Sun Oct 27 17:16:02 UTC 2024 I: starting to build ampliconnoise/unstable/i386 on jenkins on '2024-10-27 17:15' Sun Oct 27 17:16:02 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_8/45742/console.log Sun Oct 27 17:16:02 UTC 2024 I: Downloading source for unstable/ampliconnoise=1.29-13 --2024-10-27 17:16:02-- http://deb.debian.org/debian/pool/main/a/ampliconnoise/ampliconnoise_1.29-13.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 1785 (1.7K) [text/prs.lines.tag] Saving to: ‘ampliconnoise_1.29-13.dsc’ 0K . 100% 231M=0s 2024-10-27 17:16:02 (231 MB/s) - ‘ampliconnoise_1.29-13.dsc’ saved [1785/1785] Sun Oct 27 17:16:02 UTC 2024 I: ampliconnoise_1.29-13.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: ampliconnoise Binary: ampliconnoise Architecture: any Version: 1.29-13 Maintainer: Debian Med Packaging Team Uploaders: Tim Booth , Andreas Tille , Pranav Ballaney Homepage: https://github.com/lanzen/ampliconnoise Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/ampliconnoise Vcs-Git: https://salsa.debian.org/med-team/ampliconnoise.git Testsuite: autopkgtest Testsuite-Triggers: openmpi-bin Build-Depends: debhelper-compat (= 13), libgsl-dev, libopenmpi-dev Package-List: ampliconnoise deb science optional arch=any Checksums-Sha1: 743cbd53fa3410dea902f3dc82864041defc3c4b 1403119 ampliconnoise_1.29.orig.tar.gz 8d5dd578d6f0426de97b4972a2c6bde358cb806a 12068 ampliconnoise_1.29-13.debian.tar.xz Checksums-Sha256: 0bf946806d77ecaf0994ad8ebf9a5e98ad33c809f6def5c9340a16c367918167 1403119 ampliconnoise_1.29.orig.tar.gz b4c5b47b75ecedcc2e3d2fac738c0ac8a93fdbb4caf940dc876e8f1fdbabe795 12068 ampliconnoise_1.29-13.debian.tar.xz Files: d6723e6f9cc71d7eb6f1a65ba4643aac 1403119 ampliconnoise_1.29.orig.tar.gz 2e7d064fe3b0896392235a0bb1e4d82a 12068 ampliconnoise_1.29-13.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQEzBAEBCgAdFiEE1Uw7+v+wQt44LaXXQc5/C58bizIFAma0EJYACgkQQc5/C58b izIaigf/SdozNu6gaBfnob4E1C4NILRPMjx1HnRCj9fRDFZ5SgJjpMx/nktZJRwn d1tE02rdpdX547X5/Zz6XTbjYORfeFoKgJpaefm08DyTzVGQYbUlboBG72pYMdFo r8xH5Q0wTb0G2T5LFREdJ34CVA+scdjqFp9/7BzjJn65FPOEpDdPE4+Lv5OqzaS6 MW0JWuCwQHnJtgEEgQ2J5KqBJVrVbui4U1D7HmC0niYvxSD0t1fgdGhwnJtNdgX0 F1lZ441X/hyZ70mUrIyONOjXlq9Al8/TVVlY1qCQf4Muzs+IIgbZsjjSpMtP45ws SCf17F58QjLFpv9Sf3a2MpGft6upeg== =n4Lz -----END PGP SIGNATURE----- Sun Oct 27 17:16:02 UTC 2024 I: Checking whether the package is not for us Sun Oct 27 17:16:02 UTC 2024 I: Starting 1st build on remote node ionos16-i386.debian.net. Sun Oct 27 17:16:02 UTC 2024 I: Preparing to do remote build '1' on ionos16-i386.debian.net. Sun Oct 27 17:17:00 UTC 2024 I: Deleting $TMPDIR on ionos16-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat Nov 29 11:39:04 -12 2025 I: pbuilder-time-stamp: 1764459544 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. 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 [ampliconnoise_1.29-13.dsc] I: copying [./ampliconnoise_1.29.orig.tar.gz] I: copying [./ampliconnoise_1.29-13.debian.tar.xz] I: Extracting source gpgv: Signature made Thu Aug 8 00:25:58 2024 gpgv: using RSA key D54C3BFAFFB042DE382DA5D741CE7F0B9F1B8B32 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./ampliconnoise_1.29-13.dsc: no acceptable signature found dpkg-source: info: extracting ampliconnoise in ampliconnoise-1.29 dpkg-source: info: unpacking ampliconnoise_1.29.orig.tar.gz dpkg-source: info: unpacking ampliconnoise_1.29-13.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 dpkg-source: info: applying fix_sequence_of_function_definitions.patch dpkg-source: info: applying fix_missing_header.patch dpkg-source: info: applying gcc-14.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/64695/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' 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 parallel=22 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='301d4c168418422c940fd6b1139b1cdd' 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='64695' 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/r-b-build.t7CFYHgm/pbuilderrc_wAQ6 --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.t7CFYHgm/b1 --logfile b1/build.log ampliconnoise_1.29-13.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://213.165.73.152:3128' I: uname -a Linux ionos16-i386 6.1.0-26-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.112-1 (2024-09-30) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/64695/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), 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 ... 19933 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 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} bsdextrautils{a} cpp-13{a} cpp-13-i686-linux-gnu{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gcc-13{a} gcc-13-base{a} gcc-13-i686-linux-gnu{a} gettext{a} gettext-base{a} gfortran-13{a} gfortran-13-i686-linux-gnu{a} groff-base{a} ibverbs-providers{a} intltool-debian{a} libarchive-zip-perl{a} libcbor0.10{a} libcom-err2{a} libdebhelper-perl{a} libedit2{a} libelf1t64{a} libevent-2.1-7t64{a} libevent-core-2.1-7t64{a} libevent-dev{a} libevent-extra-2.1-7t64{a} libevent-openssl-2.1-7t64{a} libevent-pthreads-2.1-7t64{a} libfabric1{a} libfido2-1{a} libfile-stripnondeterminism-perl{a} libgcc-13-dev{a} libgfortran-13-dev{a} libgfortran5{a} libgsl-dev{a} libgsl28{a} libgslcblas0{a} libgssapi-krb5-2{a} libhwloc-dev{a} libhwloc-plugins{a} libhwloc15{a} libibverbs-dev{a} libibverbs1{a} libicu72{a} libjs-jquery{a} libjs-jquery-ui{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libltdl-dev{a} libltdl7{a} libmagic-mgc{a} libmagic1t64{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} libopenmpi3t64{a} libpciaccess0{a} libpipeline1{a} libpsm-infinipath1{a} librdmacm1t64{a} libtool{a} libuchardet0{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxml2{a} libxnvctrl0{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} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl