I: pbuilder: network access will be disabled during build I: Current time: Sat Sep 11 08:42:48 -12 2021 I: pbuilder-time-stamp: 1631392968 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-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: Copying source file I: copying [ampliconnoise_1.29-8.dsc] I: copying [./ampliconnoise_1.29.orig.tar.gz] I: copying [./ampliconnoise_1.29-8.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/var/lib/jenkins/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Fri Oct 19 00:50:35 2018 -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 ./ampliconnoise_1.29-8.dsc dpkg-source: info: extracting ampliconnoise in ampliconnoise-1.29 dpkg-source: info: unpacking ampliconnoise_1.29.orig.tar.gz dpkg-source: info: unpacking ampliconnoise_1.29-8.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fix-path-for-data.patch dpkg-source: info: applying fix-segfault-on-non-fasta-input.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying clang-ftbfs.patch dpkg-source: info: applying mayhem.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/9954/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='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=8' DISTRIBUTION='' HOME='/var/lib/jenkins' HOST_ARCH='arm64' IFS=' ' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' 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='9954' 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.ltFjGcnX6a/pbuilderrc_p0Tx --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.ltFjGcnX6a/b1 --logfile b1/build.log ampliconnoise_1.29-8.dsc' SUDO_GID='117' SUDO_UID='110' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' USERNAME='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.16:3128' I: uname -a Linux codethink-sled13-arm64 4.4.0-186-generic #216-Ubuntu SMP Wed Jul 1 05:35:21 UTC 2020 aarch64 GNU/Linux I: ls -l /bin total 4928 -rwxr-xr-x 1 root root 1216928 Apr 17 2019 bash -rwxr-xr-x 3 root root 34808 Jul 10 2019 bunzip2 -rwxr-xr-x 3 root root 34808 Jul 10 2019 bzcat lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep -rwxr-xr-x 3 root root 34808 Jul 10 2019 bzip2 -rwxr-xr-x 1 root root 14264 Jul 10 2019 bzip2recover lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore -rwxr-xr-x 1 root root 35576 Feb 28 2019 cat -rwxr-xr-x 1 root root 60256 Feb 28 2019 chgrp -rwxr-xr-x 1 root root 56096 Feb 28 2019 chmod -rwxr-xr-x 1 root root 64368 Feb 28 2019 chown -rwxr-xr-x 1 root root 134632 Feb 28 2019 cp -rwxr-xr-x 1 root root 129536 Jan 17 2019 dash -rwxr-xr-x 1 root root 97136 Feb 28 2019 date -rwxr-xr-x 1 root root 76736 Feb 28 2019 dd -rwxr-xr-x 1 root root 93752 Feb 28 2019 df -rwxr-xr-x 1 root root 138848 Feb 28 2019 dir -rwxr-xr-x 1 root root 75984 Jan 9 2019 dmesg lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname -rwxr-xr-x 1 root root 31368 Feb 28 2019 echo -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep -rwxr-xr-x 1 root root 27256 Feb 28 2019 false -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep -rwxr-xr-x 1 root root 68792 Jan 9 2019 findmnt -rwsr-xr-x 1 root root 34824 Apr 22 2020 fusermount -rwxr-xr-x 1 root root 174304 Jan 7 2019 grep -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe -rwxr-xr-x 1 root root 89656 Jan 5 2019 gzip -rwxr-xr-x 1 root root 18440 Sep 26 2018 hostname -rwxr-xr-x 1 root root 64472 Feb 28 2019 ln -rwxr-xr-x 1 root root 52544 Jul 26 2018 login -rwxr-xr-x 1 root root 138848 Feb 28 2019 ls -rwxr-xr-x 1 root root 108552 Jan 9 2019 lsblk -rwxr-xr-x 1 root root 76840 Feb 28 2019 mkdir -rwxr-xr-x 1 root root 64480 Feb 28 2019 mknod -rwxr-xr-x 1 root root 39736 Feb 28 2019 mktemp -rwxr-xr-x 1 root root 38840 Jan 9 2019 more -rwsr-xr-x 1 root root 47112 Jan 9 2019 mount -rwxr-xr-x 1 root root 14344 Jan 9 2019 mountpoint -rwxr-xr-x 1 root root 138736 Feb 28 2019 mv lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 35560 Feb 28 2019 pwd lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash -rwxr-xr-x 1 root root 43712 Feb 28 2019 readlink -rwxr-xr-x 1 root root 68440 Feb 28 2019 rm -rwxr-xr-x 1 root root 39624 Feb 28 2019 rmdir -rwxr-xr-x 1 root root 19144 Jan 21 2019 run-parts -rwxr-xr-x 1 root root 114016 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Sep 11 02:48 sh -> dash -rwxr-xr-x 1 root root 31384 Feb 28 2019 sleep -rwxr-xr-x 1 root root 72480 Feb 28 2019 stty -rwsr-xr-x 1 root root 59424 Jan 9 2019 su -rwxr-xr-x 1 root root 31416 Feb 28 2019 sync -rwxr-xr-x 1 root root 449416 Apr 23 2019 tar -rwxr-xr-x 1 root root 10560 Jan 21 2019 tempfile -rwxr-xr-x 1 root root 88968 Feb 28 2019 touch -rwxr-xr-x 1 root root 27256 Feb 28 2019 true -rwxr-xr-x 1 root root 14264 Apr 22 2020 ulockmgr_server -rwsr-xr-x 1 root root 30728 Jan 9 2019 umount -rwxr-xr-x 1 root root 31384 Feb 28 2019 uname -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress -rwxr-xr-x 1 root root 138848 Feb 28 2019 vdir -rwxr-xr-x 1 root root 34824 Jan 9 2019 wdctl -rwxr-xr-x 1 root root 946 Jan 21 2019 which lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew I: user script /srv/workspace/pbuilder/9954/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: arm64 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 (>= 11~), libgsl-dev, libopenmpi-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19168 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 (>= 11~); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on libgsl-dev; however: Package libgsl-dev is not installed. pbuilder-satisfydepends-dummy depends on libopenmpi-dev; however: Package libopenmpi-dev 