #variants=68247 #multi_allelic=0 #not_processed=0 #hits=446/49000000 speed=6.71MT/s 298s * #variants=69595 #multi_allelic=0 #not_processed=0 #hits=460/50000000 speed=6.58MT/s 298s * #variants=70918 #multi_allelic=0 #not_processed=0 #hits=481/51000000 speed=6.62MT/s 299s * #variants=72211 #multi_allelic=0 #not_processed=0 #hits=492/52000000 speed=6.71MT/s 299s * #variants=73449 #multi_allelic=0 #not_processed=0 #hits=492/53000000 speed=6.85MT/s 299s * #variants=74662 #multi_allelic=0 #not_processed=0 #hits=500/54000000 speed=6.85MT/s 299s * #variants=75863 #multi_allelic=0 #not_processed=0 #hits=506/55000000 speed=6.94MT/s 299s * #variants=77058 #multi_allelic=0 #not_processed=0 #hits=513/56000000 speed=6.94MT/s 299s * #variants=78253 #multi_allelic=0 #not_processed=0 #hits=515/57000000 speed=6.94MT/s 299s * #variants=79446 #multi_allelic=0 #not_processed=0 #hits=530/58000000 speed=6.94MT/s 300s * #variants=80634 #multi_allelic=0 #not_processed=0 #hits=581/59000000 speed=6.94MT/s 300s * #variants=81817 #multi_allelic=0 #not_processed=0 #hits=594/60000000 speed=6.94MT/s 300s * #variants=82993 #multi_allelic=0 #not_processed=0 #hits=598/61000000 speed=6.99MT/s 300s * #variants=84160 #multi_allelic=0 #not_processed=0 #hits=599/62000000 speed=6.99MT/s 300s * #variants=85304 #multi_allelic=0 #not_processed=0 #hits=609/63000000 speed=7.09MT/s 300s * #variants=85485 #multi_allelic=0 #not_processed=0 #hits=609/63157827 speed=7.17MT/s 300s 300s Running time: 9 seconds 301s autopkgtest [05:53:47]: test run-sample-analysis: -----------------------] 301s run-sample-analysis PASS 301s autopkgtest [05:53:47]: test run-sample-analysis: - - - - - - - - - - results - - - - - - - - - - 301s autopkgtest [05:53:47]: @@@@@@@@@@@@@@@@@@@@ summary 301s run-sample-analysis PASS