https://launchpad.net/ubuntu/+archive/test-rebuild-20211130-impish/+build/22481651 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux lgw01-amd64-037 4.15.0-167-generic #175-Ubuntu SMP Wed Jan 5 01:56:07 UTC 2022 x86_64 Buildd toolchain package versions: launchpad-buildd_208~526~ubuntu18.04.1 python3-lpbuildd_208~526~ubuntu18.04.1 sbuild_0.75.0-1ubuntu1 bzr-builder_0.7.3+bzr174~ppa13~ubuntu16.04.1 bzr_2.7.0+bzr6622-10 git-build-recipe_0.3.6~git201906051340.ff11471~ubuntu18.04.1 git_1:2.17.1-1ubuntu0.9 dpkg-dev_1.19.0.5ubuntu2.3 python-debian_0.1.32 python3-debian_0.1.32. Syncing the system clock with the buildd NTP service... 17 Feb 07:21:34 ntpdate[1975]: adjust time server 10.211.37.1 offset 0.000015 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=impish --arch=amd64 PACKAGEBUILD-22481651 --image-type chroot /home/buildd/filecache-default/470b94eb81e7101f5c7afd2cf17d7483b3ea9d4e Creating target for build PACKAGEBUILD-22481651 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=impish --arch=amd64 PACKAGEBUILD-22481651 Starting target for build PACKAGEBUILD-22481651 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=impish --arch=amd64 PACKAGEBUILD-22481651 'deb http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish main universe' 'deb http://ppa.launchpadcontent.net/ubuntu-toolchain-r/volatile/ubuntu impish main' 'deb http://ftpmaster.internal/ubuntu impish main universe' Overriding sources.list in build-PACKAGEBUILD-22481651 RUN: /usr/share/launchpad-buildd/bin/in-target add-trusted-keys --backend=chroot --series=impish --arch=amd64 PACKAGEBUILD-22481651 Adding trusted keys to build-PACKAGEBUILD-22481651 Warning: apt-key is deprecated. Manage keyring files in trusted.gpg.d instead (see apt-key(8)). OK Warning: apt-key is deprecated. Manage keyring files in trusted.gpg.d instead (see apt-key(8)). /etc/apt/trusted.gpg -------------------- pub rsa1024 2009-10-22 [SC] 60C3 1780 3A41 BA51 845E 371A 1E93 77A2 BA9E F27F uid [ unknown] Launchpad Toolchain builds pub rsa4096 2022-01-26 [SC] B07E 5D12 02AC 5E62 A0DC 2F8E 37F3 489E 6638 5934 uid [ unknown] Launchpad copy archive ubuntu/test-rebuild-20211130-impish /etc/apt/trusted.gpg.d/ubuntu-keyring-2012-cdimage.gpg ------------------------------------------------------ pub rsa4096 2012-05-11 [SC] 8439 38DF 228D 22F7 B374 2BC0 D94A A3F0 EFE2 1092 uid [ unknown] Ubuntu CD Image Automatic Signing Key (2012) /etc/apt/trusted.gpg.d/ubuntu-keyring-2018-archive.gpg ------------------------------------------------------ pub rsa4096 2018-09-17 [SC] F6EC B376 2474 EDA9 D21B 7022 8719 20D1 991B C93C uid [ unknown] Ubuntu Archive Automatic Signing Key (2018) RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=impish --arch=amd64 PACKAGEBUILD-22481651 Updating target for build PACKAGEBUILD-22481651 Get:1 http://ppa.launchpadcontent.net/ubuntu-toolchain-r/volatile/ubuntu impish InRelease [23.8 kB] Get:2 http://ftpmaster.internal/ubuntu impish InRelease [270 kB] Get:3 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish InRelease [221 kB] Get:4 http://ppa.launchpadcontent.net/ubuntu-toolchain-r/volatile/ubuntu impish/main amd64 Packages [7500 B] Get:5 http://ppa.launchpadcontent.net/ubuntu-toolchain-r/volatile/ubuntu impish/main Translation-en [6004 B] Get:6 http://ftpmaster.internal/ubuntu impish/main amd64 Packages [1396 kB] Get:7 http://ftpmaster.internal/ubuntu impish/main Translation-en [511 kB] Get:8 http://ftpmaster.internal/ubuntu impish/universe amd64 Packages [13.1 MB] Get:9 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 Packages [1233 kB] Get:10 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main Translation-en [479 kB] Get:11 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 Packages [6043 kB] Get:12 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe Translation-en [2522 kB] Get:13 http://ftpmaster.internal/ubuntu impish/universe Translation-en [5463 kB] Fetched 31.3 MB in 4s (7128 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: g++-10 libstdc++-10-dev Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: libffi8ubuntu1* The following NEW packages will be installed: cpp-11 g++-11 gcc-11 libexpat1 libffi8 libgcc-11-dev libmpdec3 libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib libstdc++-11-dev media-types python3 python3-minimal python3-psutil python3.9 python3.9-minimal The following packages will be upgraded: advancecomp apt base-files base-passwd bash binutils binutils-common binutils-x86-64-linux-gnu bsdutils build-essential bzip2 ca-certificates coreutils cpp cpp-10 dash debconf debianutils diffutils dpkg dpkg-dev e2fsprogs fakeroot findutils g++ g++-10 gcc gcc-10 gcc-10-base gcc-11-base gpg gpg-agent gpgconf gpgv grep gzip hostname init init-system-helpers libacl1 libapparmor1 libapt-pkg6.0 libargon2-1 libasan6 libassuan0 libatomic1 libattr1 libaudit-common libaudit1 libbinutils libblkid1 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcc1-0 libcom-err2 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libdb5.3 libdevmapper1.02.1 libdpkg-perl libext2fs2 libfakeroot libgcc-10-dev libgcc-s1 libgcrypt20 libgdbm-compat4 libgdbm6 libgmp10 libgnutls30 libgomp1 libgpg-error0 libgssapi-krb5-2 libhogweed6 libidn2-0 libisl23 libitm1 libk5crypto3 libkmod2 libkrb5-3 libkrb5support0 liblockfile-bin liblockfile1 liblsan0 liblz4-1 liblzma5 libmount1 libmpfr6 libncurses6 libncursesw6 libnettle8 libnpth0 libnsl-dev libnsl2 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libperl5.32 libpng16-16 libprocps8 libquadmath0 libreadline8 libseccomp2 libselinux1 libsemanage-common libsemanage1 libsepol1 libsmartcols1 libsqlite3-0 libss2 libssl1.1 libstdc++-10-dev libstdc++6 libsystemd0 libtasn1-6 libtinfo6 libtirpc-common libtirpc-dev libtirpc3 libtsan0 libubsan1 libudev1 libunistring2 libuuid1 libxxhash0 libzstd1 linux-libc-dev lockfile-progs login logsave lsb-base lto-disabled-list mawk mount ncurses-bin openssl optipng passwd patch perl perl-base perl-modules-5.32 pinentry-curses pkgbinarymangler procps readline-common rpcsvc-proto sed systemd systemd-sysv systemd-timesyncd sysvinit-utils tar tzdata usrmerge util-linux xz-utils zlib1g 166 upgraded, 17 newly installed, 1 to remove and 0 not upgraded. Need to get 279 MB of archives. After this operation, 515 MB of additional disk space will be used. Get:1 http://ppa.launchpadcontent.net/ubuntu-toolchain-r/volatile/ubuntu impish/main amd64 dpkg amd64 1.20.9ubuntu13 [1265 kB] Get:2 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libcrypt-dev amd64 1:4.4.18-4ubuntu1 [111 kB] Get:3 http://ftpmaster.internal/ubuntu impish/main amd64 libc6-dev amd64 2.34-0ubuntu3 [1886 kB] Get:4 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 rpcsvc-proto amd64 1.4.2-0ubuntu5 [68.4 kB] Get:5 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libnsl-dev amd64 1.3.0-2build1 [71.2 kB] Get:6 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libcrypt1 amd64 1:4.4.18-4ubuntu1 [82.0 kB] Get:7 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libtirpc-common all 1.3.2-2 [7674 B] Get:8 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libtirpc-dev amd64 1.3.2-2 [192 kB] Get:9 http://ppa.launchpadcontent.net/ubuntu-toolchain-r/volatile/ubuntu impish/main amd64 dpkg-dev all 1.20.9ubuntu13 [938 kB] Get:10 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libk5crypto3 amd64 1.18.3-6 [86.1 kB] Get:11 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libkrb5support0 amd64 1.18.3-6 [32.1 kB] Get:12 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libkrb5-3 amd64 1.18.3-6 [355 kB] Get:13 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libgssapi-krb5-2 amd64 1.18.3-6 [143 kB] Get:14 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libcom-err2 amd64 1.46.3-1ubuntu3 [10.7 kB] Get:15 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libperl5.32 amd64 5.32.1-3ubuntu3 [4720 kB] Get:16 http://ppa.launchpadcontent.net/ubuntu-toolchain-r/volatile/ubuntu impish/main amd64 libdpkg-perl all 1.20.9ubuntu13 [235 kB] Get:17 http://ftpmaster.internal/ubuntu impish/main amd64 libc-dev-bin amd64 2.34-0ubuntu3 [20.3 kB] Get:18 http://ftpmaster.internal/ubuntu impish/main amd64 libc6 amd64 2.34-0ubuntu3 [3028 kB] Get:19 http://ftpmaster.internal/ubuntu impish/main amd64 libc-bin amd64 2.34-0ubuntu3 [1023 kB] Get:20 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 perl amd64 5.32.1-3ubuntu3 [227 kB] Get:21 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 perl-base amd64 5.32.1-3ubuntu3 [1744 kB] Get:22 http://ftpmaster.internal/ubuntu impish/main amd64 linux-libc-dev amd64 5.13.0-19.19 [1279 kB] Get:23 http://ftpmaster.internal/ubuntu impish/main amd64 libasan6 amd64 11.2.0-7ubuntu2 [2280 kB] Get:24 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 perl-modules-5.32 all 5.32.1-3ubuntu3 [2945 kB] Get:25 http://ftpmaster.internal/ubuntu impish/main amd64 libubsan1 amd64 11.2.0-7ubuntu2 [920 kB] Get:26 http://ftpmaster.internal/ubuntu impish/main amd64 libtsan0 amd64 11.2.0-7ubuntu2 [2259 kB] Get:27 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libdb5.3 amd64 5.3.28+dfsg1-0.8ubuntu1 [721 kB] Get:28 http://ftpmaster.internal/ubuntu impish/main amd64 libquadmath0 amd64 11.2.0-7ubuntu2 [154 kB] Get:29 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libgdbm6 amd64 1.19-2 [29.4 kB] Get:30 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libgdbm-compat4 amd64 1.19-2 [6472 B] Get:31 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 zlib1g amd64 1:1.2.11.dfsg-2ubuntu7 [58.1 kB] Get:32 http://ftpmaster.internal/ubuntu impish/main amd64 liblsan0 amd64 11.2.0-7ubuntu2 [974 kB] Get:33 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 debconf all 1.5.77 [128 kB] Get:34 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libssl1.1 amd64 1.1.1l-1ubuntu1 [1447 kB] Get:35 http://ftpmaster.internal/ubuntu impish/main amd64 libitm1 amd64 11.2.0-7ubuntu2 [30.0 kB] Get:36 http://ftpmaster.internal/ubuntu impish/main amd64 libgomp1 amd64 11.2.0-7ubuntu2 [117 kB] Get:37 http://ftpmaster.internal/ubuntu impish/main amd64 gcc-11-base amd64 11.2.0-7ubuntu2 [20.5 kB] Get:38 http://ftpmaster.internal/ubuntu impish/main amd64 libgcc-s1 amd64 11.2.0-7ubuntu2 [45.6 kB] Get:39 http://ftpmaster.internal/ubuntu impish/main amd64 libcc1-0 amd64 11.2.0-7ubuntu2 [53.9 kB] Get:40 http://ftpmaster.internal/ubuntu impish/main amd64 libatomic1 amd64 11.2.0-7ubuntu2 [10.0 kB] Get:41 http://ftpmaster.internal/ubuntu impish/main amd64 libstdc++6 amd64 11.2.0-7ubuntu2 [656 kB] Get:42 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libtirpc3 amd64 1.3.2-2 [81.5 kB] Get:43 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libnsl2 amd64 1.3.0-2build1 [42.3 kB] Get:44 http://ftpmaster.internal/ubuntu impish/main amd64 cpp-11 amd64 11.2.0-7ubuntu2 [50.6 MB] Get:45 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 base-files amd64 11.1ubuntu5 [63.1 kB] Get:46 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 debianutils amd64 4.11.2 [86.4 kB] Get:47 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 bash amd64 5.1-3ubuntu2 [775 kB] Get:48 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 bsdutils amd64 1:2.36.1-8ubuntu1 [82.5 kB] Get:49 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 coreutils amd64 8.32-4ubuntu2 [1436 kB] Get:50 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 tar amd64 1.34+dfsg-1build1 [295 kB] Get:51 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 dash amd64 0.5.11+git20210120+802ebd4-1build1 [92.4 kB] Get:52 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 diffutils amd64 1:3.8-0ubuntu1 [205 kB] Get:53 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 findutils amd64 4.8.0-1ubuntu2 [332 kB] Get:54 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 grep amd64 3.7-0ubuntu1 [195 kB] Get:55 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 gzip amd64 1.10-4ubuntu1 [95.6 kB] Get:56 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 hostname amd64 3.23ubuntu1 [11.5 kB] Get:57 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 login amd64 1:4.8.1-1ubuntu9 [188 kB] Get:58 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 ncurses-bin amd64 6.2+20201114-2build1 [180 kB] Get:59 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 sed amd64 4.7-1ubuntu1 [187 kB] Get:60 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 util-linux amd64 2.36.1-8ubuntu1 [1014 kB] Get:61 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 base-passwd amd64 3.5.51 [48.4 kB] Get:62 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 init-system-helpers all 1.60build1 [38.6 kB] Get:63 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 lsb-base all 11.1.0ubuntu3 [12.3 kB] Get:64 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 sysvinit-utils amd64 2.96-7ubuntu1 [20.9 kB] Get:65 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libgpg-error0 amd64 1.38-2build1 [67.9 kB] Get:66 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libgcrypt20 amd64 1.8.7-5ubuntu2 [468 kB] Get:67 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 liblz4-1 amd64 1.9.3-2 [57.0 kB] Get:68 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 liblzma5 amd64 5.2.5-2 [101 kB] Get:69 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 systemd-sysv amd64 248.3-1ubuntu8 [10.5 kB] Get:70 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 systemd-timesyncd amd64 248.3-1ubuntu8 [30.8 kB] Get:71 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libacl1 amd64 2.2.53-10ubuntu2 [16.1 kB] Get:72 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libapparmor1 amd64 3.0.3-0ubuntu1 [38.3 kB] Get:73 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libaudit-common all 1:3.0-2ubuntu2 [4694 B] Get:74 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libcap-ng0 amd64 0.7.9-2.2build1 [11.6 kB] Get:75 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libaudit1 amd64 1:3.0-2ubuntu2 [45.9 kB] Get:76 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libargon2-1 amd64 0~20171227-0.2build21.04.0 [19.5 kB] Get:77 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libblkid1 amd64 2.36.1-8ubuntu1 [97.7 kB] Get:78 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libpcre2-8-0 amd64 10.37-0ubuntu2 [219 kB] Get:79 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libselinux1 amd64 3.1-3build2 [74.4 kB] Get:80 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libudev1 amd64 248.3-1ubuntu8 [76.2 kB] Get:81 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libdevmapper1.02.1 amd64 2:1.02.175-2.1ubuntu3 [139 kB] Get:82 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libuuid1 amd64 2.36.1-8ubuntu1 [23.3 kB] Get:83 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libcryptsetup12 amd64 2:2.3.6-0ubuntu1 [212 kB] Get:84 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libgmp10 amd64 2:6.2.1+dfsg-1ubuntu2 [253 kB] Get:85 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libnettle8 amd64 3.7.3-1 [159 kB] Get:86 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libhogweed6 amd64 3.7.3-1 [199 kB] Get:87 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libunistring2 amd64 0.9.10-6 [503 kB] Get:88 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libidn2-0 amd64 2.3.1-1 [65.8 kB] Get:89 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libffi8 amd64 3.4.2-1ubuntu5 [21.8 kB] Get:90 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libp11-kit0 amd64 0.23.22-1build1 [254 kB] Get:91 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libtasn1-6 amd64 4.16.0-2 [42.8 kB] Get:92 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libgnutls30 amd64 3.7.1-5ubuntu1 [955 kB] Get:93 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libzstd1 amd64 1.4.8+dfsg-2.1 [324 kB] Get:94 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libkmod2 amd64 28-1ubuntu4 [48.1 kB] Get:95 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libmount1 amd64 2.36.1-8ubuntu1 [116 kB] Get:96 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libpam0g amd64 1.3.1-5ubuntu11 [58.4 kB] Get:97 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libseccomp2 amd64 2.5.1-1ubuntu1 [48.3 kB] Get:98 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 mount amd64 2.36.1-8ubuntu1 [110 kB] Get:99 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 systemd amd64 248.3-1ubuntu8 [4402 kB] Get:100 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libsystemd0 amd64 248.3-1ubuntu8 [307 kB] Get:101 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libxxhash0 amd64 0.8.0-2build1 [26.4 kB] Get:102 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libapt-pkg6.0 amd64 2.3.9 [900 kB] Get:103 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 gpgv amd64 2.2.20-1ubuntu4 [138 kB] Get:104 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 apt amd64 2.3.9 [1382 kB] Get:105 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libpam-modules-bin amd64 1.3.1-5ubuntu11 [41.2 kB] Get:106 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libpam-modules amd64 1.3.1-5ubuntu11 [272 kB] Get:107 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 logsave amd64 1.46.3-1ubuntu3 [11.5 kB] Get:108 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libext2fs2 amd64 1.46.3-1ubuntu3 [210 kB] Get:109 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 e2fsprogs amd64 1.46.3-1ubuntu3 [588 kB] Get:110 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 init amd64 1.60build1 [5912 B] Get:111 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libpython3.9-minimal amd64 3.9.7-2build1 [783 kB] Get:112 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libexpat1 amd64 2.4.1-2 [90.1 kB] Get:113 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3.9-minimal amd64 3.9.7-2build1 [2061 kB] Get:114 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-minimal amd64 3.9.4-1build1 [24.5 kB] Get:115 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 media-types all 4.0.0 [23.4 kB] Get:116 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 tzdata all 2021a-2ubuntu1 [339 kB] Get:117 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libmpdec3 amd64 2.5.1-2build1 [86.8 kB] Get:118 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libtinfo6 amd64 6.2+20201114-2build1 [102 kB] Get:119 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libncursesw6 amd64 6.2+20201114-2build1 [147 kB] Get:120 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 readline-common all 8.1-2 [53.7 kB] Get:121 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libreadline8 amd64 8.1-2 [153 kB] Get:122 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libsqlite3-0 amd64 3.35.5-1 [639 kB] Get:123 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libpython3.9-stdlib amd64 3.9.7-2build1 [1807 kB] Get:124 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3.9 amd64 3.9.7-2build1 [433 kB] Get:125 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libpython3-stdlib amd64 3.9.4-1build1 [7146 B] Get:126 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3 amd64 3.9.4-1build1 [22.8 kB] Get:127 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libattr1 amd64 1:2.4.48-6build2 [13.2 kB] Get:128 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libpam-runtime all 1.3.1-5ubuntu11 [38.7 kB] Get:129 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libsepol1 amd64 3.1-1ubuntu2 [280 kB] Get:130 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libsemanage-common all 3.1-1ubuntu2 [9638 B] Get:131 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libsemanage1 amd64 3.1-1ubuntu2 [96.5 kB] Get:132 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libsmartcols1 amd64 2.36.1-8ubuntu1 [49.6 kB] Get:133 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 passwd amd64 1:4.8.1-1ubuntu9 [754 kB] Get:134 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libncurses6 amd64 6.2+20201114-2build1 [110 kB] Get:135 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libprocps8 amd64 2:3.3.17-5ubuntu3 [36.1 kB] Get:136 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libss2 amd64 1.46.3-1ubuntu3 [12.2 kB] Get:137 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 mawk amd64 1.3.4.20200120-2 [103 kB] Get:138 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 procps amd64 2:3.3.17-5ubuntu3 [377 kB] Get:139 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 usrmerge all 25ubuntu1 [54.6 kB] Get:140 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 openssl amd64 1.1.1l-1ubuntu1 [651 kB] Get:141 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 ca-certificates all 20210119ubuntu1 [149 kB] Get:142 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libpng16-16 amd64 1.6.37-3build4 [191 kB] Get:143 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 xz-utils amd64 5.2.5-2 [84.7 kB] Get:144 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 advancecomp amd64 2.1-2.1ubuntu1 [170 kB] Get:145 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libctf0 amd64 2.37-7ubuntu1 [103 kB] Get:146 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libctf-nobfd0 amd64 2.37-7ubuntu1 [106 kB] Get:147 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 binutils-x86-64-linux-gnu amd64 2.37-7ubuntu1 [2315 kB] Get:148 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http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 cpp amd64 4:11.2.0-1ubuntu1 [27.7 kB] Get:156 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 bzip2 amd64 1.0.8-4ubuntu3 [34.8 kB] Get:157 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 patch amd64 2.7.6-7 [108 kB] Get:158 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 lto-disabled-list all 16 [12.5 kB] Get:159 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-psutil amd64 5.8.0-1 [157 kB] Get:160 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 build-essential amd64 12.9ubuntu2 [4678 B] Get:161 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libfakeroot amd64 1.25.3-1.1ubuntu2 [31.7 kB] Get:162 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 fakeroot amd64 1.25.3-1.1ubuntu2 [60.4 kB] Get:163 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libassuan0 amd64 2.5.5-1 [38.4 kB] Get:164 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 pinentry-curses amd64 1.1.1-1 [34.3 kB] Get:165 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libnpth0 amd64 1.6-3 [8728 B] Get:166 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 gpg amd64 2.2.20-1ubuntu4 [506 kB] Get:167 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 gpgconf amd64 2.2.20-1ubuntu4 [98.7 kB] Get:168 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 gpg-agent amd64 2.2.20-1ubuntu4 [207 kB] Get:169 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 liblockfile-bin amd64 1.17-1build1 [11.7 kB] Get:170 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 liblockfile1 amd64 1.17-1build1 [7068 B] Get:171 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 lockfile-progs amd64 0.1.18build1 [9950 B] Get:172 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 optipng amd64 0.7.7-1build1 [84.6 kB] Get:173 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 pkgbinarymangler all 148 [32.3 kB] Get:174 http://ftpmaster.internal/ubuntu impish/main amd64 libgcc-11-dev amd64 11.2.0-7ubuntu2 [2526 kB] Get:175 http://ftpmaster.internal/ubuntu impish/main amd64 gcc-11 amd64 11.2.0-7ubuntu2 [59.3 MB] Get:176 http://ftpmaster.internal/ubuntu impish/main amd64 libstdc++-11-dev amd64 11.2.0-7ubuntu2 [2073 kB] Get:177 http://ftpmaster.internal/ubuntu impish/main amd64 g++-11 amd64 11.2.0-7ubuntu2 [55.2 MB] Get:178 http://ftpmaster.internal/ubuntu impish/universe amd64 g++-10 amd64 10.3.0-11ubuntu1 [10.6 MB] Get:179 http://ftpmaster.internal/ubuntu impish/universe amd64 gcc-10 amd64 10.3.0-11ubuntu1 [19.0 MB] Get:180 http://ftpmaster.internal/ubuntu impish/main amd64 libstdc++-10-dev amd64 10.3.0-11ubuntu1 [1863 kB] Get:181 http://ftpmaster.internal/ubuntu impish/main amd64 libgcc-10-dev amd64 10.3.0-11ubuntu1 [2490 kB] Get:182 http://ftpmaster.internal/ubuntu impish/universe amd64 cpp-10 amd64 10.3.0-11ubuntu1 [9343 kB] Get:183 http://ftpmaster.internal/ubuntu impish/main amd64 gcc-10-base amd64 10.3.0-11ubuntu1 [20.7 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 279 MB in 17s (16.9 MB/s) (Reading database ... 