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} automake{a} autopoint{a} autotools-dev{a} bsdmainutils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} ibverbs-providers{a} intltool-debian{a} libarchive-zip-perl{a} libbsd0{a} libcroco3{a} libedit2{a} libelf1{a} libevent-2.1-6{a} libevent-core-2.1-6{a} libevent-pthreads-2.1-6{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libglib2.0-0{a} libgsl-dev{a} libgsl23{a} libgslcblas0{a} libgssapi-krb5-2{a} libhwloc-dev{a} libhwloc-plugins{a} libhwloc5{a} libibverbs-dev{a} libibverbs1{a} libicu63{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libltdl-dev{a} libltdl7{a} libmagic-mgc{a} libmagic1{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} libpmix2{a} libsigsegv2{a} libssl1.1{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} ocl-icd-libopencl1{a} openmpi-bin{a} openmpi-common{a} openssh-client{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl krb5-locales 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, 69 newly installed, 0 to remove and 0 not upgraded. Need to get 29.7 MB of archives. After unpacking 114 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main arm64 libbsd0 arm64 0.9.1-2 [97.4 kB] Get: 2 http://deb.debian.org/debian buster/main arm64 bsdmainutils arm64 11.1.2+b1 [185 kB] Get: 3 http://deb.debian.org/debian buster/main arm64 libuchardet0 arm64 0.0.6-3 [65.0 kB] Get: 4 http://deb.debian.org/debian buster/main arm64 groff-base arm64 1.22.4-3 [869 kB] Get: 5 http://deb.debian.org/debian buster/main arm64 libpipeline1 arm64 1.5.1-2 [29.8 kB] Get: 6 http://deb.debian.org/debian buster/main arm64 man-db arm64 2.8.5-2 [1258 kB] Get: 7 http://deb.debian.org/debian buster/main arm64 sensible-utils all 0.0.12 [15.8 kB] Get: 8 http://deb.debian.org/debian buster/main arm64 libmagic-mgc arm64 1:5.35-4+deb10u1 [242 kB] Get: 9 http://deb.debian.org/debian buster/main arm64 libmagic1 arm64 1:5.35-4+deb10u1 [115 kB] Get: 10 http://deb.debian.org/debian buster/main arm64 file arm64 1:5.35-4+deb10u1 [66.4 kB] Get: 11 http://deb.debian.org/debian buster/main arm64 gettext-base arm64 0.19.8.1-9 [120 kB] Get: 12 http://deb.debian.org/debian buster/main arm64 libedit2 arm64 3.1-20181209-1 [91.2 kB] Get: 13 http://deb.debian.org/debian buster/main arm64 libkeyutils1 arm64 1.6-6 [14.9 kB] Get: 14 http://deb.debian.org/debian buster/main arm64 libkrb5support0 arm64 1.17-3 [64.7 kB] Get: 15 http://deb.debian.org/debian buster/main arm64 libk5crypto3 arm64 1.17-3 [122 kB] Get: 16 http://deb.debian.org/debian buster/main arm64 libssl1.1 arm64 1.1.1d-0+deb10u3 [1382 kB] Get: 17 http://deb.debian.org/debian buster/main arm64 libkrb5-3 arm64 1.17-3 [353 kB] Get: 18 http://deb.debian.org/debian buster/main arm64 libgssapi-krb5-2 arm64 1.17-3 [150 kB] Get: 19 http://deb.debian.org/debian buster/main arm64 openssh-client arm64 1:7.9p1-10+deb10u2 [757 kB] Get: 20 http://deb.debian.org/debian buster/main arm64 libsigsegv2 arm64 2.12-2 [32.3 kB] Get: 21 http://deb.debian.org/debian buster/main arm64 m4 arm64 1.4.18-2 [198 kB] Get: 22 http://deb.debian.org/debian buster/main arm64 autoconf all 2.69-11 [341 kB] Get: 23 http://deb.debian.org/debian buster/main arm64 autotools-dev all 20180224.1 [77.0 kB] Get: 24 http://deb.debian.org/debian buster/main arm64 automake all 1:1.16.1-4 [771 kB] Get: 25 http://deb.debian.org/debian buster/main arm64 autopoint all 0.19.8.1-9 [434 kB] Get: 26 http://deb.debian.org/debian buster/main arm64 libtool all 2.4.6-9 [547 kB] Get: 27 http://deb.debian.org/debian buster/main arm64 dh-autoreconf all 19 [16.9 kB] Get: 28 http://deb.debian.org/debian buster/main arm64 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 29 http://deb.debian.org/debian buster/main arm64 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 30 http://deb.debian.org/debian buster/main arm64 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 31 http://deb.debian.org/debian buster/main arm64 libelf1 arm64 0.176-1.1 [160 kB] Get: 32 http://deb.debian.org/debian buster/main arm64 dwz arm64 0.12-3 [71.7 kB] Get: 33 http://deb.debian.org/debian buster/main arm64 libglib2.0-0 arm64 2.58.3-2+deb10u2 [1185 kB] Get: 34 http://deb.debian.org/debian buster/main arm64 libicu63 arm64 63.1-6+deb10u1 [8151 kB] Get: 35 http://deb.debian.org/debian buster/main arm64 libxml2 arm64 2.9.4+dfsg1-7+b3 [623 kB] Get: 36 http://deb.debian.org/debian buster/main arm64 libcroco3 arm64 0.6.12-3 [140 kB] Get: 37 http://deb.debian.org/debian buster/main arm64 libncurses6 arm64 6.1+20181013-2+deb10u2 [92.6 kB] Get: 38 http://deb.debian.org/debian buster/main arm64 gettext arm64 0.19.8.1-9 [1261 kB] Get: 39 http://deb.debian.org/debian buster/main arm64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 40 http://deb.debian.org/debian buster/main arm64 po-debconf all 1.0.21 [248 kB] Get: 41 http://deb.debian.org/debian buster/main arm64 debhelper all 12.1.1 [1016 kB] Get: 42 http://deb.debian.org/debian buster/main arm64 libnl-3-200 arm64 3.4.0-1 [54.9 kB] Get: 43 http://deb.debian.org/debian buster/main arm64 libnl-route-3-200 arm64 3.4.0-1 [134 kB] Get: 44 http://deb.debian.org/debian buster/main arm64 libibverbs1 arm64 22.1-1 [47.8 kB] Get: 45 http://deb.debian.org/debian buster/main arm64 ibverbs-providers arm64 22.1-1 [174 kB] Get: 46 http://deb.debian.org/debian buster/main arm64 libevent-2.1-6 arm64 2.1.8-stable-4 [150 kB] Get: 47 http://deb.debian.org/debian buster/main arm64 libevent-core-2.1-6 arm64 2.1.8-stable-4 [112 kB] Get: 48 http://deb.debian.org/debian buster/main arm64 libevent-pthreads-2.1-6 arm64 2.1.8-stable-4 [47.7 kB] Get: 49 