Tue Aug 17 10:05:28 UTC 2021 I: starting to build mrbayes/bullseye/i386 on jenkins on '2021-08-17 10:05' Tue Aug 17 10:05:28 UTC 2021 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_15/18319/console.log Tue Aug 17 10:05:29 UTC 2021 I: Downloading source for bullseye/mrbayes=3.2.7a-4 --2021-08-17 10:05:29-- http://cdn-fastly.deb.debian.org/debian/pool/main/m/mrbayes/mrbayes_3.2.7a-4.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2184 (2.1K) Saving to: ‘mrbayes_3.2.7a-4.dsc’ 0K .. 100% 133M=0s 2021-08-17 10:05:29 (133 MB/s) - ‘mrbayes_3.2.7a-4.dsc’ saved [2184/2184] Tue Aug 17 10:05:30 UTC 2021 I: mrbayes_3.2.7a-4.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: mrbayes Binary: mrbayes, mrbayes-mpi, mrbayes-doc Architecture: any all Version: 3.2.7a-4 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller , Andreas Tille Homepage: http://mrbayes.csit.fsu.edu/ Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/mrbayes Vcs-Git: https://salsa.debian.org/med-team/mrbayes.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), libreadline-dev, mpi-default-dev, libhmsbeagle-dev, autoconf-archive, pkg-config Package-List: mrbayes deb science optional arch=any mrbayes-doc deb doc optional arch=all mrbayes-mpi deb science optional arch=any Checksums-Sha1: 3073ebd54fe7f4e8db88918f061b2856ee4bf0d9 9819346 mrbayes_3.2.7a.orig.tar.gz eba155b62b2c7671b86b28f4f4cbf8efac0bde88 7136 mrbayes_3.2.7a-4.debian.tar.xz Checksums-Sha256: 3eed2e3b1d9e46f265b6067a502a89732b6f430585d258b886e008e846ecc5c6 9819346 mrbayes_3.2.7a.orig.tar.gz 9135075c7e2c94bf686877c2fc25f67f5e3a1ad60993672564ee475edcd204d1 7136 mrbayes_3.2.7a-4.debian.tar.xz Files: 504236626ce9a2de1066a8520672f0cc 9819346 mrbayes_3.2.7a.orig.tar.gz 1388660d1d22ffca402e26faf59ff41b 7136 mrbayes_3.2.7a-4.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl8VTlYRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHxVhAAmdPdL/MAtM6ux7nh73myH4hDUIbigOKd n5mQ7qSIUObozD64QC1+90qD4RXhBzuAx7cABg/j1zaj7abquA733wfudL1/VBRO B3pZ5zXqE89qc/T4jZ43sUgmZpp3equz+OOrNODN3K+vYd182LDnmEAaZAogoGEp NrzVuu1bCKC6DEsJZRdu81BjBTLTly31TRekO5PAxxcEm9S0n3P6/SpTQ/xXaAxW 98gpGw4ZRU97qp51nvPSUqvNdqx0HXpcV+OGVDpRuxk+V1SeMPzngUCKdtiUlDA+ cg/e4bETjWZFiGiPdpi0RvTBg0EtU150V0+QDyTMfyUxsArfk40lOKJHozVVhwbh 0qQVrnLdSrEXxQFYmpFSB6mV/OU35utmVmNkJJCQlhcgxEtUvjqG7tbWq8aS9CzC 9k5lePt0uyXU5EyiwjapwZnUqBvGT3GZBNVZK86mU/RZugk0WgDT1PFF+kB/bu4c Ku0QoqArnIukGKRlcvgA3Hpmx0SgoxMGaD/TTLplSbQ140+kdHR2JdFDQG3MedLx l4fuePNznHS96Mm6JVDLeXEUkkzSFZuPYIhO+XQ6Kf/SX0AxC5H9t1JtWuj/MIct aTlHj8CpSzKRrCCjlrJ6Ar2NcBbO9rkOU7zASLrH++I/sCaEiXYFUENoCC2kKLrG pHE809UQvO8= =t+vi -----END PGP SIGNATURE----- Tue Aug 17 10:05:30 UTC 2021 I: Checking whether the package is not for us Tue Aug 17 10:05:30 UTC 2021 I: Starting 1st build on remote node ionos12-i386.debian.net. Tue Aug 17 10:05:30 UTC 2021 I: Preparing to do remote build '1' on ionos12-i386.debian.net. Tue Aug 17 10:16:44 UTC 2021 I: Deleting $TMPDIR on ionos12-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Mon Aug 16 22:05:38 -12 2021 I: pbuilder-time-stamp: 1629194738 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [mrbayes_3.2.7a-4.dsc] I: copying [./mrbayes_3.2.7a.orig.tar.gz] I: copying [./mrbayes_3.2.7a-4.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.p3wtKzap/trustedkeys.kbx': General error gpgv: Signature made Sun Jul 19 19:57:10 2020 -12 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./mrbayes_3.2.7a-4.dsc dpkg-source: info: extracting mrbayes in mrbayes-3.2.7a dpkg-source: info: unpacking mrbayes_3.2.7a.orig.tar.gz dpkg-source: info: unpacking mrbayes_3.2.7a-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying no_rpath.patch dpkg-source: info: applying autoreconf.patch dpkg-source: info: applying no_baseline_violation.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3337/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=8' DISTRIBUTION='' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='ef48348eb95d4f46b1e32c13d84c480f' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='3337' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.NKpAzRD2vl/pbuilderrc_SzDN --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.NKpAzRD2vl/b1 --logfile b1/build.log mrbayes_3.2.7a-4.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://78.137.99.97:3128' I: uname -a Linux ionos12-i386 4.19.0-17-686-pae #1 SMP Debian 4.19.194-3 (2021-07-18) i686 GNU/Linux I: ls -l /bin total 5776 -rwxr-xr-x 1 root root 1367848 Aug 4 08:25 bash -rwxr-xr-x 3 root root 38280 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 38280 Jul 20 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep -rwxr-xr-x 3 root root 38280 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 17768 Jul 20 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore -rwxr-xr-x 1 root root 38824 Sep 22 2020 cat -rwxr-xr-x 1 root root 71624 Sep 22 2020 chgrp -rwxr-xr-x 1 root root 67528 Sep 22 2020 chmod -rwxr-xr-x 1 root root 75752 Sep 22 2020 chown -rwxr-xr-x 1 root root 157960 Sep 22 2020 cp -rwxr-xr-x 1 root root 128724 Dec 10 2020 dash -rwxr-xr-x 1 root root 124904 Sep 22 2020 date -rwxr-xr-x 1 root root 92172 Sep 22 2020 dd -rwxr-xr-x 1 root root 100752 Sep 22 2020 df -rwxr-xr-x 1 root root 153964 Sep 22 2020 dir -rwxr-xr-x 1 root root 83644 Jul 28 07:09 dmesg lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname -rwxr-xr-x 1 root root 34664 Sep 22 2020 echo -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep -rwxr-xr-x 1 root root 34664 Sep 22 2020 false -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep -rwxr-xr-x 1 root root 71928 Jul 28 07:09 findmnt -rwsr-xr-x 1 root root 30112 Feb 26 04:12 fusermount -rwxr-xr-x 1 root root 210488 Nov 9 2020 grep -rwxr-xr-x 2 root root 2346 Mar 2 11:30 gunzip -rwxr-xr-x 1 root root 6376 Mar 2 11:30 gzexe -rwxr-xr-x 1 root root 100952 Mar 2 11:30 gzip -rwxr-xr-x 1 root root 21916 Nov 6 2019 hostname -rwxr-xr-x 1 root root 83980 Sep 22 2020 ln -rwxr-xr-x 1 root root 55572 Feb 7 2020 login -rwxr-xr-x 1 root root 153964 Sep 22 2020 ls -rwxr-xr-x 1 root root 153124 Jul 28 07:09 lsblk -rwxr-xr-x 1 root root 96328 Sep 22 2020 mkdir -rwxr-xr-x 1 root root 79912 Sep 22 2020 mknod -rwxr-xr-x 1 root root 47048 Sep 22 2020 mktemp -rwxr-xr-x 1 root root 58920 Jul 28 07:09 more -rwsr-xr-x 1 root root 50720 Jul 28 07:09 mount -rwxr-xr-x 1 root root 13856 Jul 28 07:09 mountpoint -rwxr-xr-x 1 root root 157996 Sep 22 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 18 03:38 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 38824 Sep 22 2020 pwd lrwxrwxrwx 1 root root 4 Aug 4 08:25 rbash -> bash -rwxr-xr-x 1 root root 46984 Sep 22 2020 readlink -rwxr-xr-x 1 root root 75720 Sep 22 2020 rm -rwxr-xr-x 1 root root 46984 Sep 22 2020 rmdir -rwxr-xr-x 1 root root 22292 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 125036 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Aug 15 21:27 sh -> dash -rwxr-xr-x 1 root root 34696 Sep 22 2020 sleep -rwxr-xr-x 1 root root 83880 Sep 22 2020 stty -rwsr-xr-x 1 root root 79396 Jul 28 07:09 su -rwxr-xr-x 1 root root 34696 Sep 22 2020 sync -rwxr-xr-x 1 root root 602584 Feb 16 21:55 tar -rwxr-xr-x 1 root root 13860 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 108520 Sep 22 2020 touch -rwxr-xr-x 1 root root 34664 Sep 22 2020 true -rwxr-xr-x 1 root root 17768 Feb 26 04:12 ulockmgr_server -rwsr-xr-x 1 root root 30236 Jul 28 07:09 umount -rwxr-xr-x 1 root root 34664 Sep 22 2020 uname -rwxr-xr-x 2 root root 2346 Mar 2 11:30 uncompress -rwxr-xr-x 1 root root 153964 Sep 22 2020 vdir -rwxr-xr-x 1 root root 63024 Jul 28 07:09 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 2 11:30 zcat -rwxr-xr-x 1 root root 1678 Mar 2 11:30 zcmp -rwxr-xr-x 1 root root 5880 Mar 2 11:30 zdiff -rwxr-xr-x 1 root root 29 Mar 2 11:30 zegrep -rwxr-xr-x 1 root root 29 Mar 2 11:30 zfgrep -rwxr-xr-x 1 root root 2081 Mar 2 11:30 zforce -rwxr-xr-x 1 root root 7585 Mar 2 11:30 zgrep -rwxr-xr-x 1 root root 2206 Mar 2 11:30 zless -rwxr-xr-x 1 root root 1842 Mar 2 11:30 zmore -rwxr-xr-x 1 root root 4553 Mar 2 11:30 znew I: user script /srv/workspace/pbuilder/3337/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), libreadline-dev, mpi-default-dev, libhmsbeagle-dev, autoconf-archive, pkg-config dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19675 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on libreadline-dev; however: Package libreadline-dev is not installed. pbuilder-satisfydepends-dummy depends on mpi-default-dev; however: Package mpi-default-dev is not installed. pbuilder-satisfydepends-dummy depends on libhmsbeagle-dev; however: Package libhmsbeagle-dev is not installed. pbuilder-satisfydepends-dummy depends on autoconf-archive; however: Package autoconf-archive is not installed. pbuilder-satisfydepends-dummy depends on pkg-config; however: Package pkg-config