javascript-common krb5-locales libarchive-cpio-perl libcoarrays-openmpi-dev libmail-sendmail-perl lynx wget xauth 0 packages upgraded, 91 newly installed, 0 to remove and 0 not upgraded. Need to get 82.9 MB of archives. After unpacking 306 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main i386 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main i386 libmagic-mgc i386 1:5.45-3 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main i386 libmagic1t64 i386 1:5.45-3 [114 kB] Get: 4 http://deb.debian.org/debian unstable/main i386 file i386 1:5.45-3 [42.9 kB] Get: 5 http://deb.debian.org/debian unstable/main i386 gettext-base i386 0.22.5-2 [201 kB] Get: 6 http://deb.debian.org/debian unstable/main i386 libuchardet0 i386 0.0.8-1+b1 [69.1 kB] Get: 7 http://deb.debian.org/debian unstable/main i386 groff-base i386 1.23.0-5 [1196 kB] Get: 8 http://deb.debian.org/debian unstable/main i386 bsdextrautils i386 2.40.2-9 [102 kB] Get: 9 http://deb.debian.org/debian unstable/main i386 libpipeline1 i386 1.5.8-1 [41.2 kB] Get: 10 http://deb.debian.org/debian unstable/main i386 man-db i386 2.13.0-1 [1428 kB] Get: 11 http://deb.debian.org/debian unstable/main i386 libedit2 i386 3.1-20240808-1 [98.0 kB] Get: 12 http://deb.debian.org/debian unstable/main i386 libcbor0.10 i386 0.10.2-2 [30.9 kB] Get: 13 http://deb.debian.org/debian unstable/main i386 libfido2-1 i386 1.15.0-1 [88.5 kB] Get: 14 http://deb.debian.org/debian unstable/main i386 libkrb5support0 i386 1.21.3-3 [34.9 kB] Get: 15 http://deb.debian.org/debian unstable/main i386 libcom-err2 i386 1.47.1-1 [23.1 kB] Get: 16 http://deb.debian.org/debian unstable/main i386 libk5crypto3 i386 1.21.3-3 [83.6 kB] Get: 17 http://deb.debian.org/debian unstable/main i386 libkeyutils1 i386 1.6.3-4 [9600 B] Get: 18 http://deb.debian.org/debian unstable/main i386 libkrb5-3 i386 1.21.3-3 [350 kB] Get: 19 http://deb.debian.org/debian unstable/main i386 libgssapi-krb5-2 i386 1.21.3-3 [146 kB] Get: 20 http://deb.debian.org/debian unstable/main i386 openssh-client i386 1:9.9p1-2 [1021 kB] Get: 21 http://deb.debian.org/debian unstable/main i386 m4 i386 1.4.19-4 [293 kB] Get: 22 http://deb.debian.org/debian unstable/main i386 autoconf all 2.72-3 [493 kB] Get: 23 http://deb.debian.org/debian unstable/main i386 autotools-dev all 20220109.1 [51.6 kB] Get: 24 http://deb.debian.org/debian unstable/main i386 automake all 1:1.16.5-1.3 [823 kB] Get: 25 http://deb.debian.org/debian unstable/main i386 autopoint all 0.22.5-2 [723 kB] Get: 26 http://deb.debian.org/debian unstable/main i386 gcc-13-base i386 13.3.0-8 [47.3 kB] Get: 27 http://deb.debian.org/debian unstable/main i386 cpp-13-i686-linux-gnu i386 13.3.0-8 [10.6 MB] Get: 28 http://deb.debian.org/debian unstable/main i386 cpp-13 i386 13.3.0-8 [1272 B] Get: 29 http://deb.debian.org/debian unstable/main i386 libdebhelper-perl all 13.20 [89.7 kB] Get: 30 http://deb.debian.org/debian unstable/main i386 libgcc-13-dev i386 13.3.0-8 [2499 kB] Get: 31 http://deb.debian.org/debian unstable/main i386 gcc-13-i686-linux-gnu i386 13.3.0-8 [20.6 MB] Get: 32 http://deb.debian.org/debian unstable/main i386 gcc-13 i386 13.3.0-8 [499 kB] Get: 33 http://deb.debian.org/debian unstable/main i386 libtool all 2.4.7-7 [517 kB] Get: 34 http://deb.debian.org/debian unstable/main i386 dh-autoreconf all 20 [17.1 kB] Get: 35 http://deb.debian.org/debian unstable/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 36 http://deb.debian.org/debian unstable/main i386 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 37 http://deb.debian.org/debian unstable/main i386 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 38 http://deb.debian.org/debian unstable/main i386 libelf1t64 i386 0.192-4 [195 kB] Get: 39 http://deb.debian.org/debian unstable/main i386 dwz i386 0.15-1+b1 [116 kB] Get: 40 http://deb.debian.org/debian unstable/main i386 libicu72 i386 72.1-5 [9550 kB] Get: 41 http://deb.debian.org/debian unstable/main i386 libxml2 i386 2.12.7+dfsg+really2.9.14-0.1 [733 kB] Get: 42 http://deb.debian.org/debian unstable/main i386 gettext i386 0.22.5-2 [1631 kB] Get: 43 http://deb.debian.org/debian unstable/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 44 http://deb.debian.org/debian unstable/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 45 http://deb.debian.org/debian unstable/main i386 debhelper all 13.20 [915 kB] Get: 46 http://deb.debian.org/debian unstable/main i386 libgfortran5 i386 14.2.0-7 [735 kB] Get: 47 http://deb.debian.org/debian unstable/main i386 libgfortran-13-dev i386 13.3.0-8 [783 kB] Get: 48 http://deb.debian.org/debian unstable/main i386 gfortran-13-i686-linux-gnu i386 13.3.0-8 [11.2 MB] Get: 49 http://deb.debian.org/debian unstable/main i386 gfortran-13 i386 13.3.0-8 [14.3 kB] Get: 50 http://deb.debian.org/debian unstable/main i386 libnl-3-200 i386 3.7.0-0.3 [61.8 kB] Get: 51 http://deb.debian.org/debian unstable/main i386 libnl-route-3-200 i386 3.7.0-0.3 [193 kB] Get: 52 http://deb.debian.org/debian unstable/main i386 libibverbs1 i386 52.0-2 [66.6 kB] Get: 53 http://deb.debian.org/debian unstable/main i386 ibverbs-providers i386 52.0-2 [378 kB] Get: 54 http://deb.debian.org/debian unstable/main i386 libevent-2.1-7t64 i386 2.1.12-stable-10 [194 kB] Get: 