Wed Mar 26 17:37:16 UTC 2025 I: starting to build ampliconnoise/unstable/arm64 on jenkins on '2025-03-26 17:36' Wed Mar 26 17:37:16 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_9/66399/console.log Wed Mar 26 17:37:16 UTC 2025 I: Downloading source for unstable/ampliconnoise=1.29-15 --2025-03-26 17:37:16-- http://deb.debian.org/debian/pool/main/a/ampliconnoise/ampliconnoise_1.29-15.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2175 (2.1K) [text/prs.lines.tag] Saving to: ‘ampliconnoise_1.29-15.dsc’ 0K .. 100% 316M=0s 2025-03-26 17:37:16 (316 MB/s) - ‘ampliconnoise_1.29-15.dsc’ saved [2175/2175] Wed Mar 26 17:37:16 UTC 2025 I: ampliconnoise_1.29-15.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: ampliconnoise Binary: ampliconnoise Architecture: any Version: 1.29-15 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Pranav Ballaney , Étienne Mollier 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: mpi-default-bin Build-Depends: debhelper-compat (= 13), libgsl-dev, mpi-default-dev Package-List: ampliconnoise deb science optional arch=any Checksums-Sha1: 743cbd53fa3410dea902f3dc82864041defc3c4b 1403119 ampliconnoise_1.29.orig.tar.gz b1544fe2a44410f8c5031f252bf73418e369854a 12536 ampliconnoise_1.29-15.debian.tar.xz Checksums-Sha256: 0bf946806d77ecaf0994ad8ebf9a5e98ad33c809f6def5c9340a16c367918167 1403119 ampliconnoise_1.29.orig.tar.gz 186d845a1da6093fc13c292d18a0dba290140fcd5f7449e76b520b06dfe54247 12536 ampliconnoise_1.29-15.debian.tar.xz Files: d6723e6f9cc71d7eb6f1a65ba4643aac 1403119 ampliconnoise_1.29.orig.tar.gz cf88c3052a603a9e8c277a58bd3d1d77 12536 ampliconnoise_1.29-15.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmdGRB8UHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdqvzw//bFgltGAgLs5N/m/5beYqH4v7YdnZ PIDnKZuwuhZzaucngw5UWrCReH/xlheDCS10nfNZ9aKoYAKTcvxU92X7Nt1/Wy+c ibmB8hmWls7M8uj/SNC11lvW3hgmPkd1HLm67MrP8eQeoclugpHXq7VtxX4p2yKl lZpYAeLlHAw1kinHHzSn5vqriYtzQKL+GHzCezVZrrr4tiJQQLRTvOw4EM/Dh6h1 6rqGLq+AZmSg+mjCFqM0ysi/Vi8o8ADMmx8o4Pg/hS9MzL+flMYemK6HwUvQs/+k pNHhHSZSn+/kbUkGfsncsJ1pSZHAuvNqKKu5XUgzcaF+Cj1F5ZY7CNrqQ5ima5BZ ZtJ3WW1tfcDsSIrYUYvamKZCg8Z9ES3Z2uSVk2Y6623ryIFbtG7DfEucW7rWiskB tJI0it1zghiUdy33u10TLeG98xc2r1zHntvmgHvweLUIi4bzbrWvKJhG/5ZxH/3e 7G5ZgLXEA06bF5kR+OyMPT7yFhlJPCBSEdfzTxYVd5g2StOjuBtrnY/0BQH1RRZa 2VIOTTRTb4pl43XZ6/u7qOvAur7DeY1hw23E6xhmDNc6B9Lfqul6OTQYLy5IZiby 4hrirxFsUV3x0+H7pgp5z51gyUuZG4RuS0Zym1C8PKB4npTmWFAAJynbO4agO8QE A84HsvgxY2yTW2c= =cDG8 -----END PGP SIGNATURE----- Wed Mar 26 17:37:16 UTC 2025 I: Checking whether the package is not for us Wed Mar 26 17:37:16 UTC 2025 I: Starting 1st build on remote node codethink04-arm64.debian.net. Wed Mar 26 17:37:16 UTC 2025 I: Preparing to do remote build '1' on codethink04-arm64.debian.net. Wed Mar 26 17:39:13 UTC 2025 I: Deleting $TMPDIR on codethink04-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Mar 26 05:37:19 -12 2025 I: pbuilder-time-stamp: 1743010639 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: Copying source file I: copying [ampliconnoise_1.29-15.dsc] I: copying [./ampliconnoise_1.29.orig.tar.gz] I: copying [./ampliconnoise_1.29-15.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./ampliconnoise_1.29-15.dsc: unsupported subcommand dpkg-source: info: extracting ampliconnoise in ampliconnoise-1.29 dpkg-source: info: unpacking ampliconnoise_1.29.orig.tar.gz dpkg-source: info: unpacking ampliconnoise_1.29-15.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/1342661/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='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='a2d21f92e75044acbaa0d0b1c322f1b0' 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='1342661' 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.2q1QQ1ha/pbuilderrc_jfnX --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.2q1QQ1ha/b1 --logfile b1/build.log ampliconnoise_1.29-15.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink04-arm64 6.1.0-32-cloud-arm64 #1 SMP Debian 6.1.129-1 (2025-03-06) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Mar 4 11:20 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1342661/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-compat (= 13), libgsl-dev, mpi-default-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 ... 