is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} autoconf-archive{a} automake{a} autopoint{a} autotools-dev{a} beignet-opencl-icd{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} gfortran-10{a} groff-base{a} ibverbs-providers{a} intltool-debian{a} libarchive-zip-perl{a} libbsd0{a} libcbor0{a} libdebhelper-perl{a} libdrm-common{a} libdrm-intel1{a} libdrm2{a} libedit2{a} libelf1{a} libevent-2.1-7{a} libevent-core-2.1-7{a} libevent-dev{a} libevent-extra-2.1-7{a} libevent-openssl-2.1-7{a} libevent-pthreads-2.1-7{a} libfabric1{a} libfido2-1{a} libfile-stripnondeterminism-perl{a} libgfortran-10-dev{a} libgfortran5{a} libglib2.0-0{a} libhmsbeagle-dev{a} libhmsbeagle1v5{a} libhwloc-dev{a} libhwloc-plugins{a} libhwloc15{a} libibverbs-dev{a} libibverbs1{a} libicu67{a} libjs-jquery{a} libjs-jquery-ui{a} libltdl-dev{a} libltdl7{a} libmagic-mgc{a} libmagic1{a} libmd0{a} libncurses-dev{a} libncurses6{a} libnl-3-200{a} libnl-3-dev{a} libnl-route-3-200{a} libnl-route-3-dev{a} libnuma-dev{a} libnuma1{a} libopenmpi-dev{a} libopenmpi3{a} libpciaccess0{a} libpipeline1{a} libpmix-dev{a} libpmix2{a} libpsm-infinipath1{a} librdmacm1{a} libreadline-dev{a} libreadline8{a} libsigsegv2{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxfixes3{a} libxml2{a} libxnvctrl0{a} m4{a} man-db{a} mpi-default-dev{a} ocl-icd-libopencl1{a} openmpi-bin{a} openmpi-common{a} openssh-client{a} pkg-config{a} po-debconf{a} readline-common{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl javascript-common libarchive-cpio-perl libcoarrays-openmpi-dev libglib2.0-data libgpm2 libmail-sendmail-perl lynx shared-mime-info wget xauth xdg-user-dirs 0 packages upgraded, 97 newly installed, 0 to remove and 0 not upgraded. Need to get 60.1 MB of archives. After unpacking 233 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main i386 bsdextrautils i386 2.36.1-8 [149 kB] Get: 2 http://deb.debian.org/debian bullseye/main i386 libuchardet0 i386 0.0.7-1 [67.9 kB] Get: 3 http://deb.debian.org/debian bullseye/main i386 groff-base i386 1.22.4-6 [952 kB] Get: 4 http://deb.debian.org/debian bullseye/main i386 libpipeline1 i386 1.5.3-1 [36.8 kB] Get: 5 http://deb.debian.org/debian bullseye/main i386 man-db i386 2.9.4-2 [1367 kB] Get: 6 http://deb.debian.org/debian bullseye/main i386 autoconf-archive all 20190106-2.1 [746 kB] Get: 7 http://deb.debian.org/debian bullseye/main i386 readline-common all 8.1-1 [73.7 kB] Get: 8 http://deb.debian.org/debian bullseye/main i386 libreadline8 i386 8.1-1 [173 kB] Get: 9 http://deb.debian.org/debian bullseye/main i386 sensible-utils all 0.0.14 [14.8 kB] Get: 10 http://deb.debian.org/debian bullseye/main i386 libmagic-mgc i386 1:5.39-3 [273 kB] Get: 11 http://deb.debian.org/debian bullseye/main i386 libmagic1 i386 1:5.39-3 [133 kB] Get: 12 http://deb.debian.org/debian bullseye/main i386 file i386 1:5.39-3 [69.0 kB] Get: 13 http://deb.debian.org/debian bullseye/main i386 gettext-base i386 0.21-4 [176 kB] Get: 14 http://deb.debian.org/debian bullseye/main i386 libmd0 i386 1.0.3-3 [28.9 kB] Get: 15 http://deb.debian.org/debian bullseye/main i386 libbsd0 i386 0.11.3-1 [111 kB] Get: 16 http://deb.debian.org/debian bullseye/main i386 libedit2 i386 3.1-20191231-2+b1 [101 kB] Get: 17 http://deb.debian.org/debian bullseye/main i386 libcbor0 i386 0.5.0+dfsg-2 [26.2 kB] Get: 18 http://deb.debian.org/debian bullseye/main i386 libfido2-1 i386 1.6.0-2 [59.9 kB] Get: 19 http://deb.debian.org/debian bullseye/main i386 openssh-client i386 1:8.4p1-5 [991 kB] Get: 20 http://deb.debian.org/debian bullseye/main i386 libsigsegv2 i386 2.13-1 [35.1 kB] Get: 21 http://deb.debian.org/debian bullseye/main i386 m4 i386 1.4.18-5 [206 kB] Get: 22 http://deb.debian.org/debian bullseye/main i386 autoconf all 2.69-14 [313 kB] Get: 23 http://deb.debian.org/debian bullseye/main i386 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 24 http://deb.debian.org/debian bullseye/main i386 automake all 1:1.16.3-2 [814 kB] Get: 25 http://deb.debian.org/debian bullseye/main i386 autopoint all 0.21-4 [510 kB] Get: 26 http://deb.debian.org/debian bullseye/main i386 libdrm-common all 2.4.104-1 [14.9 kB] Get: 27 http://deb.debian.org/debian bullseye/main i386 libdrm2 i386 2.4.104-1 [44.3 kB] Get: 28 http://deb.debian.org/debian bullseye/main i386 libpciaccess0 i386 0.16-1 [55.7 kB] Get: 29 http://deb.debian.org/debian bullseye/main i386 libdrm-intel1 i386 2.4.104-1 [74.5 kB] Get: 30 http://deb.debian.org/debian bullseye/main i386 libxau6 i386 1:1.0.9-1 [20.0 kB] Get: 31 http://deb.debian.org/debian bullseye/main i386 libxdmcp6 i386 1:1.1.2-3 [26.7 kB] Get: 32 http://deb.debian.org/debian bullseye/main i386 libxcb1 i386 1.14-3 [144 kB] Get: 33 http://deb.debian.org/debian bullseye/main i386 libx11-data all 2:1.7.2-1 [311 kB] Get: 34 http://deb.debian.org/debian bullseye/main i386 libx11-6 i386 2:1.7.2-1 [794 kB] Get: 35 http://deb.debian.org/debian bullseye/main i386 libxext6 i386 2:1.3.3-1.1 [55.2 kB] Get: 36 http://deb.debian.org/debian bullseye/main i386 libxfixes3 i386 1:5.0.3-2 [22.6 kB] Get: 37 http://deb.debian.org/debian bullseye/main i386 beignet-opencl-icd i386 1.3.2-8 [14.2 MB] Get: 38 http://deb.debian.org/debian bullseye/main i386 libdebhelper-perl all 13.3.4 [189 kB] Get: 39 http://deb.debian.org/debian bullseye/main i386 libtool all 2.4.6-15 [513 kB] Get: 40 http://deb.debian.org/debian bullseye/main i386 dh-autoreconf all 20 [17.1 kB] Get: 41 http://deb.debian.org/debian bullseye/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 42 http://deb.debian.org/debian bullseye/main i386 libsub-override-perl all 0.09-2 [10.2 kB] Get: 43 http://deb.debian.org/debian bullseye/main i386 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 44 http://deb.debian.org/debian bullseye/main i386 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 45 http://deb.debian.org/debian bullseye/main i386 libelf1 i386 0.183-1 [171 kB] Get: 46 http://deb.debian.org/debian bullseye/main i386 dwz i386 0.13+20210201-1 [179 kB] Get: 47 http://deb.debian.org/debian bullseye/main i386 libicu67 i386 67.1-7 [8775 kB] Get: 48 http://deb.debian.org/debian bullseye/main i386 libxml2 i386 2.9.10+dfsg-6.7 [728 kB] Get: 49 http://deb.debian.org/debian bullseye/main i386 gettext i386 0.21-4 [1322 kB] Get: 50 http://deb.debian.org/debian bullseye/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 51 http://deb.debian.org/debian bullseye/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 52 http://deb.debian.org/debian bullseye/main i386 debhelper all 13.3.4 [1049 kB] Get: 53 http://deb.debian.org/debian bullseye/main i386 libgfortran5 i386 10.2.1-6 [643 kB] Get: 54 http://deb.debian.org/debian bullseye/main i386 libgfortran-10-dev i386 10.2.1-6 [705 kB] Get: 55 http://deb.debian.org/debian bullseye/main i386 gfortran-10 i386 10.2.1-6 [9642 kB] Get: 56 http://deb.debian.org/debian bullseye/main i386 libnl-3-200 i386 3.4.0-1+b1 [66.4 kB] Get: 57 http://deb.debian.org/debian bullseye/main i386 libnl-route-3-200 i386 3.4.0-1+b1 [168 kB] Get: 58 http://deb.debian.org/debian bullseye/main i386 libibverbs1 i386 33.2-1 [64.6 kB] Get: 59 http://deb.debian.org/debian bullseye/main i386 ibverbs-providers i386 33.2-1 [275 kB] Get: 60 http://deb.debian.org/debian bullseye/main i386 libevent-2.1-7 i386 2.1.12-stable-1 [203 kB] Get: 61 http://deb.debian.org/debian bullseye/main i386 libevent-core-2.1-7 i386 2.1.12-stable-1 [148 kB] Get: 62 http://deb.debian.org/debian bullseye/main i386 libevent-extra-2.1-7 i386 2.1.12-stable-1 [116 kB] Get: 63 http://deb.debian.org/debian bullseye/main i386 libevent-pthreads-2.1-7 i386 2.1.12-stable-1 [57.3 kB] Get: 64 http://deb.debian.org/debian bullseye/main i386 libevent-openssl-2.1-7 i386 2.1.12-stable-1 [64.9 kB] Get: 65 http://deb.debian.org/debian bullseye/main i386 libevent-dev i386 2.1.12-stable-1 [332 kB] Get: 66 http://deb.debian.org/debian bullseye/main i386 libpsm-infinipath1 i386 3.3+20.604758e7-6.1 [178 kB] Get: 67 http://deb.debian.org/debian bullseye/main i386 librdmacm1 i386 33.2-1 [75.2 kB] Get: 68 http://deb.debian.org/debian bullseye/main i386 libfabric1 i386 1.11.0-2 [518 kB] Get: 69 http://deb.debian.org/debian bullseye/main i386 libglib2.0-0 i386 2.66.8-1 [1437 kB] Get: 70 http://deb.debian.org/debian bullseye/main i386 ocl-icd-libopencl1 i386 2.2.14-2 [45.0 kB] Get: 71 http://deb.debian.org/debian bullseye/main i386 libhmsbeagle1v5 i386 3.1.2+dfsg-10 [166 kB] Get: 72 http://deb.debian.org/debian bullseye/main i386 libhmsbeagle-dev i386 3.1.2+dfsg-10 [292 kB] Get: 73 http://deb.debian.org/debian bullseye/main i386 libhwloc15 i386 2.4.1+dfsg-1 [164 kB] Get: 74 http://deb.debian.org/debian bullseye/main i386 libnuma1 i386 2.0.12-1+b1 [27.9 kB] Get: 75 http://deb.debian.org/debian bullseye/main i386 libnuma-dev i386 2.0.12-1+b1 [41.2 kB] Get: 76 http://deb.debian.org/debian bullseye/main i386 libltdl7 i386 2.4.6-15 [392 kB] Get: 77 http://deb.debian.org/debian bullseye/main i386 libltdl-dev i386 2.4.6-15 [164 kB] Get: 78 http://deb.debian.org/debian bullseye/main i386 libhwloc-dev i386 2.4.1+dfsg-1 [250 kB] Get: 79 http://deb.debian.org/debian bullseye/main i386 libxnvctrl0 i386 460.91.03-1 [26.8 kB] Get: 80 http://deb.debian.org/debian bullseye/main i386 libhwloc-plugins i386 2.4.1+dfsg-1 [22.0 kB] Get: 81 http://deb.debian.org/debian bullseye/main i386 libnl-3-dev i386 3.4.0-1+b1 [107 kB] Get: 82 http://deb.debian.org/debian bullseye/main i386 libnl-route-3-dev i386 3.4.0-1+b1 [192 kB] Get: 83 http://deb.debian.org/debian bullseye/main i386 libibverbs-dev i386 33.2-1 [521 kB] Get: 84 http://deb.debian.org/debian bullseye/main i386 libjs-jquery all 3.5.1+dfsg+~3.5.5-7 [315 kB] Get: 85 http://deb.debian.org/debian bullseye/main i386 libjs-jquery-ui all 1.12.1+dfsg-8 [232 kB] Get: 86 http://deb.debian.org/debian bullseye/main i386 libncurses6 i386 6.2+20201114-2 [110 kB] Get: 87 http://deb.debian.org/debian bullseye/main i386 libncurses-dev i386 6.2+20201114-2 [373 kB] Get: 88 http://deb.debian.org/debian bullseye/main i386 libpmix2 i386 4.0.0-4.1 [583 kB] Get: 89 http://deb.debian.org/debian bullseye/main i386 libopenmpi3 i386 4.1.0-10 [2144 kB] Get: 90 http://deb.debian.org/debian bullseye/main i386 openmpi-common all 4.1.0-10 [179 kB] Get: 91 http://deb.debian.org/debian bullseye/main i386 zlib1g-dev i386 1:1.2.11.dfsg-2 [194 kB] Get: 92 http://deb.debian.org/debian bullseye/main i386 libpmix-dev i386 4.0.0-4.1 [718 kB] Get: 93 http://deb.debian.org/debian bullseye/main i386 openmpi-bin i386 4.1.0-10 [209 kB] Get: 94 http://deb.debian.org/debian bullseye/main i386 libopenmpi-dev i386 4.1.0-10 [1142 kB] Get: 95 http://deb.debian.org/debian bullseye/main i386 libreadline-dev i386 8.1-1 [161 kB] Get: 96 http://deb.debian.org/debian bullseye/main i386 mpi-default-dev i386 1.13 [5476 B] Get: 97 http://deb.debian.org/debian bullseye/main i386 pkg-config i386 0.29.2-1 [66.3 kB] Fetched 60.1 MB in 7s (8495 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19675 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-8_i386.deb ... Unpacking bsdextrautils (2.36.1-8) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../01-libuchardet0_0.0.7-1_i386.deb ... Unpacking libuchardet0:i386 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_i386.