55 http://deb.debian.org/debian unstable/main i386 libevent-core-2.1-7t64 i386 2.1.12-stable-10 [140 kB] Get: 56 http://deb.debian.org/debian unstable/main i386 libevent-extra-2.1-7t64 i386 2.1.12-stable-10 [113 kB] Get: 57 http://deb.debian.org/debian unstable/main i386 libevent-pthreads-2.1-7t64 i386 2.1.12-stable-10 [54.1 kB] Get: 58 http://deb.debian.org/debian unstable/main i386 libevent-openssl-2.1-7t64 i386 2.1.12-stable-10 [61.7 kB] Get: 59 http://deb.debian.org/debian unstable/main i386 libevent-dev i386 2.1.12-stable-10 [324 kB] Get: 60 http://deb.debian.org/debian unstable/main i386 libpsm-infinipath1 i386 3.3+20.604758e7-6.3 [177 kB] Get: 61 http://deb.debian.org/debian unstable/main i386 librdmacm1t64 i386 52.0-2 [75.9 kB] Get: 62 http://deb.debian.org/debian unstable/main i386 libfabric1 i386 1.17.0-3.1 [542 kB] Get: 63 http://deb.debian.org/debian unstable/main i386 libgslcblas0 i386 2.8+dfsg-3 [106 kB] Get: 64 http://deb.debian.org/debian unstable/main i386 libgsl28 i386 2.8+dfsg-3 [978 kB] Get: 65 http://deb.debian.org/debian unstable/main i386 libgsl-dev i386 2.8+dfsg-3 [1240 kB] Get: 66 http://deb.debian.org/debian unstable/main i386 libhwloc15 i386 2.11.2-1 [177 kB] Get: 67 http://deb.debian.org/debian unstable/main i386 libnuma1 i386 2.0.18-1 [23.5 kB] Get: 68 http://deb.debian.org/debian unstable/main i386 libnuma-dev i386 2.0.18-1 [38.3 kB] Get: 69 http://deb.debian.org/debian unstable/main i386 libltdl7 i386 2.4.7-7+b1 [395 kB] Get: 70 http://deb.debian.org/debian unstable/main i386 libltdl-dev i386 2.4.7-7+b1 [167 kB] Get: 71 http://deb.debian.org/debian unstable/main i386 libhwloc-dev i386 2.11.2-1 [271 kB] Get: 72 http://deb.debian.org/debian unstable/main i386 libpciaccess0 i386 0.17-3+b1 [53.8 kB] Get: 73 http://deb.debian.org/debian unstable/main i386 libxau6 i386 1:1.0.9-1+b1 [18.5 kB] Get: 74 http://deb.debian.org/debian unstable/main i386 libxdmcp6 i386 1:1.1.2-3+b1 [24.8 kB] Get: 75 http://deb.debian.org/debian unstable/main i386 libxcb1 i386 1.17.0-2 [148 kB] Get: 76 http://deb.debian.org/debian unstable/main i386 libx11-data all 2:1.8.7-1 [328 kB] Get: 77 http://deb.debian.org/debian unstable/main i386 libx11-6 i386 2:1.8.7-1+b1 [822 kB] Get: 78 http://deb.debian.org/debian unstable/main i386 libxext6 i386 2:1.3.4-1+b2 [52.6 kB] Get: 79 http://deb.debian.org/debian unstable/main i386 libxnvctrl0 i386 535.171.04-1 [13.7 kB] Get: 80 http://deb.debian.org/debian unstable/main i386 ocl-icd-libopencl1 i386 2.3.2-1+b1 [43.5 kB] Get: 81 http://deb.debian.org/debian unstable/main i386 libhwloc-plugins i386 2.11.2-1 [18.3 kB] Get: 82 http://deb.debian.org/debian unstable/main i386 libnl-3-dev i386 3.7.0-0.3 [105 kB] Get: 83 http://deb.debian.org/debian unstable/main i386 libnl-route-3-dev i386 3.7.0-0.3 [223 kB] Get: 84 http://deb.debian.org/debian unstable/main i386 libibverbs-dev i386 52.0-2 [698 kB] Get: 85 http://deb.debian.org/debian unstable/main i386 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 86 http://deb.debian.org/debian unstable/main i386 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 87 http://deb.debian.org/debian unstable/main i386 libopenmpi3t64 i386 4.1.6-13.3 [2626 kB] Get: 88 http://deb.debian.org/debian unstable/main i386 openmpi-common all 4.1.6-13.3 [169 kB] Get: 89 http://deb.debian.org/debian unstable/main i386 zlib1g-dev i386 1:1.3.dfsg+really1.3.1-1 [915 kB] Get: 90 http://deb.debian.org/debian unstable/main i386 openmpi-bin i386 4.1.6-13.3 [198 kB] Get: 91 http://deb.debian.org/debian unstable/main i386 libopenmpi-dev i386 4.1.6-13.3 [1020 kB] Fetched 82.9 MB in 2s (39.0 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sensible-utils. (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 ... 19933 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3_i386.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:i386. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3_i386.deb ... Unpacking libmagic1t64:i386 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3_i386.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.22.5-2_i386.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../05-libuchardet0_0.0.8-1+b1_i386.deb ... Unpacking libuchardet0:i386 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-5_i386.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.2-9_i386.deb ... Unpacking bsdextrautils (2.40.2-9) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../08-libpipeline1_1.5.8-1_i386.deb ... Unpacking libpipeline1:i386 (1.5.8-1) ... 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Unpacking libjs-jquery-ui (1.13.2+dfsg-1) ... Selecting previously unselected package libopenmpi3t64:i386. Preparing to unpack .../86-libopenmpi3t64_4.1.6-13.3_i386.deb ... Unpacking libopenmpi3t64:i386 (4.1.6-13.3) ... Selecting previously unselected package openmpi-common. Preparing to unpack .../87-openmpi-common_4.1.6-13.3_all.deb ... Unpacking openmpi-common (4.1.6-13.3) ... Selecting previously unselected package zlib1g-dev:i386. Preparing to unpack .../88-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1_i386.deb ... Unpacking zlib1g-dev:i386 (1:1.3.dfsg+really1.3.1-1) ... Selecting previously unselected package openmpi-bin. Preparing to unpack .../89-openmpi-bin_4.1.6-13.3_i386.deb ... Unpacking openmpi-bin (4.1.6-13.3) ... Selecting previously unselected package libopenmpi-dev:i386. Preparing to unpack .../90-libopenmpi-dev_4.1.6-13.3_i386.deb ... Unpacking libopenmpi-dev:i386 (4.1.6-13.3) ... Setting up libpipeline1:i386 (1.5.8-1) ... Setting up libpciaccess0:i386 (0.17-3+b1) ... Setting