19919 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 mpi-default-dev; however: Package mpi-default-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} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} gfortran-14{a} gfortran-14-aarch64-linux-gnu{a} groff-base{a} ibverbs-providers{a} intltool-debian{a} libamd-comgr2{a} libamdhip64-5{a} libarchive-zip-perl{a} libcbor0.10{a} libcom-err2{a} libdebhelper-perl{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm2{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} libffi8{a} libfido2-1{a} libfile-stripnondeterminism-perl{a} libgfortran-14-dev{a} libgfortran5{a} libgsl-dev{a} libgsl28{a} libgslcblas0{a} libgssapi-krb5-2{a} libhsa-runtime64-1{a} libhsakmt1{a} libhwloc-dev{a} libhwloc-plugins{a} libhwloc15{a} libibmad5{a} libibumad3{a} libibverbs-dev{a} libibverbs1{a} libicu76{a} libjs-jquery{a} libjs-jquery-ui{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libllvm17t64{a} libltdl-dev{a} libltdl7{a} libmagic-mgc{a} libmagic1t64{a} libmunge2{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} libopenmpi40{a} libpciaccess0{a} libpipeline1{a} libpmix-dev{a} libpmix2t64{a} librdmacm1t64{a} libtool{a} libuchardet0{a} libucx0{a} libunistring5{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxml2{a} libxnvctrl0{a} libz3-4{a} m4{a} man-db{a} mpi-default-dev{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, 102 newly installed, 0 to remove and 0 not upgraded. Need to get 101 MB of archives. After unpacking 438 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.46-3 [337 kB] Get: 3 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.46-3 [103 kB] Get: 4 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.46-3 [43.5 kB] Get: 5 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.23.1-1 [241 kB] Get: 6 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get: 7 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-7 [1129 kB] Get: 8 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.40.4-5 [92.0 kB] Get: 9 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 10 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 11 http://deb.debian.org/debian unstable/main arm64 libedit2 arm64 3.1-20250104-1 [89.3 kB] Get: 12 http://deb.debian.org/debian unstable/main arm64 libcbor0.10 arm64 0.10.2-2 [27.4 kB] Get: 13 http://deb.debian.org/debian unstable/main arm64 libfido2-1 arm64 1.15.0-1+b1 [74.3 kB] Get: 14 http://deb.debian.org/debian unstable/main arm64 libkrb5support0 arm64 1.21.3-5 [32.4 kB] Get: 15 http://deb.debian.org/debian unstable/main arm64 libcom-err2 arm64 1.47.2-1+b1 [24.2 kB] Get: 16 http://deb.debian.org/debian unstable/main arm64 libk5crypto3 arm64 1.21.3-5 [81.2 kB] Get: 17 http://deb.debian.org/debian unstable/main arm64 libkeyutils1 arm64 1.6.3-4 [9352 B] Get: 18 http://deb.debian.org/debian unstable/main arm64 libkrb5-3 arm64 1.21.3-5 [308 kB] Get: 19 http://deb.debian.org/debian unstable/main arm64 libgssapi-krb5-2 arm64 1.21.3-5 [127 kB] Get: 20 http://deb.debian.org/debian unstable/main arm64 openssh-client arm64 1:9.9p2-2 [906 kB] Get: 21 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.19-7 [285 kB] Get: 22 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.72-3 [493 kB] Get: 23 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 24 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.17-4 [862 kB] Get: 25 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.23.1-1 [770 kB] Get: 26 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 27 http://deb.debian.org/debian unstable/main arm64 libtool all 2.5.4-4 [539 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 30 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 31 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 32 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 33 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 34 http://deb.debian.org/debian