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../03-libpipeline1_1.5.3-1_i386.deb ... Unpacking libpipeline1:i386 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.4-2_i386.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package autoconf-archive. Preparing to unpack .../05-autoconf-archive_20190106-2.1_all.deb ... Unpacking autoconf-archive (20190106-2.1) ... Selecting previously unselected package readline-common. Preparing to unpack .../06-readline-common_8.1-1_all.deb ... Unpacking readline-common (8.1-1) ... Selecting previously unselected package libreadline8:i386. Preparing to unpack .../07-libreadline8_8.1-1_i386.deb ... Unpacking libreadline8:i386 (8.1-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../08-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../09-libmagic-mgc_1%3a5.39-3_i386.deb ... Unpacking libmagic-mgc (1:5.39-3) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../10-libmagic1_1%3a5.39-3_i386.deb ... Unpacking libmagic1:i386 (1:5.39-3) ... Selecting previously unselected package file. Preparing to unpack .../11-file_1%3a5.39-3_i386.deb ... Unpacking file (1:5.39-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../12-gettext-base_0.21-4_i386.deb ... Unpacking gettext-base (0.21-4) ... Selecting previously unselected package libmd0:i386. Preparing to unpack .../13-libmd0_1.0.3-3_i386.deb ... Unpacking libmd0:i386 (1.0.3-3) ... Selecting previously unselected package libbsd0:i386. Preparing to unpack .../14-libbsd0_0.11.3-1_i386.deb ... Unpacking libbsd0:i386 (0.11.3-1) ... Selecting previously unselected package libedit2:i386. Preparing to unpack .../15-libedit2_3.1-20191231-2+b1_i386.deb ... Unpacking libedit2:i386 (3.1-20191231-2+b1) ... Selecting previously unselected package libcbor0:i386. Preparing to unpack .../16-libcbor0_0.5.0+dfsg-2_i386.deb ... Unpacking libcbor0:i386 (0.5.0+dfsg-2) ... Selecting previously unselected package libfido2-1:i386. Preparing to unpack .../17-libfido2-1_1.6.0-2_i386.deb ... Unpacking libfido2-1:i386 (1.6.0-2) ... Selecting previously unselected package openssh-client. Preparing to unpack .../18-openssh-client_1%3a8.4p1-5_i386.deb ... Unpacking openssh-client (1:8.4p1-5) ... Selecting previously unselected package libsigsegv2:i386. Preparing to unpack .../19-libsigsegv2_2.13-1_i386.deb ... Unpacking libsigsegv2:i386 (2.13-1) ... Selecting previously unselected package m4. Preparing to unpack .../20-m4_1.4.18-5_i386.deb ... Unpacking m4 (1.4.18-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../21-autoconf_2.69-14_all.deb ... Unpacking autoconf (2.69-14) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../22-autotools-dev_20180224.1+nmu1_all.deb ... Unpacking autotools-dev (20180224.1+nmu1) ... Selecting previously unselected package automake. Preparing to unpack .../23-automake_1%3a1.16.3-2_all.deb ... Unpacking automake (1:1.16.3-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../24-autopoint_0.21-4_all.deb ... Unpacking autopoint (0.21-4) ... Selecting previously unselected package libdrm-common. Preparing to unpack .../25-libdrm-common_2.4.104-1_all.deb ... Unpacking libdrm-common (2.4.104-1) ... Selecting previously unselected package libdrm2:i386. Preparing to unpack .../26-libdrm2_2.4.104-1_i386.deb ... Unpacking libdrm2:i386 (2.4.104-1) ... Selecting previously unselected package libpciaccess0:i386. Preparing to unpack .../27-libpciaccess0_0.16-1_i386.deb ... Unpacking libpciaccess0:i386 (0.16-1) ... Selecting previously unselected package libdrm-intel1:i386. Preparing to unpack .../28-libdrm-intel1_2.4.104-1_i386.deb ... Unpacking libdrm-intel1:i386 (2.4.104-1) ... Selecting previously unselected package libxau6:i386. Preparing to unpack .../29-libxau6_1%3a1.0.9-1_i386.deb ... Unpacking libxau6:i386 (1:1.0.9-1) ... Selecting previously unselected package libxdmcp6:i386. Preparing to unpack .../30-libxdmcp6_1%3a1.1.2-3_i386.deb ... Unpacking libxdmcp6:i386 (1:1.1.2-3) ... Selecting previously unselected package libxcb1:i386. Preparing to unpack .../31-libxcb1_1.14-3_i386.deb ... Unpacking libxcb1:i386 (1.14-3) ... Selecting previously unselected package libx11-data. Preparing to unpack .../32-libx11-data_2%3a1.7.2-1_all.deb ... Unpacking libx11-data (2:1.7.2-1) ... Selecting previously unselected package libx11-6:i386. Preparing to unpack .../33-libx11-6_2%3a1.7.2-1_i386.deb ... Unpacking libx11-6:i386 (2:1.7.2-1) ... Selecting previously unselected package libxext6:i386. Preparing to unpack .../34-libxext6_2%3a1.3.3-1.1_i386.deb ... Unpacking libxext6:i386 (2:1.3.3-1.1) ... Selecting previously unselected package libxfixes3:i386. Preparing to unpack .../35-libxfixes3_1%3a5.0.3-2_i386.deb ... Unpacking libxfixes3:i386 (1:5.0.3-2) ... Selecting previously unselected package beignet-opencl-icd:i386. Preparing to unpack .../36-beignet-opencl-icd_1.3.2-8_i386.deb ... Unpacking beignet-opencl-icd:i386 (1.3.2-8) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../37-libdebhelper-perl_13.3.4_all.deb ... Unpacking libdebhelper-perl (13.3.4) ... Selecting previously unselected package libtool. Preparing to unpack .../38-libtool_2.4.6-15_all.deb ... Unpacking libtool (2.4.6-15) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../39-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../40-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../41-libsub-override-perl_0.09-2_all.deb ... Unpacking libsub-override-perl (0.09-2) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../42-libfile-stripnondeterminism-perl_1.12.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.12.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../43-dh-strip-nondeterminism_1.12.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.12.0-1) ... Selecting previously unselected package libelf1:i386. Preparing to unpack .../44-libelf1_0.183-1_i386.deb ... Unpacking libelf1:i386 (0.183-1) ... Selecting previously unselected package dwz. Preparing to unpack .../45-dwz_0.13+20210201-1_i386.deb ... Unpacking dwz (0.13+20210201-1) ... Selecting previously unselected package libicu67:i386. Preparing to unpack .../46-libicu67_67.1-7_i386.deb ... Unpacking libicu67:i386 (67.1-7) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../47-libxml2_2.9.10+dfsg-6.7_i386.deb ... Unpacking libxml2:i386 (2.9.10+dfsg-6.7) ... Selecting previously unselected package gettext. Preparing to unpack .../48-gettext_0.21-4_i386.deb ... Unpacking gettext (0.21-4) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../49-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../50-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../51-debhelper_13.3.4_all.deb ... Unpacking debhelper (13.3.4) ... Selecting previously unselected package libgfortran5:i386. Preparing to unpack .../52-libgfortran5_10.2.1-6_i386.deb ... Unpacking libgfortran5:i386 (10.2.1-6) ... Selecting previously unselected package libgfortran-10-dev:i386. Preparing to unpack .../53-libgfortran-10-dev_10.2.1-6_i386.deb ... Unpacking libgfortran-10-dev:i386 (10.2.1-6) ... Selecting previously unselected package gfortran-10. Preparing to unpack .../54-gfortran-10_10.2.1-6_i386.deb ... Unpacking gfortran-10 (10.2.1-6) ... Selecting previously unselected package libnl-3-200:i386. Preparing to unpack .../55-libnl-3-200_3.4.0-1+b1_i386.deb ... Unpacking libnl-3-200:i386 (3.4.0-1+b1) ... Selecting previously unselected package libnl-route-3-200:i386. Preparing to unpack .../56-libnl-route-3-200_3.4.0-1+b1_i386.deb ... Unpacking libnl-route-3-200:i386 (3.4.0-1+b1) ... Selecting previously unselected package libibverbs1:i386. Preparing to unpack .../57-libibverbs1_33.2-1_i386.deb ... Unpacking libibverbs1:i386 (33.2-1) ... Selecting previously unselected package ibverbs-providers:i386. Preparing to unpack .../58-ibverbs-providers_33.2-1_i386.deb ... Unpacking ibverbs-providers:i386 (33.2-1) ... Selecting previously unselected package libevent-2.1-7:i386. Preparing to unpack .../59-libevent-2.1-7_2.1.12-stable-1_i386.deb ... Unpacking libevent-2.1-7:i386 (2.1.12-stable-1) ... Selecting previously unselected package libevent-core-2.1-7:i386. Preparing to unpack .../60-libevent-core-2.1-7_2.1.12-stable-1_i386.deb ... Unpacking libevent-core-2.1-7:i386 (2.1.12-stable-1) ... Selecting previously unselected package libevent-extra-2.1-7:i386. Preparing to unpack .../61-libevent-extra-2.1-7_2.1.12-stable-1_i386.deb ... Unpacking libevent-extra-2.1-7:i386 (2.1.12-stable-1) ... Selecting previously unselected package libevent-pthreads-2.1-7:i386. Preparing to unpack .../62-libevent-pthreads-2.1-7_2.1.12-stable-1_i386.deb ... Unpacking libevent-pthreads-2.1-7:i386 (2.1.12-stable-1) ... Selecting previously unselected package libevent-openssl-2.1-7:i386. Preparing to unpack .../63-libevent-openssl-2.1-7_2.1.12-stable-1_i386.deb ... Unpacking libevent-openssl-2.1-7:i386 (2.1.12-stable-1) ... Selecting previously unselected package libevent-dev. Preparing to unpack .../64-libevent-dev_2.1.12-stable-1_i386.deb ... Unpacking libevent-dev (2.1.12-stable-1) ... Selecting previously unselected package libpsm-infinipath1. Preparing to unpack .../65-libpsm-infinipath1_3.3+20.604758e7-6.1_i386.deb ... Unpacking libpsm-infinipath1 (3.3+20.604758e7-6.1) ... Selecting previously unselected package librdmacm1:i386. Preparing to unpack .../66-librdmacm1_33.2-1_i386.deb ... Unpacking librdmacm1:i386 (33.2-1) ... Selecting previously unselected package libfabric1. Preparing to unpack .../67-libfabric1_1.11.0-2_i386.deb ... Unpacking libfabric1 (1.11.0-2) ... Selecting previously unselected package libglib2.0-0:i386. Preparing to unpack .../68-libglib2.0-0_2.66.8-1_i386.deb ... Unpacking libglib2.0-0:i386 (2.66.8-1) ... Selecting previously unselected package ocl-icd-libopencl1:i386. Preparing to unpack .../69-ocl-icd-libopencl1_2.2.14-2_i386.deb ... Unpacking ocl-icd-libopencl1:i386 (2.2.14-2) ... Selecting previously unselected package libhmsbeagle1v5. Preparing to unpack .../70-libhmsbeagle1v5_3.1.2+dfsg-10_i386.deb ... Unpacking libhmsbeagle1v5 (3.1.2+dfsg-10) ... Selecting previously unselected package libhmsbeagle-dev. Preparing to unpack .../71-libhmsbeagle-dev_3.1.2+dfsg-10_i386.deb ... Unpacking libhmsbeagle-dev (3.1.2+dfsg-10) ... Selecting previously unselected package libhwloc15:i386. Preparing to unpack .../72-libhwloc15_2.4.1+dfsg-1_i386.deb ... Unpacking libhwloc15:i386 (2.4.1+dfsg-1) ... Selecting previously unselected package libnuma1:i386. Preparing to unpack .../73-libnuma1_2.0.12-1+b1_i386.deb ... Unpacking libnuma1:i386 (2.0.12-1+b1) ... Selecting previously unselected package libnuma-dev:i386. Preparing to unpack .../74-libnuma-dev_2.0.12-1+b1_i386.deb ... Unpacking libnuma-dev:i386 (2.0.12-1+b1) ... Selecting previously unselected package libltdl7:i386. Preparing to unpack .../75-libltdl7_2.4.6-15_i386.deb ... Unpacking libltdl7:i386 (2.4.6-15) ... Selecting previously unselected package libltdl-dev:i386. Preparing to unpack .../76-libltdl-dev_2.4.6-15_i386.deb ... Unpacking libltdl-dev:i386 (2.4.6-15) ... Selecting previously unselected package libhwloc-dev:i386. Preparing to unpack .../77-libhwloc-dev_2.4.1+dfsg-1_i386.deb ... Unpacking libhwloc-dev:i386 (2.4.1+dfsg-1) ... Selecting previously unselected package libxnvctrl0:i386. Preparing to unpack .../78-libxnvctrl0_460.91.03-1_i386.deb ... Unpacking libxnvctrl0:i386 (460.91.03-1) ... Selecting previously unselected package libhwloc-plugins:i386. Preparing to unpack .../79-libhwloc-plugins_2.4.1+dfsg-1_i386.deb ... Unpacking libhwloc-plugins:i386 (2.4.1+dfsg-1) ... Selecting previously unselected package libnl-3-dev:i386. Preparing to unpack .../80-libnl-3-dev_3.4.0-1+b1_i386.deb ... Unpacking libnl-3-dev:i386 (3.4.0-1+b1) ... Selecting previously unselected package libnl-route-3-dev:i386. Preparing to unpack .../81-libnl-route-3-dev_3.4.0-1+b1_i386.deb ... Unpacking libnl-route-3-dev:i386 (3.4.0-1+b1) ... Selecting previously unselected package libibverbs-dev:i386. Preparing to unpack .../82-libibverbs-dev_33.2-1_i386.deb ... Unpacking libibverbs-dev:i386 (33.2-1) ... Selecting previously unselected package libjs-jquery. Preparing to unpack .../83-libjs-jquery_3.5.1+dfsg+~3.5.5-7_all.deb ... Unpacking libjs-jquery (3.5.1+dfsg+~3.5.5-7) ... Selecting previously unselected package libjs-jquery-ui. Preparing to unpack .../84-libjs-jquery-ui_1.12.1+dfsg-8_all.deb ... Unpacking libjs-jquery-ui (1.12.1+dfsg-8) ... Selecting previously unselected package libncurses6:i386. Preparing to unpack .../85-libncurses6_6.2+20201114-2_i386.deb ... Unpacking libncurses6:i386 (6.2+20201114-2) ... Selecting previously unselected package libncurses-dev:i386. Preparing to unpack .../86-libncurses-dev_6.2+20201114-2_i386.deb ... Unpacking libncurses-dev:i386 (6.2+20201114-2) ... Selecting previously unselected package libpmix2:i386. Preparing to unpack .../87-libpmix2_4.0.0-4.1_i386.deb ... Unpacking libpmix2:i386 (4.0.0-4.1) ... Selecting previously unselected package libopenmpi3:i386. Preparing to unpack .../88-libopenmpi3_4.1.0-10_i386.deb ... Unpacking libopenmpi3:i386 (4.1.0-10) ... Selecting previously unselected package openmpi-common. Preparing to unpack .../89-openmpi-common_4.1.0-10_all.deb ... Unpacking openmpi-common (4.1.0-10) ... Selecting previously unselected package zlib1g-dev:i386. Preparing to unpack .../90-zlib1g-dev_1%3a1.2.11.dfsg-2_i386.deb ... Unpacking zlib1g-dev:i386 (1:1.2.11.dfsg-2) ... Selecting previously unselected package libpmix-dev:i386. Preparing to unpack .../91-libpmix-dev_4.0.0-4.1_i386.deb ... Unpacking libpmix-dev:i386 (4.0.0-4.1) ... Selecting previously unselected package openmpi-bin. Preparing to unpack .../92-openmpi-bin_4.1.0-10_i386.deb ... Unpacking openmpi-bin (4.1.0-10) ... Selecting previously unselected package libopenmpi-dev:i386. Preparing to unpack .../93-libopenmpi-dev_4.1.0-10_i386.deb ... Unpacking libopenmpi-dev:i386 (4.1.0-10) ... Selecting previously unselected package libreadline-dev:i386. Preparing to unpack .../94-libreadline-dev_8.1-1_i386.deb ... Unpacking libreadline-dev:i386 (8.1-1) ... Selecting previously unselected package mpi-default-dev. Preparing to unpack .../95-mpi-default-dev_1.13_i386.deb ... Unpacking mpi-default-dev (1.13) ... Selecting previously unselected package pkg-config. Preparing to unpack .../96-pkg-config_0.29.2-1_i386.deb ... Unpacking pkg-config (0.29.2-1) ... Setting up libpipeline1:i386 (1.5.3-1) ... Setting up libpciaccess0:i386 (0.16-1) ... Setting up libxau6:i386 (1:1.0.9-1) ... Setting up bsdextrautils (2.36.1-8) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:i386 (67.1-7) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:i386 (2.66.8-1) ... No schema files found: doing nothing. Setting up libdebhelper-perl (13.3.4) ... Setting up libcbor0:i386 (0.5.0+dfsg-2) ... Setting up libmagic1:i386 (1:5.39-3) ... Setting up gettext-base (0.21-4) ... Setting up autoconf-archive (20190106-2.1) ... Setting up file (1:5.39-3) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libx11-data (2:1.7.2-1) ... Setting up libncurses6:i386 (6.2+20201114-2) ... Setting up libsigsegv2:i386 (2.13-1) ... Setting up libhwloc15:i386 (2.4.1+dfsg-1) ... Setting up libevent-core-2.1-7:i386 (2.1.12-stable-1) ... Setting up libevent-2.1-7:i386 (2.1.12-stable-1) ... Setting up autopoint (0.21-4) ... Setting up pkg-config (0.29.2-1) ... Setting up libltdl7:i386 (2.4.6-15) ... Setting up libgfortran5:i386 (10.2.1-6) ... Setting up zlib1g-dev:i386 (1:1.2.11.dfsg-2) ... Setting up libnuma1:i386 (2.0.12-1+b1) ... Setting up libmd0:i386 (1.0.3-3) ... Setting up sensible-utils (0.0.14) ... Setting up ocl-icd-libopencl1:i386 (2.2.14-2) ... Setting up libuchardet0:i386 (0.0.7-1) ... Setting up libnl-3-200:i386 (3.4.0-1+b1) ... Setting up openmpi-common (4.1.0-10) ... Setting up libsub-override-perl (0.09-2) ... Setting up libgfortran-10-dev:i386 (10.2.1-6) ... 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/i386-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 libfido2-1:i386 (1.6.0-2) ... Setting up libbsd0:i386 (0.11.3-1) ... Setting up libdrm-common (2.4.104-1) ... Setting up libelf1:i386 (0.183-1) ... Setting up readline-common (8.1-1) ... Setting up libxml2:i386 (2.9.10+dfsg-6.7) ... Setting up libevent-pthreads-2.1-7:i386 (2.1.12-stable-1) ... Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up libxdmcp6:i386 (1:1.1.2-3) ... Setting up libevent-extra-2.1-7:i386 (2.1.12-stable-1) ... Setting up libncurses-dev:i386 (6.2+20201114-2) ... Setting up libxcb1:i386 (1.14-3) ... Setting up gettext (0.21-4) ... Setting up libtool (2.4.6-15) ... Setting up libedit2:i386 (3.1-20191231-2+b1) ... Setting up libreadline8:i386 (8.1-1) ... Setting up libevent-openssl-2.1-7:i386 (2.1.12-stable-1) ... Setting up m4 (1.4.18-5) ... Setting up libreadline-dev:i386 (8.1-1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libnuma-dev:i386 (2.0.12-1+b1) ... Setting up libnl-route-3-200:i386 (3.4.0-1+b1) ... Setting up libjs-jquery-ui (1.12.1+dfsg-8) ... Setting up libevent-dev (2.1.12-stable-1) ... Setting up gfortran-10 (10.2.1-6) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... Setting up libdrm2:i386 (2.4.104-1) ... Setting up dwz (0.13+20210201-1) ... Setting up libnl-3-dev:i386 (3.4.0-1+b1) ... Setting up groff-base (1.22.4-6) ... Setting up libx11-6:i386 (2:1.7.2-1) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libibverbs1:i386 (33.2-1) ... Setting up ibverbs-providers:i386 (33.2-1) ... Setting up openssh-client (1:8.4p1-5) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libdrm-intel1:i386 (2.4.104-1) ... Setting up libxext6:i386 (2:1.3.3-1.1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libxnvctrl0:i386 (460.91.03-1) ... Setting up dh-autoreconf (20) ... Setting up libnl-route-3-dev:i386 (3.4.0-1+b1) ... Setting up libltdl-dev:i386 (2.4.6-15) ... Setting up libxfixes3:i386 (1:5.0.3-2) ... Setting up libhwloc-dev:i386 (2.4.1+dfsg-1) ... Setting up librdmacm1:i386 (33.2-1) ... Setting up debhelper (13.3.4) ... Setting up libibverbs-dev:i386 (33.2-1) ... Setting up libhwloc-plugins:i386 (2.4.1+dfsg-1) ... Setting up beignet-opencl-icd:i386 (1.3.2-8) ... Setting up libfabric1 (1.11.0-2) ... Setting up libpmix2:i386 (4.0.0-4.1) ... Setting up libopenmpi3:i386 (4.1.0-10) ... Setting up libhmsbeagle1v5 (3.1.2+dfsg-10) ... Setting up libpmix-dev:i386 (4.0.0-4.1) ... Setting up openmpi-bin (4.1.0-10) ... 