13130 files and directories currently installed.) 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Setting up procps (2:3.3.17-5ubuntu3) ... update-alternatives: warning: alternative /usr/bin/w.procps (part of link group w) doesn't exist; removing from list of alternatives update-alternatives: warning: /etc/alternatives/w is dangling; it will be updated with best choice Setting up gpgconf (2.2.20-1ubuntu4) ... Setting up libc6-dev:amd64 (2.34-0ubuntu3) ... Setting up gpg (2.2.20-1ubuntu4) ... Setting up libpython3.9-stdlib:amd64 (3.9.7-2build1) ... Setting up libpython3-stdlib:amd64 (3.9.4-1build1) ... Setting up binutils-x86-64-linux-gnu (2.37-7ubuntu1) ... Setting up libstdc++-10-dev:amd64 (10.3.0-11ubuntu1) ... Setting up gpg-agent (2.2.20-1ubuntu4) ... Setting up pkgbinarymangler (148) ... Setting up binutils (2.37-7ubuntu1) ... Setting up perl (5.32.1-3ubuntu3) ... Setting up gcc-10 (10.3.0-11ubuntu1) ... Setting up libdpkg-perl (1.20.9ubuntu13) ... Setting up libstdc++-11-dev:amd64 (11.2.0-7ubuntu2) ... Setting up gcc-11 (11.2.0-7ubuntu2) ... Setting up python3.9 (3.9.7-2build1) ... Setting up g++-10 (10.3.0-11ubuntu1) ... Setting up g++-11 (11.2.0-7ubuntu2) ... Setting up python3 (3.9.4-1build1) ... Setting up python3-psutil (5.8.0-1) ... Setting up gcc (4:11.2.0-1ubuntu1) ... Setting up dpkg-dev (1.20.9ubuntu13) ... Setting up g++ (4:11.2.0-1ubuntu1) ... Setting up build-essential (12.9ubuntu2) ... Processing triggers for libc-bin (2.34-0ubuntu3) ... Processing triggers for ca-certificates (20210119ubuntu1) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. W: Sources disagree on hashes for supposely identical version '1.46.3-1ubuntu3' of 'libcom-err2:amd64'. W: Sources disagree on hashes for supposely identical version '1:1.2.11.dfsg-2ubuntu7' of 'zlib1g:amd64'. W: Sources disagree on hashes for supposely identical version '2.2.53-10ubuntu2' of 'libacl1:amd64'. W: Sources disagree on hashes for supposely identical version '2.36.1-8ubuntu1' of 'libuuid1:amd64'. W: Sources disagree on hashes for supposely identical version '0.23.22-1build1' of 'libp11-kit0:amd64'. W: Sources disagree on hashes for supposely identical version '1.46.3-1ubuntu3' of 'logsave:amd64'. RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-22481651 amd64 impish -c chroot:build-PACKAGEBUILD-22481651 --arch=amd64 --dist=impish --nolog -A gromacs_2020.6-2.dsc Initiating build PACKAGEBUILD-22481651 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.15.0-167-generic #175-Ubuntu SMP Wed Jan 5 01:56:07 UTC 2022 x86_64 sbuild (Debian sbuild) 0.75.0 (21 Mar 2018) on lgw01-amd64-037.buildd +==============================================================================+ | gromacs 2020.6-2 (amd64) Thu, 17 Feb 2022 07:22:30 +0000 | +==============================================================================+ Package: gromacs Version: 2020.6-2 Source Version: 2020.6-2 Distribution: impish Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: binary I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-22481651/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- gromacs_2020.6-2.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/gromacs-WJ9ZbJ/gromacs-2020.6' with '<>' I: NOTICE: Log filtering will replace 'build/gromacs-WJ9ZbJ' with '<>' +------------------------------------------------------------------------------+ | Install build-essential | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-q7PShv/apt_archive/sbuild-build-depends-core-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy dpkg-scanpackages: info: Wrote 1 entries to output Packages file. Ign:1 copy:/<>/resolver-q7PShv/apt_archive ./ InRelease Get:2 copy:/<>/resolver-q7PShv/apt_archive ./ Release [957 B] Ign:3 copy:/<>/resolver-q7PShv/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-q7PShv/apt_archive ./ Sources [349 B] Get:5 copy:/<>/resolver-q7PShv/apt_archive ./ Packages [433 B] Fetched 1739 B in 0s (108 kB/s) Reading package lists... Reading package lists... Install core build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: cpp-10 g++-10 gcc-10 gcc-10-base libgcc-10-dev libstdc++-10-dev Use 'apt autoremove' to remove them. The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 652 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-q7PShv/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [652 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 652 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 15077 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any all) +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: chrpath, cmake, debhelper-compat (= 13), libblas-dev, libboost-dev, libfftw3-dev, liblapack-dev, libmpich-dev (>= 3.4-5), libopenmpi-dev (>= 1.10.2-7), libx11-dev, lsb-release, mpich, openmpi-bin, zlib1g-dev, doxygen, ghostscript, graphviz, imagemagick, mscgen, python3-sphinx, rdfind, symlinks, texlive-fonts-recommended, texlive-latex-base, texlive-latex-extra Filtered Build-Depends: chrpath, cmake, debhelper-compat (= 13), libblas-dev, libboost-dev, libfftw3-dev, liblapack-dev, libmpich-dev (>= 3.4-5), libopenmpi-dev (>= 1.10.2-7), libx11-dev, lsb-release, mpich, openmpi-bin, zlib1g-dev, doxygen, ghostscript, graphviz, imagemagick, mscgen, python3-sphinx, rdfind, symlinks, texlive-fonts-recommended, texlive-latex-base, texlive-latex-extra dpkg-deb: building package 'sbuild-build-depends-gromacs-dummy' in '/<>/resolver-q7PShv/apt_archive/sbuild-build-depends-gromacs-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-gromacs-dummy dpkg-scanpackages: info: Wrote 2 entries to output Packages file. Ign:1 copy:/<>/resolver-q7PShv/apt_archive ./ InRelease Get:2 copy:/<>/resolver-q7PShv/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-q7PShv/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-q7PShv/apt_archive ./ Sources [683 B] Get:5 copy:/<>/resolver-q7PShv/apt_archive ./ Packages [755 B] Fetched 2401 B in 0s (163 kB/s) Reading package lists... Reading package lists... Install gromacs build dependencies (apt-based resolver) ------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following package was automatically installed and is no longer required: g++-10 Use 'apt autoremove' to remove it. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils chrpath cmake cmake-data debhelper debugedit dh-autoreconf dh-strip-nondeterminism distro-info-data docutils-common doxygen dwz file fontconfig fontconfig-config fonts-lmodern fonts-urw-base35 gettext gettext-base gfortran gfortran-11 ghostscript graphviz groff-base hicolor-icon-theme hwloc-nox ibverbs-providers imagemagick imagemagick-6-common imagemagick-6.q16 intltool-debian libann0 libaom0 libapache-pom-java libarchive-zip-perl libarchive13 libavahi-client3 libavahi-common-data libavahi-common3 libblas-dev libblas3 libboost-dev libboost1.74-dev libbrotli1 libbsd0 libcairo2 libcbor0.6 libcdt5 libcgraph6 libclang-cpp12 libclang1-12 libcommons-logging-java libcommons-parent-java libcups2 libcurl4 libdatrie1 libdav1d4 libdbus-1-3 libde265-0 libdebhelper-perl libdeflate0 libdw1 libedit2 libelf1 libevent-2.1-7 libevent-core-2.1-7 libevent-dev libevent-extra-2.1-7 libevent-openssl-2.1-7 libevent-pthreads-2.1-7 libfabric1 libfftw3-bin libfftw3-dev libfftw3-double3 libfftw3-long3 libfftw3-quad3 libfftw3-single3 libfido2-1 libfile-stripnondeterminism-perl libfontbox-java libfontconfig1 libfreetype6 libfribidi0 libgd3 libgfortran-11-dev libgfortran5 libglib2.0-0 libgraphite2-3 libgs9 libgs9-common libgts-0.7-5 libgvc6 libgvpr2 libharfbuzz0b libheif1 libhwloc-dev libhwloc-plugins libhwloc15 libibverbs-dev libibverbs1 libice6 libicu67 libidn11 libijs-0.35 libjbig0 libjbig2dec0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui libjs-sphinxdoc libjs-underscore libjsoncpp24 libkpathsea6 liblab-gamut1 liblapack-dev liblapack3 liblcms2-2 libldap-2.5-0 libllvm12 liblqr-1-0 libltdl-dev libltdl7 libmagic-mgc libmagic1 libmagickcore-6.q16-6 libmagickwand-6.q16-6 libmd0 libmpich-dev libmpich12 libnghttp2-14 libnl-3-200 libnl-3-dev libnl-route-3-200 libnl-route-3-dev libnuma-dev libnuma1 libopenjp2-7 libopenmpi-dev libopenmpi3 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpathplan4 libpciaccess0 libpdfbox-java libpipeline1 libpixman-1-0 libpmix-dev libpmix2 libpsl5 libpsm-infinipath1 libpsm2-2 libptexenc1 libpthread-stubs0-dev librdmacm1 librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libslurm36 libsm6 libssh-4 libsub-override-perl libsynctex2 libteckit0 libtexlua53 libtexluajit2 libthai-data libthai0 libtiff5 libtool libuchardet0 libucx0 libuv1 libwebp6 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libx11-dev libx265-192 libxapian30 libxau-dev libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxcb1-dev libxdmcp-dev libxdmcp6 libxext6 libxi6 libxml2 libxmu6 libxnvctrl0 libxpm4 libxrender1 libxt6 libzzip-0-13 lsb-release m4 man-db mpich mscgen ocl-icd-libopencl1 openmpi-bin openmpi-common openssh-client po-debconf poppler-data preview-latex-style python-babel-localedata python3-alabaster python3-babel python3-certifi python3-chardet python3-distutils python3-docutils python3-idna python3-imagesize python3-jinja2 python3-lib2to3 python3-markupsafe python3-packaging python3-pkg-resources python3-pygments python3-pyparsing python3-requests python3-roman python3-six python3-snowballstemmer python3-sphinx python3-tz python3-urllib3 rdfind sgml-base sphinx-common symlinks t1utils tex-common texlive-base texlive-binaries texlive-fonts-recommended texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-pictures ucf x11-common x11proto-dev xdg-utils xml-core xorg-sgml-doctools xtrans-dev zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc cmake-doc ninja-build dh-make doxygen-latex doxygen-doc doxygen-gui fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre gettext-doc libasprintf-dev libgettextpo-dev gfortran-multilib gfortran-doc gfortran-11-multilib gfortran-11-doc libcoarrays-dev ghostscript-x gsfonts graphviz-doc groff imagemagick-doc autotrace cups-bsd | lpr | lprng curl enscript ffmpeg gimp gnuplot grads hp2xx html2ps libwmf-bin mplayer povray radiance sane-utils transfig ufraw-batch lrzip liblapack-doc libboost-doc libboost1.74-doc libboost-atomic1.74-dev libboost-chrono1.74-dev libboost-container1.74-dev libboost-context1.74-dev libboost-contract1.74-dev libboost-coroutine1.74-dev libboost-date-time1.74-dev libboost-exception1.74-dev libboost-fiber1.74-dev libboost-filesystem1.74-dev libboost-graph1.74-dev libboost-graph-parallel1.74-dev libboost-iostreams1.74-dev libboost-locale1.74-dev libboost-log1.74-dev libboost-math1.74-dev libboost-mpi1.74-dev libboost-mpi-python1.74-dev libboost-numpy1.74-dev libboost-program-options1.74-dev libboost-python1.74-dev libboost-random1.74-dev libboost-regex1.74-dev libboost-serialization1.74-dev libboost-stacktrace1.74-dev libboost-system1.74-dev libboost-test1.74-dev libboost-thread1.74-dev libboost-timer1.74-dev libboost-type-erasure1.74-dev libboost-wave1.74-dev libboost1.74-tools-dev libmpfrc++-dev libntl-dev libboost-nowide1.74-dev libavalon-framework-java libcommons-logging-java-doc libexcalibur-logkit-java liblog4j1.2-java cups-common libfftw3-doc libgd-tools libhwloc-contrib-plugins libjs-jquery-ui-docs liblcms2-utils libtool-doc libmagickcore-6.q16-6-extra openmpi-doc pciutils gcj-jdk libx11-doc xapian-tools libxcb-doc m4-doc apparmor less www-browser mpich-doc opencl-icd keychain libpam-ssh monkeysphere ssh-askpass libmail-box-perl poppler-utils fonts-japanese-mincho | fonts-ipafont-mincho fonts-japanese-gothic | fonts-ipafont-gothic fonts-arphic-ukai fonts-arphic-uming fonts-nanum docutils-doc fonts-linuxlibertine | ttf-linux-libertine texlive-lang-french python-jinja2-doc python3-setuptools python-pygments-doc ttf-bitstream-vera python-pyparsing-doc python3-cryptography python3-openssl python3-socks python-requests-doc python3-stemmer dvipng fonts-freefont-otf latexmk libjs-mathjax python3-sphinx-rtd-theme sphinx-doc texlive-plain-generic sgml-base-doc perl-tk xpdf | pdf-viewer xzdec texlive-fonts-recommended-doc texlive-latex-base-doc icc-profiles libfile-which-perl libspreadsheet-parseexcel-perl texlive-latex-extra-doc texlive-latex-recommended-doc texlive-luatex texlive-pstricks dot2tex prerex ruby-tcltk | libtcltk-ruby texlive-pictures-doc vprerex Recommended packages: curl | wget | lynx fonts-liberation libmagickcore-6.q16-6-extra netpbm dbus libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs fonts-droid-fallback libgts-bin javascript-common libldap-common gsfonts libcoarrays-openmpi-dev publicsuffix libsasl2-modules xauth libmail-sendmail-perl python3-pil lmodern dvisvgm tex-gyre tipa texlive-plain-generic ruby | ruby-interpreter tk libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils chrpath cmake cmake-data debhelper debugedit dh-autoreconf dh-strip-nondeterminism distro-info-data docutils-common doxygen dwz file fontconfig fontconfig-config fonts-lmodern fonts-urw-base35 gettext gettext-base gfortran gfortran-11 ghostscript graphviz groff-base hicolor-icon-theme hwloc-nox ibverbs-providers imagemagick imagemagick-6-common imagemagick-6.q16 intltool-debian libann0 libaom0 libapache-pom-java libarchive-zip-perl libarchive13 libavahi-client3 libavahi-common-data libavahi-common3 libblas-dev libblas3 libboost-dev libboost1.74-dev libbrotli1 libbsd0 libcairo2 libcbor0.6 libcdt5 libcgraph6 libclang-cpp12 libclang1-12 libcommons-logging-java libcommons-parent-java libcups2 libcurl4 libdatrie1 libdav1d4 libdbus-1-3 libde265-0 libdebhelper-perl libdeflate0 libdw1 libedit2 libelf1 libevent-2.1-7 libevent-core-2.1-7 libevent-dev libevent-extra-2.1-7 libevent-openssl-2.1-7 libevent-pthreads-2.1-7 libfabric1 libfftw3-bin libfftw3-dev libfftw3-double3 libfftw3-long3 libfftw3-quad3 libfftw3-single3 libfido2-1 libfile-stripnondeterminism-perl libfontbox-java libfontconfig1 libfreetype6 libfribidi0 libgd3 libgfortran-11-dev libgfortran5 libglib2.0-0 libgraphite2-3 libgs9 libgs9-common libgts-0.7-5 libgvc6 libgvpr2 libharfbuzz0b libheif1 libhwloc-dev libhwloc-plugins libhwloc15 libibverbs-dev libibverbs1 libice6 libicu67 libidn11 libijs-0.35 libjbig0 libjbig2dec0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui libjs-sphinxdoc libjs-underscore libjsoncpp24 libkpathsea6 liblab-gamut1 liblapack-dev liblapack3 liblcms2-2 libldap-2.5-0 libllvm12 liblqr-1-0 libltdl-dev libltdl7 libmagic-mgc libmagic1 libmagickcore-6.q16-6 libmagickwand-6.q16-6 libmd0 libmpich-dev libmpich12 libnghttp2-14 libnl-3-200 libnl-3-dev libnl-route-3-200 libnl-route-3-dev libnuma-dev libnuma1 libopenjp2-7 libopenmpi-dev libopenmpi3 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpathplan4 libpciaccess0 libpdfbox-java libpipeline1 libpixman-1-0 libpmix-dev libpmix2 libpsl5 libpsm-infinipath1 libpsm2-2 libptexenc1 libpthread-stubs0-dev librdmacm1 librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libslurm36 libsm6 libssh-4 libsub-override-perl libsynctex2 libteckit0 libtexlua53 libtexluajit2 libthai-data libthai0 libtiff5 libtool libuchardet0 libucx0 libuv1 libwebp6 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libx11-dev libx265-192 libxapian30 libxau-dev libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxcb1-dev libxdmcp-dev libxdmcp6 libxext6 libxi6 libxml2 libxmu6 libxnvctrl0 libxpm4 libxrender1 libxt6 libzzip-0-13 lsb-release m4 man-db mpich mscgen ocl-icd-libopencl1 openmpi-bin openmpi-common openssh-client po-debconf poppler-data preview-latex-style python-babel-localedata python3-alabaster python3-babel python3-certifi python3-chardet python3-distutils python3-docutils python3-idna python3-imagesize python3-jinja2 python3-lib2to3 python3-markupsafe python3-packaging python3-pkg-resources python3-pygments python3-pyparsing python3-requests python3-roman python3-six python3-snowballstemmer python3-sphinx python3-tz python3-urllib3 rdfind sbuild-build-depends-gromacs-dummy sgml-base sphinx-common symlinks t1utils tex-common texlive-base texlive-binaries texlive-fonts-recommended texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-pictures ucf x11-common x11proto-dev xdg-utils xml-core xorg-sgml-doctools xtrans-dev zlib1g-dev 0 upgraded, 265 newly installed, 0 to remove and 0 not upgraded. Need to get 289 MB of archives. After this operation, 1189 MB of additional disk space will be used. Get:1 copy:/<>/resolver-q7PShv/apt_archive ./ sbuild-build-depends-gromacs-dummy 0.invalid.0 [844 B] Get:2 http://ftpmaster.internal/ubuntu impish/main amd64 libicu67 amd64 67.1-7ubuntu1 [10.1 MB] Get:3 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 bsdextrautils amd64 2.36.1-8ubuntu1 [75.0 kB] Get:4 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libuchardet0 amd64 0.0.7-1build1 [76.7 kB] Get:5 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 groff-base amd64 1.22.4-7 [956 kB] Get:6 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libpipeline1 amd64 1.5.3-1build1 [23.2 kB] Get:7 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 man-db amd64 2.9.4-2 [1180 kB] Get:8 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libfftw3-double3 amd64 3.3.8-2ubuntu7 [679 kB] Get:9 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libbrotli1 amd64 1.0.9-2build3 [315 kB] Get:10 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libfreetype6 amd64 2.10.4+dfsg-1build1 [377 kB] Get:11 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 ucf all 3.0043 [57.5 kB] Get:12 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 fonts-urw-base35 all 20200910-1 [6610 kB] Get:13 http://ftpmaster.internal/ubuntu impish/universe amd64 tex-common all 6.16 [33.0 kB] Get:14 http://ftpmaster.internal/ubuntu impish/universe amd64 doxygen amd64 1.9.1-2ubuntu1 [3942 kB] Get:15 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 fontconfig-config all 2.13.1-4.2ubuntu3 [29.1 kB] Get:16 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libfontconfig1 amd64 2.13.1-4.2ubuntu3 [131 kB] Get:17 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libaom0 amd64 1.0.0.errata1-3build1 [1163 kB] Get:18 http://ftpmaster.internal/ubuntu impish/universe amd64 fonts-lmodern all 2.004.5-6.1 [4532 kB] Get:19 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libdav1d4 amd64 0.7.1-3 [367 kB] Get:20 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libde265-0 amd64 1.0.8-1 [287 kB] Get:21 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libnuma1 amd64 2.0.14-0ubuntu2 [23.0 kB] Get:22 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libx265-192 amd64 3.4-2 [1169 kB] Get:23 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libheif1 amd64 1.11.0-1 [193 kB] Get:24 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amd64 libgfortran5 amd64 11.2.0-7ubuntu2 [793 kB] Get:32 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libopenjp2-7 amd64 2.3.1-1ubuntu5 [147 kB] Get:33 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libdeflate0 amd64 1.7-2ubuntu2 [56.3 kB] Get:34 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libwebp6 amd64 0.6.1-2.1 [198 kB] Get:35 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libtiff5 amd64 4.3.0-1 [183 kB] Get:36 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libwebpdemux2 amd64 0.6.1-2.1 [10.0 kB] Get:37 http://ftpmaster.internal/ubuntu impish/main amd64 libgfortran-11-dev amd64 11.2.0-7ubuntu2 [841 kB] Get:38 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libwebpmux3 amd64 0.6.1-2.1 [20.2 kB] Get:39 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gfortran-11 amd64 11.2.0-7ubuntu2 [55.5 MB] Get:47 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libxext6 amd64 2:1.3.4-0ubuntu3 [31.2 kB] Get:48 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libxml2 amd64 2.9.12+dfsg-4 [761 kB] Get:49 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 imagemagick-6-common all 8:6.9.11.60+dfsg-1ubuntu1 [64.6 kB] Get:50 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libmagickcore-6.q16-6 amd64 8:6.9.11.60+dfsg-1ubuntu1 [1790 kB] Get:51 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libmagickwand-6.q16-6 amd64 8:6.9.11.60+dfsg-1ubuntu1 [327 kB] Get:52 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 poppler-data all 0.4.11-1 [2171 kB] Get:53 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 sgml-base all 1.30 [12.6 kB] Get:54 