up libxau6:i386 (1:1.0.9-1+b1) ... Setting up libxdmcp6:i386 (1:1.1.2-3+b1) ... Setting up libkeyutils1:i386 (1.6.3-4) ... Setting up libxcb1:i386 (1.17.0-2) ... Setting up libicu72:i386 (72.1-5) ... Setting up bsdextrautils (2.40.2-9) ... Setting up libgslcblas0:i386 (2.8+dfsg-3) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libcbor0.10:i386 (0.10.2-2) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.20) ... Setting up libedit2:i386 (3.1-20240808-1) ... Setting up libmagic1t64:i386 (1:5.45-3) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up libevent-2.1-7t64:i386 (2.1.12-stable-10) ... Setting up libcom-err2:i386 (1.47.1-1) ... Setting up file (1:5.45-3) ... Setting up libelf1t64:i386 (0.192-4) ... Setting up libkrb5support0:i386 (1.21.3-3) ... Setting up autotools-dev (20220109.1) ... Setting up gcc-13-base:i386 (13.3.0-8) ... Setting up libx11-data (2:1.8.7-1) ... Setting up libhwloc15:i386 (2.11.2-1) ... Setting up autopoint (0.22.5-2) ... Setting up libk5crypto3:i386 (1.21.3-3) ... Setting up libltdl7:i386 (2.4.7-7+b1) ... Setting up libgfortran5:i386 (14.2.0-7) ... Setting up autoconf (2.72-3) ... Setting up zlib1g-dev:i386 (1:1.3.dfsg+really1.3.1-1) ... Setting up libnuma1:i386 (2.0.18-1) ... Setting up dwz (0.15-1+b1) ... Setting up libgcc-13-dev:i386 (13.3.0-8) ... Setting up sensible-utils (0.0.24) ... Setting up ocl-icd-libopencl1:i386 (2.3.2-1+b1) ... Setting up libuchardet0:i386 (0.0.8-1+b1) ... Setting up libnl-3-200:i386 (3.7.0-0.3) ... Setting up openmpi-common (4.1.6-13.3) ... Setting up libx11-6:i386 (2:1.8.7-1+b1) ... Setting up libkrb5-3:i386 (1.21.3-3) ... Setting up libevent-core-2.1-7t64:i386 (2.1.12-stable-10) ... Setting up libpsm-infinipath1 (3.3+20.604758e7-6.3) ... 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 (3.6.1+dfsg+~3.5.14-1) ... Setting up libfido2-1:i386 (1.15.0-1) ... Setting up libgsl28:i386 (2.8+dfsg-3) ... Setting up libgfortran-13-dev:i386 (13.3.0-8) ... Setting up cpp-13-i686-linux-gnu (13.3.0-8) ... Setting up libxml2:i386 (2.12.7+dfsg+really2.9.14-0.1) ... Setting up gcc-13-i686-linux-gnu (13.3.0-8) ... Setting up gfortran-13-i686-linux-gnu (13.3.0-8) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.22.5-2) ... Setting up libgsl-dev (2.8+dfsg-3) ... Setting up cpp-13 (13.3.0-8) ... Setting up libtool (2.4.7-7) ... Setting up libevent-pthreads-2.1-7t64:i386 (2.1.12-stable-10) ... Setting up libevent-openssl-2.1-7t64:i386 (2.1.12-stable-10) ... Setting up libxext6:i386 (2:1.3.4-1+b2) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libnuma-dev:i386 (2.0.18-1) ... Setting up libnl-route-3-200:i386 (3.7.0-0.3) ... Setting up libxnvctrl0:i386 (535.171.04-1) ... Setting up dh-autoreconf (20) ... Setting up libltdl-dev:i386 (2.4.7-7+b1) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up gcc-13 (13.3.0-8) ... Setting up libgssapi-krb5-2:i386 (1.21.3-3) ... Setting up libevent-extra-2.1-7t64:i386 (2.1.12-stable-10) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up libnl-3-dev:i386 (3.7.0-0.3) ... Setting up groff-base (1.23.0-5) ... Setting up libhwloc-dev:i386 (2.11.2-1) ... Setting up libibverbs1:i386 (52.0-2) ... Setting up ibverbs-providers:i386 (52.0-2) ... Setting up openssh-client (1:9.9p1-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhwloc-plugins:i386 (2.11.2-1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libnl-route-3-dev:i386 (3.7.0-0.3) ... Setting up gfortran-13 (13.3.0-8) ... Setting up libevent-dev (2.1.12-stable-10) ... Setting up librdmacm1t64:i386 (52.0-2) ... Setting up libfabric1:i386 (1.17.0-3.1) ... Setting up debhelper (13.20) ... Setting up libibverbs-dev:i386 (52.0-2) ... Setting up libopenmpi3t64:i386 (4.1.6-13.3) ... Setting up openmpi-bin (4.1.6-13.3) ... 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 libopenmpi-dev:i386 (4.1.6-13.3) ... 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 Processing triggers for libc-bin (2.40-3) ... 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/reproducible-path/ampliconnoise-1.29/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../ampliconnoise_1.29-13_source.changes dpkg-buildpackage: info: source package ampliconnoise dpkg-buildpackage: info: source version 1.29-13 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Santiago Vila dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean dh_auto_clean make -j22 clean make[1]: Entering directory '/build/reproducible-path/ampliconnoise-1.29' (cd FCluster && make clean) make[2]: Entering directory '/build/reproducible-path/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/reproducible-path/ampliconnoise-1.29/FCluster' (cd FastaUnique && make clean) make[2]: Entering directory '/build/reproducible-path/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/reproducible-path/ampliconnoise-1.29/FastaUnique' (cd NDist && make clean) make[2]: Entering directory '/build/reproducible-path/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/reproducible-path/ampliconnoise-1.29/NDist' (cd PyroDist && make clean) make[2]: Entering directory '/build/reproducible-path/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/reproducible-path/ampliconnoise-1.29/PyroDist' (cd PyroNoise && make clean) make[2]: Entering directory '/build/reproducible-path/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/reproducible-path/ampliconnoise-1.29/PyroNoise' (cd PyroNoiseM && make clean) make[2]: Entering directory '/build/reproducible-path/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/reproducible-path/ampliconnoise-1.29/PyroNoiseM' (cd