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 libhmsbeagle-dev (3.1.2+dfsg-10) ... Setting up libopenmpi-dev:i386 (4.1.0-10) ... update-alternatives: using /usr/lib/i386-linux-gnu/openmpi/include to provide /usr/include/i386-linux-gnu/mpi (mpi-i386-linux-gnu) in auto mode Setting up mpi-default-dev (1.13) ... Processing triggers for libc-bin (2.31-13) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/mrbayes-3.2.7a/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package mrbayes dpkg-buildpackage: info: source version 3.2.7a-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/mrbayes-3.2.7a' dh_auto_configure -- --with-beagle=/usr --enable-mpi=yes --enable-debug=yes ./configure --build=i686-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/i386-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --with-beagle=/usr --enable-mpi=yes --enable-debug=yes checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking whether to enable maintainer-specific portions of Makefiles... no checking build system type... i686-pc-linux-gnu checking host system type... i686-pc-linux-gnu checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for pdflatex... no checking for bibtex... no configure: WARNING: pdflatex or bibtex is missing, documentation will not be rebuilt checking whether make supports the include directive... yes (GNU style) checking whether to compile using MPI... no checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking for sqrt in -lm... yes checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes configure: Trying to locate Beagle (hmsbeagle-1) in '/usr' checking libhmsbeagle/beagle.h usability... yes checking libhmsbeagle/beagle.h presence... yes checking for libhmsbeagle/beagle.h... yes checking for beagleCreateInstance in -lhmsbeagle... yes configure: Found Beagle in '/usr' checking for beagleSetCPUThreadCount in -lhmsbeagle... yes configure: Using BEAGLE_CFLAGS="-I/usr/include/libhmsbeagle-1 -pthread" configure: Using BEAGLE_LIBS="-L/usr/lib -lhmsbeagle" checking for a readline compatible library... -lreadline checking readline.h usability... no checking readline.h presence... no checking for readline.h... no checking readline/readline.h usability... yes checking readline/readline.h presence... yes checking for readline/readline.h... yes checking whether readline supports history... yes checking history.h usability... no checking history.h presence... no checking for history.h... no checking readline/history.h usability... yes checking readline/history.h presence... yes checking for readline/history.h... yes checking float.h usability... yes checking float.h presence... yes checking for float.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking for memory.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for size_t... yes checking for stdbool.h that conforms to C99... yes checking for _Bool... yes checking for C compiler vendor... gnu checking for a sed that does not truncate output... /bin/sed checking for C compiler version... 10.2.1 checking CFLAGS for maximum warnings... -Wall checking for floor... yes checking for memset... yes checking for pow... yes checking for sqrt... yes checking for strchr... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating doc/Makefile config.status: creating doc/manual/Makefile config.status: creating doc/tutorial/Makefile config.status: creating examples/Makefile config.status: creating src/Makefile config.status: creating src/config.h config.status: executing depfiles commands make[1]: Leaving directory '/build/mrbayes-3.2.7a' debian/rules override_dh_auto_build make[1]: Entering directory '/build/mrbayes-3.2.7a' # build mb-mpi (from initial config) LIBS="-Wl,--as-needed" dh_auto_build make -j8 make[2]: Entering directory '/build/mrbayes-3.2.7a' Making all in src make[3]: Entering directory '/build/mrbayes-3.2.7a/src' make all-am make[4]: Entering directory '/build/mrbayes-3.2.7a/src' gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-bayes.o `test -f 'bayes.c' || echo './'`bayes.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-best.o `test -f 'best.c' || echo './'`best.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-command.o `test -f 'command.c' || echo './'`command.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-likelihood.o `test -f 'likelihood.c' || echo './'`likelihood.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-mbbeagle.o `test -f 'mbbeagle.c' || echo './'`mbbeagle.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-mcmc.o `test -f 'mcmc.c' || echo './'`mcmc.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-model.o `test -f 'model.c' || echo './'`model.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-proposal.o `test -f 'proposal.c' || echo './'`proposal.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-sumpt.o `test -f 'sumpt.c' || echo './'`sumpt.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-utils.o `test -f 'utils.c' || echo './'`utils.c In file included from /usr/include/string.h:495, from /usr/include/memory.h:29, from bayes.h:31, from sumpt.c:38: In function 'strncpy', inlined from 'DoSump' at sumpt.c:335:5: /usr/include/i386-linux-gnu/bits/string_fortified.h:106:10: warning: '__builtin_strncpy' output may be truncated copying 90 bytes from a string of length 119 [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/string.h:495, from /usr/include/memory.h:29, from bayes.h:31, from utils.c:38: In function 'strncpy', inlined from 'CopyResults' at utils.c:311:9: /usr/include/i386-linux-gnu/bits/string_fortified.h:106:10: warning: '__builtin_strncpy' accessing 0 or more bytes at offsets [-1073741824, 1073741823] and 0 may overlap up to 1073741824 bytes at offset [0, 1073741823] [-Wrestrict] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'strncpy', inlined from 'CopyProcessSsFile' at utils.c:350:9: /usr/include/i386-linux-gnu/bits/string_fortified.h:106:10: warning: '__builtin_strncpy' accessing 0 or more bytes at offsets [-1073741824, 1073741823] and 0 may overlap up to 1073741824 bytes at offset [0, 1073741823] [-Wrestrict] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'strncpy', inlined from 'CopyTreeResults' at utils.c:422:9: /usr/include/i386-linux-gnu/bits/string_fortified.h:106:10: warning: '__builtin_strncpy' accessing 0 or more bytes at offsets [-1073741824, 1073741823] and 0 may overlap up to 1073741824 bytes at offset [0, 1073741823] [-Wrestrict] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sumpt.c: In function 'DoCompRefTree': sumpt.c:4612:40: warning: '%d' directive writing between 1 and 10 bytes into a region of size between 7 and 126 [-Wformat-overflow=] 4612 | sprintf (inRefName, "%s.run%d.t", comptreeParams.comptFileName2, n+1); | ^~ sumpt.c:4612:33: note: directive argument in the range [1, 2147483647] 4612 | sprintf (inRefName, "%s.run%d.t", comptreeParams.comptFileName2, n+1); | ^~~~~~~~~~~~ In file included from /usr/include/stdio.h:867, from bayes.h:32, from sumpt.c:38: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 8 and 136 bytes into a destination of size 130 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'sprintf', inlined from 'ShowConTree' at sumpt.c:8173:21: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: warning: '__builtin_strcpy' accessing 1 byte at offsets [-2147483648, 2147483647] and [-2147483648, 2147483646] overlaps 1 byte at offset [-2147483648, 2147483646] [-Wrestrict] 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c: In function 'ReopenMBPrintFiles': mcmc.c:15467:50: warning: '%d' directive writing between 1 and 10 bytes into a region of size between 2 and 110 [-Wformat-overflow=] 15467 | sprintf (fileName, "%s.tree%d.run%d.t", localFileName, i+1, n+1); | ^~ mcmc.c:15467:36: note: directive argument in the range [1, 2147483647] 15467 | sprintf (fileName, "%s.tree%d.run%d.t", localFileName, i+1, n+1); | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:867, from bayes.h:32, from mcmc.c:45: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 14 and 131 bytes into a destination of size 120 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sumpt.c: In function 'DoSumt': sumpt.c:4958:39: warning: '.run' directive writing 4 bytes into a region of size between 1 and 120 [-Wformat-overflow=] 4958 | sprintf (tempName, "%s.run%d.t", fileName, sumtParams.runId+1); | ^~~~ sumpt.c:4958:36: note: directive argument in the range [-2147483647, 2147483647] 4958 | sprintf (tempName, "%s.run%d.t", fileName, sumtParams.runId+1); | ^~~~~~~~~~~~ In file included from /usr/include/stdio.h:867, from bayes.h:32, from