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 distro-info-data all 0.51ubuntu1 [5058 B] Get:55 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libdbus-1-3 amd64 1.12.20-2ubuntu2 [189 kB] Get:56 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libelf1 amd64 0.185-1build1 [51.4 kB] Get:57 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libfribidi0 amd64 1.0.8-2ubuntu2 [25.7 kB] Get:58 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 lsb-release all 11.1.0ubuntu3 [10.8 kB] Get:59 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-pkg-resources all 52.0.0-4 [130 kB] Get:60 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libmagic-mgc amd64 1:5.39-3 [235 kB] Get:61 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libmagic1 amd64 1:5.39-3 [88.6 kB] Get:62 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 file amd64 1:5.39-3 [24.5 kB] Get:63 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 gettext-base amd64 0.21-4ubuntu3 [37.9 kB] Get:64 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libcbor0.6 amd64 0.6.0-0ubuntu3 [23.8 kB] Get:65 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libedit2 amd64 3.1-20191231-2build1 [97.4 kB] Get:66 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libfido2-1 amd64 1.6.0-2build1 [58.1 kB] Get:67 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libpsl5 amd64 0.21.0-1.2 [57.5 kB] Get:68 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libuv1 amd64 1.40.0-2ubuntu1 [91.0 kB] Get:69 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 openssh-client amd64 1:8.4p1-6ubuntu2 [771 kB] Get:70 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libsigsegv2 amd64 2.13-1ubuntu2 [14.6 kB] Get:71 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 m4 amd64 1.4.18-5ubuntu1 [199 kB] Get:72 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 autoconf all 2.69-14 [299 kB] Get:73 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 autotools-dev all 20180224.1+nmu1 [40.8 kB] Get:74 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 automake all 1:1.16.4-2 [557 kB] Get:75 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 autopoint all 0.21-4ubuntu3 [422 kB] Get:76 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 chrpath amd64 0.16-2 [13.0 kB] Get:77 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 cmake-data all 3.18.4-2ubuntu2 [1728 kB] Get:78 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libarchive13 amd64 3.4.3-2 [361 kB] Get:79 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.1build1 [15.4 kB] Get:80 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.1build1 [49.5 kB] Get:81 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libldap-2.5-0 amd64 2.5.6+dfsg-1~exp1ubuntu1 [186 kB] Get:82 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libnghttp2-14 amd64 1.43.0-1 [76.1 kB] Get:83 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2build3 [58.3 kB] Get:84 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libssh-4 amd64 0.9.6-1 [185 kB] Get:85 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libcurl4 amd64 7.74.0-1.3ubuntu2 [273 kB] Get:86 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libjsoncpp24 amd64 1.9.4-4build1 [80.3 kB] Get:87 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 librhash0 amd64 1.4.1-2build1 [124 kB] Get:88 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 cmake amd64 3.18.4-2ubuntu2 [4430 kB] Get:89 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libdebhelper-perl all 13.3.4ubuntu2 [62.5 kB] Get:90 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libtool all 2.4.6-15 [164 kB] Get:91 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 dh-autoreconf all 20 [16.3 kB] Get:92 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libarchive-zip-perl all 1.68-1 [91.7 kB] Get:93 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libsub-override-perl all 0.09-2 [9600 B] Get:94 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libfile-stripnondeterminism-perl all 1.12.0-1 [18.0 kB] Get:95 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 dh-strip-nondeterminism all 1.12.0-1 [5206 B] Get:96 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libdw1 amd64 0.185-1build1 [249 kB] Get:97 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 debugedit amd64 1:5.0-0ubuntu2 [47.9 kB] Get:98 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 dwz amd64 0.14-1build1 [104 kB] Get:99 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 gettext amd64 0.21-4ubuntu3 [1179 kB] Get:100 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 intltool-debian all 0.35.0+20060710.5 [25.5 kB] Get:101 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 po-debconf all 1.0.21+nmu1 [233 kB] Get:102 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 debhelper all 13.3.4ubuntu2 [921 kB] Get:103 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 xml-core all 0.18+nmu1 [21.9 kB] Get:104 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 docutils-common all 0.16+dfsg-4 [120 kB] Get:105 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libllvm12 amd64 1:12.0.1-8build1 [20.9 MB] Get:106 http://ftpmaster.internal/ubuntu impish/universe amd64 libgts-0.7-5 amd64 0.7.6+darcs121130-4 [150 kB] Get:107 http://ftpmaster.internal/ubuntu impish/universe amd64 libapache-pom-java all 18-1 [4720 B] Get:108 http://ftpmaster.internal/ubuntu impish/universe amd64 libpsm-infinipath1 amd64 3.3+20.604758e7-6.1 [170 kB] Get:109 http://ftpmaster.internal/ubuntu impish/universe amd64 libpsm2-2 amd64 11.2.185-1 [182 kB] Get:110 http://ftpmaster.internal/ubuntu impish/universe amd64 libfabric1 amd64 1.11.0-2 [522 kB] Get:111 http://ftpmaster.internal/ubuntu impish/universe amd64 ocl-icd-libopencl1 amd64 2.2.14-2 [35.4 kB] Get:112 http://ftpmaster.internal/ubuntu impish/universe amd64 libucx0 amd64 1.10.1~rc1+really.1.10.0-1 [647 kB] Get:113 http://ftpmaster.internal/ubuntu impish/universe amd64 libopenmpi3 amd64 4.1.0-10ubuntu1 [2553 kB] Get:114 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libclang-cpp12 amd64 1:12.0.1-8build1 [10.7 MB] Get:115 http://ftpmaster.internal/ubuntu impish/universe amd64 libslurm36 amd64 20.11.7+really20.11.4-2 [534 kB] Get:116 http://ftpmaster.internal/ubuntu impish/universe amd64 libzzip-0-13 amd64 0.13.72+dfsg.1-1.1 [27.0 kB] Get:117 http://ftpmaster.internal/ubuntu impish/universe amd64 openmpi-common all 4.1.0-10ubuntu1 [159 kB] Get:118 http://ftpmaster.internal/ubuntu impish/universe amd64 openmpi-bin amd64 4.1.0-10ubuntu1 [115 kB] Get:119 http://ftpmaster.internal/ubuntu impish/universe amd64 preview-latex-style all 12.2-1ubuntu1 [185 kB] Get:120 http://ftpmaster.internal/ubuntu impish/main amd64 xdg-utils all 1.1.3-2ubuntu2 [61.5 kB] Get:121 http://ftpmaster.internal/ubuntu impish/universe amd64 texlive-base all 2020.20210202-3 [20.7 MB] Get:122 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libclang1-12 amd64 1:12.0.1-8build1 [6110 kB] Get:123 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libxapian30 amd64 1.4.18-3build1 [701 kB] Get:124 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 fontconfig amd64 2.13.1-4.2ubuntu3 [173 kB] Get:125 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 gfortran amd64 4:11.2.0-1ubuntu1 [1182 B] Get:126 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libgs9-common all 9.54.0~dfsg1-0ubuntu2 [747 kB] Get:127 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libavahi-common-data amd64 0.8-5ubuntu4 [24.2 kB] Get:128 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libavahi-common3 amd64 0.8-5ubuntu4 [23.7 kB] Get:129 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libavahi-client3 amd64 0.8-5ubuntu4 [28.0 kB] Get:130 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libcups2 amd64 2.3.3op2-7ubuntu2 [261 kB] Get:131 http://ftpmaster.internal/ubuntu impish/universe amd64 texlive-fonts-recommended all 2020.20210202-3 [4973 kB] Get:132 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libidn11 amd64 1.33-3 [60.7 kB] Get:133 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libijs-0.35 amd64 0.35-15build1 [16.5 kB] Get:134 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libjbig2dec0 amd64 0.19-3 [65.5 kB] Get:135 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libpaper1 amd64 1.1.28build1 [13.8 kB] Get:136 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libgs9 amd64 9.54.0~dfsg1-0ubuntu2 [4690 kB] Get:137 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 ghostscript amd64 9.54.0~dfsg1-0ubuntu2 [49.4 kB] Get:138 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libann0 amd64 1.1.2+doc-7build1 [26.9 kB] Get:139 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libcdt5 amd64 2.42.2-5 [21.0 kB] Get:140 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libcgraph6 amd64 2.42.2-5 [45.5 kB] Get:141 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libxpm4 amd64 1:3.5.12-1 [36.5 kB] Get:142 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libgd3 amd64 2.3.0-2ubuntu1 [129 kB] Get:143 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libpixman-1-0 amd64 0.40.0-1build2 [264 kB] Get:144 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libxcb-render0 amd64 1.14-3ubuntu1 [16.4 kB] Get:145 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libxcb-shm0 amd64 1.14-3ubuntu1 [5790 B] Get:146 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libxrender1 amd64 1:0.9.10-1build2 [19.8 kB] Get:147 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libcairo2 amd64 1.16.0-5ubuntu1 [628 kB] Get:148 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libgraphite2-3 amd64 1.3.14-1 [71.2 kB] Get:149 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libharfbuzz0b amd64 2.7.4-1ubuntu1 [351 kB] Get:150 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libthai-data all 0.1.28-4.1 [159 kB] Get:151 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libdatrie1 amd64 0.2.13-1ubuntu2 [19.7 kB] Get:152 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libthai0 amd64 0.1.28-4.1 [19.2 kB] Get:153 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libpango-1.0-0 amd64 1.48.10+ds1-1 [195 kB] Get:154 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libpangoft2-1.0-0 amd64 1.48.10+ds1-1 [51.0 kB] Get:155 http://ftpmaster.internal/ubuntu impish/universe amd64 texlive-latex-base all 2020.20210202-3 [1089 kB] Get:156 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libpangocairo-1.0-0 amd64 1.48.10+ds1-1 [37.1 kB] Get:157 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libpathplan4 amd64 2.42.2-5 [23.3 kB] Get:158 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libgvc6 amd64 2.42.2-5 [724 kB] Get:159 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libgvpr2 amd64 2.42.2-5 [192 kB] Get:160 http://ftpmaster.internal/ubuntu impish/universe amd64 libfontbox-java all 1:1.8.16-2 [207 kB] Get:161 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 liblab-gamut1 amd64 2.42.2-5 [1964 kB] Get:162 http://ftpmaster.internal/ubuntu impish/universe amd64 libpdfbox-java all 1:1.8.16-2 [5199 kB] Get:163 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 x11-common all 1:7.7+22ubuntu2 [23.7 kB] Get:164 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libice6 amd64 2:1.0.10-1build1 [42.6 kB] Get:165 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libsm6 amd64 2:1.2.3-1build1 [17.0 kB] Get:166 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libxt6 amd64 1:1.2.0-1 [176 kB] Get:167 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libxmu6 amd64 2:1.1.3-0ubuntu1 [49.8 kB] Get:168 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libxaw7 amd64 2:1.0.13-1.1 [191 kB] Get:169 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 graphviz amd64 2.42.2-5 [653 kB] Get:170 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 hicolor-icon-theme all 0.17-2 [11.0 kB] Get:171 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libnl-3-200 amd64 3.4.0-1build2 [58.6 kB] Get:172 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libnl-route-3-200 amd64 3.4.0-1build2 [167 kB] Get:173 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libibverbs1 amd64 33.2-1ubuntu1 [63.6 kB] Get:174 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 ibverbs-providers amd64 33.2-1ubuntu1 [273 kB] Get:175 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 imagemagick-6.q16 amd64 8:6.9.11.60+dfsg-1ubuntu1 [224 kB] Get:176 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 imagemagick amd64 8:6.9.11.60+dfsg-1ubuntu1 [14.6 kB] Get:177 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libblas3 amd64 3.9.0-3ubuntu2 [226 kB] Get:178 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libblas-dev amd64 3.9.0-3ubuntu2 [161 kB] Get:179 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libboost1.74-dev amd64 1.74.0-8ubuntu6 [9607 kB] Get:180 http://ftpmaster.internal/ubuntu impish/universe amd64 texlive-latex-recommended all 2020.20210202-3 [14.5 MB] Get:181 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libboost-dev amd64 1.74.0.3ubuntu6 [3452 B] Get:182 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libcommons-parent-java all 43-1 [10.9 kB] Get:183 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libcommons-logging-java all 1.2-2 [59.6 kB] Get:184 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libevent-2.1-7 amd64 2.1.12-stable-1 [148 kB] Get:185 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libevent-core-2.1-7 amd64 2.1.12-stable-1 [94.2 kB] Get:186 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libevent-extra-2.1-7 amd64 2.1.12-stable-1 [65.4 kB] Get:187 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libevent-pthreads-2.1-7 amd64 2.1.12-stable-1 [7640 B] Get:188 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libevent-openssl-2.1-7 amd64 2.1.12-stable-1 [15.6 kB] Get:189 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libevent-dev amd64 2.1.12-stable-1 [278 kB] Get:190 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 librdmacm1 amd64 33.2-1ubuntu1 [71.2 kB] Get:191 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libfftw3-long3 amd64 3.3.8-2ubuntu7 [292 kB] Get:192 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libfftw3-quad3 amd64 3.3.8-2ubuntu7 [643 kB] Get:193 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libfftw3-single3 amd64 3.3.8-2ubuntu7 [703 kB] Get:194 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libfftw3-bin amd64 3.3.8-2ubuntu7 [29.1 kB] Get:195 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libfftw3-dev amd64 3.3.8-2ubuntu7 [2162 kB] Get:196 http://ftpmaster.internal/ubuntu impish/universe amd64 texlive-pictures all 2020.20210202-3 [6710 kB] Get:197 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libhwloc15 amd64 2.4.1+dfsg-1 [153 kB] Get:198 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libjs-jquery all 3.5.1+dfsg+~3.5.5-7 [321 kB] Get:199 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libjs-jquery-ui all 1.12.1+dfsg-8 [236 kB] Get:200 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libjs-underscore all 1.9.1~dfsg-3 [103 kB] Get:201 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libjs-sphinxdoc all 3.5.4-2 [131 kB] Get:202 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libkpathsea6 amd64 2020.20200327.54578-7 [61.1 kB] Get:203 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 liblapack3 amd64 3.9.0-3ubuntu2 [2458 kB] Get:204 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 liblapack-dev amd64 3.9.0-3ubuntu2 [4667 kB] Get:205 http://ftpmaster.internal/ubuntu impish/universe amd64 texlive-latex-extra all 2020.20210202-3 [13.2 MB] Get:206 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libltdl-dev amd64 2.4.6-15 [167 kB] Get:207 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libnl-3-dev amd64 3.4.0-1build2 [99.8 kB] Get:208 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libnl-route-3-dev amd64 3.4.0-1build2 [188 kB] Get:209 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libpciaccess0 amd64 0.16-1build3 [19.1 kB] Get:210 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libxnvctrl0 amd64 470.57.01-0ubuntu3 [11.2 kB] Get:211 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libhwloc-plugins amd64 2.4.1+dfsg-1 [15.6 kB] Get:212 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libpmix2 amd64 4.1.0-3ubuntu1 [593 kB] Get:213 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libpaper-utils amd64 1.1.28build1 [8668 B] Get:214 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libnuma-dev amd64 2.0.14-0ubuntu2 [35.7 kB] Get:215 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libhwloc-dev amd64 2.4.1+dfsg-1 [245 kB] Get:216 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2ubuntu7 [164 kB] Get:217 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libpmix-dev amd64 4.1.0-3ubuntu1 [782 kB] Get:218 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libptexenc1 amd64 2020.20200327.54578-7 [38.9 kB] Get:219 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libpthread-stubs0-dev amd64 0.4-1build1 [5456 B] Get:220 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libsynctex2 amd64 2020.20200327.54578-7 [59.5 kB] Get:221 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libteckit0 amd64 2.5.10+ds1-3 [424 kB] Get:222 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libtexlua53 amd64 2020.20200327.54578-7 [120 kB] Get:223 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libtexluajit2 amd64 2020.20200327.54578-7 [268 kB] Get:224 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 xorg-sgml-doctools all 1:1.11-1.1 [11.1 kB] Get:225 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 x11proto-dev all 2020.1-1 [599 kB] Get:226 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libxau-dev amd64 1:1.0.9-1build3 [9732 B] Get:227 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libxdmcp-dev amd64 1:1.1.3-0ubuntu4 [26.5 kB] Get:228 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 xtrans-dev all 1.4.0-1 [69.8 kB] Get:229 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libxcb1-dev amd64 1.14-3ubuntu1 [86.5 kB] Get:230 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libx11-dev amd64 2:1.7.2-1 [742 kB] Get:231 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libxi6 amd64 2:1.7.10-1build2 [31.8 kB] Get:232 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 mscgen amd64 0.20-14 [44.3 kB] Get:233 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python-babel-localedata all 2.8.0+dfsg.1-7 [5664 kB] Get:234 http://ftpmaster.internal/ubuntu impish/universe amd64 libopenmpi-dev amd64 4.1.0-10ubuntu1 [1059 kB] Get:235 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-tz all 2021.1-1 [33.4 kB] Get:236 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-babel all 2.8.0+dfsg.1-7 [86.8 kB] Get:237 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-certifi all 2020.6.20-1 [153 kB] Get:238 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-chardet all 4.0.0-1 [109 kB] Get:239 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-lib2to3 all 3.9.7-1 [77.9 kB] Get:240 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-distutils all 3.9.7-1 [144 kB] Get:241 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-roman all 2.0.0-5 [9126 B] Get:242 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-docutils all 0.16+dfsg-4 [378 kB] Get:243 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-idna all 2.10-1 [47.3 kB] Get:244 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-imagesize all 1.2.0-2 [5884 B] Get:245 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-markupsafe amd64 1.1.1-1build2 [14.4 kB] Get:246 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-jinja2 all 2.11.3-1 [102 kB] Get:247 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-pyparsing all 2.4.7-1 [62.4 kB] Get:248 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-packaging all 20.9-2 [30.5 kB] Get:249 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-pygments all 2.7.1+dfsg-2.1 [664 kB] Get:250 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-six all 1.16.0-2 [12.6 kB] Get:251 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-urllib3 all 1.26.5-1~exp1 [98.2 kB] Get:252 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-requests all 2.25.1+dfsg-2 [48.8 kB] Get:253 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-snowballstemmer all 2.1.0-1 [60.6 kB] Get:254 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 sphinx-common all 3.5.4-2 [618 kB] Get:255 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-alabaster all 0.7.12-1 [18.3 kB] Get:256 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 python3-sphinx all 3.5.4-2 [532 kB] Get:257 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 symlinks amd64 1.4-4 [10.9 kB] Get:258 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 t1utils amd64 1.41-4build1 [61.4 kB] Get:259 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 texlive-binaries amd64 2020.20200327.54578-7 [9629 kB] Get:260 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 hwloc-nox amd64 2.4.1+dfsg-1 [193 kB] Get:261 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/main amd64 libibverbs-dev amd64 33.2-1ubuntu1 [517 kB] Get:262 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libmpich12 amd64 3.4.1-5ubuntu1 [2197 kB] Get:263 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 mpich amd64 3.4.1-5ubuntu1 [190 kB] Get:264 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 libmpich-dev amd64 3.4.1-5ubuntu1 [2553 kB] Get:265 http://rebuild-test.internal/ubuntu-test-rebuild-20211130-impish/ubuntu impish/universe amd64 rdfind amd64 1.4.1-1build3 [36.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 289 MB in 6s (49.1 MB/s) Selecting previously unselected package bsdextrautils. (Reading database ... 15077 files and directories currently installed.) Preparing to unpack .../000-bsdextrautils_2.36.1-8ubuntu1_amd64.deb ... Unpacking bsdextrautils (2.36.1-8ubuntu1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../001-libuchardet0_0.0.7-1build1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1build1) ... Selecting previously unselected package groff-base. Preparing to unpack .../002-groff-base_1.22.4-7_amd64.deb ... Unpacking groff-base (1.22.4-7) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../003-libpipeline1_1.5.3-1build1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.3-1build1) ... Selecting previously unselected package man-db. Preparing to unpack .../004-man-db_2.9.4-2_amd64.