http://deb.debian.org/debian buster/main arm64 libgfortran5 arm64 8.3.0-6 [298 kB] Get: 50 http://deb.debian.org/debian buster/main arm64 libgslcblas0 arm64 2.5+dfsg-6 [69.5 kB] Get: 51 http://deb.debian.org/debian buster/main arm64 libgsl23 arm64 2.5+dfsg-6 [760 kB] Get: 52 http://deb.debian.org/debian buster/main arm64 libgsl-dev arm64 2.5+dfsg-6 [938 kB] Get: 53 http://deb.debian.org/debian buster/main arm64 libltdl7 arm64 2.4.6-9 [389 kB] Get: 54 http://deb.debian.org/debian buster/main arm64 libnuma1 arm64 2.0.12-1 [25.6 kB] Get: 55 http://deb.debian.org/debian buster/main arm64 libhwloc5 arm64 1.11.12-3 [97.9 kB] Get: 56 http://deb.debian.org/debian buster/main arm64 libnuma-dev arm64 2.0.12-1 [40.0 kB] Get: 57 http://deb.debian.org/debian buster/main arm64 libltdl-dev arm64 2.4.6-9 [162 kB] Get: 58 http://deb.debian.org/debian buster/main arm64 libhwloc-dev arm64 1.11.12-3 [165 kB] Get: 59 http://deb.debian.org/debian buster/main arm64 libpciaccess0 arm64 0.14-1 [51.0 kB] Get: 60 http://deb.debian.org/debian buster/main arm64 ocl-icd-libopencl1 arm64 2.2.12-2 [37.4 kB] Get: 61 http://deb.debian.org/debian buster/main arm64 libhwloc-plugins arm64 1.11.12-3 [16.9 kB] Get: 62 http://deb.debian.org/debian buster/main arm64 libnl-3-dev arm64 3.4.0-1 [98.2 kB] Get: 63 http://deb.debian.org/debian buster/main arm64 libnl-route-3-dev arm64 3.4.0-1 [162 kB] Get: 64 http://deb.debian.org/debian buster/main arm64 libibverbs-dev arm64 22.1-1 [356 kB] Get: 65 http://deb.debian.org/debian buster/main arm64 libpmix2 arm64 3.1.2-3 [455 kB] Get: 66 http://deb.debian.org/debian buster/main arm64 libopenmpi3 arm64 3.1.3-11 [1996 kB] Get: 67 http://deb.debian.org/debian buster/main arm64 openmpi-common all 3.1.3-11 [165 kB] Get: 68 http://deb.debian.org/debian buster/main arm64 openmpi-bin arm64 3.1.3-11 [199 kB] Get: 69 http://deb.debian.org/debian buster/main arm64 libopenmpi-dev arm64 3.1.3-11 [974 kB] Fetched 29.7 MB in 3s (10.5 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:arm64. (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 ... 19168 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-2_arm64.deb ... Unpacking libbsd0:arm64 (0.9.1-2) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_arm64.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../02-libuchardet0_0.0.6-3_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../03-groff-base_1.22.4-3_arm64.deb ... Unpacking groff-base (1.22.4-3) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../04-libpipeline1_1.5.1-2_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../05-man-db_2.8.5-2_arm64.deb ... Unpacking man-db (2.8.5-2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../06-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../07-libmagic-mgc_1%3a5.35-4+deb10u1_arm64.deb ... Unpacking libmagic-mgc (1:5.35-4+deb10u1) ... Selecting previously unselected package libmagic1:arm64. Preparing to unpack .../08-libmagic1_1%3a5.35-4+deb10u1_arm64.deb ... Unpacking libmagic1:arm64 (1:5.35-4+deb10u1) ... Selecting previously unselected package file. Preparing to unpack .../09-file_1%3a5.35-4+deb10u1_arm64.deb ... Unpacking file (1:5.35-4+deb10u1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../10-gettext-base_0.19.8.1-9_arm64.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package libedit2:arm64. Preparing to unpack .../11-libedit2_3.1-20181209-1_arm64.deb ... Unpacking libedit2:arm64 (3.1-20181209-1) ... Selecting previously unselected package libkeyutils1:arm64. Preparing to unpack .../12-libkeyutils1_1.6-6_arm64.deb ... Unpacking libkeyutils1:arm64 (1.6-6) ... Selecting previously unselected package libkrb5support0:arm64. Preparing to unpack .../13-libkrb5support0_1.17-3_arm64.deb ... Unpacking libkrb5support0:arm64 (1.17-3) ... Selecting previously unselected package libk5crypto3:arm64. Preparing to unpack .../14-libk5crypto3_1.17-3_arm64.deb ... Unpacking libk5crypto3:arm64 (1.17-3) ... Selecting previously unselected package libssl1.1:arm64. Preparing to unpack .../15-libssl1.1_1.1.1d-0+deb10u3_arm64.deb ... Unpacking libssl1.1:arm64 (1.1.1d-0+deb10u3) ... Selecting previously unselected package libkrb5-3:arm64. Preparing to unpack .../16-libkrb5-3_1.17-3_arm64.deb ... Unpacking libkrb5-3:arm64 (1.17-3) ... Selecting previously unselected package libgssapi-krb5-2:arm64. Preparing to unpack .../17-libgssapi-krb5-2_1.17-3_arm64.deb ... Unpacking libgssapi-krb5-2:arm64 (1.17-3) ... Selecting previously unselected package openssh-client. Preparing to unpack .../18-openssh-client_1%3a7.9p1-10+deb10u2_arm64.deb ... Unpacking openssh-client (1:7.9p1-10+deb10u2) ... Selecting previously unselected package libsigsegv2:arm64. Preparing to unpack .../19-libsigsegv2_2.12-2_arm64.deb ... Unpacking libsigsegv2:arm64 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../20-m4_1.4.18-2_arm64.deb ... Unpacking m4 (1.4.18-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../21-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../22-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../23-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../24-autopoint_0.19.8.1-9_all.deb ... Unpacking autopoint (0.19.8.1-9) ... Selecting previously unselected package libtool. Preparing to unpack .../25-libtool_2.4.6-9_all.deb ... Unpacking libtool (2.4.6-9) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../26-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../27-libarchive-zip-perl_1.64-1_all.deb ... Unpacking libarchive-zip-perl (1.64-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../28-libfile-stripnondeterminism-perl_1.1.2-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.1.2-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../29-dh-strip-nondeterminism_1.1.2-1_all.deb ... Unpacking dh-strip-nondeterminism (1.1.2-1) ... Selecting previously unselected package libelf1:arm64. Preparing to unpack .../30-libelf1_0.176-1.1_arm64.deb ... Unpacking libelf1:arm64 (0.176-1.1) ... Selecting previously unselected package dwz. Preparing to unpack .../31-dwz_0.12-3_arm64.deb ... Unpacking dwz (0.12-3) ... Selecting previously unselected package libglib2.0-0:arm64. Preparing to unpack .../32-libglib2.0-0_2.58.3-2+deb10u2_arm64.deb ... Unpacking libglib2.0-0:arm64 (2.58.3-2+deb10u2) ... Selecting previously unselected package libicu63:arm64. Preparing to unpack .../33-libicu63_63.1-6+deb10u1_arm64.deb ... Unpacking libicu63:arm64 (63.1-6+deb10u1) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../34-libxml2_2.9.4+dfsg1-7+b3_arm64.deb ... Unpacking libxml2:arm64 (2.9.4+dfsg1-7+b3) ... Selecting previously unselected package libcroco3:arm64. Preparing to unpack .../35-libcroco3_0.6.12-3_arm64.deb ... Unpacking libcroco3:arm64 (0.6.12-3) ... Selecting previously unselected package libncurses6:arm64. Preparing to unpack .../36-libncurses6_6.1+20181013-2+deb10u2_arm64.deb ... Unpacking libncurses6:arm64 (6.1+20181013-2+deb10u2) ... Selecting previously unselected package gettext. Preparing to unpack .../37-gettext_0.19.8.1-9_arm64.deb ... Unpacking gettext (0.19.8.1-9) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../38-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 .../39-po-debconf_1.0.21_all.deb ... Unpacking po-debconf (1.0.21) ... Selecting previously unselected package debhelper. Preparing to unpack .../40-debhelper_12.1.1_all.deb ... Unpacking debhelper (12.1.1) ... Selecting previously unselected package libnl-3-200:arm64. Preparing to unpack .../41-libnl-3-200_3.4.0-1_arm64.deb ... Unpacking libnl-3-200:arm64 (3.4.0-1) ... Selecting previously unselected package libnl-route-3-200:arm64. Preparing to unpack .../42-libnl-route-3-200_3.4.0-1_arm64.deb ... Unpacking libnl-route-3-200:arm64 (3.4.0-1) ... Selecting previously unselected package libibverbs1:arm64. Preparing to unpack .../43-libibverbs1_22.1-1_arm64.deb ... Unpacking libibverbs1:arm64 (22.1-1) ... Selecting previously unselected package ibverbs-providers:arm64. Preparing to unpack .../44-ibverbs-providers_22.1-1_arm64.deb ... Unpacking ibverbs-providers:arm64 (22.1-1) ... Selecting previously unselected package libevent-2.1-6:arm64. Preparing to unpack .../45-libevent-2.1-6_2.1.8-stable-4_arm64.deb ... Unpacking libevent-2.1-6:arm64 (2.1.8-stable-4) ... Selecting previously unselected package libevent-core-2.1-6:arm64. Preparing to unpack .../46-libevent-core-2.1-6_2.1.8-stable-4_arm64.deb ... Unpacking libevent-core-2.1-6:arm64 (2.1.8-stable-4) ... Selecting previously unselected package libevent-pthreads-2.1-6:arm64. Preparing to unpack .../47-libevent-pthreads-2.1-6_2.1.8-stable-4_arm64.deb ... Unpacking libevent-pthreads-2.1-6:arm64 (2.1.8-stable-4) ... Selecting previously unselected package libgfortran5:arm64. Preparing to unpack .../48-libgfortran5_8.3.0-6_arm64.deb ... Unpacking libgfortran5:arm64 (8.3.0-6) ... Selecting previously unselected package libgslcblas0:arm64. Preparing to unpack .../49-libgslcblas0_2.5+dfsg-6_arm64.deb ... Unpacking libgslcblas0:arm64 (2.5+dfsg-6) ... Selecting previously unselected package libgsl23:arm64. Preparing to unpack .../50-libgsl23_2.5+dfsg-6_arm64.deb ... Unpacking libgsl23:arm64 (2.5+dfsg-6) ... Selecting previously unselected package libgsl-dev. Preparing to unpack .../51-libgsl-dev_2.5+dfsg-6_arm64.deb ... Unpacking libgsl-dev (2.5+dfsg-6) ... Selecting previously unselected package libltdl7:arm64. Preparing to unpack .../52-libltdl7_2.4.6-9_arm64.deb ... Unpacking libltdl7:arm64 (2.4.6-9) ... Selecting previously unselected package libnuma1:arm64. Preparing to unpack .../53-libnuma1_2.0.12-1_arm64.deb ... Unpacking libnuma1:arm64 (2.0.12-1) ... Selecting previously unselected package libhwloc5:arm64. Preparing to unpack .../54-libhwloc5_1.11.12-3_arm64.deb ... Unpacking libhwloc5:arm64 (1.11.12-3) ... Selecting previously unselected package libnuma-dev:arm64. Preparing to unpack .../55-libnuma-dev_2.0.12-1_arm64.deb ... Unpacking libnuma-dev:arm64 (2.0.12-1) ... Selecting previously unselected package libltdl-dev:arm64. Preparing to unpack .../56-libltdl-dev_2.4.6-9_arm64.deb ... Unpacking libltdl-dev:arm64 (2.4.6-9) ... Selecting previously unselected package libhwloc-dev:arm64. Preparing to unpack .../57-libhwloc-dev_1.11.12-3_arm64.deb ... Unpacking libhwloc-dev:arm64 (1.11.12-3) ... Selecting previously unselected package libpciaccess0:arm64. Preparing to unpack .../58-libpciaccess0_0.14-1_arm64.deb ... Unpacking libpciaccess0:arm64 (0.14-1) ... Selecting previously unselected package ocl-icd-libopencl1:arm64. Preparing to unpack .../59-ocl-icd-libopencl1_2.2.12-2_arm64.deb ... Unpacking ocl-icd-libopencl1:arm64 (2.2.12-2) ... Selecting previously unselected package libhwloc-plugins:arm64. Preparing to unpack .../60-libhwloc-plugins_1.11.12-3_arm64.deb ... Unpacking libhwloc-plugins:arm64 (1.11.12-3) ... Selecting previously unselected package libnl-3-dev:arm64. Preparing to unpack .../61-libnl-3-dev_3.4.0-1_arm64.deb ... Unpacking libnl-3-dev:arm64 (3.4.0-1) ... Selecting previously unselected package libnl-route-3-dev:arm64. Preparing to unpack .../62-libnl-route-3-dev_3.4.0-1_arm64.deb ... Unpacking libnl-route-3-dev:arm64 (3.4.0-1) ... Selecting