sumpt.c:38: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 8 and 137 bytes into a destination of size 120 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sumpt.c:4956:39: warning: '.t' directive writing 2 bytes into a region of size between 1 and 120 [-Wformat-overflow=] 4956 | sprintf (tempName, "%s.t", fileName); | ^~ In file included from /usr/include/stdio.h:867, from bayes.h:32, from sumpt.c:38: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 3 and 122 bytes into a destination of size 120 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c: In function 'RunChain': mcmc.c:17362:46: warning: '.ss' directive writing 3 bytes into a region of size between 1 and 220 [-Wformat-overflow=] 17362 | sprintf (bkupFileName,"%s.ss%d", ckpFileName,chainParams.numStepsSS-stepIndexSS); | ^~~ In file included from /usr/include/stdio.h:867, from bayes.h:32, from mcmc.c:45: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 5 and 234 bytes into a destination of size 220 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/string.h:495, from /usr/include/memory.h:29, from bayes.h:31, from command.c:38: In function 'strncpy', inlined from 'DoExecute' at command.c:3560:5: /usr/include/i386-linux-gnu/bits/string_fortified.h:106:10: warning: '__builtin_strncpy' output may be truncated copying 98 bytes from a string of length 99 [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ model.c: In function 'SetModelParams': model.c:19111:48: warning: '__builtin___sprintf_chk' may write a terminating nul past the end of the destination [-Wformat-overflow=] 19111 | sprintf (tempMult, "g_m{%d}", i+1); | ^ In file included from /usr/include/stdio.h:867, from bayes.h:32, from model.c:38: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 7 and 16 bytes into a destination of size 15 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wl,-z,relro -Wl,-z,now -o mb mb-bayes.o mb-best.o mb-command.o mb-likelihood.o mb-mbbeagle.o mb-mcmc.o mb-model.o mb-proposal.o mb-sumpt.o mb-utils.o -L/usr/lib -lhmsbeagle -lm -lreadline make[4]: Leaving directory '/build/mrbayes-3.2.7a/src' make[3]: Leaving directory '/build/mrbayes-3.2.7a/src' Making all in doc make[3]: Entering directory '/build/mrbayes-3.2.7a/doc' Making all in manual make[4]: Entering directory '/build/mrbayes-3.2.7a/doc/manual' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/build/mrbayes-3.2.7a/doc/manual' Making all in tutorial make[4]: Entering directory '/build/mrbayes-3.2.7a/doc/tutorial' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/build/mrbayes-3.2.7a/doc/tutorial' make[4]: Entering directory '/build/mrbayes-3.2.7a/doc' make[4]: Nothing to be done for 'all-am'. make[4]: Leaving directory '/build/mrbayes-3.2.7a/doc' make[3]: Leaving directory '/build/mrbayes-3.2.7a/doc' Making all in examples make[3]: Entering directory '/build/mrbayes-3.2.7a/examples' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/mrbayes-3.2.7a/examples' make[3]: Entering directory '/build/mrbayes-3.2.7a' make[3]: Nothing to be done for 'all-am'. make[3]: Leaving directory '/build/mrbayes-3.2.7a' make[2]: Leaving directory '/build/mrbayes-3.2.7a' mv src/mb ./mb-mpi # Now - build mb ( cd src ; make clean ) make[2]: Entering directory '/build/mrbayes-3.2.7a/src' test -z "mb" || rm -f mb rm -f *.o make[2]: Leaving directory '/build/mrbayes-3.2.7a/src' dh_auto_configure -- --with-beagle=/usr --enable-mpi=no --enable-debug=yes ./configure --build=i686-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/i386-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --with-beagle=/usr --enable-mpi=no --enable-debug=yes checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking whether to enable maintainer-specific portions of Makefiles... no checking build system type... i686-pc-linux-gnu checking host system type... i686-pc-linux-gnu checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for pdflatex... no checking for bibtex... no configure: WARNING: pdflatex or bibtex is missing, documentation will not be rebuilt checking whether make supports the include directive... yes (GNU style) checking whether to compile using MPI... no checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking for sqrt in -lm... yes checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes configure: Trying to locate Beagle (hmsbeagle-1) in '/usr' checking libhmsbeagle/beagle.h usability... yes checking libhmsbeagle/beagle.h presence... yes checking for libhmsbeagle/beagle.h... yes checking for beagleCreateInstance in -lhmsbeagle... yes configure: Found Beagle in '/usr' checking for beagleSetCPUThreadCount in -lhmsbeagle... yes configure: Using BEAGLE_CFLAGS="-I/usr/include/libhmsbeagle-1 -pthread" configure: Using BEAGLE_LIBS="-L/usr/lib -lhmsbeagle" checking for a readline compatible library... -lreadline checking readline.h usability... no checking readline.h presence... no checking for readline.h... no checking readline/readline.h usability... yes checking readline/readline.h presence... yes checking for readline/readline.h... yes checking whether readline supports history... yes checking history.h usability... no checking history.h presence... no checking for history.h... no checking readline/history.h usability... yes checking readline/history.h presence... yes checking for readline/history.h... yes checking float.h usability... yes checking float.h presence... yes checking for float.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking for memory.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for size_t... yes checking for stdbool.h that conforms to C99... yes checking for _Bool... yes checking for C compiler vendor... gnu checking for a sed that does not truncate output... /bin/sed checking for C compiler version... 10.2.1 checking CFLAGS for maximum warnings... -Wall checking for floor... yes checking for memset... yes checking for pow... yes checking for sqrt... yes checking for strchr... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating doc/Makefile config.status: creating doc/manual/Makefile config.status: creating doc/tutorial/Makefile config.status: creating examples/Makefile config.status: creating src/Makefile config.status: creating src/config.h config.status: src/config.h is unchanged config.status: executing depfiles commands LIBS="-Wl,--as-needed" dh_auto_build make -j8 make[2]: Entering directory '/build/mrbayes-3.2.7a' Making all in src make[3]: Entering directory '/build/mrbayes-3.2.7a/src' make all-am make[4]: Entering directory '/build/mrbayes-3.2.7a/src' gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-bayes.o `test -f 'bayes.c' || echo './'`bayes.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-best.o `test -f 'best.c' || echo './'`best.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-command.o `test -f 'command.c' || echo './'`command.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-likelihood.o `test -f 'likelihood.c' || echo './'`likelihood.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-mbbeagle.o `test -f 'mbbeagle.c' || echo './'`mbbeagle.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-mcmc.o `test -f 'mcmc.c' || echo './'`mcmc.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-model.o `test -f 'model.c' || echo './'`model.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-proposal.o `test -f 'proposal.c' || echo './'`proposal.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-sumpt.o `test -f 'sumpt.c' || echo './'`sumpt.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -c -o mb-utils.o `test -f 'utils.c' || echo './'`utils.c In file included from /usr/include/string.h:495, from /usr/include/memory.h:29, from bayes.h:31, from sumpt.c:38: In function 'strncpy', inlined from 'DoSump' at sumpt.c:335:5: /usr/include/i386-linux-gnu/bits/string_fortified.h:106:10: warning: '__builtin_strncpy' output may be truncated copying 90 bytes from a string of length 119 [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/string.h:495, from /usr/include/memory.h:29, from bayes.h:31, from utils.c:38: In function 'strncpy', inlined from 'CopyResults' at utils.c:311:9: /usr/include/i386-linux-gnu/bits/string_fortified.h:106:10: warning: '__builtin_strncpy' accessing 0 or more bytes at offsets [-1073741824, 1073741823] and 0 may overlap up to 1073741824 bytes at offset [0, 1073741823] [-Wrestrict] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'strncpy', inlined from 'CopyProcessSsFile' at utils.c:350:9: /usr/include/i386-linux-gnu/bits/string_fortified.h:106:10: warning: '__builtin_strncpy' accessing 0 or more bytes at offsets [-1073741824, 1073741823] and 0 may overlap up to 1073741824 bytes at offset [0, 1073741823] [-Wrestrict] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'strncpy', inlined from 'CopyTreeResults' at utils.c:422:9: /usr/include/i386-linux-gnu/bits/string_fortified.h:106:10: warning: '__builtin_strncpy' accessing 0 or more bytes at offsets [-1073741824, 1073741823] and 0 may overlap up to 1073741824 bytes at offset [0, 1073741823] [-Wrestrict] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sumpt.c: In function 'DoCompRefTree': sumpt.c:4612:40: warning: '%d' directive writing between 1 and 10 bytes into a region of size between 7 and 126 [-Wformat-overflow=] 4612 | sprintf (inRefName, "%s.run%d.t", comptreeParams.comptFileName2, n+1); | ^~ sumpt.c:4612:33: note: directive argument in the range [1, 