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package libfftw3-double3:amd64. Preparing to unpack .../005-libfftw3-double3_3.3.8-2ubuntu7_amd64.deb ... Unpacking libfftw3-double3:amd64 (3.3.8-2ubuntu7) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../006-libbrotli1_1.0.9-2build3_amd64.deb ... Unpacking libbrotli1:amd64 (1.0.9-2build3) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../007-libfreetype6_2.10.4+dfsg-1build1_amd64.deb ... Unpacking libfreetype6:amd64 (2.10.4+dfsg-1build1) ... Selecting previously unselected package ucf. Preparing to unpack .../008-ucf_3.0043_all.deb ... Moving old data out of the way Unpacking ucf (3.0043) ... Selecting previously unselected package fonts-urw-base35. Preparing to unpack .../009-fonts-urw-base35_20200910-1_all.deb ... Unpacking fonts-urw-base35 (20200910-1) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../010-fontconfig-config_2.13.1-4.2ubuntu3_all.deb ... Unpacking fontconfig-config (2.13.1-4.2ubuntu3) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../011-libfontconfig1_2.13.1-4.2ubuntu3_amd64.deb ... Unpacking libfontconfig1:amd64 (2.13.1-4.2ubuntu3) ... Selecting previously unselected package libaom0:amd64. Preparing to unpack .../012-libaom0_1.0.0.errata1-3build1_amd64.deb ... Unpacking libaom0:amd64 (1.0.0.errata1-3build1) ... Selecting previously unselected package libdav1d4:amd64. Preparing to unpack .../013-libdav1d4_0.7.1-3_amd64.deb ... Unpacking libdav1d4:amd64 (0.7.1-3) ... Selecting previously unselected package libde265-0:amd64. Preparing to unpack .../014-libde265-0_1.0.8-1_amd64.deb ... Unpacking libde265-0:amd64 (1.0.8-1) ... Selecting previously unselected package libnuma1:amd64. Preparing to unpack .../015-libnuma1_2.0.14-0ubuntu2_amd64.deb ... Unpacking libnuma1:amd64 (2.0.14-0ubuntu2) ... Selecting previously unselected package libx265-192:amd64. Preparing to unpack .../016-libx265-192_3.4-2_amd64.deb ... Unpacking libx265-192:amd64 (3.4-2) ... Selecting previously unselected package libheif1:amd64. Preparing to unpack .../017-libheif1_1.11.0-1_amd64.deb ... Unpacking libheif1:amd64 (1.11.0-1) ... Selecting previously unselected package libjbig0:amd64. Preparing to unpack .../018-libjbig0_2.1-3.1build1_amd64.deb ... Unpacking libjbig0:amd64 (2.1-3.1build1) ... Selecting previously unselected package libjpeg-turbo8:amd64. Preparing to unpack .../019-libjpeg-turbo8_2.0.6-0ubuntu2_amd64.deb ... Unpacking libjpeg-turbo8:amd64 (2.0.6-0ubuntu2) ... Selecting previously unselected package libjpeg8:amd64. Preparing to unpack .../020-libjpeg8_8c-2ubuntu8_amd64.deb ... Unpacking libjpeg8:amd64 (8c-2ubuntu8) ... Selecting previously unselected package liblcms2-2:amd64. Preparing to unpack .../021-liblcms2-2_2.12~rc1-2_amd64.deb ... Unpacking liblcms2-2:amd64 (2.12~rc1-2) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../022-libglib2.0-0_2.68.4-1ubuntu1_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.68.4-1ubuntu1) ... Selecting previously unselected package liblqr-1-0:amd64. Preparing to unpack .../023-liblqr-1-0_0.4.2-2.1_amd64.deb ... Unpacking liblqr-1-0:amd64 (0.4.2-2.1) ... Selecting previously unselected package libltdl7:amd64. Preparing to unpack .../024-libltdl7_2.4.6-15_amd64.deb ... Unpacking libltdl7:amd64 (2.4.6-15) ... Selecting previously unselected package libopenjp2-7:amd64. Preparing to unpack .../025-libopenjp2-7_2.3.1-1ubuntu5_amd64.deb ... Unpacking libopenjp2-7:amd64 (2.3.1-1ubuntu5) ... Selecting previously unselected package libdeflate0:amd64. Preparing to unpack .../026-libdeflate0_1.7-2ubuntu2_amd64.deb ... Unpacking libdeflate0:amd64 (1.7-2ubuntu2) ... Selecting previously unselected package libwebp6:amd64. Preparing to unpack .../027-libwebp6_0.6.1-2.1_amd64.deb ... Unpacking libwebp6:amd64 (0.6.1-2.1) ... Selecting previously unselected package libtiff5:amd64. Preparing to unpack .../028-libtiff5_4.3.0-1_amd64.deb ... Unpacking libtiff5:amd64 (4.3.0-1) ... Selecting previously unselected package libwebpdemux2:amd64. Preparing to unpack .../029-libwebpdemux2_0.6.1-2.1_amd64.deb ... Unpacking libwebpdemux2:amd64 (0.6.1-2.1) ... Selecting previously unselected package libwebpmux3:amd64. Preparing to unpack .../030-libwebpmux3_0.6.1-2.1_amd64.deb ... Unpacking libwebpmux3:amd64 (0.6.1-2.1) ... Selecting previously unselected package libxau6:amd64. Preparing to unpack .../031-libxau6_1%3a1.0.9-1build3_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.9-1build3) ... Selecting previously unselected package libmd0:amd64. Preparing to unpack .../032-libmd0_1.0.3-3build1_amd64.deb ... Unpacking libmd0:amd64 (1.0.3-3build1) ... Selecting previously unselected package libbsd0:amd64. Preparing to unpack .../033-libbsd0_0.11.3-1ubuntu2_amd64.deb ... Unpacking libbsd0:amd64 (0.11.3-1ubuntu2) ... Selecting previously unselected package libxdmcp6:amd64. 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Setting up libdatrie1:amd64 (0.2.13-1ubuntu2) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libtexlua53:amd64 (2020.20200327.54578-7) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:amd64 (2.68.4-1ubuntu1) ... No schema files found: doing nothing. Setting up distro-info-data (0.51ubuntu1) ... Setting up python3-alabaster (0.7.12-1) ... Setting up libijs-0.35:amd64 (0.35-15build1) ... Setting up libaom0:amd64 (1.0.0.errata1-3build1) ... Setting up libtexluajit2:amd64 (2020.20200327.54578-7) ... Setting up libdebhelper-perl (13.3.4ubuntu2) ... Setting up libbrotli1:amd64 (1.0.9-2build3) ... Setting up libfontbox-java (1:1.8.16-2) ... Setting up rdfind (1.4.1-1build3) ... Setting up liblab-gamut1:amd64 (2.42.2-5) ... Setting up x11-common (1:7.7+22ubuntu2) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up libnghttp2-14:amd64 (1.43.0-1) ... Setting up libmagic1:amd64 (1:5.39-3) ... Setting up libdeflate0:amd64 (1.7-2ubuntu2) ... Setting up libfftw3-long3:amd64 (3.3.8-2ubuntu7) ... Setting up gettext-base (0.21-4ubuntu3) ... Setting up libzzip-0-13:amd64 (0.13.72+dfsg.1-1.1) ... Setting up file (1:5.39-3) ... Setting up fonts-urw-base35 (20200910-1) ... Setting up libcbor0.6:amd64 (0.6.0-0ubuntu3) ... Setting up python3-markupsafe (1.1.1-1build2) ... Setting up libpthread-stubs0-dev:amd64 (0.4-1build1) ... Setting up libjbig0:amd64 (2.1-3.1build1) ... Setting up python3-tz (2021.1-1) ... Setting up python-babel-localedata (2.8.0+dfsg.1-7) ... Setting up poppler-data (0.4.11-1) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1build1) ... Setting up libgts-0.7-5:amd64 (0.7.6+darcs121130-4) ... Setting up python3-six (1.16.0-2) ... Setting up python3-roman (2.0.0-5) ... Setting up xtrans-dev (1.4.0-1) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up python3-jinja2 (2.11.3-1) ... Setting up python3-pygments (2.7.1+dfsg-2.1) ... Setting up libblas3:amd64 (3.9.0-3ubuntu2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libuv1:amd64 (1.40.0-2ubuntu1) ... Setting up python3-chardet (4.0.0-1) ... Setting up python3-pyparsing (2.4.7-1) ... Setting up libfreetype6:amd64 (2.10.4+dfsg-1build1) ... Setting up python3-certifi (2020.6.20-1) ... Setting up libx11-data (2:1.7.2-1) ... Setting up libjbig2dec0:amd64 (0.19-3) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2build3) ... Setting up python3-snowballstemmer (2.1.0-1) ... Setting up libidn11:amd64 (1.33-3) ... Setting up libteckit0:amd64 (2.5.10+ds1-3) ... Setting up libpathplan4:amd64 (2.42.2-5) ... Setting up libapache-pom-java (18-1) ... Setting up libavahi-common-data:amd64 (0.8-5ubuntu4) ... Setting up libann0 (1.1.2+doc-7build1) ... Setting up libdbus-1-3:amd64 (1.12.20-2ubuntu2) ... Setting up libsigsegv2:amd64 (2.13-1ubuntu2) ... Setting up libfftw3-quad3:amd64 (3.3.8-2ubuntu7) ... Setting up libfribidi0:amd64 (1.0.8-2ubuntu2) ... Setting up t1utils (1.41-4build1) ... Setting up libhwloc15:amd64 (2.4.1+dfsg-1) ... Setting up libevent-core-2.1-7:amd64 (2.1.12-stable-1) ... Setting up python3-idna (2.10-1) ... Setting up libevent-2.1-7:amd64 (2.1.12-stable-1) ... Setting up autopoint (0.21-4ubuntu3) ... Setting up libwebp6:amd64 (0.6.1-2.1) ... Setting up ucf (3.0043) ... Setting up libjpeg-turbo8:amd64 (2.0.6-0ubuntu2) ... Setting up libltdl7:amd64 (2.4.6-15) ... Setting up libfftw3-double3:amd64 (3.3.8-2ubuntu7) ... Setting up libkpathsea6:amd64 (2020.20200327.54578-7) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2.1build1) ... Setting up libssh-4:amd64 (0.9.6-1) ... Setting up libgfortran5:amd64 (11.2.0-7ubuntu2) ... Setting up python3-urllib3 (1.26.5-1~exp1) ... Setting up libjsoncpp24:amd64 (1.9.4-4build1) ... 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Setting up libcgraph6:amd64 (2.42.2-5) ... Setting up libboost-dev:amd64 (1.74.0.3ubuntu6) ... Setting up libpsm-infinipath1 (3.3+20.604758e7-6.1) ... update-alternatives: using /usr/lib/libpsm1/libpsm_infinipath.so.1.16 to provide /usr/lib/x86_64-linux-gnu/libpsm_infinipath.so.1 (libpsm_infinipath.so.1) in auto mode Setting up libjs-jquery (3.5.1+dfsg+~3.5.5-7) ... Setting up lsb-release (11.1.0ubuntu3) ... Setting up libfido2-1:amd64 (1.6.0-2build1) ... Setting up libde265-0:amd64 (1.0.8-1) ... Setting up libwebpmux3:amd64 (0.6.1-2.1) ... Setting up libbsd0:amd64 (0.11.3-1ubuntu2) ... Setting up python3-lib2to3 (3.9.7-1) ... Setting up libelf1:amd64 (0.185-1build1) ... Setting up libxml2:amd64 (2.9.12+dfsg-4) ... Setting up xdg-utils (1.1.3-2ubuntu2) ... Setting up chrpath (0.16-2) ... Setting up libblas-dev:amd64 (3.9.0-3ubuntu2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode Setting up libsynctex2:amd64 (2020.20200327.54578-7) ... Setting up libjs-underscore (1.9.1~dfsg-3) ... Setting up libevent-pthreads-2.1-7:amd64 (2.1.12-stable-1) ... Setting up python3-imagesize (1.2.0-2) ... Setting up libjpeg8:amd64 (8c-2ubuntu8) ... Setting up python3-distutils (3.9.7-1) ... Setting up libgs9-common (9.54.0~dfsg1-0ubuntu2) ... Setting up x11proto-dev (2020.1-1) ... Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up libpaper1:amd64 (1.1.28build1) ... Creating config file /etc/papersize with new version Setting up libice6:amd64 (2:1.0.10-1build1) ... Setting up libdw1:amd64 (0.185-1build1) ... Setting up libxdmcp6:amd64 (1:1.1.3-0ubuntu4) ... Setting up libevent-extra-2.1-7:amd64 (2.1.12-stable-1) ... Setting up liblapack3:amd64 (3.9.0-3ubuntu2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libxcb1:amd64 (1.14-3ubuntu1) ... Setting up gettext (0.21-4ubuntu3) ... Setting up libpdfbox-java (1:1.8.16-2) ... Setting up libxau-dev:amd64 (1:1.0.9-1build3) ... Setting up libtool (2.4.6-15) ... Setting up python3-babel (2.8.0+dfsg.1-7) ... update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up libarchive13:amd64 (3.4.3-2) ... Setting up libxcb-render0:amd64 (1.14-3ubuntu1) ... Setting up libfftw3-bin (3.3.8-2ubuntu7) ... Setting up libgfortran-11-dev:amd64 (11.2.0-7ubuntu2) ... Setting up fontconfig-config (2.13.1-4.2ubuntu3) ... Setting up libwebpdemux2:amd64 (0.6.1-2.1) ... Setting up libedit2:amd64 (3.1-20191231-2build1) ... Setting up libcommons-parent-java (43-1) ... 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Setting up python3-requests (2.25.1+dfsg-2) ... Setting up libevent-dev (2.1.12-stable-1) ... Setting up liblapack-dev:amd64 (3.9.0-3ubuntu2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode Setting up libjs-sphinxdoc (3.5.4-2) ... Setting up gfortran-11 (11.2.0-7ubuntu2) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... Setting up libgvpr2:amd64 (2.42.2-5) ... Setting up dwz (0.14-1build1) ... Setting up libnl-3-dev:amd64 (3.4.0-1build2) ... Setting up groff-base (1.22.4-7) ... Setting up xml-core (0.18+nmu1) ... Setting up debugedit (1:5.0-0ubuntu2) ... Setting up libcurl4:amd64 (7.74.0-1.3ubuntu2) ... Setting up libx11-6:amd64 (2:1.7.2-1) ... Setting up libtiff5:amd64 (4.3.0-1) ... Setting up libfontconfig1:amd64 (2.13.1-4.2ubuntu3) ... Setting up libsm6:amd64 (2:1.2.3-1build1) ... Setting up libfftw3-dev:amd64 (3.3.8-2ubuntu7) ... Setting up libavahi-client3:amd64 (0.8-5ubuntu4) ... Setting up automake (1:1.16.4-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libibverbs1:amd64 (33.2-1ubuntu1) ... Setting up fontconfig (2.13.1-4.2ubuntu3) ... Regenerating fonts cache... done. Setting up libxcb1-dev:amd64 (1.14-3ubuntu1) ... Setting up libxpm4:amd64 (1:3.5.12-1) ... Setting up libxrender1:amd64 (1:0.9.10-1build2) ... Setting up ibverbs-providers:amd64 (33.2-1ubuntu1) ... Setting up mpich (3.4.1-5ubuntu1) ... update-alternatives: using /usr/bin/mpicc.mpich to provide /usr/bin/mpicc (mpi) in auto mode update-alternatives: using /usr/bin/mpirun.mpich to provide /usr/bin/mpirun (mpirun) in auto mode Setting up openssh-client (1:8.4p1-6ubuntu2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up preview-latex-style (12.2-1ubuntu1) ... Setting up libpango-1.0-0:amd64 (1.48.10+ds1-1) ... Setting up libheif1:amd64 (1.11.0-1) ... Setting up libx11-dev:amd64 (2:1.7.2-1) ... Setting up libxext6:amd64 (2:1.3.4-0ubuntu3) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /lib/systemd/system/man-db.timer. Setting up gfortran (4:11.2.0-1ubuntu1) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up libcairo2:amd64 (1.16.0-5ubuntu1) ... Setting up libclang1-12 (1:12.0.1-8build1) ... Setting up libxnvctrl0:amd64 (470.57.01-0ubuntu3) ... Setting up dh-autoreconf (20) ... Setting up libnl-route-3-dev:amd64 (3.4.0-1build2) ... Setting up libltdl-dev:amd64 (2.4.6-15) ... Setting up libmagickcore-6.q16-6:amd64 (8:6.9.11.60+dfsg-1ubuntu1) ... Setting up libclang-cpp12 (1:12.0.1-8build1) ... Setting up sphinx-common (3.5.4-2) ... Setting up libgd3:amd64 (2.3.0-2ubuntu1) ... Setting up libmpich-dev:amd64 (3.4.1-5ubuntu1) ... update-alternatives: using /usr/include/x86_64-linux-gnu/mpich to provide /usr/include/x86_64-linux-gnu/mpi (mpi-x86_64-linux-gnu) in auto mode Setting up libxt6:amd64 (1:1.2.0-1) ... Setting up libcups2:amd64 (2.3.3op2-7ubuntu2) ... Setting up cmake (3.18.4-2ubuntu2) ... Setting up libmagickwand-6.q16-6:amd64 (8:6.9.11.60+dfsg-1ubuntu1) ... Setting up libhwloc-dev:amd64 (2.4.1+dfsg-1) ... Setting up libpangoft2-1.0-0:amd64 (1.48.10+ds1-1) ... Setting up libpangocairo-1.0-0:amd64 (1.48.10+ds1-1) ... Setting up librdmacm1:amd64 (33.2-1ubuntu1) ... Setting up libucx0:amd64 (1.10.1~rc1+really.1.10.0-1) ... Setting up libxmu6:amd64 (2:1.1.3-0ubuntu1) ... Setting up libgs9:amd64 (9.54.0~dfsg1-0ubuntu2) ... Setting up libxi6:amd64 (2:1.7.10-1build2) ... Setting up mscgen (0.20-14) ... Setting up debhelper (13.3.4ubuntu2) ... Setting up libxaw7:amd64 (2:1.0.13-1.1) ... Setting up libibverbs-dev:amd64 (33.2-1ubuntu1) ... Setting up ghostscript (9.54.0~dfsg1-0ubuntu2) ... Setting up libhwloc-plugins:amd64 (2.4.1+dfsg-1) ... Setting up doxygen (1.9.1-2ubuntu1) ... Setting up libgvc6 (2.42.2-5) ... Setting up imagemagick-6.q16 (8:6.9.11.60+dfsg-1ubuntu1) ... update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare (compare) in auto mode update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare-im6 (compare-im6) in auto mode update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate (animate) in auto mode update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate-im6 (animate-im6) in auto mode update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert (convert) in auto mode update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert-im6 (convert-im6) in auto mode update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite (composite) in auto mode update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite-im6 (composite-im6) in auto mode update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure (conjure) in auto mode update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure-im6 (conjure-im6) in auto mode update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import (import) in auto mode update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import-im6 (import-im6) in auto mode update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify (identify) in auto mode update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify-im6 (identify-im6) in auto mode update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream (stream) in auto mode update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream-im6 (stream-im6) in auto mode update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display (display) in auto mode update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display-im6 (display-im6) in auto mode update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage (montage) in auto mode update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage-im6 (montage-im6) in auto mode update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify (mogrify) in auto mode update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify-im6 (mogrify-im6) in auto mode Setting up texlive-binaries (2020.20200327.54578-7) ... update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode Setting up texlive-base (2020.20210202-3) ... tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex Setting up graphviz (2.42.2-5) ... Setting up libfabric1 (1.11.0-2) ... Setting up libpmix2:amd64 (4.1.0-3ubuntu1) ... Setting up libopenmpi3:amd64 (4.1.0-10ubuntu1) ... Setting up texlive-latex-base (2020.20210202-3) ... Setting up texlive-latex-recommended (2020.20210202-3) ... Setting up texlive-pictures (2020.20210202-3) ... Setting up imagemagick (8:6.9.11.60+dfsg-1ubuntu1) ... Setting up texlive-fonts-recommended (2020.20210202-3) ... Setting up libpmix-dev:amd64 (4.1.0-3ubuntu1) ... Setting up openmpi-bin (4.1.0-10ubuntu1) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up texlive-latex-extra (2020.20210202-3) ... Setting up libopenmpi-dev:amd64 (4.1.0-10ubuntu1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openmpi/include to provide /usr/include/x86_64-linux-gnu/mpi (mpi-x86_64-linux-gnu) in auto mode Processing triggers for libc-bin (2.34-0ubuntu3) ... Processing triggers for sgml-base (1.30) ... Setting up docutils-common (0.16+dfsg-4) ... Processing triggers for sgml-base (1.30) ... Setting up python3-docutils (0.16+dfsg-4) ... update-alternatives: using /usr/share/docutils/scripts/python3/rst-buildhtml to provide /usr/bin/rst-buildhtml (rst-buildhtml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html to provide /usr/bin/rst2html (rst2html) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html4 to provide /usr/bin/rst2html4 (rst2html4) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html5 to provide /usr/bin/rst2html5 (rst2html5) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2latex to provide /usr/bin/rst2latex (rst2latex) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2man to provide /usr/bin/rst2man (rst2man) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2odt to provide /usr/bin/rst2odt (rst2odt) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2odt_prepstyles to provide /usr/bin/rst2odt_prepstyles (rst2odt_prepstyles) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2pseudoxml to provide /usr/bin/rst2pseudoxml (rst2pseudoxml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2s5 to provide /usr/bin/rst2s5 (rst2s5) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2xetex to provide /usr/bin/rst2xetex (rst2xetex) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2xml to provide /usr/bin/rst2xml (rst2xml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rstpep2html to provide /usr/bin/rstpep2html (rstpep2html) in auto mode Setting up python3-sphinx (3.5.4-2) ... Setting up sbuild-build-depends-gromacs-dummy (0.invalid.0) ... Processing triggers for tex-common (6.16) ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Building format(s) --all. This may take some time... done. W: Sources disagree on hashes for supposely identical version '0.0.7-1build1' of 'libuchardet0:amd64'. W: Sources disagree on hashes for supposely identical version '1.22.4-7' of 'groff-base:amd64'. W: Sources disagree on hashes for supposely identical version '7.74.0-1.3ubuntu2' of 'libcurl4:amd64'. W: Sources disagree on hashes for supposely identical version '1.9.4-4build1' of 'libjsoncpp24:amd64'. W: Sources disagree on hashes for supposely identical version '0.35-15build1' of 'libijs-0.35:amd64'. +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.15.0-167-generic amd64 (x86_64) Toolchain package versions: binutils_2.37-7ubuntu1 dpkg-dev_1.20.9ubuntu13 g++-10_10.3.0-11ubuntu1 g++-11_11.2.0-7ubuntu2 gcc-10_10.3.0-11ubuntu1 gcc-11_11.2.0-7ubuntu2 libc6-dev_2.34-0ubuntu3 libstdc++-10-dev_10.3.0-11ubuntu1 libstdc++-11-dev_11.2.0-7ubuntu2 libstdc++6_11.2.0-7ubuntu2 linux-libc-dev_5.13.0-19.19 Package versions: adduser_3.118ubuntu5 advancecomp_2.1-2.1ubuntu1 apt_2.3.9 autoconf_2.69-14 automake_1:1.16.4-2 autopoint_0.21-4ubuntu3 autotools-dev_20180224.1+nmu1 base-files_11.1ubuntu5 base-passwd_3.5.51 bash_5.1-3ubuntu2 binutils_2.37-7ubuntu1 binutils-common_2.37-7ubuntu1 binutils-x86-64-linux-gnu_2.37-7ubuntu1 bsdextrautils_2.36.1-8ubuntu1 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pkgbinarymangler_148 po-debconf_1.0.21+nmu1 policyrcd-script-zg2_0.1-3 poppler-data_0.4.11-1 preview-latex-style_12.2-1ubuntu1 procps_2:3.3.17-5ubuntu3 python-babel-localedata_2.8.0+dfsg.1-7 python3_3.9.4-1build1 python3-alabaster_0.7.12-1 python3-babel_2.8.0+dfsg.1-7 python3-certifi_2020.6.20-1 python3-chardet_4.0.0-1 python3-distutils_3.9.7-1 python3-docutils_0.16+dfsg-4 python3-idna_2.10-1 python3-imagesize_1.2.0-2 python3-jinja2_2.11.3-1 python3-lib2to3_3.9.7-1 python3-markupsafe_1.1.1-1build2 python3-minimal_3.9.4-1build1 python3-packaging_20.9-2 python3-pkg-resources_52.0.0-4 python3-psutil_5.8.0-1 python3-pygments_2.7.1+dfsg-2.1 python3-pyparsing_2.4.7-1 python3-requests_2.25.1+dfsg-2 python3-roman_2.0.0-5 python3-six_1.16.0-2 python3-snowballstemmer_2.1.0-1 python3-sphinx_3.5.4-2 python3-tz_2021.1-1 python3-urllib3_1.26.5-1~exp1 python3.9_3.9.7-2build1 python3.9-minimal_3.9.7-2build1 rdfind_1.4.1-1build3 readline-common_8.1-2 rpcsvc-proto_1.4.2-0ubuntu5 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-gromacs-dummy_0.invalid.0 sed_4.7-1ubuntu1 sensible-utils_0.0.14 sgml-base_1.30 sphinx-common_3.5.4-2 symlinks_1.4-4 systemd_248.3-1ubuntu8 systemd-sysv_248.3-1ubuntu8 systemd-timesyncd_248.3-1ubuntu8 sysvinit-utils_2.96-7ubuntu1 t1utils_1.41-4build1 tar_1.34+dfsg-1build1 tex-common_6.16 texlive-base_2020.20210202-3 texlive-binaries_2020.20200327.54578-7 texlive-fonts-recommended_2020.20210202-3 texlive-latex-base_2020.20210202-3 texlive-latex-extra_2020.20210202-3 texlive-latex-recommended_2020.20210202-3 texlive-pictures_2020.20210202-3 tzdata_2021a-2ubuntu1 ubuntu-keyring_2021.03.26 ucf_3.0043 usrmerge_25ubuntu1 util-linux_2.36.1-8ubuntu1 x11-common_1:7.7+22ubuntu2 x11proto-dev_2020.1-1 xdg-utils_1.1.3-2ubuntu2 xml-core_0.18+nmu1 xorg-sgml-doctools_1:1.11-1.1 xtrans-dev_1.4.0-1 xz-utils_5.2.5-2 zlib1g_1:1.2.11.dfsg-2ubuntu7 zlib1g-dev_1:1.2.11.dfsg-2ubuntu7 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Mon Mar 29 05:23:05 2021 UTC gpgv: using RSA key 843E5FA61E6063389876D2E5EE4AFD69EC65108F gpgv: issuer "nbreen@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./gromacs_2020.6-2.dsc dpkg-source: info: extracting gromacs in /<> dpkg-source: info: unpacking gromacs_2020.6.orig.tar.gz dpkg-source: info: unpacking gromacs_2020.6.orig-regressiontests.tar.gz dpkg-source: info: unpacking gromacs_2020.6-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying disable-listed-forces-test.patch dpkg-source: info: applying arm64-disable-numa-test.patch dpkg-source: info: applying readme.patch dpkg-source: info: applying copyright-file.patch dpkg-source: info: applying disable-cpuinfotest.patch dpkg-source: info: applying mdrun-test-timeout.patch dpkg-source: info: applying local-mathjax.patch dpkg-source: info: applying mpi-tests-localhost.