PyroNoiseA && make clean) make[2]: Entering directory '/build/reproducible-path/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/reproducible-path/ampliconnoise-1.29/PyroNoiseA' (cd SeqDist && make clean) make[2]: Entering directory '/build/reproducible-path/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/reproducible-path/ampliconnoise-1.29/SeqDist' (cd SeqNoise && make clean) make[2]: Entering directory '/build/reproducible-path/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/reproducible-path/ampliconnoise-1.29/SeqNoise' (cd SplitClusterEven && make clean) make[2]: Entering directory '/build/reproducible-path/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/reproducible-path/ampliconnoise-1.29/SplitClusterEven' (cd SplitClusterClust && make clean) make[2]: Entering directory '/build/reproducible-path/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/reproducible-path/ampliconnoise-1.29/SplitClusterClust' (cd Perseus && make clean) make[2]: Entering directory '/build/reproducible-path/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/reproducible-path/ampliconnoise-1.29/Perseus' (cd PerseusD && make clean) make[2]: Entering directory '/build/reproducible-path/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/reproducible-path/ampliconnoise-1.29/PerseusD' (cd bin && rm -rf *) make[1]: Leaving directory '/build/reproducible-path/ampliconnoise-1.29' debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/ampliconnoise-1.29' dh_clean rm -f *.o rm -f *.1 make[1]: Leaving directory '/build/reproducible-path/ampliconnoise-1.29' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure dh_auto_build make -j22 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/ampliconnoise-1.29' (cd FCluster && CFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/FCluster' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c FCluster.c FCluster.c: In function 'readDistanceMatrix': FCluster.c:356:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 356 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ FCluster.c:390:9: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 390 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ FCluster.c:420:9: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 420 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ linking... cc -Wl,-z,relro -Wl,-z,now -o FCluster FCluster.o -lm make[2]: Leaving directory '/build/reproducible-path/ampliconnoise-1.29/FCluster' (cd FastaUnique && CFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/FastaUnique' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/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/reproducible-path/ampliconnoise-1.29/FastaUnique' (cd NDist && CFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/NDist' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. mpicc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c NDist.c linking... mpicc -Wl,-z,relro -Wl,-z,now -o NDist NDist.o -lm make[2]: Leaving directory '/build/reproducible-path/ampliconnoise-1.29/NDist' (cd PyroDist && CFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/PyroDist' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. mpicc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c PyroDist.c PyroDist.c: In function 'readData': PyroDist.c:403:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 403 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ PyroDist.c:433:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 433 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ PyroDist.c: In function 'initLookUp': PyroDist.c:816:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 816 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ PyroDist.c:825:9: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 825 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ linking... mpicc -Wl,-z,relro -Wl,-z,now -o PyroDist PyroDist.o -lm make[2]: Leaving directory '/build/reproducible-path/ampliconnoise-1.29/PyroDist' (cd PyroNoise && CFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/PyroNoise' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. mpicc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/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] 2073 | fprintf(stderr, "Can't open szCenFile for writing\n",szCenFile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ PyroNoise.c: In function 'readData': PyroNoise.c:549:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 549 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ PyroNoise.c:579:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 579 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ PyroNoise.c: In function 'initLookUp': PyroNoise.c:963:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 963 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ PyroNoise.c:972:9: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 972 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ linking... mpicc -Wl,-z,relro -Wl,-z,now -o PyroNoise PyroNoise.o -lm make[2]: Leaving directory '/build/reproducible-path/ampliconnoise-1.29/PyroNoise' (cd SeqDist && CFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/SeqDist' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. mpicc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c SeqDist.c SeqDist.c: In function 'initLookUp': SeqDist.c:888:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 888 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ linking... mpicc -Wl,-z,relro -Wl,-z,now -o SeqDist SeqDist.o -lm make[2]: Leaving directory '/build/reproducible-path/ampliconnoise-1.29/SeqDist' (cd PyroNoiseM && CFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/PyroNoiseM' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. mpicc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/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] 2139 | fprintf(stderr, "Can't open szCenFile for writing\n",szCenFile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ PyroNoiseM.c: In function 'readData': PyroNoiseM.c:602:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 602 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ PyroNoiseM.c:632:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 632 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ PyroNoiseM.c: In function 'initLookUp': PyroNoiseM.c:1029:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1029 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ PyroNoiseM.c:1038:9: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1038 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ linking... mpicc -Wl,-z,relro -Wl,-z,now -o PyroNoiseM PyroNoiseM.o -lm make[2]: Leaving directory '/build/reproducible-path/ampliconnoise-1.29/PyroNoiseM' (cd PyroNoiseA && CFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/PyroNoiseA' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. mpicc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c PyroNoiseA.c PyroNoiseA.c: In function 'writeCentroids': PyroNoiseA.c:2169:21: warning: too many arguments for format [-Wformat-extra-args] 2169 | fprintf(stderr, "Can't open szCenFile for writing\n",szCenFile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ PyroNoiseA.c: In function 'readData': PyroNoiseA.c:601:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 601 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ PyroNoiseA.c:662:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 662 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ PyroNoiseA.c: In function 'initLookUp': PyroNoiseA.c:1059:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1059 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ PyroNoiseA.c:1068:9: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1068 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ linking... mpicc -o PyroNoiseA PyroNoiseA.o -lm -Wl,-z,relro -Wl,-z,now make[2]: Leaving directory '/build/reproducible-path/ampliconnoise-1.29/PyroNoiseA' (cd SeqNoise && CFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/SeqNoise' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. mpicc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c SeqNoise.c SeqNoise.c: In function 'main': SeqNoise.c:121:25: warning: too many arguments for format [-Wformat-extra-args] 121 | if(bVerbose){printf("%d: Broadcast distance matrix\n", rank, nSize, nPacket); fflush(stdout);} | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SeqNoise.c: In function 'initLookUp': SeqNoise.c:2135:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 2135 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SeqNoise.c: In function 'outputMapping': SeqNoise.c:2371:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 2371 | fgets(szLine,BIG_LINE_LENGTH,ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SeqNoise.c: In function 'readDistanceMatrix': SeqNoise.c:2459:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 2459 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SeqNoise.c:2489:9: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 2489 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ linking... mpicc -Wl,-z,relro -Wl,-z,now -o SeqNoise SeqNoise.o -lm make[2]: Leaving directory '/build/reproducible-path/ampliconnoise-1.29/SeqNoise' (cd SplitClusterEven && CFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/SplitClusterEven' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/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] 681 | fprintf(stderr, "Failed to open map file\n", szMapFile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ SplitClusterEven.c: In function 'readData': SplitClusterEven.c:501:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 501 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SplitClusterEven.c:523:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 523 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SplitClusterEven.c: In function 'readMapFile': SplitClusterEven.c:647:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 647 | fgets(szLine, BIG_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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=] 89 | sprintf(szTreeFile,"%s/%s%s",szDir,szDir,TREE_SUFFIX); | ^~ ~~~~~ In file included from /usr/include/stdio.h:970, from SplitClusterEven.c:1: In function 'sprintf', inlined from 'main' at SplitClusterEven.c:89:5: /usr/include/i386-linux-gnu/bits/stdio2.h:30:10: note: '__builtin___sprintf_chk' output between 7 and 2053 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ SplitClusterEven.c: In function 'main': SplitClusterEven.c:90:27: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 90 | sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX); | ^~ ~~~~~ In function 'sprintf', inlined from 'main' at SplitClusterEven.c:90:5: /usr/include/i386-linux-gnu/bits/stdio2.h:30:10: note: '__builtin___sprintf_chk' output between 6 and 2052 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ SplitClusterEven.c: In function 'main': SplitClusterEven.c:91:28: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 91 | sprintf(szListFile,"%s/%s%s",szDir,szDir,LIST_SUFFIX); | ^~ ~~~~~ In function 'sprintf', inlined from 'main' at SplitClusterEven.c:91:5: /usr/include/i386-linux-gnu/bits/stdio2.h:30:10: note: '__builtin___sprintf_chk' output between 7 and 2053 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ SplitClusterEven.c: In function 'main': SplitClusterEven.c:142:30: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 142 | sprintf(szTreeFile,"%s/%s%s",szDir,szDir,TREE_SUFFIX); | ^~ ~~~~~ In function 'sprintf', inlined from 'main' at SplitClusterEven.c:142:7: /usr/include/i386-linux-gnu/bits/stdio2.h:30:10: note: '__builtin___sprintf_chk' output between 7 and 2053 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ SplitClusterEven.c: In function 'main': SplitClusterEven.c:143:29: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 143 | sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX); | ^~ ~~~~~ In function 'sprintf', inlined from 'main' at SplitClusterEven.c:143:7: /usr/include/i386-linux-gnu/bits/stdio2.h:30:10: note: '__builtin___sprintf_chk' output between 6 and 2052 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ SplitClusterEven.c: In function 'main': SplitClusterEven.c:144:30: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 144 | sprintf(szListFile,"%s/%s%s",szDir,szDir,LIST_SUFFIX); | ^~ ~~~~~ In function 'sprintf', inlined from 'main' at SplitClusterEven.c:144:7: /usr/include/i386-linux-gnu/bits/stdio2.h:30:10: note: '__builtin___sprintf_chk' output between 7 and 2053 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ linking... cc -Wl,-z,relro -Wl,-z,now -o SplitClusterEven SplitClusterEven.o -lm make[2]: Leaving directory '/build/reproducible-path/ampliconnoise-1.29/SplitClusterEven' (cd SplitClusterClust && CFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/SplitClusterClust' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/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] 316 | fprintf(stderr, "Failed to open map file\n", szMapFile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ SplitClusterClust.c: In function 'readData': SplitClusterClust.c:188:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 188 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SplitClusterClust.c:210:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 210 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SplitClusterClust.c: In function 'readMapFile': SplitClusterClust.c:282:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 282 | fgets(szLine, BIG_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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=] 52 | sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX); | ^~ ~~~~~ In file included from /usr/include/stdio.h:970, from SplitClusterClust.c:1: In function 'sprintf', inlined from 'main' at SplitClusterClust.c:52:7: /usr/include/i386-linux-gnu/bits/stdio2.h:30:10: note: '__builtin___sprintf_chk' output between 6 and 2052 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ SplitClusterClust.c: In function 'main': SplitClusterClust.c:88:29: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 88 | sprintf(szDatFile,"%s/%s%s",szDir,szDir,DAT_SUFFIX); | ^~ ~~~~~ In function 'sprintf', inlined from 'main' at SplitClusterClust.c:88:7: /usr/include/i386-linux-gnu/bits/stdio2.h:30:10: note: '__builtin___sprintf_chk' output between 6 and 2052 bytes into a destination of size 1024 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ linking... gcc -Wl,-z,relro -Wl,-z,now -o SplitClusterClust SplitClusterClust.o -lm make[2]: Leaving directory '/build/reproducible-path/ampliconnoise-1.29/SplitClusterClust' (cd Perseus && CFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/Perseus' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c Perseus.c Perseus.c: In function 'initLookUp': Perseus.c:1249:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1249 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Perseus.c: In function 'calcLoonIndex': Perseus.c:1640:3: warning: ignoring return value of 'system' declared with attribute 'warn_unused_result' [-Wunused-result] 1640 | system(szCommand); | ^~~~~~~~~~~~~~~~~ Perseus.c:1638:34: warning: '%s' directive writing up to 65535 bytes into a region of size 65524 [-Wformat-overflow=] 1638 | sprintf(szCommand,"mafft-linsi %s > %s 2> %s",szTempFasta,szTempAlign, TEMP_ERROR_FILE); | ^~ ~~~~~~~~~~~ In file included from /usr/include/stdio.h:970, from Perseus.c:8: In function 'sprintf', inlined from 'calcLoonIndex' at Perseus.c:1638:3: /usr/include/i386-linux-gnu/bits/stdio2.h:30:10: note: '__builtin___sprintf_chk' output between 28 and 131098 bytes into a destination of size 65536 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ linking... cc -Wl,-z,relro -Wl,-z,now -o Perseus Perseus.o -lm -lgsl -lgslcblas make[2]: Leaving directory '/build/reproducible-path/ampliconnoise-1.29/Perseus' (cd PerseusD && CFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/PerseusD' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ampliconnoise-1.29=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c PerseusD.c PerseusD.c: In function 'initLookUp': PerseusD.c:1301:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1301 | fgets(szLine, MAX_LINE_LENGTH, ifp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ PerseusD.c: In function 'calcLoonIndex': PerseusD.c:1651:3: warning: ignoring return value of 'system' declared with attribute 'warn_unused_result' [-Wunused-result] 1651 | system(szCommand); | ^~~~~~~~~~~~~~~~~ PerseusD.c:1649:34: warning: '%s' directive writing up to 65535 bytes into a region of