2147483647] 4612 | sprintf (inRefName, "%s.run%d.t", comptreeParams.comptFileName2, n+1); | ^~~~~~~~~~~~ In file included from /usr/include/stdio.h:867, from bayes.h:32, from sumpt.c:38: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 8 and 136 bytes into a destination of size 130 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'sprintf', inlined from 'ShowConTree' at sumpt.c:8173:21: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: warning: '__builtin_strcpy' accessing 1 byte at offsets [-2147483648, 2147483647] and [-2147483648, 2147483646] overlaps 1 byte at offset [-2147483648, 2147483646] [-Wrestrict] 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c: In function 'ReopenMBPrintFiles': mcmc.c:15467:50: warning: '%d' directive writing between 1 and 10 bytes into a region of size between 2 and 110 [-Wformat-overflow=] 15467 | sprintf (fileName, "%s.tree%d.run%d.t", localFileName, i+1, n+1); | ^~ mcmc.c:15467:36: note: directive argument in the range [1, 2147483647] 15467 | sprintf (fileName, "%s.tree%d.run%d.t", localFileName, i+1, n+1); | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:867, from bayes.h:32, from mcmc.c:45: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 14 and 131 bytes into a destination of size 120 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sumpt.c: In function 'DoSumt': sumpt.c:4958:39: warning: '.run' directive writing 4 bytes into a region of size between 1 and 120 [-Wformat-overflow=] 4958 | sprintf (tempName, "%s.run%d.t", fileName, sumtParams.runId+1); | ^~~~ sumpt.c:4958:36: note: directive argument in the range [-2147483647, 2147483647] 4958 | sprintf (tempName, "%s.run%d.t", fileName, sumtParams.runId+1); | ^~~~~~~~~~~~ In file included from /usr/include/stdio.h:867, from bayes.h:32, from sumpt.c:38: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 8 and 137 bytes into a destination of size 120 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sumpt.c:4956:39: warning: '.t' directive writing 2 bytes into a region of size between 1 and 120 [-Wformat-overflow=] 4956 | sprintf (tempName, "%s.t", fileName); | ^~ In file included from /usr/include/stdio.h:867, from bayes.h:32, from sumpt.c:38: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 3 and 122 bytes into a destination of size 120 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/string.h:495, from /usr/include/memory.h:29, from bayes.h:31, from command.c:38: In function 'strncpy', inlined from 'DoExecute' at command.c:3560:5: /usr/include/i386-linux-gnu/bits/string_fortified.h:106:10: warning: '__builtin_strncpy' output may be truncated copying 98 bytes from a string of length 99 [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c: In function 'RunChain': mcmc.c:17362:46: warning: '.ss' directive writing 3 bytes into a region of size between 1 and 220 [-Wformat-overflow=] 17362 | sprintf (bkupFileName,"%s.ss%d", ckpFileName,chainParams.numStepsSS-stepIndexSS); | ^~~ In file included from /usr/include/stdio.h:867, from bayes.h:32, from mcmc.c:45: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 5 and 234 bytes into a destination of size 220 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ model.c: In function 'SetModelParams': model.c:19111:48: warning: '__builtin___sprintf_chk' may write a terminating nul past the end of the destination [-Wformat-overflow=] 19111 | sprintf (tempMult, "g_m{%d}", i+1); | ^ In file included from /usr/include/stdio.h:867, from bayes.h:32, from model.c:38: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 7 and 16 bytes into a destination of size 15 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wl,-z,relro -Wl,-z,now -o mb mb-bayes.o mb-best.o mb-command.o mb-likelihood.o mb-mbbeagle.o mb-mcmc.o mb-model.o mb-proposal.o mb-sumpt.o mb-utils.o -L/usr/lib -lhmsbeagle -lm -lreadline make[4]: Leaving directory '/build/mrbayes-3.2.7a/src' make[3]: Leaving directory '/build/mrbayes-3.2.7a/src' Making all in doc make[3]: Entering directory '/build/mrbayes-3.2.7a/doc' Making all in manual make[4]: Entering directory '/build/mrbayes-3.2.7a/doc/manual' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/build/mrbayes-3.2.7a/doc/manual' Making all in tutorial make[4]: Entering directory '/build/mrbayes-3.2.7a/doc/tutorial' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/build/mrbayes-3.2.7a/doc/tutorial' make[4]: Entering directory '/build/mrbayes-3.2.7a/doc' make[4]: Nothing to be done for 'all-am'. make[4]: Leaving directory '/build/mrbayes-3.2.7a/doc' make[3]: Leaving directory '/build/mrbayes-3.2.7a/doc' Making all in examples make[3]: Entering directory '/build/mrbayes-3.2.7a/examples' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/mrbayes-3.2.7a/examples' make[3]: Entering directory '/build/mrbayes-3.2.7a' make[3]: Nothing to be done for 'all-am'. make[3]: Leaving directory '/build/mrbayes-3.2.7a' make[2]: Leaving directory '/build/mrbayes-3.2.7a' mv src/mb . make[1]: Leaving directory '/build/mrbayes-3.2.7a' dh_auto_test make -j8 check VERBOSE=1 make[1]: Entering directory '/build/mrbayes-3.2.7a' Making check in src make[2]: Entering directory '/build/mrbayes-3.2.7a/src' gcc -I/usr/include/libhmsbeagle-1 -pthread -g -std=c99 -pedantic -g -O2 -fdebug-prefix-map=/build/mrbayes-3.2.7a=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wl,-z,relro -Wl,-z,now -o mb mb-bayes.o mb-best.o mb-command.o mb-likelihood.o mb-mbbeagle.o mb-mcmc.o mb-model.o mb-proposal.o mb-sumpt.o mb-utils.o -L/usr/lib -lhmsbeagle -lm -lreadline make[2]: Leaving directory '/build/mrbayes-3.2.7a/src' Making check in doc make[2]: Entering directory '/build/mrbayes-3.2.7a/doc' Making check in manual make[3]: Entering directory '/build/mrbayes-3.2.7a/doc/manual' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/build/mrbayes-3.2.7a/doc/manual' Making check in tutorial make[3]: Entering directory '/build/mrbayes-3.2.7a/doc/tutorial' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/build/mrbayes-3.2.7a/doc/tutorial' make[3]: Entering directory '/build/mrbayes-3.2.7a/doc' make[3]: Nothing to be done for 'check-am'. make[3]: Leaving directory '/build/mrbayes-3.2.7a/doc' make[2]: Leaving directory '/build/mrbayes-3.2.7a/doc' Making check in examples make[2]: Entering directory '/build/mrbayes-3.2.7a/examples' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/build/mrbayes-3.2.7a/examples' make[2]: Entering directory '/build/mrbayes-3.2.7a' make[2]: Nothing to be done for 'check-am'. make[2]: Leaving directory '/build/mrbayes-3.2.7a' make[1]: Leaving directory '/build/mrbayes-3.2.7a' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install make -j8 install DESTDIR=/build/mrbayes-3.2.7a/debian/tmp AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/mrbayes-3.2.7a' Making install in src make[2]: Entering directory '/build/mrbayes-3.2.7a/src' make[3]: Entering directory '/build/mrbayes-3.2.7a/src' make[3]: Nothing to be done for 'install-data-am'. /bin/mkdir -p '/build/mrbayes-3.2.7a/debian/tmp/usr/bin' /usr/bin/install -c mb '/build/mrbayes-3.2.7a/debian/tmp/usr/bin' make[3]: Leaving directory '/build/mrbayes-3.2.7a/src' make[2]: Leaving directory '/build/mrbayes-3.2.7a/src' Making install in doc make[2]: Entering directory '/build/mrbayes-3.2.7a/doc' Making install in manual make[3]: Entering directory '/build/mrbayes-3.2.7a/doc/manual' make[4]: Entering directory '/build/mrbayes-3.2.7a/doc/manual' make[4]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/build/mrbayes-3.2.7a/debian/tmp/usr/share/doc/mrbayes' /usr/bin/install -c -m 644 Manual_MrBayes_v3.2.pdf '/build/mrbayes-3.2.7a/debian/tmp/usr/share/doc/mrbayes' make[4]: Leaving directory '/build/mrbayes-3.2.7a/doc/manual' make[3]: Leaving directory '/build/mrbayes-3.2.7a/doc/manual' Making install in tutorial make[3]: Entering directory '/build/mrbayes-3.2.7a/doc/tutorial' make[4]: Entering directory '/build/mrbayes-3.2.7a/doc/tutorial' make[4]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/build/mrbayes-3.2.7a/debian/tmp/usr/share/doc/mrbayes' /bin/mkdir -p '/build/mrbayes-3.2.7a/debian/tmp/usr/share/doc/mrbayes' /usr/bin/install -c -m 644 MBDating.pdf '/build/mrbayes-3.2.7a/debian/tmp/usr/share/doc/mrbayes' /usr/bin/install -c -m 644 hym.nex '/build/mrbayes-3.2.7a/debian/tmp/usr/share/doc/mrbayes' make[4]: Leaving directory '/build/mrbayes-3.2.7a/doc/tutorial' make[3]: Leaving directory '/build/mrbayes-3.2.7a/doc/tutorial' make[3]: Entering directory '/build/mrbayes-3.2.7a/doc' make[4]: Entering directory '/build/mrbayes-3.2.7a/doc' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/build/mrbayes-3.2.7a/doc' make[3]: Leaving directory '/build/mrbayes-3.2.7a/doc' make[2]: Leaving directory '/build/mrbayes-3.2.7a/doc' Making install in examples make[2]: Entering directory '/build/mrbayes-3.2.7a/examples' make[3]: Entering directory '/build/mrbayes-3.2.7a/examples' make[3]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/build/mrbayes-3.2.7a/debian/tmp/usr/share/examples/mrbayes' /usr/bin/install -c -m 644 avian_ovomucoids.nex codon.nex cynmix.nex finch.nex hymfossil.nex primates.nex replicase.nex sceloporus.nex '/build/mrbayes-3.2.7a/debian/tmp/usr/share/examples/mrbayes' make[3]: Leaving directory '/build/mrbayes-3.2.7a/examples' make[2]: Leaving directory '/build/mrbayes-3.2.7a/examples' make[2]: Entering directory '/build/mrbayes-3.2.7a' make[3]: Entering directory '/build/mrbayes-3.2.7a' make[3]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/build/mrbayes-3.2.7a/debian/tmp/usr/share/doc/mrbayes' /usr/bin/install -c -m 644 COPYING README NEWS '/build/mrbayes-3.2.7a/debian/tmp/usr/share/doc/mrbayes' make[3]: Leaving directory '/build/mrbayes-3.2.7a' make[2]: Leaving directory '/build/mrbayes-3.2.7a' make[1]: Leaving directory '/build/mrbayes-3.2.7a' dh_install dh_installdocs dh_installchangelogs debian/rules override_dh_installexamples make[1]: Entering directory '/build/mrbayes-3.2.7a' dh_installexamples find debian -name "Makefile*" -delete make[1]: Leaving directory '/build/mrbayes-3.2.7a' dh_installman dh_perl dh_link dh_strip_nondeterminism debian/rules override_dh_compress make[1]: Entering directory '/build/mrbayes-3.2.7a' dh_compress --exclude=.pdf make[1]: Leaving directory '/build/mrbayes-3.2.7a' dh_fixperms debian/rules override_dh_missing make[1]: Entering directory '/build/mrbayes-3.2.7a' dh_missing --list-missing dh_missing: warning: usr/bin/mb exists in debian/tmp but is not installed to anywhere (related file: "mb") dh_missing: warning: usr/share/doc/mrbayes/COPYING exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/doc/mrbayes/MBDating.pdf exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/doc/mrbayes/Manual_MrBayes_v3.2.pdf exists in debian/tmp but is not installed to anywhere (related file: "doc/manual/Manual_MrBayes_v3.2.pdf") dh_missing: warning: usr/share/doc/mrbayes/NEWS exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/doc/mrbayes/README exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/doc/mrbayes/hym.nex exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/examples/mrbayes/avian_ovomucoids.nex exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/examples/mrbayes/codon.nex exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/examples/mrbayes/cynmix.nex exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/examples/mrbayes/finch.nex exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/examples/mrbayes/hymfossil.nex exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/examples/mrbayes/primates.nex exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/examples/mrbayes/replicase.nex exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/examples/mrbayes/sceloporus.nex exists in debian/tmp but is not installed to anywhere While detecting missing files, dh_missing noted some files with a similar name to those that were missing. This warning /might/ be resolved by replacing references to the missing files with the similarly named ones that dh_missing found - assuming the content is identical. As an example, you might want to replace: * mb with: * usr/bin/mb in a file in debian/ or as argument to one of the dh_* tools called from debian/rules. (Note it is possible the paths are not used verbatim but instead directories containing or globs matching them are used instead) Alternatively, add the missing file to debian/not-installed if it cannot and should not be used. The following debhelper tools have reported what they installed (with files per package) * dh_install: mrbayes (1), mrbayes-doc (1), mrbayes-mpi (2) * dh_installdocs: mrbayes (3), mrbayes-doc (0), mrbayes-mpi (0) * dh_installexamples: mrbayes (0), mrbayes-doc (0), mrbayes-mpi (0) * dh_installman: mrbayes (1), mrbayes-doc (0), mrbayes-mpi (1) If the missing files are installed by another tool, please file a bug against it. When filing the report, if the tool is not part of debhelper itself, please reference the "Logging helpers and dh_missing" section from the "PROGRAMMING" guide for debhelper (10.6.3+). (in the debhelper package: /usr/share/doc/debhelper/PROGRAMMING.gz) Be sure to test with dpkg-buildpackage -A/-B as the results may vary when only a subset is built If the omission is intentional or no other helper can take care of this consider adding the paths to debian/not-installed. make[1]: Leaving directory '/build/mrbayes-3.2.7a' dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/mrbayes/usr/bin/mb was not linked against libpthread.so.0 (it uses none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/mrbayes-mpi/usr/lib/mrbayes-mpi/mb-mpi was not linked against libpthread.so.0 (it uses none of the library's symbols) debian/rules override_dh_installdeb make[1]: Entering directory '/build/mrbayes-3.2.7a' # FIXME: That's a dirty hack by simply removing debug information in mrbayes-mpi-dbgsym # Due to the duplicated build above this is just a duplicate of mrbayes-dbgsym and creates a file conflict if [ -d debian/.debhelper/mrbayes-mpi/dbgsym-root/usr/lib/debug ] ; then \ find debian/.debhelper/mrbayes-mpi/dbgsym-root/usr/lib/debug -name "*.debug" -delete ; \ fi dh_installdeb make[1]: Leaving directory '/build/mrbayes-3.2.7a' dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'mrbayes-mpi-dbgsym' in '../mrbayes-mpi-dbgsym_3.2.7a-4_i386.deb'. dpkg-deb: building package 'mrbayes' in '../mrbayes_3.2.7a-4_i386.deb'. dpkg-deb: building package 'mrbayes-doc' in '../mrbayes-doc_3.2.7a-4_all.deb'. dpkg-deb: building package 'mrbayes-dbgsym' in '../mrbayes-dbgsym_3.2.7a-4_i386.deb'. dpkg-deb: building package 'mrbayes-mpi' in '../mrbayes-mpi_3.2.7a-4_i386.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../mrbayes_3.2.7a-4_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/3337 and its subdirectories I: Current time: Mon Aug 16 22:16:44 -12 2021 I: pbuilder-time-stamp: 1629195404 Tue Aug 17 10:16:45 UTC 2021 I: 1st build successful. Starting 2nd build on remote node ionos16-i386.debian.net. Tue Aug 17 10:16:45 UTC 2021 I: Preparing to do remote build '2' on ionos16-i386.debian.net. Tue Aug 17 10:18:50 UTC 2021 I: Deleting $TMPDIR on ionos16-i386.debian.net. Tue Aug 17 10:18:51 UTC 2021 I: mrbayes_3.2.7a-4_i386.changes: Format: 1.8 Date: Mon, 20 Jul 2020 09:50:56 +0200 Source: mrbayes Binary: mrbayes mrbayes-dbgsym mrbayes-doc mrbayes-mpi mrbayes-mpi-dbgsym Architecture: i386 all Version: 3.2.7a-4 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: mrbayes - Bayesian Inference of Phylogeny mrbayes-doc - Bayesian Inference of Phylogeny - manual mrbayes-mpi - Bayesian Inference of Phylogeny - mpi version Closes: 965319 Changes: mrbayes (3.2.7a-4) unstable; urgency=medium . [ Chris Lamb ] * Build reproducibly Closes: #965319 Checksums-Sha1: 061274706e247c0631b691f9ed51d27623f1e082 911496 mrbayes-dbgsym_3.2.7a-4_i386.deb 75480e66fb94110be48272ea7fd934697a259a24 1330652 mrbayes-doc_3.2.7a-4_all.deb 129e304e897dfb09bd8a08d058915668658a5bc7 964 mrbayes-mpi-dbgsym_3.2.7a-4_i386.deb 0949617f8c14264b463db3bc62d2e90fa005c47b 616116 mrbayes-mpi_3.2.7a-4_i386.deb 33dfb970acac056bb3571a502e460a1c51a6f876 7842 mrbayes_3.2.7a-4_i386.buildinfo 089af254f344005bbb21eee0a177f962c944f450 679144 mrbayes_3.2.7a-4_i386.deb Checksums-Sha256: 61864339f43294bf6504e9c9c9866ab64bc87232820f9216bfd9224bef582b77 911496 mrbayes-dbgsym_3.2.7a-4_i386.deb 5d7154db586692d7c7a63dc0fa9904ee73f3e059727e9c7cd559f7835cc187e4 1330652 mrbayes-doc_3.2.7a-4_all.deb 8913bcebd1f8410656c99f94c6d90c337f9d4e5baae77f9a2f6f9966125aed6c 964 mrbayes-mpi-dbgsym_3.2.7a-4_i386.deb 72400af1b97534b158892983722a2b77459e737720dc641f9f7c56585ea12b5c 616116 mrbayes-mpi_3.2.7a-4_i386.deb be7ca82000223d6b4a20ac3560274588fa15b7d598e8907479f2bf2eb1b484c4 7842 mrbayes_3.2.7a-4_i386.buildinfo 8a7b764ab0c84fed1ab18ead557b89a49c33bcfd54ba4d76fa9085e44a9128c9 679144 mrbayes_3.2.7a-4_i386.deb Files: 667f7e574f4edfa5a223f625f9016f3e 911496 debug optional mrbayes-dbgsym_3.2.7a-4_i386.deb 642c3b692e28c0e5d2e0409dce551efa 1330652 doc optional mrbayes-doc_3.2.7a-4_all.deb 9f44c4f6d49b64fe1cad5db668c77771 964 debug optional mrbayes-mpi-dbgsym_3.2.7a-4_i386.deb 3249d7a9fcfbe2892c2959729f518fa0 616116 science optional mrbayes-mpi_3.2.7a-4_i386.deb 27bef3c5b6b71810a13c9140dd2eefa9 7842 science optional mrbayes_3.2.7a-4_i386.buildinfo 051f0aebe2c2652862fae24e86c537bc 679144 science optional mrbayes_3.2.7a-4_i386.deb Tue Aug 17 10:18:52 UTC 2021 I: diffoscope 177 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.NKpAzRD2vl/mrbayes_3.2.7a-4.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.NKpAzRD2vl/mrbayes_3.2.7a-4.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.NKpAzRD2vl/mrbayes_3.2.7a-4.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.NKpAzRD2vl/b1/mrbayes_3.2.7a-4_i386.changes /srv/reproducible-results/rbuild-debian/tmp.NKpAzRD2vl/b2/mrbayes_3.2.7a-4_i386.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.293s) 0.293s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.059s) 0.059s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Tue Aug 17 10:18:54 UTC 2021 I: diffoscope 177 found no differences in the changes files, and a .buildinfo file also exists. Tue Aug 17 10:18:54 UTC 2021 I: mrbayes from bullseye built successfully and reproducibly on i386. Tue Aug 17 10:18:55 UTC 2021 I: Submitting .buildinfo files to external archives: Tue Aug 17 10:18:55 UTC 2021 I: Submitting 12K b1/mrbayes_3.2.7a-4_i386.buildinfo.asc Tue Aug 17 10:18:56 UTC 2021 I: Submitting 12K b2/mrbayes_3.2.7a-4_i386.buildinfo.asc Tue Aug 17 10:18:57 UTC 2021 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Tue Aug 17 10:18:57 UTC 2021 I: Done submitting .buildinfo files. Tue Aug 17 10:18:57 UTC 2021 I: Removing signed mrbayes_3.2.7a-4_i386.buildinfo.asc files: removed './b1/mrbayes_3.2.7a-4_i386.buildinfo.asc' removed './b2/mrbayes_3.2.7a-4_i386.buildinfo.asc'