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-22481651 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-22481651 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-22481651 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage.pl: info: source package gromacs dpkg-buildpackage.pl: info: source version 2020.6-2 dpkg-buildpackage.pl: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage.pl: info: host architecture amd64 debian/rules clean dh_testdir dh_testroot rm -rf build docs/doxygen/*.pyc dh_clean build-basic build-mpich build-openmpi build-manual configure-stamp \ debian/gromacs-mpich.README.Debian debian/gromacs-openmpi.README.Debian debian/rules binary dh_testdir (mkdir -p build/basic; cd build/basic; cmake /<> -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_RULE_MESSAGES=OFF -DCMAKE_INSTALL_PREFIX="/usr" -DCMAKE_EXE_LINKER_FLAGS="-Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now" -DCMAKE_SKIP_RPATH=ON -DGMX_EXTERNAL_ZLIB=ON -DGMX_VERSION_STRING_OF_FORK="Ubuntu-2020.6-2" -DGMX_GIT_VERSION_INFO=OFF -DGMX_SIMD=SSE4.1 -DGMX_MPI=OFF -DGMX_X11=ON -DBUILD_SHARED_LIBS=ON -DGMX_INSTALL_LEGACY_API=ON) -- The C compiler identification is GNU 11.2.0 -- The CXX compiler identification is GNU 11.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Looking for NVIDIA GPUs present in the system -- Could not detect NVIDIA GPUs -- No compatible CUDA toolkit found (v5.0+), disabling native GPU acceleration -- Found OpenMP_C: -fopenmp (found version "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Performing Test CFLAGS_EXCESS_PREC -- Performing Test CFLAGS_EXCESS_PREC - Success -- Performing Test CFLAGS_COPT -- Performing Test CFLAGS_COPT - Success -- Performing Test CFLAGS_NOINLINE -- Performing Test CFLAGS_NOINLINE - Success -- Performing Test CXXFLAGS_EXCESS_PREC -- Performing Test CXXFLAGS_EXCESS_PREC - Success -- Performing Test CXXFLAGS_COPT -- Performing Test CXXFLAGS_COPT - Success -- Performing Test CXXFLAGS_NOINLINE -- Performing Test CXXFLAGS_NOINLINE - Success -- Looking for include file unistd.h -- Looking for include file unistd.h - found -- Looking for include file pwd.h -- Looking for include file pwd.h - found -- Looking for include file dirent.h -- Looking for include file dirent.h - found -- Looking for include file time.h -- Looking for include file time.h - found -- Looking for include file sys/time.h -- Looking for include file sys/time.h - found -- Looking for include file io.h -- Looking for include file io.h - not found -- Looking for include file sched.h -- Looking for include file sched.h - found -- Looking for include file xmmintrin.h -- Looking for include file xmmintrin.h - found -- Looking for gettimeofday -- Looking for gettimeofday - found -- Looking for sysconf -- Looking for sysconf - found -- Looking for nice -- Looking for nice - found -- Looking for fsync -- Looking for fsync - found -- Looking for _fileno -- Looking for _fileno - not found -- Looking for fileno -- Looking for fileno - found -- Looking for _commit -- Looking for _commit - not found -- Looking for sigaction -- Looking for sigaction - found -- Performing Test HAVE_BUILTIN_CLZ -- Performing Test HAVE_BUILTIN_CLZ - Success -- Performing Test HAVE_BUILTIN_CLZLL -- Performing Test HAVE_BUILTIN_CLZLL - Success -- Looking for clock_gettime in rt -- Looking for clock_gettime in rt - found -- Looking for feenableexcept in m -- Looking for feenableexcept in m - found -- Looking for fedisableexcept in m -- Looking for fedisableexcept in m - found -- Checking for sched.h GNU affinity API -- Performing Test sched_affinity_compile -- Performing Test sched_affinity_compile - Success -- Looking for include file mm_malloc.h -- Looking for include file mm_malloc.h - found -- Looking for include file malloc.h -- Looking for include file malloc.h - found -- Checking for _mm_malloc() -- Checking for _mm_malloc() - supported -- Looking for posix_memalign -- Looking for posix_memalign - found -- Looking for memalign -- Looking for memalign - not found -- Check if the system is big endian -- Searching 16 bit integer -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of unsigned short -- Check size of unsigned short - done -- Searching 16 bit integer - Using unsigned short -- Check if the system is big endian - little endian -- Looking for HWLOC -- Looking for hwloc_topology_init -- Looking for hwloc_topology_init - found -- hwloc version: -- Found HWLOC: /usr/lib/x86_64-linux-gnu/libhwloc.so (found suitable version "2.4.1", minimum required is "1.5") -- Found X11: /usr/include -- Looking for XOpenDisplay in /usr/lib/x86_64-linux-gnu/libX11.so -- Looking for XOpenDisplay in /usr/lib/x86_64-linux-gnu/libX11.so - found -- Looking for gethostbyname -- Looking for gethostbyname - found -- Looking for connect -- Looking for connect - found -- Looking for remove -- Looking for remove - found -- Looking for shmat -- Looking for shmat - found -- Looking for pthread.h -- Looking for pthread.h - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Looking for C++ include pthread.h -- Looking for C++ include pthread.h - found -- Atomic operations found -- Performing Test PTHREAD_SETAFFINITY -- Performing Test PTHREAD_SETAFFINITY - Success -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11") -- Looking for zlibVersion in /usr/lib/x86_64-linux-gnu/libz.so -- Looking for zlibVersion in /usr/lib/x86_64-linux-gnu/libz.so - found -- Checking for GCC x86 inline asm -- Checking for GCC x86 inline asm - supported -- Detected build CPU vendor - AMD -- Detected build CPU brand - AMD EPYC 7351 16-Core Processor -- Detected build CPU family - 23 -- Detected build CPU model - 1 -- Detected build CPU stepping - 2 -- Detected build CPU features - aes amd apic avx avx2 clfsh cmov cx8 cx16 f16c fma lahf misalignsse mmx msr pclmuldq pdpe1gb popcnt pse rdrnd rdtscp sse2 sse3 sse4a sse4.1 sse4.2 ssse3 tdt x2apic -- Disabling RDTSCP support -- Checking for 64-bit off_t -- Checking for 64-bit off_t - present -- Checking for fseeko/ftello -- Checking for fseeko/ftello - present -- Checking for SIGUSR1 -- Checking for SIGUSR1 - found -- Checking for pipe support -- Checking for system XDR support -- Checking for system XDR support - not present -- Performing Test C_msse4_1_FLAG_ACCEPTED -- Performing Test C_msse4_1_FLAG_ACCEPTED - Success -- Performing Test C_msse4_1_COMPILE_WORKS -- Performing Test C_msse4_1_COMPILE_WORKS - Success -- Performing Test CXX_msse4_1_FLAG_ACCEPTED -- Performing Test CXX_msse4_1_FLAG_ACCEPTED - Success -- Performing Test CXX_msse4_1_COMPILE_WORKS -- Performing Test CXX_msse4_1_COMPILE_WORKS - Success -- Enabling SSE4.1 SIMD instructions using CXX flags: -msse4.1 -- Performing Test _callconv___vectorcall -- Performing Test _callconv___vectorcall - Failed -- Performing Test _callconv___regcall -- Performing Test _callconv___regcall - Failed -- Performing Test _callconv_ -- Performing Test _callconv_ - Success -- pkg-config could not detect fftw3f, trying generic detection -- Looking for fftwf_plan_many_dft in /usr/lib/x86_64-linux-gnu/libfftw3f.so -- Looking for fftwf_plan_many_dft in /usr/lib/x86_64-linux-gnu/libfftw3f.so - found -- Looking for fftwf_plan_many_dft_r2c in /usr/lib/x86_64-linux-gnu/libfftw3f.so -- Looking for fftwf_plan_many_dft_r2c in /usr/lib/x86_64-linux-gnu/libfftw3f.so - found -- Looking for fftwf_plan_many_dft_c2r in /usr/lib/x86_64-linux-gnu/libfftw3f.so -- Looking for fftwf_plan_many_dft_c2r in /usr/lib/x86_64-linux-gnu/libfftw3f.so - found -- Looking for fftwf_have_simd_sse in /usr/lib/x86_64-linux-gnu/libfftw3f.so -- Looking for fftwf_have_simd_sse in /usr/lib/x86_64-linux-gnu/libfftw3f.so - not found -- Looking for fftwf_have_sse in /usr/lib/x86_64-linux-gnu/libfftw3f.so -- Looking for fftwf_have_sse in /usr/lib/x86_64-linux-gnu/libfftw3f.so - not found -- Looking for fftwf_have_simd_sse2 in /usr/lib/x86_64-linux-gnu/libfftw3f.so -- Looking for fftwf_have_simd_sse2 in /usr/lib/x86_64-linux-gnu/libfftw3f.so - found -- Using external FFT library - FFTW3 -- Looking for sgemm_ -- Looking for sgemm_ - not found -- Looking for sgemm_ -- Looking for sgemm_ - found -- Found BLAS: /usr/lib/x86_64-linux-gnu/libblas.so -- Looking for cheev_ -- Looking for cheev_ - not found -- Looking for cheev_ -- Looking for cheev_ - found -- A library with LAPACK API found. -- Checking for dlopen -- Performing Test HAVE_DLOPEN -- Performing Test HAVE_DLOPEN - Success -- Checking for dlopen - found -- Using dynamic plugins (e.g VMD-supported file formats) -- Checking for suitable VMD version -- VMD plugins not found. Path to VMD can be set with VMDDIR. -- Using default binary suffix: "" -- Using default library suffix: "" -- Could not convert sample image, ImageMagick convert can not be used. A possible way to fix it can be found here: https://alexvanderbist.com/2018/fixing-imagick-error-unauthorized -- Found Sphinx: /usr/bin/sphinx-build (found suitable version "3.5.4", minimum required is "1.6.1") found components: pygments -- Performing Test HAVE_NO_DEPRECATED_COPY -- Performing Test HAVE_NO_DEPRECATED_COPY - Success -- Performing Test HAS_NO_STRINGOP_TRUNCATION -- Performing Test HAS_NO_STRINGOP_TRUNCATION - Success -- Performing Test HAS_NO_UNUSED_MEMBER_FUNCTION -- Performing Test HAS_NO_UNUSED_MEMBER_FUNCTION - Success -- Performing Test HAS_NO_REDUNDANT_MOVE -- Performing Test HAS_NO_REDUNDANT_MOVE - Success -- Performing Test HAS_NO_UNUSED -- Performing Test HAS_NO_UNUSED - Success -- Performing Test HAS_NO_UNUSED_PARAMETER -- Performing Test HAS_NO_UNUSED_PARAMETER - Success -- Performing Test HAS_NO_MISSING_DECLARATIONS -- Performing Test HAS_NO_MISSING_DECLARATIONS - Success -- Performing Test HAS_NO_NULL_CONVERSIONS -- Performing Test HAS_NO_NULL_CONVERSIONS - Success -- Performing Test HAS_NO_CLASS_MEMACCESS -- Performing Test HAS_NO_CLASS_MEMACCESS - Success -- Check if the system is big endian -- Searching 16 bit integer -- Searching 16 bit integer - Using unsigned short -- Check if the system is big endian - little endian -- Looking for inttypes.h -- Looking for inttypes.h - found -- Found Doxygen: /usr/bin/doxygen (found version "1.9.1") found components: doxygen dot -- Configuring done -- Generating done -- Build files have been written to: /<>/build/basic (mkdir -p build/basic-dp; cd build/basic-dp; cmake /<> -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_RULE_MESSAGES=OFF -DCMAKE_INSTALL_PREFIX="/usr" -DCMAKE_EXE_LINKER_FLAGS="-Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now" -DCMAKE_SKIP_RPATH=ON -DGMX_EXTERNAL_ZLIB=ON -DGMX_VERSION_STRING_OF_FORK="Ubuntu-2020.6-2" -DGMX_GIT_VERSION_INFO=OFF -DGMX_SIMD=SSE4.1 -DGMX_MPI=OFF -DGMX_X11=ON -DBUILD_SHARED_LIBS=ON -DGMX_DOUBLE=ON) -- The C compiler identification is GNU 11.2.0 -- The CXX compiler identification is GNU 11.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done CMake Warning at cmake/gmxManageGPU.cmake:53 (message): GPU acceleration is not available in double precision, disabled! Call Stack (most recent call first): CMakeLists.txt:217 (include) -- Found OpenMP_C: -fopenmp (found version "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Performing Test CFLAGS_EXCESS_PREC -- Performing Test CFLAGS_EXCESS_PREC - Success -- Performing Test CFLAGS_COPT -- Performing Test CFLAGS_COPT - Success -- Performing Test CFLAGS_NOINLINE -- Performing Test CFLAGS_NOINLINE - Success -- Performing Test CXXFLAGS_EXCESS_PREC -- Performing Test CXXFLAGS_EXCESS_PREC - Success -- Performing Test CXXFLAGS_COPT -- Performing Test CXXFLAGS_COPT - Success -- Performing Test CXXFLAGS_NOINLINE -- Performing Test CXXFLAGS_NOINLINE - Success -- Looking for include file unistd.h -- Looking for include file unistd.h - found -- Looking for include file pwd.h -- Looking for include file pwd.h - found -- Looking for include file dirent.h -- Looking for include file dirent.h - found -- Looking for include file time.h -- Looking for include file time.h - found -- Looking for include file sys/time.h -- Looking for include file sys/time.h - found -- Looking for include file io.h -- Looking for include file io.h - not found -- Looking for include file sched.h -- Looking for include file sched.h - found -- Looking for include file xmmintrin.h -- Looking for include file xmmintrin.h - found -- Looking for gettimeofday -- Looking for gettimeofday - found -- Looking for sysconf -- Looking for sysconf - found -- Looking for nice -- Looking for nice - found -- Looking for fsync -- Looking for fsync - found -- Looking for _fileno -- Looking for _fileno - not found -- Looking for fileno -- Looking for fileno - found -- Looking for _commit -- Looking for _commit - not found -- Looking for sigaction -- Looking for sigaction - found -- Performing Test HAVE_BUILTIN_CLZ -- Performing Test HAVE_BUILTIN_CLZ - Success -- Performing Test HAVE_BUILTIN_CLZLL -- Performing Test HAVE_BUILTIN_CLZLL - Success -- Looking for clock_gettime in rt -- Looking for clock_gettime in rt - found -- Looking for feenableexcept in m -- Looking for feenableexcept in m - found -- Looking for fedisableexcept in m -- Looking for fedisableexcept in m - found -- Checking for sched.h GNU affinity API -- Performing Test sched_affinity_compile -- Performing Test sched_affinity_compile - Success -- Looking for include file mm_malloc.h -- Looking for include file mm_malloc.h - found -- Looking for include file malloc.h -- Looking for include file malloc.h - found -- Checking for _mm_malloc() -- Checking for _mm_malloc() - supported -- Looking for posix_memalign -- Looking for posix_memalign - found -- Looking for memalign -- Looking for memalign - not found -- Check if the system is big endian -- Searching 16 bit integer -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of unsigned short -- Check size of unsigned short - done -- Searching 16 bit integer - Using unsigned short -- Check if the system is big endian - little endian -- Looking for HWLOC -- Looking for hwloc_topology_init -- Looking for hwloc_topology_init - found -- hwloc version: -- Found HWLOC: /usr/lib/x86_64-linux-gnu/libhwloc.so (found suitable version "2.4.1", minimum required is "1.5") -- Found X11: /usr/include -- Looking for XOpenDisplay in /usr/lib/x86_64-linux-gnu/libX11.so -- Looking for XOpenDisplay in /usr/lib/x86_64-linux-gnu/libX11.so - found -- Looking for gethostbyname -- Looking for gethostbyname - found -- Looking for connect -- Looking for connect - found -- Looking for remove -- Looking for remove - found -- Looking for shmat -- Looking for shmat - found -- Looking for pthread.h -- Looking for pthread.h - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Looking for C++ include pthread.h -- Looking for C++ include pthread.h - found -- Atomic operations found -- Performing Test PTHREAD_SETAFFINITY -- Performing Test PTHREAD_SETAFFINITY - Success -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11") -- Looking for zlibVersion in /usr/lib/x86_64-linux-gnu/libz.so -- Looking for zlibVersion in /usr/lib/x86_64-linux-gnu/libz.so - found -- Checking for GCC x86 inline asm -- Checking for GCC x86 inline asm - supported -- Detected build CPU vendor - AMD -- Detected build CPU brand - AMD EPYC 7351 16-Core Processor -- Detected build CPU family - 23 -- Detected build CPU model - 1 -- Detected build CPU stepping - 2 -- Detected build CPU features - aes amd apic avx avx2 clfsh cmov cx8 cx16 f16c fma lahf misalignsse mmx msr pclmuldq pdpe1gb popcnt pse rdrnd rdtscp sse2 sse3 sse4a sse4.1 sse4.2 ssse3 tdt x2apic -- Disabling RDTSCP support -- Checking for 64-bit off_t -- Checking for 64-bit off_t - present -- Checking for fseeko/ftello -- Checking for fseeko/ftello - present -- Checking for SIGUSR1 -- Checking for SIGUSR1 - found -- Checking for pipe support -- Checking for system XDR support -- Checking for system XDR support - not present -- Performing Test C_msse4_1_FLAG_ACCEPTED -- Performing Test C_msse4_1_FLAG_ACCEPTED - Success -- Performing Test C_msse4_1_COMPILE_WORKS -- Performing Test C_msse4_1_COMPILE_WORKS - Success -- Performing Test CXX_msse4_1_FLAG_ACCEPTED -- Performing Test CXX_msse4_1_FLAG_ACCEPTED - Success -- Performing Test CXX_msse4_1_COMPILE_WORKS -- Performing Test CXX_msse4_1_COMPILE_WORKS - Success -- Enabling SSE4.1 SIMD instructions using CXX flags: -msse4.1 -- Performing Test _callconv___vectorcall -- Performing Test _callconv___vectorcall - Failed -- Performing Test _callconv___regcall -- Performing Test _callconv___regcall - Failed -- Performing Test _callconv_ -- Performing Test _callconv_ - Success -- pkg-config could not detect fftw3, trying generic detection -- Looking for fftw_plan_many_dft in /usr/lib/x86_64-linux-gnu/libfftw3.so -- Looking for fftw_plan_many_dft in /usr/lib/x86_64-linux-gnu/libfftw3.so - found -- Looking for fftw_plan_many_dft_r2c in /usr/lib/x86_64-linux-gnu/libfftw3.so -- Looking for fftw_plan_many_dft_r2c in /usr/lib/x86_64-linux-gnu/libfftw3.so - found -- Looking for fftw_plan_many_dft_c2r in /usr/lib/x86_64-linux-gnu/libfftw3.so -- Looking for fftw_plan_many_dft_c2r in /usr/lib/x86_64-linux-gnu/libfftw3.so - found -- Looking for fftw_have_simd_sse in /usr/lib/x86_64-linux-gnu/libfftw3.so -- Looking for fftw_have_simd_sse in /usr/lib/x86_64-linux-gnu/libfftw3.so - not found -- Looking for fftw_have_sse in /usr/lib/x86_64-linux-gnu/libfftw3.so -- Looking for fftw_have_sse in /usr/lib/x86_64-linux-gnu/libfftw3.so - not found -- Looking for fftw_have_simd_sse2 in /usr/lib/x86_64-linux-gnu/libfftw3.so -- Looking for fftw_have_simd_sse2 in /usr/lib/x86_64-linux-gnu/libfftw3.so - found -- Using external FFT library - FFTW3 -- Looking for sgemm_ -- Looking for sgemm_ - not found -- Looking for sgemm_ -- Looking for sgemm_ - found -- Found BLAS: /usr/lib/x86_64-linux-gnu/libblas.so -- Looking for cheev_ -- Looking for cheev_ - not found -- Looking for cheev_ -- Looking for cheev_ - found -- A library with LAPACK API found. -- Checking for dlopen -- Performing Test HAVE_DLOPEN -- Performing Test HAVE_DLOPEN - Success -- Checking for dlopen - found -- Using dynamic plugins (e.g VMD-supported file formats) -- Checking for suitable VMD version -- VMD plugins not found. Path to VMD can be set with VMDDIR. -- Using default binary suffix: "_d" -- Using default library suffix: "_d" -- Could not convert sample image, ImageMagick convert can not be used. A possible way to fix it can be found here: https://alexvanderbist.com/2018/fixing-imagick-error-unauthorized -- Found Sphinx: /usr/bin/sphinx-build (found suitable version "3.5.4", minimum required is "1.6.1") found components: pygments -- Performing Test HAVE_NO_DEPRECATED_COPY -- Performing Test HAVE_NO_DEPRECATED_COPY - Success -- Performing Test HAS_NO_STRINGOP_TRUNCATION -- Performing Test HAS_NO_STRINGOP_TRUNCATION - Success -- Performing Test HAS_NO_UNUSED_MEMBER_FUNCTION -- Performing Test HAS_NO_UNUSED_MEMBER_FUNCTION - Success -- Performing Test HAS_NO_REDUNDANT_MOVE -- Performing Test HAS_NO_REDUNDANT_MOVE - Success -- Performing Test HAS_NO_UNUSED -- Performing Test HAS_NO_UNUSED - Success -- Performing Test HAS_NO_UNUSED_PARAMETER -- Performing Test HAS_NO_UNUSED_PARAMETER - Success -- Performing Test HAS_NO_MISSING_DECLARATIONS -- Performing Test HAS_NO_MISSING_DECLARATIONS - Success -- Performing Test HAS_NO_NULL_CONVERSIONS -- Performing Test HAS_NO_NULL_CONVERSIONS - Success -- Performing Test HAS_NO_CLASS_MEMACCESS -- Performing Test HAS_NO_CLASS_MEMACCESS - Success -- Check if the system is big endian -- Searching 16 bit integer -- Searching 16 bit integer - Using unsigned short -- Check if the system is big endian - little endian -- Looking for inttypes.h -- Looking for inttypes.h - found -- Found Doxygen: /usr/bin/doxygen (found version "1.9.1") found components: doxygen dot -- Configuring done -- Generating done -- Build files have been written to: /<>/build/basic-dp (mkdir -p build/mpich; cd build/mpich; CC=/usr/bin/mpicc.mpich CXX=/usr/bin/mpicxx.mpich cmake \ /<> -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_RULE_MESSAGES=OFF -DCMAKE_INSTALL_PREFIX="/usr" -DCMAKE_EXE_LINKER_FLAGS="-Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now" -DCMAKE_SKIP_RPATH=ON -DGMX_EXTERNAL_ZLIB=ON -DGMX_VERSION_STRING_OF_FORK="Ubuntu-2020.6-2" -DGMX_GIT_VERSION_INFO=OFF -DGMX_SIMD=SSE4.1 -DGMX_MPI=ON -DGMX_X11=OFF -DGMX_DEFAULT_SUFFIX=OFF -DMPIEXEC="/usr/bin/mpiexec.mpich" -DGMX_BUILD_MDRUN_ONLY=ON -DGMX_BINARY_SUFFIX="_mpi.mpich" -DGMX_LIBS_SUFFIX="_mpi.mpich") -- The C compiler identification is GNU 11.2.0 -- The CXX compiler identification is GNU 11.