size 65524 [-Wformat-overflow=] 1649 | sprintf(szCommand,"mafft-linsi %s > %s 2> %s",szTempFasta,szTempAlign, TEMP_ERROR_FILE); | ^~ ~~~~~~~~~~~ In file included from /usr/include/stdio.h:970, from PerseusD.c:8: In function 'sprintf', inlined from 'calcLoonIndex' at PerseusD.c:1649:3: /usr/include/i386-linux-gnu/bits/stdio2.h:30:10: note: '__builtin___sprintf_chk' output between 28 and 131098 bytes into a destination of size 65536 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ linking... cc -Wl,-z,relro -Wl,-z,now -o PerseusD PerseusD.o -lm -lgsl -lgslcblas make[2]: Leaving directory '/build/reproducible-path/ampliconnoise-1.29/PerseusD' make[1]: Leaving directory '/build/reproducible-path/ampliconnoise-1.29' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/ampliconnoise-1.29' make install make[2]: Entering directory '/build/reproducible-path/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/reproducible-path/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/reproducible-path/ampliconnoise-1.29' dh_installdocs dh_installchangelogs dh_installexamples debian/rules override_dh_installman make[1]: Entering directory '/build/reproducible-path/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/reproducible-path/ampliconnoise-1.29' dh_perl dh_link dh_strip_nondeterminism debian/rules override_dh_compress make[1]: Entering directory '/build/reproducible-path/ampliconnoise-1.29' # Use xz compression for data file to shrink size even more find debian -name C005.dat -exec xz \{\} \; dh_compress --exclude=.pdf make[1]: Leaving directory '/build/reproducible-path/ampliconnoise-1.29' dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a 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_1.29-13_i386.deb'. dpkg-deb: building package 'ampliconnoise' in '../ampliconnoise_1.29-13_i386.deb'. dpkg-genbuildinfo --build=binary -O../ampliconnoise_1.29-13_i386.buildinfo dpkg-genchanges --build=binary -O../ampliconnoise_1.29-13_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) dpkg-genchanges: info: not including original source code in upload 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/64695 and its subdirectories I: Current time: Sat Nov 29 11:39:59 -12 2025 I: pbuilder-time-stamp: 1764459599 Sun Oct 27 17:17:01 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos12-i386.debian.net. Sun Oct 27 17:17:01 UTC 2024 I: Preparing to do remote build '2' on ionos12-i386.debian.net. Sun Oct 27 17:18:22 UTC 2024 I: Deleting $TMPDIR on ionos12-i386.debian.net. Sun Oct 27 17:18:22 UTC 2024 I: ampliconnoise_1.29-13_i386.changes: Format: 1.8 Date: Thu, 08 Aug 2024 02:20:00 +0200 Source: ampliconnoise Binary: ampliconnoise ampliconnoise-dbgsym Architecture: i386 Version: 1.29-13 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Santiago Vila Description: ampliconnoise - removal of noise from 454 sequenced PCR amplicons Changes: ampliconnoise (1.29-13) unstable; urgency=medium . * Team upload. * Rename bin/.gitignore to bin/.placeholder. Should make the package to build again from source. Checksums-Sha1: f7636d9165d680fe45a5da657e96da44fbac8581 370392 ampliconnoise-dbgsym_1.29-13_i386.deb 5cbf792d9dcaad1c84bd5b00f47ea4aa6a36c4e5 6996 ampliconnoise_1.29-13_i386.buildinfo 147e06471d8b4ce4139e338841776562e3c80d22 1100100 ampliconnoise_1.29-13_i386.deb Checksums-Sha256: 4ac88b16abff4d9fd08a4e8939405ac65414119e9f7bc6fee02cd1846c74042d 370392 ampliconnoise-dbgsym_1.29-13_i386.deb 996d7ddace8781c18355e9e576d67bd888ff81c86676feadaedca66320b105ea 6996 ampliconnoise_1.29-13_i386.buildinfo 461698f5d1a21d0bf649c7dd3ce2813e1937e44897ce388576959f826593fd6b 1100100 ampliconnoise_1.29-13_i386.deb Files: a56285d58408f297a648dd01a1eb9873 370392 debug optional ampliconnoise-dbgsym_1.29-13_i386.deb ea73410ed568a2782f21091c29a0664b 6996 science optional ampliconnoise_1.29-13_i386.buildinfo 4c4f65a4e63328764a5f8557e3e9fe1e 1100100 science optional ampliconnoise_1.29-13_i386.deb Sun Oct 27 17:18:24 UTC 2024 I: diffoscope 282 will be used to compare the two builds: Running as unit: rb-diffoscope-i386_8-45742.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.t7CFYHgm/ampliconnoise_1.29-13.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.t7CFYHgm/ampliconnoise_1.29-13.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.t7CFYHgm/ampliconnoise_1.29-13.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.t7CFYHgm/b1/ampliconnoise_1.29-13_i386.changes /srv/reproducible-results/rbuild-debian/r-b-build.t7CFYHgm/b2/ampliconnoise_1.29-13_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: 0.442s) 0.442s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.033s) 0.033s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 851ms CPU time consumed: 848ms Sun Oct 27 17:45:57 UTC 2024 I: diffoscope 282 found no differences in the changes files, and a .buildinfo file also exists. Sun Oct 27 17:45:57 UTC 2024 I: ampliconnoise from unstable built successfully and reproducibly on i386. Sun Oct 27 17:46:03 UTC 2024 I: Submitting .buildinfo files to external archives: Sun Oct 27 17:46:03 UTC 2024 I: Submitting 8.0K b1/ampliconnoise_1.29-13_i386.buildinfo.asc Sun Oct 27 17:46:14 UTC 2024 I: Submitting 8.0K b2/ampliconnoise_1.29-13_i386.buildinfo.asc Sun Oct 27 17:46:38 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun Oct 27 17:46:38 UTC 2024 I: Done submitting .buildinfo files. Sun Oct 27 17:46:38 UTC 2024 I: Removing signed ampliconnoise_1.29-13_i386.buildinfo.asc files: removed './b1/ampliconnoise_1.29-13_i386.buildinfo.asc' removed './b2/ampliconnoise_1.29-13_i386.buildinfo.asc'