previously unselected package libibverbs-dev:arm64. Preparing to unpack .../63-libibverbs-dev_22.1-1_arm64.deb ... Unpacking libibverbs-dev:arm64 (22.1-1) ... Selecting previously unselected package libpmix2:arm64. Preparing to unpack .../64-libpmix2_3.1.2-3_arm64.deb ... Unpacking libpmix2:arm64 (3.1.2-3) ... Selecting previously unselected package libopenmpi3:arm64. Preparing to unpack .../65-libopenmpi3_3.1.3-11_arm64.deb ... Unpacking libopenmpi3:arm64 (3.1.3-11) ... Selecting previously unselected package openmpi-common. Preparing to unpack .../66-openmpi-common_3.1.3-11_all.deb ... Unpacking openmpi-common (3.1.3-11) ... Selecting previously unselected package openmpi-bin. Preparing to unpack .../67-openmpi-bin_3.1.3-11_arm64.deb ... Unpacking openmpi-bin (3.1.3-11) ... Selecting previously unselected package libopenmpi-dev:arm64. Preparing to unpack .../68-libopenmpi-dev_3.1.3-11_arm64.deb ... Unpacking libopenmpi-dev:arm64 (3.1.3-11) ... Setting up libpipeline1:arm64 (1.5.1-2) ... Setting up libpciaccess0:arm64 (0.14-1) ... Setting up libkeyutils1:arm64 (1.6-6) ... Setting up libgslcblas0:arm64 (2.5+dfsg-6) ... Setting up libmagic-mgc (1:5.35-4+deb10u1) ... Setting up libarchive-zip-perl (1.64-1) ... Setting up libglib2.0-0:arm64 (2.58.3-2+deb10u2) ... No schema files found: doing nothing. Setting up libssl1.1:arm64 (1.1.1d-0+deb10u3) ... Setting up libmagic1:arm64 (1:5.35-4+deb10u1) ... Setting up gettext-base (0.19.8.1-9) ... Setting up file (1:5.35-4+deb10u1) ... Setting up libicu63:arm64 (63.1-6+deb10u1) ... Setting up libkrb5support0:arm64 (1.17-3) ... Setting up autotools-dev (20180224.1) ... Setting up libgsl23:arm64 (2.5+dfsg-6) ... Setting up libncurses6:arm64 (6.1+20181013-2+deb10u2) ... Setting up libsigsegv2:arm64 (2.12-2) ... Setting up autopoint (0.19.8.1-9) ... Setting up libk5crypto3:arm64 (1.17-3) ... Setting up libltdl7:arm64 (2.4.6-9) ... Setting up libevent-core-2.1-6:arm64 (2.1.8-stable-4) ... Setting up libgfortran5:arm64 (8.3.0-6) ... Setting up libevent-2.1-6:arm64 (2.1.8-stable-4) ... Setting up libnuma1:arm64 (2.0.12-1) ... Setting up sensible-utils (0.0.12) ... Setting up ocl-icd-libopencl1:arm64 (2.2.12-2) ... Setting up libuchardet0:arm64 (0.0.6-3) ... Setting up libnl-3-200:arm64 (3.4.0-1) ... Setting up openmpi-common (3.1.3-11) ... Setting up libkrb5-3:arm64 (1.17-3) ... Setting up libbsd0:arm64 (0.9.1-2) ... Setting up libelf1:arm64 (0.176-1.1) ... Setting up libxml2:arm64 (2.9.4+dfsg1-7+b3) ... Setting up libfile-stripnondeterminism-perl (1.1.2-1) ... Setting up libevent-pthreads-2.1-6:arm64 (2.1.8-stable-4) ... Setting up libgsl-dev (2.5+dfsg-6) ... Setting up libtool (2.4.6-9) ... Setting up libhwloc5:arm64 (1.11.12-3) ... Setting up libedit2:arm64 (3.1-20181209-1) ... Setting up m4 (1.4.18-2) ... Setting up libhwloc-plugins:arm64 (1.11.12-3) ... Setting up libnuma-dev:arm64 (2.0.12-1) ... Setting up libnl-route-3-200:arm64 (3.4.0-1) ... Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libgssapi-krb5-2:arm64 (1.17-3) ... Setting up libcroco3:arm64 (0.6.12-3) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.12-3) ... Setting up libnl-3-dev:arm64 (3.4.0-1) ... Setting up groff-base (1.22.4-3) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libibverbs1:arm64 (22.1-1) ... Setting up gettext (0.19.8.1-9) ... Setting up libpmix2:arm64 (3.1.2-3) ... Setting up ibverbs-providers:arm64 (22.1-1) ... Setting up openssh-client (1:7.9p1-10+deb10u2) ... Setting up libopenmpi3:arm64 (3.1.3-11) ... Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libnl-route-3-dev:arm64 (3.4.0-1) ... Setting up libltdl-dev:arm64 (2.4.6-9) ... Setting up libhwloc-dev:arm64 (1.11.12-3) ... Setting up openmpi-bin (3.1.3-11) ... 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 po-debconf (1.0.21) ... Setting up libibverbs-dev:arm64 (22.1-1) ... Setting up libopenmpi-dev:arm64 (3.1.3-11) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/openmpi/include to provide /usr/include/aarch64-linux-gnu/mpi (mpi-aarch64-linux-gnu) in auto mode Setting up debhelper (12.1.1) ... Setting up dh-autoreconf (19) ... Setting up dh-strip-nondeterminism (1.1.2-1) ... Processing triggers for libc-bin (2.28-10) ... 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 Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/ampliconnoise-1.29/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package ampliconnoise dpkg-buildpackage: info: source version 1.29-8 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 fakeroot debian/rules clean dh clean dh_auto_clean make -j8 clean make[1]: Entering directory '/build/ampliconnoise-1.29' (cd FCluster && make clean) make[2]: Entering directory '/build/ampliconnoise-1.29/FCluster' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. rm -rf *o FCluster make[2]: Leaving directory '/build/ampliconnoise-1.29/FCluster' (cd FastaUnique && make clean) make[2]: Entering directory '/build/ampliconnoise-1.29/FastaUnique' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. rm -rf *.o FastaUnique make[2]: Leaving directory '/build/ampliconnoise-1.29/FastaUnique' (cd NDist && make clean) make[2]: Entering directory '/build/ampliconnoise-1.29/NDist' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. rm -rf *.o NDist make[2]: Leaving directory '/build/ampliconnoise-1.29/NDist' (cd PyroDist && make clean) make[2]: Entering directory '/build/ampliconnoise-1.29/PyroDist' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. rm -rf *.o PyroDist make[2]: Leaving directory '/build/ampliconnoise-1.29/PyroDist' (cd PyroNoise && make clean) make[2]: Entering directory '/build/ampliconnoise-1.29/PyroNoise' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. rm -rf *.o PyroNoise make[2]: Leaving directory '/build/ampliconnoise-1.29/PyroNoise' (cd PyroNoiseM && make clean) make[2]: Entering directory '/build/ampliconnoise-1.29/PyroNoiseM' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. rm -rf *.o PyroNoiseM make[2]: Leaving directory '/build/ampliconnoise-1.29/PyroNoiseM' (cd PyroNoiseA && make clean) make[2]: Entering directory '/build/ampliconnoise-1.29/PyroNoiseA' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. rm -rf *.o PyroNoiseA make[2]: Leaving directory '/build/ampliconnoise-1.29/PyroNoiseA' (cd SeqDist && make clean) make[2]: Entering directory '/build/ampliconnoise-1.29/SeqDist' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. rm -rf *.o SeqDist make[2]: Leaving directory '/build/ampliconnoise-1.29/SeqDist' (cd SeqNoise && make clean) make[2]: Entering directory '/build/ampliconnoise-1.29/SeqNoise' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. rm -rf *.o SeqNoise make[2]: Leaving directory '/build/ampliconnoise-1.29/SeqNoise' (cd SplitClusterEven && make clean) make[2]: Entering directory '/build/ampliconnoise-1.29/SplitClusterEven' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. rm -rf *.o SplitClusterEven make[2]: Leaving directory '/build/ampliconnoise-1.29/SplitClusterEven' (cd SplitClusterClust && make clean) make[2]: Entering directory '/build/ampliconnoise-1.29/SplitClusterClust' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. rm -rf *.o SplitClusterClust make[2]: Leaving directory '/build/ampliconnoise-1.29/SplitClusterClust' (cd Perseus && make clean) make[2]: Entering directory '/build/ampliconnoise-1.29/Perseus' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. rm -rf *.o Perseus make[2]: Leaving directory '/build/ampliconnoise-1.29/Perseus' (cd PerseusD && make clean) make[2]: Entering directory '/build/ampliconnoise-1.29/PerseusD' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. rm -rf *.o PerseusD make[2]: Leaving directory '/build/ampliconnoise-1.29/PerseusD' (cd bin && rm -rf *) make[1]: Leaving directory '/build/ampliconnoise-1.29' debian/rules override_dh_clean make[1]: Entering directory '/build/ampliconnoise-1.29' dh_clean rm -f *.o rm -f *.1 make[1]: Leaving directory '/build/ampliconnoise-1.29' debian/rules build dh build dh_update_autotools_config dh_autoreconf dh_auto_configure dh_auto_build make -j8 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/ampliconnoise-1.29' (cd FCluster && CFLAGS="-g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/ampliconnoise-1.29/FCluster' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. cc -g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c FCluster.c FCluster.c:223:1: warning: return type defaults to 'int' [-Wimplicit-int] UpdateMinCacheForMarkedRows(struct t_Min* asMin,float** aafDistMatrix,int nN) ^~~~~~~~~~~~~~~~~~~~~~~~~~~ FCluster.c: In function 'UpdateMinCacheForMarkedRows': FCluster.c:230:13: warning: implicit declaration of function 'UpdateMinCacheForRow'; did you mean 'UpdateMinCacheForMarkedRows'? [-Wimplicit-function-declaration] UpdateMinCacheForRow(asMin,i,aafDistMatrix); ^~~~~~~~~~~~~~~~~~~~ UpdateMinCacheForMarkedRows FCluster.c: At top level: FCluster.c:237:1: warning: return type defaults to 'int' [-Wimplicit-int] UpdateMinCacheForRow(struct t_Min* asMin,int i,float** aafDistMatrix) ^~~~~~~~~~~~~~~~~~~~ linking... cc -Wl,-z,relro -Wl,-z,now -o FCluster FCluster.o -lm make[2]: Leaving directory '/build/ampliconnoise-1.29/FCluster' (cd FastaUnique && CFLAGS="-g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/ampliconnoise-1.29/FastaUnique' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. cc -g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c FastaUnique.c linking... cc -Wl,-z,relro -Wl,-z,now -o FastaUnique FastaUnique.o -lm make[2]: Leaving directory '/build/ampliconnoise-1.29/FastaUnique' (cd NDist && CFLAGS="-g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/ampliconnoise-1.29/NDist' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. mpicc -g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c NDist.c NDist.c: In function 'readData': NDist.c:707:52: warning: implicit declaration of function 'toupper' [-Wimplicit-function-declaration] ptData->acSequences[(nSequences - 1)*nM + nPos] = toupper(szLine[i]); ^~~~~~~ linking... mpicc -Wl,-z,relro -Wl,-z,now -o NDist NDist.o -lm make[2]: Leaving directory '/build/ampliconnoise-1.29/NDist' (cd PyroDist && CFLAGS="-g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/ampliconnoise-1.29/PyroDist' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. mpicc -g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c PyroDist.c linking... mpicc -Wl,-z,relro -Wl,-z,now -o PyroDist PyroDist.o -lm make[2]: Leaving directory '/build/ampliconnoise-1.29/PyroDist' (cd PyroNoise && CFLAGS="-g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/ampliconnoise-1.29/PyroNoise' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. mpicc -g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c PyroNoise.c PyroNoise.c: In function 'writeCentroids': PyroNoise.c:2073:21: warning: too many arguments for format [-Wformat-extra-args] fprintf(stderr, "Can't open szCenFile for writing\n",szCenFile); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ linking... mpicc -Wl,-z,relro -Wl,-z,now -o PyroNoise PyroNoise.o -lm make[2]: Leaving directory '/build/ampliconnoise-1.29/PyroNoise' (cd SeqDist && CFLAGS="-g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/ampliconnoise-1.29/SeqDist' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. mpicc -g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c SeqDist.c SeqDist.c: In function 'readData': SeqDist.c:854:52: warning: implicit declaration of function 'toupper' [-Wimplicit-function-declaration] ptData->acSequences[(nSequences - 1)*nM + nPos] = toupper(szLine[i]); ^~~~~~~ linking... mpicc -Wl,-z,relro -Wl,-z,now -o SeqDist SeqDist.o -lm make[2]: Leaving directory '/build/ampliconnoise-1.29/SeqDist' (cd PyroNoiseM && CFLAGS="-g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/ampliconnoise-1.29/PyroNoiseM' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. mpicc -g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c PyroNoiseM.c PyroNoiseM.c: In function 'writeCentroids': PyroNoiseM.c:2139:21: warning: too many arguments for format [-Wformat-extra-args] fprintf(stderr, "Can't open szCenFile for writing\n",szCenFile); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ linking... mpicc -Wl,-z,relro -Wl,-z,now -o PyroNoiseM PyroNoiseM.o -lm make[2]: Leaving directory '/build/ampliconnoise-1.29/PyroNoiseM' (cd PyroNoiseA && CFLAGS="-g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/ampliconnoise-1.29/PyroNoiseA' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. mpicc -O3 -c PyroNoiseA.c linking... mpicc -o PyroNoiseA PyroNoiseA.o -lm -Wl,-z,relro -Wl,-z,now make[2]: Leaving directory '/build/ampliconnoise-1.29/PyroNoiseA' (cd SeqNoise && CFLAGS="-g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/ampliconnoise-1.29/SeqNoise' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. mpicc -g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c SeqNoise.c SeqNoise.c: In function 'main': SeqNoise.c:120:25: warning: too many arguments for format [-Wformat-extra-args] if(bVerbose){printf("%d: Broadcast distance matrix\n", rank, nSize, nPacket); fflush(stdout);} ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SeqNoise.c: In function 'readData': SeqNoise.c:652:52: warning: implicit declaration of function 'toupper' [-Wimplicit-function-declaration] ptData->acSequences[(nSequences - 1)*nM + nPos] = toupper(szLine[i]); ^~~~~~~ linking... mpicc -Wl,-z,relro -Wl,-z,now -o SeqNoise SeqNoise.o -lm make[2]: Leaving directory '/build/ampliconnoise-1.29/SeqNoise' (cd SplitClusterEven && CFLAGS="-g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/ampliconnoise-1.29/SplitClusterEven' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. cc -g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c SplitClusterEven.c SplitClusterEven.c: In function 'readMapFile': SplitClusterEven.c:681:19: warning: too many arguments for format [-Wformat-extra-args] fprintf(stderr, "Failed to open map file\n", szMapFile); ^~~~~~~~~~~~~~~~~~~~~~~~~~~ SplitClusterEven.c: In function 'main': SplitClusterEven.c:89:28: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(szTreeFile,"%s/%s%s",szDir,szDir,TREE_SUFFIX); ^~ ~~~~~ SplitClusterEven.c:89:5: note: 'sprintf' output between 7 and 2053 bytes into a destination of size 1024 sprintf(szTreeFile,"%s/%s%s",szDir,szDir,TREE_SUFFIX); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SplitClusterEven.c:90:27: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX); ^~ ~~~~~ SplitClusterEven.c:90:5: note: 'sprintf' output between 6 and 2052 bytes into a destination of size 1024 sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SplitClusterEven.c:91:28: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(szListFile,"%s/%s%s",szDir,szDir,LIST_SUFFIX); ^~ ~~~~~ SplitClusterEven.c:91:5: note: 'sprintf' output between 7 and 2053 bytes into a destination of size 1024 sprintf(szListFile,"%s/%s%s",szDir,szDir,LIST_SUFFIX); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SplitClusterEven.c:142:30: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(szTreeFile,"%s/%s%s",szDir,szDir,TREE_SUFFIX); ^~ ~~~~~ SplitClusterEven.c:142:7: note: 'sprintf' output between 7 and 2053 bytes into a destination of size 1024 sprintf(szTreeFile,"%s/%s%s",szDir,szDir,TREE_SUFFIX); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SplitClusterEven.c:143:29: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX); ^~ ~~~~~ SplitClusterEven.c:143:7: note: 'sprintf' output between 6 and 2052 bytes into a destination of size 1024 sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SplitClusterEven.c:144:30: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(szListFile,"%s/%s%s",szDir,szDir,LIST_SUFFIX); ^~ ~~~~~ SplitClusterEven.c:144:7: note: 'sprintf' output between 7 and 2053 bytes into a destination of size 1024 sprintf(szListFile,"%s/%s%s",szDir,szDir,LIST_SUFFIX); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ linking... cc -Wl,-z,relro -Wl,-z,now -o SplitClusterEven SplitClusterEven.o -lm make[2]: Leaving directory '/build/ampliconnoise-1.29/SplitClusterEven' (cd SplitClusterClust && CFLAGS="-g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/ampliconnoise-1.29/SplitClusterClust' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. gcc -g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c SplitClusterClust.c SplitClusterClust.c: In function 'readMapFile': SplitClusterClust.c:316:19: warning: too many arguments for format [-Wformat-extra-args] fprintf(stderr, "Failed to open map file\n", szMapFile); ^~~~~~~~~~~~~~~~~~~~~~~~~~~ SplitClusterClust.c: In function 'main': SplitClusterClust.c:52:29: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX); ^~ ~~~~~ SplitClusterClust.c:52:7: note: 'sprintf' output between 6 and 