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/mpicc.mpich - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/mpicxx.mpich - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Looking for NVIDIA GPUs present in the system -- Could not detect NVIDIA GPUs -- No compatible CUDA toolkit found (v5.0+), disabling native GPU acceleration -- Found OpenMP_C: -fopenmp (found version "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Performing Test CFLAGS_EXCESS_PREC -- Performing Test CFLAGS_EXCESS_PREC - Success -- Performing Test CFLAGS_COPT -- Performing Test CFLAGS_COPT - Success -- Performing Test CFLAGS_NOINLINE -- Performing Test CFLAGS_NOINLINE - Success -- Performing Test CXXFLAGS_EXCESS_PREC -- Performing Test CXXFLAGS_EXCESS_PREC - Success -- Performing Test CXXFLAGS_COPT -- Performing Test CXXFLAGS_COPT - Success -- Performing Test CXXFLAGS_NOINLINE -- Performing Test CXXFLAGS_NOINLINE - Success -- Looking for include file unistd.h -- Looking for include file unistd.h - found -- Looking for include file pwd.h -- Looking for include file pwd.h - found -- Looking for include file dirent.h -- Looking for include file dirent.h - found -- Looking for include file time.h -- Looking for include file time.h - found -- Looking for include file sys/time.h -- Looking for include file sys/time.h - found -- Looking for include file io.h -- Looking for include file io.h - not found -- Looking for include file sched.h -- Looking for include file sched.h - found -- Looking for include file xmmintrin.h -- Looking for include file xmmintrin.h - found -- Looking for gettimeofday -- Looking for gettimeofday - found -- Looking for sysconf -- Looking for sysconf - found -- Looking for nice -- Looking for nice - found -- Looking for fsync -- Looking for fsync - found -- Looking for _fileno -- Looking for _fileno - not found -- Looking for fileno -- Looking for fileno - found -- Looking for _commit -- Looking for _commit - not found -- Looking for sigaction -- Looking for sigaction - found -- Performing Test HAVE_BUILTIN_CLZ -- Performing Test HAVE_BUILTIN_CLZ - Success -- Performing Test HAVE_BUILTIN_CLZLL -- Performing Test HAVE_BUILTIN_CLZLL - Success -- Looking for clock_gettime in rt -- Looking for clock_gettime in rt - found -- Looking for feenableexcept in m -- Looking for feenableexcept in m - found -- Looking for fedisableexcept in m -- Looking for fedisableexcept in m - found -- Checking for sched.h GNU affinity API -- Performing Test sched_affinity_compile -- Performing Test sched_affinity_compile - Success -- Looking for include file mm_malloc.h -- Looking for include file mm_malloc.h - found -- Looking for include file malloc.h -- Looking for include file malloc.h - found -- Checking for _mm_malloc() -- Checking for _mm_malloc() - supported -- Looking for posix_memalign -- Looking for posix_memalign - found -- Looking for memalign -- Looking for memalign - not found -- Check if the system is big endian -- Searching 16 bit integer -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of unsigned short -- Check size of unsigned short - done -- Searching 16 bit integer - Using unsigned short -- Check if the system is big endian - little endian -- MPI is not compatible with thread-MPI. Disabling thread-MPI. -- Checking for MPI_IN_PLACE -- Performing Test MPI_IN_PLACE_COMPILE_OK -- Performing Test MPI_IN_PLACE_COMPILE_OK - Success -- Checking for MPI_IN_PLACE - yes -- Defaulting to building static libraries -- Looking for HWLOC -- Looking for hwloc_topology_init -- Looking for hwloc_topology_init - found -- hwloc version: -- Found HWLOC: /usr/lib/x86_64-linux-gnu/libhwloc.so (found suitable version "2.4.1", minimum required is "1.5") -- Looking for pthread.h -- Looking for pthread.h - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Looking for C++ include pthread.h -- Looking for C++ include pthread.h - found -- Atomic operations found -- Performing Test PTHREAD_SETAFFINITY -- Performing Test PTHREAD_SETAFFINITY - Success -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11") -- Looking for zlibVersion in /usr/lib/x86_64-linux-gnu/libz.so -- Looking for zlibVersion in /usr/lib/x86_64-linux-gnu/libz.so - found -- Checking for GCC x86 inline asm -- Checking for GCC x86 inline asm - supported -- Detected build CPU vendor - AMD -- Detected build CPU brand - AMD EPYC 7351 16-Core Processor -- Detected build CPU family - 23 -- Detected build CPU model - 1 -- Detected build CPU stepping - 2 -- Detected build CPU features - aes amd apic avx avx2 clfsh cmov cx8 cx16 f16c fma lahf misalignsse mmx msr pclmuldq pdpe1gb popcnt pse rdrnd rdtscp sse2 sse3 sse4a sse4.1 sse4.2 ssse3 tdt x2apic -- Disabling RDTSCP support -- Checking for 64-bit off_t -- Checking for 64-bit off_t - present -- Checking for fseeko/ftello -- Checking for fseeko/ftello - present -- Checking for SIGUSR1 -- Checking for SIGUSR1 - found -- Checking for pipe support -- Checking for system XDR support -- Checking for system XDR support - not present -- Performing Test C_msse4_1_FLAG_ACCEPTED -- Performing Test C_msse4_1_FLAG_ACCEPTED - Success -- Performing Test C_msse4_1_COMPILE_WORKS -- Performing Test C_msse4_1_COMPILE_WORKS - Success -- Performing Test CXX_msse4_1_FLAG_ACCEPTED -- Performing Test CXX_msse4_1_FLAG_ACCEPTED - Success -- Performing Test CXX_msse4_1_COMPILE_WORKS -- Performing Test CXX_msse4_1_COMPILE_WORKS - Success -- Enabling SSE4.1 SIMD instructions using CXX flags: -msse4.1 -- Performing Test _callconv___vectorcall -- Performing Test _callconv___vectorcall - Failed -- Performing Test _callconv___regcall -- Performing Test _callconv___regcall - Failed -- Performing Test _callconv_ -- Performing Test _callconv_ - Success -- pkg-config could not detect fftw3f, trying generic detection -- Looking for fftwf_plan_many_dft in /usr/lib/x86_64-linux-gnu/libfftw3f.so -- Looking for fftwf_plan_many_dft in /usr/lib/x86_64-linux-gnu/libfftw3f.so - found -- Looking for fftwf_plan_many_dft_r2c in /usr/lib/x86_64-linux-gnu/libfftw3f.so -- Looking for fftwf_plan_many_dft_r2c in /usr/lib/x86_64-linux-gnu/libfftw3f.so - found -- Looking for fftwf_plan_many_dft_c2r in /usr/lib/x86_64-linux-gnu/libfftw3f.so -- Looking for fftwf_plan_many_dft_c2r in /usr/lib/x86_64-linux-gnu/libfftw3f.so - found -- Looking for fftwf_have_simd_sse in /usr/lib/x86_64-linux-gnu/libfftw3f.so -- Looking for fftwf_have_simd_sse in /usr/lib/x86_64-linux-gnu/libfftw3f.so - not found -- Looking for fftwf_have_sse in /usr/lib/x86_64-linux-gnu/libfftw3f.so -- Looking for fftwf_have_sse in /usr/lib/x86_64-linux-gnu/libfftw3f.so - not found -- Looking for fftwf_have_simd_sse2 in /usr/lib/x86_64-linux-gnu/libfftw3f.so -- Looking for fftwf_have_simd_sse2 in /usr/lib/x86_64-linux-gnu/libfftw3f.so - found -- Using external FFT library - FFTW3 -- Looking for sgemm_ -- Looking for sgemm_ - not found -- Looking for sgemm_ -- Looking for sgemm_ - found -- Found BLAS: /usr/lib/x86_64-linux-gnu/libblas.so -- Looking for cheev_ -- Looking for cheev_ - not found -- Looking for cheev_ -- Looking for cheev_ - found -- A library with LAPACK API found. -- Checking for dlopen -- Performing Test HAVE_DLOPEN -- Performing Test HAVE_DLOPEN - Success -- Checking for dlopen - found -- GROMACS only supports plugins in a build that uses shared libraries, which can be disabled for various reasons. BUILD_SHARED_LIBS=on and a toolchain that supports dynamic linking is required. (Hint: GMX_PREFER_STATIC_LIBS and GMX_BUILD_MDRUN_ONLY can influence the default BUILD_SHARED_LIBS, so if you need plugins, reconsider those choices.) -- Not using dynamic plugins (e.g VMD-supported file formats) -- Using manually set binary suffix: "_mpi.mpich" -- Using manually set library suffix: "_mpi.mpich" -- Performing Test HAVE_NO_DEPRECATED_COPY -- Performing Test HAVE_NO_DEPRECATED_COPY - Success -- Performing Test HAS_NO_STRINGOP_TRUNCATION -- Performing Test HAS_NO_STRINGOP_TRUNCATION - Success -- Performing Test HAS_NO_UNUSED_MEMBER_FUNCTION -- Performing Test HAS_NO_UNUSED_MEMBER_FUNCTION - Success -- Performing Test HAS_NO_REDUNDANT_MOVE -- Performing Test HAS_NO_REDUNDANT_MOVE - Success -- Performing Test HAS_NO_UNUSED -- Performing Test HAS_NO_UNUSED - Success -- Performing Test HAS_NO_UNUSED_PARAMETER -- Performing Test HAS_NO_UNUSED_PARAMETER - Success -- Performing Test HAS_NO_MISSING_DECLARATIONS -- Performing Test HAS_NO_MISSING_DECLARATIONS - Success -- Performing Test HAS_NO_NULL_CONVERSIONS -- Performing Test HAS_NO_NULL_CONVERSIONS - Success -- Performing Test HAS_NO_CLASS_MEMACCESS -- Performing Test HAS_NO_CLASS_MEMACCESS - Success -- Check if the system is big endian -- Searching 16 bit integer -- Searching 16 bit integer - Using unsigned short -- Check if the system is big endian - little endian -- Looking for inttypes.h -- Looking for inttypes.h - found -- Configuring done -- Generating done -- Build files have been written to: /<>/build/mpich (mkdir -p build/mpich-dp; cd build/mpich-dp; CC=/usr/bin/mpicc.mpich CXX=/usr/bin/mpicxx.mpich cmake \ /<> -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_RULE_MESSAGES=OFF -DCMAKE_INSTALL_PREFIX="/usr" -DCMAKE_EXE_LINKER_FLAGS="-Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now" -DCMAKE_SKIP_RPATH=ON -DGMX_EXTERNAL_ZLIB=ON -DGMX_VERSION_STRING_OF_FORK="Ubuntu-2020.6-2" -DGMX_GIT_VERSION_INFO=OFF -DGMX_SIMD=SSE4.1 -DGMX_MPI=ON -DGMX_X11=OFF -DGMX_DEFAULT_SUFFIX=OFF -DMPIEXEC="/usr/bin/mpiexec.mpich" -DGMX_BUILD_MDRUN_ONLY=ON -DGMX_DOUBLE=ON -DGMX_BINARY_SUFFIX="_mpi_d.mpich" -DGMX_LIBS_SUFFIX="_mpi_d.mpich") -- The C compiler identification is GNU 11.2.0 -- The CXX compiler identification is GNU 11.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/mpicc.mpich - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/mpicxx.mpich - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done CMake Warning at cmake/gmxManageGPU.cmake:53 (message): GPU acceleration is not available in double precision, disabled! Call Stack (most recent call first): CMakeLists.txt:217 (include) -- Found OpenMP_C: -fopenmp (found version "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Performing Test CFLAGS_EXCESS_PREC -- Performing Test CFLAGS_EXCESS_PREC - Success -- Performing Test CFLAGS_COPT -- Performing Test CFLAGS_COPT - Success -- Performing Test CFLAGS_NOINLINE -- Performing Test CFLAGS_NOINLINE - Success -- Performing Test CXXFLAGS_EXCESS_PREC -- Performing Test CXXFLAGS_EXCESS_PREC - Success -- Performing Test CXXFLAGS_COPT -- Performing Test CXXFLAGS_COPT - Success -- Performing Test CXXFLAGS_NOINLINE -- Performing Test CXXFLAGS_NOINLINE - Success -- Looking for include file unistd.h -- Looking for include file unistd.h - found -- Looking for include file pwd.h -- Looking for include file pwd.h - found -- Looking for include file dirent.h -- Looking for include file dirent.h - found -- Looking for include file time.h -- Looking for include file time.h - found -- Looking for include file sys/time.h -- Looking for include file sys/time.h - found -- Looking for include file io.h -- Looking for include file io.h - not found -- Looking for include file sched.h -- Looking for include file sched.h - found -- Looking for include file xmmintrin.h -- Looking for include file xmmintrin.h - found -- Looking for gettimeofday -- Looking for gettimeofday - found -- Looking for sysconf -- Looking for sysconf - found -- Looking for nice -- Looking for nice - found -- Looking for fsync -- Looking for fsync - found -- Looking for _fileno -- Looking for _fileno - not found -- Looking for fileno -- Looking for fileno - found -- Looking for _commit -- Looking for _commit - not found -- Looking for sigaction -- Looking for sigaction - found -- Performing Test HAVE_BUILTIN_CLZ -- Performing Test HAVE_BUILTIN_CLZ - Success -- Performing Test HAVE_BUILTIN_CLZLL -- Performing Test HAVE_BUILTIN_CLZLL - Success -- Looking for clock_gettime in rt -- Looking for clock_gettime in rt - found -- Looking for feenableexcept in m -- Looking for feenableexcept in m - found -- Looking for fedisableexcept in m -- Looking for fedisableexcept in m - found -- Checking for sched.h GNU affinity API -- Performing Test sched_affinity_compile -- Performing Test sched_affinity_compile - Success -- Looking for include file mm_malloc.h -- Looking for include file mm_malloc.h - found -- Looking for include file malloc.h -- Looking for include file malloc.h - found -- Checking for _mm_malloc() -- Checking for _mm_malloc() - supported -- Looking for posix_memalign -- Looking for posix_memalign - found -- Looking for memalign -- Looking for memalign - not found -- Check if the system is big endian -- Searching 16 bit integer -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of unsigned short -- Check size of unsigned short - done -- Searching 16 bit integer - Using unsigned short -- Check if the system is big endian - little endian -- MPI is not compatible with thread-MPI. Disabling thread-MPI. -- Checking for MPI_IN_PLACE -- Performing Test MPI_IN_PLACE_COMPILE_OK -- Performing Test MPI_IN_PLACE_COMPILE_OK - Success -- Checking for MPI_IN_PLACE - yes -- Defaulting to building static libraries -- Looking for HWLOC -- Looking for hwloc_topology_init -- Looking for hwloc_topology_init - found -- hwloc version: -- Found HWLOC: /usr/lib/x86_64-linux-gnu/libhwloc.so (found suitable version "2.4.1", minimum required is "1.5") -- Looking for pthread.h -- Looking for pthread.h - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Looking for C++ include pthread.h -- Looking for C++ include pthread.h - found -- Atomic operations found -- Performing Test PTHREAD_SETAFFINITY -- Performing Test PTHREAD_SETAFFINITY - Success -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11") -- Looking for zlibVersion in /usr/lib/x86_64-linux-gnu/libz.so -- Looking for zlibVersion in /usr/lib/x86_64-linux-gnu/libz.so - found -- Checking for GCC x86 inline asm -- Checking for GCC x86 inline asm - supported -- Detected build CPU vendor - AMD -- Detected build CPU brand - AMD EPYC 7351 16-Core Processor -- Detected build CPU family - 23 -- Detected build CPU model - 1 -- Detected build CPU stepping - 2 -- Detected build CPU features - aes amd apic avx avx2 clfsh cmov cx8 cx16 f16c fma lahf misalignsse mmx msr pclmuldq pdpe1gb popcnt pse rdrnd rdtscp sse2 sse3 sse4a sse4.1 sse4.2 ssse3 tdt x2apic -- Disabling RDTSCP support -- Checking for 64-bit off_t -- Checking for 64-bit off_t - present -- Checking for fseeko/ftello -- Checking for fseeko/ftello - present -- Checking for SIGUSR1 -- Checking for SIGUSR1 - found -- Checking for pipe support -- Checking for system XDR support -- Checking for system XDR support - not present -- Performing Test C_msse4_1_FLAG_ACCEPTED -- Performing Test C_msse4_1_FLAG_ACCEPTED - Success -- Performing Test C_msse4_1_COMPILE_WORKS -- Performing Test C_msse4_1_COMPILE_WORKS - Success -- Performing Test CXX_msse4_1_FLAG_ACCEPTED -- Performing Test CXX_msse4_1_FLAG_ACCEPTED - Success -- Performing Test CXX_msse4_1_COMPILE_WORKS -- Performing Test CXX_msse4_1_COMPILE_WORKS - Success -- Enabling SSE4.1 SIMD instructions using CXX flags: -msse4.1 -- Performing Test _callconv___vectorcall -- Performing Test _callconv___vectorcall - Failed -- Performing Test _callconv___regcall -- Performing Test _callconv___regcall - Failed -- Performing Test _callconv_ -- Performing Test _callconv_ - Success -- pkg-config could not detect fftw3, trying generic detection -- Looking for fftw_plan_many_dft in /usr/lib/x86_64-linux-gnu/libfftw3.so -- Looking for fftw_plan_many_dft in /usr/lib/x86_64-linux-gnu/libfftw3.so - found -- Looking for fftw_plan_many_dft_r2c in /usr/lib/x86_64-linux-gnu/libfftw3.so -- Looking for fftw_plan_many_dft_r2c in /usr/lib/x86_64-linux-gnu/libfftw3.so - found -- Looking for fftw_plan_many_dft_c2r in /usr/lib/x86_64-linux-gnu/libfftw3.so -- Looking for fftw_plan_many_dft_c2r in /usr/lib/x86_64-linux-gnu/libfftw3.so - found -- Looking for fftw_have_simd_sse in /usr/lib/x86_64-linux-gnu/libfftw3.so -- Looking for fftw_have_simd_sse in /usr/lib/x86_64-linux-gnu/libfftw3.so - not found -- Looking for fftw_have_sse in /usr/lib/x86_64-linux-gnu/libfftw3.so -- Looking for fftw_have_sse in /usr/lib/x86_64-linux-gnu/libfftw3.so - not found -- Looking for fftw_have_simd_sse2 in /usr/lib/x86_64-linux-gnu/libfftw3.so -- Looking for fftw_have_simd_sse2 in /usr/lib/x86_64-linux-gnu/libfftw3.so - found -- Using external FFT library - FFTW3 -- Looking for sgemm_ -- Looking for sgemm_ - not found -- Looking for sgemm_ -- Looking for sgemm_ - found -- Found BLAS: /usr/lib/x86_64-linux-gnu/libblas.so -- Looking for cheev_ -- Looking for cheev_ - not found -- Looking for cheev_ -- Looking for cheev_ - found -- A library with LAPACK API found. -- Checking for dlopen -- Performing Test HAVE_DLOPEN -- Performing Test HAVE_DLOPEN - Success -- Checking for dlopen - found -- GROMACS only supports plugins in a build that uses shared libraries, which can be disabled for various reasons. BUILD_SHARED_LIBS=on and a toolchain that supports dynamic linking is required. (Hint: GMX_PREFER_STATIC_LIBS and GMX_BUILD_MDRUN_ONLY can influence the default BUILD_SHARED_LIBS, so if you need plugins, reconsider those choices.) -- Not using dynamic plugins (e.g VMD-supported file formats) -- Using manually set binary suffix: "_mpi_d.mpich" -- Using manually set library suffix: "_mpi_d.mpich" -- Performing Test HAVE_NO_DEPRECATED_COPY -- Performing Test HAVE_NO_DEPRECATED_COPY - Success -- Performing Test HAS_NO_STRINGOP_TRUNCATION -- Performing Test HAS_NO_STRINGOP_TRUNCATION - Success -- Performing Test HAS_NO_UNUSED_MEMBER_FUNCTION -- Performing Test HAS_NO_UNUSED_MEMBER_FUNCTION - Success -- Performing Test HAS_NO_REDUNDANT_MOVE -- Performing Test HAS_NO_REDUNDANT_MOVE - Success -- Performing Test HAS_NO_UNUSED -- Performing Test HAS_NO_UNUSED - Success -- Performing Test HAS_NO_UNUSED_PARAMETER -- Performing Test HAS_NO_UNUSED_PARAMETER - Success -- Performing Test HAS_NO_MISSING_DECLARATIONS -- Performing Test HAS_NO_MISSING_DECLARATIONS - Success -- Performing Test HAS_NO_NULL_CONVERSIONS -- Performing Test HAS_NO_NULL_CONVERSIONS - Success -- Performing Test HAS_NO_CLASS_MEMACCESS -- Performing Test HAS_NO_CLASS_MEMACCESS - Success -- Check if the system is big endian -- Searching 16 bit integer -- Searching 16 bit integer - Using unsigned short -- Check if the system is big endian - little endian -- Looking for inttypes.h -- Looking for inttypes.h - found -- Configuring done -- Generating done -- Build files have been written to: /<>/build/mpich-dp (mkdir -p build/openmpi; cd build/openmpi; CC=/usr/bin/mpicc.openmpi CXX=/usr/bin/mpicxx.openmpi cmake \ /<> -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_RULE_MESSAGES=OFF -DCMAKE_INSTALL_PREFIX="/usr" -DCMAKE_EXE_LINKER_FLAGS="-Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now" -DCMAKE_SKIP_RPATH=ON -DGMX_EXTERNAL_ZLIB=ON -DGMX_VERSION_STRING_OF_FORK="Ubuntu-2020.6-2" -DGMX_GIT_VERSION_INFO=OFF -DGMX_SIMD=SSE4.1 -DGMX_MPI=ON -DGMX_X11=OFF -DGMX_DEFAULT_SUFFIX=OFF -DCMAKE_EXE_LINKER_FLAGS="-L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now" -DMPIEXEC="/usr/bin/mpiexec.openmpi" -DGMX_BUILD_MDRUN_ONLY=ON -DGMX_BINARY_SUFFIX="_mpi.openmpi" -DGMX_LIBS_SUFFIX="_mpi.openmpi") -- The C compiler identification is GNU 11.2.0 -- The CXX compiler identification is GNU 11.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/mpicc.openmpi - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/mpicxx.openmpi - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Looking for NVIDIA GPUs present in the system -- Could not detect NVIDIA GPUs -- No compatible CUDA toolkit found (v5.0+), disabling native GPU acceleration -- Found OpenMP_C: -fopenmp (found version "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Performing Test CFLAGS_EXCESS_PREC -- Performing Test CFLAGS_EXCESS_PREC - Success -- Performing Test CFLAGS_COPT -- Performing Test CFLAGS_COPT - Success -- Performing Test CFLAGS_NOINLINE -- Performing Test CFLAGS_NOINLINE - Success -- Performing Test CXXFLAGS_EXCESS_PREC -- Performing Test CXXFLAGS_EXCESS_PREC - Success -- Performing Test CXXFLAGS_COPT -- Performing Test CXXFLAGS_COPT - Success -- Performing Test CXXFLAGS_NOINLINE -- Performing Test CXXFLAGS_NOINLINE - Success -- Looking for include file unistd.h -- Looking for include file unistd.h - found -- Looking for include file pwd.h -- Looking for include file pwd.h - found -- Looking for include file dirent.h -- Looking for include file dirent.h - found -- Looking for include file time.h -- Looking for include file time.h - found -- Looking for include file sys/time.h -- Looking for include file sys/time.h - found -- Looking for include file io.h -- Looking for include file io.h - not found -- Looking for include file sched.h -- Looking for include file sched.h - found -- Looking for include file xmmintrin.h -- Looking for include file xmmintrin.h - found -- Looking for gettimeofday -- Looking for gettimeofday - found -- Looking for sysconf -- Looking for sysconf - found -- Looking for nice -- Looking for nice - found -- Looking for fsync -- Looking for fsync - found -- Looking for _fileno -- Looking for _fileno - not found -- Looking for fileno -- Looking for fileno - found -- Looking for _commit -- Looking for _commit - not found -- Looking for sigaction -- Looking for sigaction - found -- Performing Test HAVE_BUILTIN_CLZ -- Performing Test HAVE_BUILTIN_CLZ - Success -- Performing Test HAVE_BUILTIN_CLZLL -- Performing Test HAVE_BUILTIN_CLZLL - Success -- Looking for clock_gettime in rt -- Looking for clock_gettime in rt - found -- Looking for feenableexcept in m -- Looking for feenableexcept in m - found -- Looking for fedisableexcept in m -- Looking for fedisableexcept in m - found -- Checking for sched.h GNU affinity API -- Performing Test sched_affinity_compile -- Performing Test sched_affinity_compile - Success -- Looking for include file mm_malloc.h -- Looking for include file mm_malloc.h - found -- Looking for include file malloc.h -- Looking for include file malloc.h - found -- Checking for _mm_malloc() -- Checking for _mm_malloc() - supported -- Looking for posix_memalign -- Looking for posix_memalign - found -- Looking for memalign -- Looking for memalign - not found -- Check if the system is big endian -- Searching 16 bit integer -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of unsigned short -- Check size of unsigned short - done -- Searching 16 bit integer - Using unsigned short -- Check if the system is big endian - little endian -- MPI is not compatible with thread-MPI. Disabling thread-MPI. -- Checking for MPI_IN_PLACE -- Performing Test MPI_IN_PLACE_COMPILE_OK -- Performing Test MPI_IN_PLACE_COMPILE_OK - Success -- Checking for MPI_IN_PLACE - yes -- Defaulting to building static libraries -- Looking for HWLOC -- Looking for hwloc_topology_init -- Looking for hwloc_topology_init - found -- hwloc version: -- Found HWLOC: /usr/lib/x86_64-linux-gnu/libhwloc.so (found suitable version "2.4.1", minimum required is "1.5") -- Looking for pthread.h -- Looking for pthread.h - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Looking for C++ include pthread.h -- Looking for C++ include pthread.h - found -- Atomic operations found -- Performing Test PTHREAD_SETAFFINITY -- Performing Test PTHREAD_SETAFFINITY - Success -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11") -- Looking for zlibVersion in /usr/lib/x86_64-linux-gnu/libz.so -- Looking for zlibVersion in /usr/lib/x86_64-linux-gnu/libz.so - found -- Checking for GCC x86 inline asm -- Checking for GCC x86 inline asm - supported -- Detected build CPU vendor - AMD -- Detected build CPU brand - AMD EPYC 7351 16-Core Processor -- Detected build CPU family - 23 -- Detected build CPU model - 1 -- Detected build CPU stepping - 2 -- Detected build CPU features - aes amd apic avx avx2 clfsh cmov cx8 cx16 f16c fma lahf misalignsse mmx msr pclmuldq pdpe1gb popcnt pse rdrnd rdtscp sse2 sse3 sse4a sse4.1 sse4.2 ssse3 tdt x2apic -- Disabling RDTSCP support -- Checking for 64-bit off_t -- Checking for 64-bit off_t - present -- Checking for fseeko/ftello -- Checking for fseeko/ftello - present -- Checking for SIGUSR1 -- Checking for SIGUSR1 - found -- Checking for pipe support -- Checking for system XDR support -- Checking for system XDR support - not present -- Performing Test C_msse4_1_FLAG_ACCEPTED -- Performing Test C_msse4_1_FLAG_ACCEPTED - Success -- Performing Test C_msse4_1_COMPILE_WORKS -- Performing Test C_msse4_1_COMPILE_WORKS - Success -- Performing Test CXX_msse4_1_FLAG_ACCEPTED -- Performing Test CXX_msse4_1_FLAG_ACCEPTED - Success -- Performing Test CXX_msse4_1_COMPILE_WORKS -- Performing Test CXX_msse4_1_COMPILE_WORKS - Success -- Enabling SSE4.1 SIMD instructions using CXX flags: -msse4.1 -- Performing Test _callconv___vectorcall -- Performing Test _callconv___vectorcall - Failed -- Performing Test _callconv___regcall -- Performing Test _callconv___regcall - Failed -- Performing Test _callconv_ -- Performing Test _callconv_ - Success -- pkg-config could not detect fftw3f, trying generic detection -- Looking for fftwf_plan_many_dft in /usr/lib/x86_64-linux-gnu/libfftw3f.so -- Looking for fftwf_plan_many_dft in /usr/lib/x86_64-linux-gnu/libfftw3f.so - found -- Looking for fftwf_plan_many_dft_r2c in /usr/lib/x86_64-linux-gnu/libfftw3f.so -- Looking for fftwf_plan_many_dft_r2c in /usr/lib/x86_64-linux-gnu/libfftw3f.so - found -- Looking for fftwf_plan_many_dft_c2r in /usr/lib/x86_64-linux-gnu/libfftw3f.so -- Looking for fftwf_plan_many_dft_c2r in /usr/lib/x86_64-linux-gnu/libfftw3f.so - found -- Looking for fftwf_have_simd_sse in /usr/lib/x86_64-linux-gnu/libfftw3f.so -- Looking for fftwf_have_simd_sse in /usr/lib/x86_64-linux-gnu/libfftw3f.so - not found -- Looking for fftwf_have_sse in /usr/lib/x86_64-linux-gnu/libfftw3f.so -- Looking for fftwf_have_sse in /usr/lib/x86_64-linux-gnu/libfftw3f.so - not found -- Looking for fftwf_have_simd_sse2 in /usr/lib/x86_64-linux-gnu/libfftw3f.so -- Looking for fftwf_have_simd_sse2 in /usr/lib/x86_64-linux-gnu/libfftw3f.so - found -- Using external FFT library - FFTW3 -- Looking for sgemm_ -- Looking for sgemm_ - not found -- Looking for sgemm_ -- Looking for sgemm_ - found -- Found BLAS: /usr/lib/x86_64-linux-gnu/libblas.so -- Looking for cheev_ -- Looking for cheev_ - not found -- Looking for cheev_ -- Looking for cheev_ - found -- A library with LAPACK API found. -- Checking for dlopen -- Performing Test HAVE_DLOPEN -- Performing Test HAVE_DLOPEN - Success -- Checking for dlopen - found -- GROMACS only supports plugins in a build that uses shared libraries, which can be disabled for various reasons. BUILD_SHARED_LIBS=on and a toolchain that supports dynamic linking is required. (Hint: GMX_PREFER_STATIC_LIBS and GMX_BUILD_MDRUN_ONLY can influence the default BUILD_SHARED_LIBS, so if you need plugins, reconsider those choices.) -- Not using dynamic plugins (e.g VMD-supported file formats) -- Using manually set binary suffix: "_mpi.openmpi" -- Using manually set library suffix: "_mpi.openmpi" -- Performing Test HAVE_NO_DEPRECATED_COPY -- Performing Test HAVE_NO_DEPRECATED_COPY - Success -- Performing Test HAS_NO_STRINGOP_TRUNCATION -- Performing Test HAS_NO_STRINGOP_TRUNCATION - Success -- Performing Test HAS_NO_UNUSED_MEMBER_FUNCTION -- Performing Test HAS_NO_UNUSED_MEMBER_FUNCTION - Success -- Performing Test HAS_NO_REDUNDANT_MOVE -- Performing Test HAS_NO_REDUNDANT_MOVE - Success -- Performing Test HAS_NO_UNUSED -- Performing Test HAS_NO_UNUSED - Success -- Performing Test HAS_NO_UNUSED_PARAMETER -- Performing Test HAS_NO_UNUSED_PARAMETER - Success -- Performing Test HAS_NO_MISSING_DECLARATIONS -- Performing Test HAS_NO_MISSING_DECLARATIONS - Success -- Performing Test HAS_NO_NULL_CONVERSIONS -- Performing Test HAS_NO_NULL_CONVERSIONS - Success -- Performing Test HAS_NO_CLASS_MEMACCESS -- Performing Test HAS_NO_CLASS_MEMACCESS - Success -- Check if the system is big endian -- Searching 16 bit integer -- Searching 16 bit integer - Using unsigned short -- Check if the system is big endian - little endian -- Looking for inttypes.h -- Looking for inttypes.h - found -- Configuring done -- Generating done -- Build files have been written to: /<>/build/openmpi (mkdir -p build/openmpi-dp; cd build/openmpi-dp; CC=/usr/bin/mpicc.openmpi CXX=/usr/bin/mpicxx.openmpi cmake \ /<> -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_RULE_MESSAGES=OFF -DCMAKE_INSTALL_PREFIX="/usr" -DCMAKE_EXE_LINKER_FLAGS="-Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now" -DCMAKE_SKIP_RPATH=ON -DGMX_EXTERNAL_ZLIB=ON -DGMX_VERSION_STRING_OF_FORK="Ubuntu-2020.6-2" -DGMX_GIT_VERSION_INFO=OFF -DGMX_SIMD=SSE4.1 -DGMX_MPI=ON -DGMX_X11=OFF -DGMX_DEFAULT_SUFFIX=OFF -DCMAKE_EXE_LINKER_FLAGS="-L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now" -DMPIEXEC="/usr/bin/mpiexec.openmpi" -DGMX_BUILD_MDRUN_ONLY=ON -DGMX_DOUBLE=ON -DGMX_BINARY_SUFFIX="_mpi_d.openmpi" -DGMX_LIBS_SUFFIX="_mpi_d.openmpi") -- The C compiler identification is GNU 11.2.0 -- The CXX compiler identification is GNU 11.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/mpicc.openmpi - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/mpicxx.openmpi - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done CMake Warning at cmake/gmxManageGPU.cmake:53 (message): GPU acceleration is not available in double precision, disabled! Call Stack (most recent call first): CMakeLists.txt:217 (include) -- Found OpenMP_C: -fopenmp (found version "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Performing Test CFLAGS_EXCESS_PREC -- Performing Test CFLAGS_EXCESS_PREC - Success -- Performing Test CFLAGS_COPT -- Performing Test CFLAGS_COPT - Success -- Performing Test CFLAGS_NOINLINE -- Performing Test CFLAGS_NOINLINE - Success -- Performing Test CXXFLAGS_EXCESS_PREC -- Performing Test CXXFLAGS_EXCESS_PREC - Success -- Performing Test CXXFLAGS_COPT -- Performing Test CXXFLAGS_COPT - Success -- Performing Test CXXFLAGS_NOINLINE -- Performing Test CXXFLAGS_NOINLINE - Success -- Looking for include file unistd.h -- Looking for include file unistd.h - found -- Looking for include file pwd.h -- Looking for include file pwd.h - found -- Looking for include file dirent.h -- Looking for include file dirent.h - found -- Looking for include file time.h -- Looking for include file time.h - found -- Looking for include file sys/time.h -- Looking for include file sys/time.h - found -- Looking for include file io.h -- Looking for include file io.h - not found -- Looking for include file sched.h -- Looking for include file sched.h - found -- Looking for include file xmmintrin.h -- Looking for include file xmmintrin.h - found -- Looking for gettimeofday -- Looking for gettimeofday - found -- Looking for sysconf -- Looking for sysconf - found -- Looking for nice -- Looking for nice - found -- Looking for fsync -- Looking for fsync - found -- Looking for _fileno -- Looking for _fileno - not found -- Looking for fileno -- Looking for fileno - found -- Looking for _commit -- Looking for _commit - not found -- Looking for sigaction -- Looking for sigaction - found -- Performing Test HAVE_BUILTIN_CLZ -- Performing Test HAVE_BUILTIN_CLZ - Success -- Performing Test HAVE_BUILTIN_CLZLL -- Performing Test HAVE_BUILTIN_CLZLL - Success -- Looking for clock_gettime in rt -- Looking for clock_gettime in rt - found -- Looking for feenableexcept in m -- Looking for feenableexcept in m - found -- Looking for fedisableexcept in m -- Looking for fedisableexcept in m - found -- Checking for sched.h GNU affinity API -- Performing Test sched_affinity_compile -- Performing Test sched_affinity_compile - Success -- Looking for include file mm_malloc.h -- Looking for include file mm_malloc.h - found -- Looking for include file malloc.h -- Looking for include file malloc.h - found -- Checking for _mm_malloc() -- Checking for _mm_malloc() - supported -- Looking for posix_memalign -- Looking for posix_memalign - found -- Looking for memalign -- Looking for memalign - not found -- Check if the system is big endian -- Searching 16 bit integer -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of unsigned short -- Check size of unsigned short - done -- Searching 16 bit integer - Using unsigned short -- Check if the system is big endian - little endian -- MPI is not compatible with thread-MPI. Disabling thread-MPI. -- Checking for MPI_IN_PLACE -- Performing Test MPI_IN_PLACE_COMPILE_OK -- Performing Test MPI_IN_PLACE_COMPILE_OK - Success -- Checking for MPI_IN_PLACE - yes -- Defaulting to building static libraries -- Looking for HWLOC -- Looking for hwloc_topology_init -- Looking for hwloc_topology_init - found -- hwloc version: -- Found HWLOC: /usr/lib/x86_64-linux-gnu/libhwloc.so (found suitable version "2.4.1", minimum required is "1.5") -- Looking for pthread.h -- Looking for pthread.h - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Looking for C++ include pthread.h -- Looking for C++ include pthread.h - found -- Atomic operations found -- Performing Test PTHREAD_SETAFFINITY -- Performing Test PTHREAD_SETAFFINITY - Success -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11") -- Looking for zlibVersion in /usr/lib/x86_64-linux-gnu/libz.so -- Looking for zlibVersion in /usr/lib/x86_64-linux-gnu/libz.so - found -- Checking for GCC x86 inline asm -- Checking for GCC x86 inline asm - supported -- Detected build CPU vendor - AMD -- Detected build CPU brand - AMD EPYC 7351 16-Core Processor -- Detected build CPU family - 23 -- Detected build CPU model - 1 -- Detected build CPU stepping - 2 -- Detected build CPU features - aes amd apic avx avx2 clfsh cmov cx8 cx16 f16c fma lahf misalignsse mmx msr pclmuldq pdpe1gb popcnt pse rdrnd rdtscp sse2 sse3 sse4a sse4.1 sse4.2 ssse3 tdt x2apic -- Disabling RDTSCP support -- Checking for 64-bit off_t -- Checking for 64-bit off_t - present -- Checking for fseeko/ftello -- Checking for fseeko/ftello - present -- Checking for SIGUSR1 -- Checking for SIGUSR1 - found -- Checking for pipe support -- Checking for system XDR support -- Checking for system XDR support - not present -- Performing Test C_msse4_1_FLAG_ACCEPTED -- Performing Test C_msse4_1_FLAG_ACCEPTED - Success -- Performing Test C_msse4_1_COMPILE_WORKS -- Performing Test C_msse4_1_COMPILE_WORKS - Success -- Performing Test CXX_msse4_1_FLAG_ACCEPTED -- Performing Test CXX_msse4_1_FLAG_ACCEPTED - Success -- Performing Test CXX_msse4_1_COMPILE_WORKS -- Performing Test CXX_msse4_1_COMPILE_WORKS - Success -- Enabling SSE4.1 SIMD instructions using CXX flags: -msse4.1 -- Performing Test _callconv___vectorcall -- Performing Test _callconv___vectorcall - Failed -- Performing Test _callconv___regcall -- Performing Test _callconv___regcall - Failed -- Performing Test _callconv_ -- Performing Test _callconv_ - Success -- pkg-config could not detect fftw3, trying generic detection -- Looking for fftw_plan_many_dft in /usr/lib/x86_64-linux-gnu/libfftw3.so -- Looking for fftw_plan_many_dft in /usr/lib/x86_64-linux-gnu/libfftw3.so - found -- Looking for fftw_plan_many_dft_r2c in /usr/lib/x86_64-linux-gnu/libfftw3.so -- Looking for fftw_plan_many_dft_r2c in /usr/lib/x86_64-linux-gnu/libfftw3.so - found -- Looking for fftw_plan_many_dft_c2r in /usr/lib/x86_64-linux-gnu/libfftw3.so -- Looking for fftw_plan_many_dft_c2r in /usr/lib/x86_64-linux-gnu/libfftw3.so - found -- Looking for fftw_have_simd_sse in /usr/lib/x86_64-linux-gnu/libfftw3.so -- Looking for fftw_have_simd_sse in /usr/lib/x86_64-linux-gnu/libfftw3.so - not found -- Looking for fftw_have_sse in /usr/lib/x86_64-linux-gnu/libfftw3.so -- Looking for fftw_have_sse in /usr/lib/x86_64-linux-gnu/libfftw3.so - not found -- Looking for fftw_have_simd_sse2 in /usr/lib/x86_64-linux-gnu/libfftw3.so -- Looking for fftw_have_simd_sse2 in /usr/lib/x86_64-linux-gnu/libfftw3.so - found -- Using external FFT library - FFTW3 -- Looking for sgemm_ -- Looking for sgemm_ - not found -- Looking for sgemm_ -- Looking for sgemm_ - found -- Found BLAS: /usr/lib/x86_64-linux-gnu/libblas.so -- Looking for cheev_ -- Looking for cheev_ - not found -- Looking for cheev_ -- Looking for cheev_ - found -- A library with LAPACK API found. -- Checking for dlopen -- Performing Test HAVE_DLOPEN -- Performing Test HAVE_DLOPEN - Success -- Checking for dlopen - found -- GROMACS only supports plugins in a build that uses shared libraries, which can be disabled for various reasons. BUILD_SHARED_LIBS=on and a toolchain that supports dynamic linking is required. (Hint: GMX_PREFER_STATIC_LIBS and GMX_BUILD_MDRUN_ONLY can influence the default BUILD_SHARED_LIBS, so if you need plugins, reconsider those choices.) -- Not using dynamic plugins (e.g VMD-supported file formats) -- Using manually set binary suffix: "_mpi_d.openmpi" -- Using manually set library suffix: "_mpi_d.openmpi" -- Performing Test HAVE_NO_DEPRECATED_COPY -- Performing Test HAVE_NO_DEPRECATED_COPY - Success -- Performing Test HAS_NO_STRINGOP_TRUNCATION -- Performing Test HAS_NO_STRINGOP_TRUNCATION - Success -- Performing Test HAS_NO_UNUSED_MEMBER_FUNCTION -- Performing Test HAS_NO_UNUSED_MEMBER_FUNCTION - Success -- Performing Test HAS_NO_REDUNDANT_MOVE -- Performing Test HAS_NO_REDUNDANT_MOVE - Success -- Performing Test HAS_NO_UNUSED -- Performing Test HAS_NO_UNUSED - Success -- Performing Test HAS_NO_UNUSED_PARAMETER -- Performing Test HAS_NO_UNUSED_PARAMETER - Success -- Performing Test HAS_NO_MISSING_DECLARATIONS -- Performing Test HAS_NO_MISSING_DECLARATIONS - Success -- Performing Test HAS_NO_NULL_CONVERSIONS -- Performing Test HAS_NO_NULL_CONVERSIONS - Success -- Performing Test HAS_NO_CLASS_MEMACCESS -- Performing Test HAS_NO_CLASS_MEMACCESS - Success -- Check if the system is big endian -- Searching 16 bit integer -- Searching 16 bit integer - Using unsigned short -- Check if the system is big endian - little endian -- Looking for inttypes.h -- Looking for inttypes.h - found -- Configuring done -- Generating done -- Build files have been written to: /<>/build/openmpi-dp touch configure-stamp dh_testdir /usr/bin/make -j4 -C build/basic make[1]: Entering directory '/<>/build/basic' /usr/bin/cmake -S/<> -B/<>/build/basic --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/build/basic/CMakeFiles /<>/build/basic//CMakeFiles/progress.marks /usr/bin/make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/<>/build/basic' /usr/bin/make -f src/gromacs/selection/CMakeFiles/scanner.dir/build.make src/gromacs/selection/CMakeFiles/scanner.dir/depend /usr/bin/make -f CMakeFiles/release-version-info.dir/build.make CMakeFiles/release-version-info.dir/depend /usr/bin/make -f src/gromacs/CMakeFiles/lmfit_objlib.dir/build.make src/gromacs/CMakeFiles/lmfit_objlib.dir/depend /usr/bin/make -f src/gromacs/CMakeFiles/thread_mpi.dir/build.make src/gromacs/CMakeFiles/thread_mpi.dir/depend make[3]: Entering directory '/<>/build/basic' cd /<>/build/basic && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src/gromacs/selection /<>/build/basic /<>/build/basic/src/gromacs/selection /<>/build/basic/src/gromacs/selection/CMakeFiles/scanner.dir/DependInfo.cmake --color= make[3]: Entering directory '/<>/build/basic' cd /<>/build/basic && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/build/basic /<>/build/basic /<>/build/basic/CMakeFiles/release-version-info.dir/DependInfo.cmake --color= make[3]: Entering directory '/<>/build/basic' cd /<>/build/basic && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src/gromacs /<>/build/basic /<>/build/basic/src/gromacs /<>/build/basic/src/gromacs/CMakeFiles/lmfit_objlib.dir/DependInfo.cmake --color= make[3]: Entering directory '/<>/build/basic' cd /<>/build/basic && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src/gromacs /<>/build/basic /<>/build/basic/src/gromacs /<>/build/basic/src/gromacs/CMakeFiles/thread_mpi.dir/DependInfo.cmake --color= Scanning dependencies of target release-version-info Scanning dependencies of target lmfit_objlib make[3]: Leaving directory '/<>/build/basic' /usr/bin/make -f CMakeFiles/release-version-info.dir/build.make CMakeFiles/release-version-info.dir/build make[3]: Leaving directory '/<>/build/basic' /usr/bin/make -f src/gromacs/CMakeFiles/lmfit_objlib.dir/build.make src/gromacs/CMakeFiles/lmfit_objlib.dir/build make[3]: Entering directory '/<>/build/basic' make[3]: Entering directory '/<>/build/basic' cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -std=c++14 -o CMakeFiles/lmfit_objlib.dir/__/external/lmfit/lmmin.cpp.o -c /<>/src/external/lmfit/lmmin.cpp cd /<> && /usr/bin/cmake -D PYTHON_EXECUTABLE=/usr/bin/python3 -D PROJECT_VERSION=2020.6-Ubuntu-2020.6-2 -D PROJECT_SOURCE_DIR=/<> -D DIRECTORIES_TO_CHECKSUM=src:python_packaging -D VERSION_CMAKEIN=/<>/build/basic/VersionInfo-partial.cmake.cmakein -D VERSION_OUT=/<>/build/basic/VersionInfo.cmake -D VERSION_STRING_OF_FORK=Ubuntu-2020.6-2 -P /<>/cmake/gmxGenerateVersionInfoRelease.cmake Scanning dependencies of target scanner make[3]: Leaving directory '/<>/build/basic' /usr/bin/make -f src/gromacs/selection/CMakeFiles/scanner.dir/build.make src/gromacs/selection/CMakeFiles/scanner.dir/build Scanning dependencies of target thread_mpi make[3]: Leaving directory '/<>/build/basic' make[3]: Leaving directory '/<>/build/basic' /usr/bin/make -f src/gromacs/CMakeFiles/thread_mpi.dir/build.make src/gromacs/CMakeFiles/thread_mpi.dir/build make[3]: Entering directory '/<>/build/basic' cd /<>/build/basic/src/gromacs/selection && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -Wno-unused -Wno-unused-parameter -Wno-missing-declarations -Wno-null-conversion -std=c++14 -o CMakeFiles/scanner.dir/parser.cpp.o -c /<>/src/gromacs/selection/parser.cpp make[3]: Entering directory '/<>/build/basic' cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/errhandler.cpp.o -c /<>/src/external/thread_mpi/src/errhandler.cpp [ 0%] Built target release-version-info cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/tmpi_malloc.cpp.o -c /<>/src/external/thread_mpi/src/tmpi_malloc.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/atomic.cpp.o -c /<>/src/external/thread_mpi/src/atomic.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/lock.cpp.o -c /<>/src/external/thread_mpi/src/lock.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/pthreads.cpp.o -c /<>/src/external/thread_mpi/src/pthreads.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/system_error.cpp.o -c /<>/src/external/thread_mpi/src/system_error.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/alltoall.cpp.o -c /<>/src/external/thread_mpi/src/alltoall.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/p2p_protocol.cpp.o -c /<>/src/external/thread_mpi/src/p2p_protocol.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/barrier.cpp.o -c /<>/src/external/thread_mpi/src/barrier.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/p2p_send_recv.cpp.o -c /<>/src/external/thread_mpi/src/p2p_send_recv.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/bcast.cpp.o -c /<>/src/external/thread_mpi/src/bcast.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/p2p_wait.cpp.o -c /<>/src/external/thread_mpi/src/p2p_wait.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/collective.cpp.o -c /<>/src/external/thread_mpi/src/collective.cpp cd /<>/build/basic/src/gromacs/selection && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -Wno-unused -Wno-unused-parameter -Wno-missing-declarations -Wno-null-conversion -std=c++14 -o CMakeFiles/scanner.dir/scanner.cpp.o -c /<>/src/gromacs/selection/scanner.cpp make[3]: Leaving directory '/<>/build/basic' [ 0%] Built target lmfit_objlib /usr/bin/make -f src/gromacs/CMakeFiles/tng_io_obj.dir/build.make src/gromacs/CMakeFiles/tng_io_obj.dir/depend make[3]: Entering directory '/<>/build/basic' cd /<>/build/basic && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src/gromacs /<>/build/basic /<>/build/basic/src/gromacs /<>/build/basic/src/gromacs/CMakeFiles/tng_io_obj.dir/DependInfo.cmake --color= Scanning dependencies of target tng_io_obj make[3]: Leaving directory '/<>/build/basic' /usr/bin/make -f src/gromacs/CMakeFiles/tng_io_obj.dir/build.make src/gromacs/CMakeFiles/tng_io_obj.dir/build make[3]: Entering directory '/<>/build/basic' cd /<>/build/basic/src/gromacs && /usr/bin/cc -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -I/<>/src/external/tng_io/include -I/<>/build/basic/tng/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -o CMakeFiles/tng_io_obj.dir/__/external/tng_io/src/compression/bwlzh.c.o -c /<>/src/external/tng_io/src/compression/bwlzh.c cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/profile.cpp.o -c /<>/src/external/thread_mpi/src/profile.