2052 bytes into a destination of size 1024 sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SplitClusterClust.c:88:29: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX); ^~ ~~~~~ SplitClusterClust.c:88:7: note: 'sprintf' output between 6 and 2052 bytes into a destination of size 1024 sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ linking... gcc -Wl,-z,relro -Wl,-z,now -o SplitClusterClust SplitClusterClust.o -lm make[2]: Leaving directory '/build/ampliconnoise-1.29/SplitClusterClust' (cd Perseus && CFLAGS="-g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/ampliconnoise-1.29/Perseus' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. cc -g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c Perseus.c Perseus.c: In function 'readData': Perseus.c:856:52: warning: implicit declaration of function 'toupper' [-Wimplicit-function-declaration] ptData->acSequences[(nSequences - 1)*nM + nPos] = toupper(szLine[i]); ^~~~~~~ Perseus.c: In function 'calcLoonIndex': Perseus.c:1637:34: warning: '%s' directive writing up to 65535 bytes into a region of size 65524 [-Wformat-overflow=] sprintf(szCommand,"mafft-linsi %s > %s 2> %s",szTempFasta,szTempAlign, TEMP_ERROR_FILE); ^~ ~~~~~~~~~~~ Perseus.c:1637:3: note: 'sprintf' output between 28 and 131098 bytes into a destination of size 65536 sprintf(szCommand,"mafft-linsi %s > %s 2> %s",szTempFasta,szTempAlign, TEMP_ERROR_FILE); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ linking... cc -Wl,-z,relro -Wl,-z,now -o Perseus Perseus.o -lm -lgsl -lgslcblas make[2]: Leaving directory '/build/ampliconnoise-1.29/Perseus' (cd PerseusD && CFLAGS="-g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/ampliconnoise-1.29/PerseusD' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. cc -g -O2 -ffile-prefix-map=/build/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c PerseusD.c PerseusD.c: In function 'readData': PerseusD.c:908:52: warning: implicit declaration of function 'toupper' [-Wimplicit-function-declaration] ptData->acSequences[(nSequences - 1)*nM + nPos] = toupper(szLine[i]); ^~~~~~~ PerseusD.c: In function 'calcLoonIndex': PerseusD.c:1648:34: warning: '%s' directive writing up to 65535 bytes into a region of size 65524 [-Wformat-overflow=] sprintf(szCommand,"mafft-linsi %s > %s 2> %s",szTempFasta,szTempAlign, TEMP_ERROR_FILE); ^~ ~~~~~~~~~~~ PerseusD.c:1648:3: note: 'sprintf' output between 28 and 131098 bytes into a destination of size 65536 sprintf(szCommand,"mafft-linsi %s > %s 2> %s",szTempFasta,szTempAlign, TEMP_ERROR_FILE); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ linking... cc -Wl,-z,relro -Wl,-z,now -o PerseusD PerseusD.o -lm -lgsl -lgslcblas make[2]: Leaving directory '/build/ampliconnoise-1.29/PerseusD' make[1]: Leaving directory '/build/ampliconnoise-1.29' dh_auto_test create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary dh_testroot dh_prep debian/rules override_dh_auto_install make[1]: Entering directory '/build/ampliconnoise-1.29' make install make[2]: Entering directory '/build/ampliconnoise-1.29' cp FCluster/FCluster bin cp FastaUnique/FastaUnique bin cp NDist/NDist bin cp PyroDist/PyroDist bin cp PyroNoise/PyroNoise bin cp PyroNoiseM/PyroNoiseM bin cp PyroNoiseA/PyroNoiseA bin cp SeqDist/SeqDist bin cp SeqNoise/SeqNoise bin cp SplitClusterEven/SplitClusterEven bin cp SplitClusterClust/SplitClusterClust bin cp Perseus/Perseus bin cp PerseusD/PerseusD bin make[2]: Leaving directory '/build/ampliconnoise-1.29' dh_install bin/* /usr/bin dh_install Data/* /usr/share/ampliconnoise/Data/ dh_install Scripts/* /usr/share/ampliconnoise/Scripts/ make[1]: Leaving directory '/build/ampliconnoise-1.29' dh_installdocs dh_installchangelogs debian/rules override_dh_installman make[1]: Entering directory '/build/ampliconnoise-1.29' debian/ampliconnoise.pod pod2man -c AmpliconNoise Documentation debian/ampliconnoise.pod > ampliconnoise.1 dh_installman ampliconnoise.1 ( for f in bin/* ; do \ ln -s ampliconnoise.1 debian/ampliconnoise/usr/share/man/man1/`basename "$f"`.1 ; \ done ) make[1]: Leaving directory '/build/ampliconnoise-1.29' dh_perl dh_link dh_strip_nondeterminism debian/rules override_dh_compress make[1]: Entering directory '/build/ampliconnoise-1.29' dh_compress --exclude=.pdf make[1]: Leaving directory '/build/ampliconnoise-1.29' dh_fixperms dh_missing dh_strip dh_makeshlibs dh_shlibdeps dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/ampliconnoise/usr/bin/PerseusD debian/ampliconnoise/usr/bin/Perseus were not linked against libgslcblas.so.0 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/ampliconnoise/usr/bin/PyroNoiseA debian/ampliconnoise/usr/bin/PyroNoiseM debian/ampliconnoise/usr/bin/SeqDist debian/ampliconnoise/usr/bin/PyroNoise debian/ampliconnoise/usr/bin/NDist debian/ampliconnoise/usr/bin/SeqNoise debian/ampliconnoise/usr/bin/PyroDist were not linked against libpthread.so.0 (they use none of the library's symbols) dh_installdeb dh_gencontrol dpkg-gencontrol: warning: package ampliconnoise: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: package ampliconnoise: substitution variable ${perl:Depends} unused, but is defined dh_md5sums dh_builddeb dpkg-deb: building package 'ampliconnoise-dbgsym' in '../ampliconnoise-dbgsym_1.29-8_arm64.deb'. dpkg-deb: building package 'ampliconnoise' in '../ampliconnoise_1.29-8_arm64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../ampliconnoise_1.29-8_arm64.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/9954 and its subdirectories I: Current time: Sat Sep 11 08:44:04 -12 2021 I: pbuilder-time-stamp: 1631393044