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/comm.cpp.o -c /<>/src/external/thread_mpi/src/comm.cpp cd /<>/build/basic/src/gromacs && /usr/bin/cc -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -I/<>/src/external/tng_io/include -I/<>/build/basic/tng/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -o CMakeFiles/tng_io_obj.dir/__/external/tng_io/src/compression/bwt.c.o -c /<>/src/external/tng_io/src/compression/bwt.c cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/reduce.cpp.o -c /<>/src/external/thread_mpi/src/reduce.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/event.cpp.o -c /<>/src/external/thread_mpi/src/event.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/reduce_fast.cpp.o -c /<>/src/external/thread_mpi/src/reduce_fast.cpp cd /<>/build/basic/src/gromacs && /usr/bin/cc -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -I/<>/src/external/tng_io/include -I/<>/build/basic/tng/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -o CMakeFiles/tng_io_obj.dir/__/external/tng_io/src/compression/coder.c.o -c /<>/src/external/tng_io/src/compression/coder.c cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/gather.cpp.o -c /<>/src/external/thread_mpi/src/gather.cpp /usr/bin/make -f src/gromacs/linearalgebra/CMakeFiles/linearalgebra.dir/build.make src/gromacs/linearalgebra/CMakeFiles/linearalgebra.dir/depend make[3]: Entering directory '/<>/build/basic' cd /<>/build/basic && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src/gromacs/linearalgebra /<>/build/basic /<>/build/basic/src/gromacs/linearalgebra /<>/build/basic/src/gromacs/linearalgebra/CMakeFiles/linearalgebra.dir/DependInfo.cmake --color= Scanning dependencies of target linearalgebra make[3]: Leaving directory '/<>/build/basic' /usr/bin/make -f src/gromacs/linearalgebra/CMakeFiles/linearalgebra.dir/build.make src/gromacs/linearalgebra/CMakeFiles/linearalgebra.dir/build make[3]: Entering directory '/<>/build/basic' cd /<>/build/basic/src/gromacs/linearalgebra && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -Wno-stringop-truncation -std=c++14 -o CMakeFiles/linearalgebra.dir/eigensolver.cpp.o -c /<>/src/gromacs/linearalgebra/eigensolver.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/scatter.cpp.o -c /<>/src/external/thread_mpi/src/scatter.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/group.cpp.o -c /<>/src/external/thread_mpi/src/group.cpp cd /<>/build/basic/src/gromacs && /usr/bin/cc -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -I/<>/src/external/tng_io/include -I/<>/build/basic/tng/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -o CMakeFiles/tng_io_obj.dir/__/external/tng_io/src/compression/dict.c.o -c /<>/src/external/tng_io/src/compression/dict.c cd /<>/build/basic/src/gromacs && /usr/bin/cc -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -I/<>/src/external/tng_io/include -I/<>/build/basic/tng/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -o CMakeFiles/tng_io_obj.dir/__/external/tng_io/src/compression/fixpoint.c.o -c /<>/src/external/tng_io/src/compression/fixpoint.c cd /<>/build/basic/src/gromacs/linearalgebra && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -Wno-stringop-truncation -std=c++14 -o CMakeFiles/linearalgebra.dir/gmx_arpack.cpp.o -c /<>/src/gromacs/linearalgebra/gmx_arpack.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/tmpi_init.cpp.o -c /<>/src/external/thread_mpi/src/tmpi_init.cpp cd /<>/build/basic/src/gromacs && /usr/bin/cc -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -I/<>/src/external/tng_io/include -I/<>/build/basic/tng/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -o CMakeFiles/tng_io_obj.dir/__/external/tng_io/src/compression/huffman.c.o -c /<>/src/external/tng_io/src/compression/huffman.c cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/topology.cpp.o -c /<>/src/external/thread_mpi/src/topology.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/list.cpp.o -c /<>/src/external/thread_mpi/src/list.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/type.cpp.o -c /<>/src/external/thread_mpi/src/type.cpp cd /<>/build/basic/src/gromacs && /usr/bin/cc -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -I/<>/src/external/tng_io/include -I/<>/build/basic/tng/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -o CMakeFiles/tng_io_obj.dir/__/external/tng_io/src/compression/huffmem.c.o -c /<>/src/external/tng_io/src/compression/huffmem.c cd /<>/build/basic/src/gromacs && /usr/bin/cc -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -I/<>/src/external/tng_io/include -I/<>/build/basic/tng/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -o CMakeFiles/tng_io_obj.dir/__/external/tng_io/src/compression/lz77.c.o -c /<>/src/external/tng_io/src/compression/lz77.c cd /<>/build/basic/src/gromacs && /usr/bin/cc -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -I/<>/src/external/tng_io/include -I/<>/build/basic/tng/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -o CMakeFiles/tng_io_obj.dir/__/external/tng_io/src/compression/merge_sort.c.o -c /<>/src/external/tng_io/src/compression/merge_sort.c cd /<>/build/basic/src/gromacs && /usr/bin/cc -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -I/<>/src/external/tng_io/include -I/<>/build/basic/tng/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -o CMakeFiles/tng_io_obj.dir/__/external/tng_io/src/compression/mtf.c.o -c /<>/src/external/tng_io/src/compression/mtf.c cd /<>/build/basic/src/gromacs && /usr/bin/cc -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -I/<>/src/external/tng_io/include -I/<>/build/basic/tng/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -o CMakeFiles/tng_io_obj.dir/__/external/tng_io/src/compression/rle.c.o -c /<>/src/external/tng_io/src/compression/rle.c cd /<>/build/basic/src/gromacs && /usr/bin/cc -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -I/<>/src/external/tng_io/include -I/<>/build/basic/tng/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -o CMakeFiles/tng_io_obj.dir/__/external/tng_io/src/compression/tng_compress.c.o -c /<>/src/external/tng_io/src/compression/tng_compress.c make[3]: Leaving directory '/<>/build/basic' [ 0%] Built target scanner /usr/bin/make -f src/gromacs/modularsimulator/CMakeFiles/modularsimulator.dir/build.make src/gromacs/modularsimulator/CMakeFiles/modularsimulator.dir/depend make[3]: Entering directory '/<>/build/basic' cd /<>/build/basic && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src/gromacs/modularsimulator /<>/build/basic /<>/build/basic/src/gromacs/modularsimulator /<>/build/basic/src/gromacs/modularsimulator/CMakeFiles/modularsimulator.dir/DependInfo.cmake --color= Scanning dependencies of target modularsimulator make[3]: Leaving directory '/<>/build/basic' /usr/bin/make -f src/gromacs/modularsimulator/CMakeFiles/modularsimulator.dir/build.make src/gromacs/modularsimulator/CMakeFiles/modularsimulator.dir/build make[3]: Entering directory '/<>/build/basic' cd /<>/build/basic/src/gromacs/modularsimulator && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -fopenmp -Wno-redundant-move -std=c++14 -o CMakeFiles/modularsimulator.dir/checkpointhelper.cpp.o -c /<>/src/gromacs/modularsimulator/checkpointhelper.cpp cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/scan.cpp.o -c /<>/src/external/thread_mpi/src/scan.cpp cd /<>/build/basic/src/gromacs && /usr/bin/cc -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -I/<>/src/external/tng_io/include -I/<>/build/basic/tng/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -o CMakeFiles/tng_io_obj.dir/__/external/tng_io/src/compression/vals16.c.o -c /<>/src/external/tng_io/src/compression/vals16.c cd /<>/build/basic/src/gromacs && /usr/bin/cc -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -I/<>/src/external/tng_io/include -I/<>/build/basic/tng/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -o CMakeFiles/tng_io_obj.dir/__/external/tng_io/src/compression/warnmalloc.c.o -c /<>/src/external/tng_io/src/compression/warnmalloc.c cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/numa_malloc.cpp.o -c /<>/src/external/thread_mpi/src/numa_malloc.cpp cd /<>/build/basic/src/gromacs && /usr/bin/cc -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -I/<>/src/external/tng_io/include -I/<>/build/basic/tng/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -o CMakeFiles/tng_io_obj.dir/__/external/tng_io/src/compression/widemuldiv.c.o -c /<>/src/external/tng_io/src/compression/widemuldiv.c cd /<>/build/basic/src/gromacs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/thread_mpi.dir/__/external/thread_mpi/src/once.cpp.o -c /<>/src/external/thread_mpi/src/once.cpp cd /<>/build/basic/src/gromacs && /usr/bin/cc -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -I/<>/src/external/tng_io/include -I/<>/build/basic/tng/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -o CMakeFiles/tng_io_obj.dir/__/external/tng_io/src/compression/xtc2.c.o -c /<>/src/external/tng_io/src/compression/xtc2.c make[3]: Leaving directory '/<>/build/basic' [ 3%] Built target thread_mpi /usr/bin/make -f src/gromacs/fileio/CMakeFiles/vmddlopen.dir/build.make src/gromacs/fileio/CMakeFiles/vmddlopen.dir/depend make[3]: Entering directory '/<>/build/basic' cd /<>/build/basic && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src/gromacs/fileio /<>/build/basic /<>/build/basic/src/gromacs/fileio /<>/build/basic/src/gromacs/fileio/CMakeFiles/vmddlopen.dir/DependInfo.cmake --color= Scanning dependencies of target vmddlopen make[3]: Leaving directory '/<>/build/basic' /usr/bin/make -f src/gromacs/fileio/CMakeFiles/vmddlopen.dir/build.make src/gromacs/fileio/CMakeFiles/vmddlopen.dir/build make[3]: Entering directory '/<>/build/basic' cd /<>/build/basic/src/gromacs/fileio && /usr/bin/c++ -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/vmddlopen.dir/__/__/external/vmd_molfile/vmddlopen.cpp.o -c /<>/src/external/vmd_molfile/vmddlopen.cpp make[3]: Leaving directory '/<>/build/basic' [ 3%] Built target vmddlopen /usr/bin/make -f src/programs/CMakeFiles/mdrun_objlib.dir/build.make src/programs/CMakeFiles/mdrun_objlib.dir/depend make[3]: Entering directory '/<>/build/basic' cd /<>/build/basic && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src/programs /<>/build/basic /<>/build/basic/src/programs /<>/build/basic/src/programs/CMakeFiles/mdrun_objlib.dir/DependInfo.cmake --color= Scanning dependencies of target mdrun_objlib make[3]: Leaving directory '/<>/build/basic' /usr/bin/make -f src/programs/CMakeFiles/mdrun_objlib.dir/build.make src/programs/CMakeFiles/mdrun_objlib.dir/build make[3]: Entering directory '/<>/build/basic' cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/mdrun_objlib.dir/mdrun/mdrun.cpp.o -c /<>/src/programs/mdrun/mdrun.cpp cd /<>/build/basic/src/gromacs/modularsimulator && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -fopenmp -Wno-redundant-move -std=c++14 -o CMakeFiles/modularsimulator.dir/compositesimulatorelement.cpp.o -c /<>/src/gromacs/modularsimulator/compositesimulatorelement.cpp cd /<>/build/basic/src/gromacs/modularsimulator && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -fopenmp -Wno-redundant-move -std=c++14 -o CMakeFiles/modularsimulator.dir/computeglobalselement.cpp.o -c /<>/src/gromacs/modularsimulator/computeglobalselement.cpp cd /<>/build/basic/src/gromacs/linearalgebra && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -Wno-stringop-truncation -std=c++14 -o CMakeFiles/linearalgebra.dir/matrix.cpp.o -c /<>/src/gromacs/linearalgebra/matrix.cpp cd /<>/build/basic/src/gromacs/linearalgebra && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -Wno-stringop-truncation -std=c++14 -o CMakeFiles/linearalgebra.dir/nrjac.cpp.o -c /<>/src/gromacs/linearalgebra/nrjac.cpp cd /<>/build/basic/src/gromacs && /usr/bin/cc -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -I/<>/src/external/tng_io/include -I/<>/build/basic/tng/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -o CMakeFiles/tng_io_obj.dir/__/external/tng_io/src/compression/xtc3.c.o -c /<>/src/external/tng_io/src/compression/xtc3.c cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/mdrun_objlib.dir/mdrun/nonbonded_bench.cpp.o -c /<>/src/programs/mdrun/nonbonded_bench.cpp cd /<>/build/basic/src/gromacs/linearalgebra && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -Wno-stringop-truncation -std=c++14 -o CMakeFiles/linearalgebra.dir/sparsematrix.cpp.o -c /<>/src/gromacs/linearalgebra/sparsematrix.cpp make[3]: Leaving directory '/<>/build/basic' [ 5%] Built target linearalgebra /usr/bin/make -f src/programs/CMakeFiles/view_objlib.dir/build.make src/programs/CMakeFiles/view_objlib.dir/depend make[3]: Entering directory '/<>/build/basic' cd /<>/build/basic && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src/programs /<>/build/basic /<>/build/basic/src/programs /<>/build/basic/src/programs/CMakeFiles/view_objlib.dir/DependInfo.cmake --color= Scanning dependencies of target view_objlib make[3]: Leaving directory '/<>/build/basic' /usr/bin/make -f src/programs/CMakeFiles/view_objlib.dir/build.make src/programs/CMakeFiles/view_objlib.dir/build make[3]: Entering directory '/<>/build/basic' cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/view_objlib.dir/view/3dview.cpp.o -c /<>/src/programs/view/3dview.cpp cd /<>/build/basic/src/gromacs/modularsimulator && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -fopenmp -Wno-redundant-move -std=c++14 -o CMakeFiles/modularsimulator.dir/constraintelement.cpp.o -c /<>/src/gromacs/modularsimulator/constraintelement.cpp cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/view_objlib.dir/view/buttons.cpp.o -c /<>/src/programs/view/buttons.cpp cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/view_objlib.dir/view/dialogs.cpp.o -c /<>/src/programs/view/dialogs.cpp make[3]: Leaving directory '/<>/build/basic' [ 6%] Built target mdrun_objlib cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/view_objlib.dir/view/fgrid.cpp.o -c /<>/src/programs/view/fgrid.cpp cd /<>/build/basic/src/gromacs && /usr/bin/cc -DGMX_DOUBLE=0 -DUSE_STD_INTTYPES_H -I/<>/build/basic/src -I/<>/src -I/<>/src/external/tng_io/include -I/<>/build/basic/tng/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -o CMakeFiles/tng_io_obj.dir/__/external/tng_io/src/lib/tng_io.c.o -c /<>/src/external/tng_io/src/lib/tng_io.c cd /<>/build/basic/src/gromacs/modularsimulator && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -fopenmp -Wno-redundant-move -std=c++14 -o CMakeFiles/modularsimulator.dir/domdechelper.cpp.o -c /<>/src/gromacs/modularsimulator/domdechelper.cpp cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/view_objlib.dir/view/filter.cpp.o -c /<>/src/programs/view/filter.cpp cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/view_objlib.dir/view/logo.cpp.o -c /<>/src/programs/view/logo.cpp cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/view_objlib.dir/view/manager.cpp.o -c /<>/src/programs/view/manager.cpp cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/view_objlib.dir/view/molps.cpp.o -c /<>/src/programs/view/molps.cpp cd /<>/build/basic/src/gromacs/modularsimulator && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -fopenmp -Wno-redundant-move -std=c++14 -o CMakeFiles/modularsimulator.dir/energyelement.cpp.o -c /<>/src/gromacs/modularsimulator/energyelement.cpp cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/view_objlib.dir/view/nleg.cpp.o -c /<>/src/programs/view/nleg.cpp cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/view_objlib.dir/view/nmol.cpp.o -c /<>/src/programs/view/nmol.cpp cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/view_objlib.dir/view/popup.cpp.o -c /<>/src/programs/view/popup.cpp cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/view_objlib.dir/view/pulldown.cpp.o -c /<>/src/programs/view/pulldown.cpp cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/view_objlib.dir/view/view.cpp.o -c /<>/src/programs/view/view.cpp cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/view_objlib.dir/view/x11.cpp.o -c /<>/src/programs/view/x11.cpp cd /<>/build/basic/src/gromacs/modularsimulator && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -fopenmp -Wno-redundant-move -std=c++14 -o CMakeFiles/modularsimulator.dir/forceelement.cpp.o -c /<>/src/gromacs/modularsimulator/forceelement.cpp cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/view_objlib.dir/view/xdlg.cpp.o -c /<>/src/programs/view/xdlg.cpp cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/view_objlib.dir/view/xdlghi.cpp.o -c /<>/src/programs/view/xdlghi.cpp cd /<>/build/basic/src/gromacs/modularsimulator && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -fopenmp -Wno-redundant-move -std=c++14 -o CMakeFiles/modularsimulator.dir/freeenergyperturbationelement.cpp.o -c /<>/src/gromacs/modularsimulator/freeenergyperturbationelement.cpp cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/view_objlib.dir/view/xdlgitem.cpp.o -c /<>/src/programs/view/xdlgitem.cpp cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/view_objlib.dir/view/xmb.cpp.o -c /<>/src/programs/view/xmb.cpp cd /<>/build/basic/src/programs && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -msse4.1 -fexcess-precision=fast -funroll-all-loops -std=c++14 -o CMakeFiles/view_objlib.dir/view/xutil.cpp.o -c /<>/src/programs/view/xutil.cpp cd /<>/build/basic/src/gromacs/modularsimulator && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -fopenmp -Wno-redundant-move -std=c++14 -o CMakeFiles/modularsimulator.dir/modularsimulator.cpp.o -c /<>/src/gromacs/modularsimulator/modularsimulator.cpp cd /<>/build/basic/src/gromacs/modularsimulator && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -fopenmp -Wno-redundant-move -std=c++14 -o CMakeFiles/modularsimulator.dir/parrinellorahmanbarostat.cpp.o -c /<>/src/gromacs/modularsimulator/parrinellorahmanbarostat.cpp make[3]: Leaving directory '/<>/build/basic' [ 8%] Built target view_objlib cd /<>/build/basic/src/gromacs && /usr/bin/cc -DGMX_DOUBLE=0 -I/<>/build/basic/src -I/<>/src -I/<>/src/external/tng_io/include -I/<>/build/basic/tng/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -msse4.1 -fexcess-precision=fast -funroll-all-loops -o CMakeFiles/tng_io_obj.dir/__/external/tng_io/src/lib/md5.c.o -c /<>/src/external/tng_io/src/lib/md5.c cd /<>/build/basic/src/gromacs/modularsimulator && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -fopenmp -Wno-redundant-move -std=c++14 -o CMakeFiles/modularsimulator.dir/pmeloadbalancehelper.cpp.o -c /<>/src/gromacs/modularsimulator/pmeloadbalancehelper.cpp In file included from /<>/src/gromacs/modularsimulator/modularsimulator.cpp:44: /<>/src/gromacs/modularsimulator/modularsimulator.h:269:31: error: ‘numeric_limits’ is not a member of ‘std’ 269 | Step lastStep_ = std::numeric_limits::max(); | ^~~~~~~~~~~~~~ /<>/src/gromacs/modularsimulator/modularsimulator.h:269:50: error: expected primary-expression before ‘>’ token 269 | Step lastStep_ = std::numeric_limits::max(); | ^ /<>/src/gromacs/modularsimulator/modularsimulator.h:269:53: error: ‘::max’ has not been declared; did you mean ‘std::max’? 269 | Step lastStep_ = std::numeric_limits::max(); | ^~~ | std::max In file included from /usr/include/c++/11/algorithm:62, from /<>/src/gromacs/math/vectypes.h:42, from /<>/src/gromacs/mdlib/vcm.h:44, from /<>/src/gromacs/mdlib/md_support.h:40, from /<>/src/gromacs/modularsimulator/modularsimulator.h:46, from /<>/src/gromacs/modularsimulator/modularsimulator.cpp:44: /usr/include/c++/11/bits/stl_algo.h:3467:5: note: ‘std::max’ declared here 3467 | max(initializer_list<_Tp> __l, _Compare __comp) | ^~~ cd /<>/build/basic/src/gromacs/modularsimulator && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -fopenmp -Wno-redundant-move -std=c++14 -o CMakeFiles/modularsimulator.dir/propagator.cpp.o -c /<>/src/gromacs/modularsimulator/propagator.cpp cd /<>/build/basic/src/gromacs/modularsimulator && /usr/bin/c++ -DGMX_DOUBLE=0 -DHAVE_CONFIG_H -I/<>/build/basic/src -I/<>/src -isystem /<>/src/external/thread_mpi/include -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC -fopenmp -Wno-redundant-move -std=c++14 -o CMakeFiles/modularsimulator.dir/shellfcelement.cpp.o -c /<>/src/gromacs/modularsimulator/shellfcelement.cpp make[3]: *** [src/gromacs/modularsimulator/CMakeFiles/modularsimulator.dir/build.make:177: src/gromacs/modularsimulator/CMakeFiles/modularsimulator.dir/modularsimulator.cpp.o] Error 1 make[3]: *** Waiting for unfinished jobs.... make[3]: Leaving directory '/<>/build/basic' [ 10%] Built target tng_io_obj make[3]: Leaving directory '/<>/build/basic' make[2]: *** [CMakeFiles/Makefile2:5501: src/gromacs/modularsimulator/CMakeFiles/modularsimulator.dir/all] Error 2 make[2]: Leaving directory '/<>/build/basic' make[1]: *** [Makefile:185: all] Error 2 make[1]: Leaving directory '/<>/build/basic' make: *** [debian/rules:126: build-basic] Error 2 dpkg-buildpackage.pl: error: debian/rules binary subprocess returned exit status 2 === USAGE-SUMMARY BEGIN === SUMMARY: host: lgw01-amd64-037; CPUs: 4/4; CPU avg: 38%; CPU max: 100%; base memory: 0.2 GB; peak memory: 0.8 GB; total memory: 7.8 GB SUMMARY: swap peak/total: 0.0/4.0 GB; disk start/end/total: 4.8/4.9/77.4 GB; disk delta: 0.1 GB === USAGE-SUMMARY END === -------------------------------------------------------------------------------- Build finished at 2022-02-17T07:26:20Z Finished -------- +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested E: Build failure (dpkg-buildpackage died) +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: binary Build-Space: n/a Build-Time: 168 Distribution: impish Fail-Stage: build Host Architecture: amd64 Install-Time: 59 Job: gromacs_2020.6-2.dsc Machine Architecture: amd64 Package: gromacs Package-Time: 230 Source-Version: 2020.6-2 Space: n/a Status: attempted Version: 2020.6-2 -------------------------------------------------------------------------------- Finished at 2022-02-17T07:26:20Z Build needed 00:03:50, no disk space E: Build failure (dpkg-buildpackage died) Adding user buildd to group lxd RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=impish --arch=amd64 PACKAGEBUILD-22481651 Scanning for processes to kill in build PACKAGEBUILD-22481651