unstable/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 35 http://deb.debian.org/debian unstable/main arm64 libicu76 arm64 76.1-3 [9526 kB] Get: 36 http://deb.debian.org/debian unstable/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.3+b1 [630 kB] Get: 37 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.23.1-1 [1610 kB] Get: 38 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 39 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 40 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.24.1 [920 kB] Get: 41 http://deb.debian.org/debian unstable/main arm64 libgfortran5 arm64 14.2.0-19 [361 kB] Get: 42 http://deb.debian.org/debian unstable/main arm64 libgfortran-14-dev arm64 14.2.0-19 [418 kB] Get: 43 http://deb.debian.org/debian unstable/main arm64 gfortran-14-aarch64-linux-gnu arm64 14.2.0-19 [9794 kB] Get: 44 http://deb.debian.org/debian unstable/main arm64 gfortran-14 arm64 14.2.0-19 [14.5 kB] Get: 45 http://deb.debian.org/debian unstable/main arm64 libnl-3-200 arm64 3.7.0-2 [57.1 kB] Get: 46 http://deb.debian.org/debian unstable/main arm64 libnl-route-3-200 arm64 3.7.0-2 [167 kB] Get: 47 http://deb.debian.org/debian unstable/main arm64 libibverbs1 arm64 56.0-3 [58.7 kB] Get: 48 http://deb.debian.org/debian unstable/main arm64 ibverbs-providers arm64 56.0-3 [333 kB] Get: 49 http://deb.debian.org/debian unstable/main arm64 libffi8 arm64 3.4.7-1 [21.2 kB] Get: 50 http://deb.debian.org/debian unstable/main arm64 libz3-4 arm64 4.13.3-1 [7507 kB] Get: 51 http://deb.debian.org/debian unstable/main arm64 libllvm17t64 arm64 1:17.0.6-21+b1 [21.3 MB] Get: 52 http://deb.debian.org/debian unstable/main arm64 libamd-comgr2 arm64 6.0+git20231212.4510c28+dfsg-3+b2 [12.1 MB] Get: 53 http://deb.debian.org/debian unstable/main arm64 libdrm-common all 2.4.124-1 [8180 B] Get: 54 http://deb.debian.org/debian unstable/main arm64 libdrm2 arm64 2.4.124-1 [38.2 kB] Get: 55 http://deb.debian.org/debian unstable/main arm64 libdrm-amdgpu1 arm64 2.4.124-1 [21.8 kB] Get: 56 http://deb.debian.org/debian unstable/main arm64 libnuma1 arm64 2.0.18-1+b1 [21.8 kB] Get: 57 http://deb.debian.org/debian unstable/main arm64 libhsakmt1 arm64 6.2.4+ds-1 [58.3 kB] Get: 58 http://deb.debian.org/debian unstable/main arm64 libhsa-runtime64-1 arm64 6.1.2-3 [302 kB] Get: 59 http://deb.debian.org/debian unstable/main arm64 libamdhip64-5 arm64 5.7.1-5+b1 [8826 kB] Get: 60 http://deb.debian.org/debian unstable/main arm64 libevent-2.1-7t64 arm64 2.1.12-stable-10+b1 [170 kB] Get: 61 http://deb.debian.org/debian unstable/main arm64 libevent-core-2.1-7t64 arm64 2.1.12-stable-10+b1 [126 kB] Get: 62 http://deb.debian.org/debian unstable/main arm64 libevent-extra-2.1-7t64 arm64 2.1.12-stable-10+b1 [102 kB] Get: 63 http://deb.debian.org/debian unstable/main arm64 libevent-pthreads-2.1-7t64 arm64 2.1.12-stable-10+b1 [54.4 kB] Get: 64 http://deb.debian.org/debian unstable/main arm64 libevent-openssl-2.1-7t64 arm64 2.1.12-stable-10+b1 [60.4 kB] Get: 65 http://deb.debian.org/debian unstable/main arm64 libevent-dev arm64 2.1.12-stable-10+b1 [304 kB] Get: 66 http://deb.debian.org/debian unstable/main arm64 librdmacm1t64 arm64 56.0-3 [67.1 kB] Get: 67 http://deb.debian.org/debian unstable/main arm64 libfabric1 arm64 2.0.0-4 [542 kB] Get: 68 http://deb.debian.org/debian unstable/main arm64 libgslcblas0 arm64 2.8+dfsg-5 [84.1 kB] Get: 69 http://deb.debian.org/debian unstable/main arm64 libgsl28 arm64 2.8+dfsg-5 [881 kB] Get: 70 http://deb.debian.org/debian unstable/main arm64 libgsl-dev arm64 2.8+dfsg-5 [1118 kB] Get: 71 http://deb.debian.org/debian unstable/main arm64 libhwloc15 arm64 2.12.0-1 [142 kB] Get: 72 http://deb.debian.org/debian unstable/main arm64 libnuma-dev arm64 2.0.18-1+b1 [37.8 kB] Get: 73 http://deb.debian.org/debian unstable/main arm64 libltdl7 arm64 2.5.4-4 [415 kB] Get: 74 http://deb.debian.org/debian unstable/main arm64 libltdl-dev arm64 2.5.4-4 [168 kB] Get: 75 http://deb.debian.org/debian unstable/main arm64 libhwloc-dev arm64 2.12.0-1 [238 kB] Get: 76 http://deb.debian.org/debian unstable/main arm64 libpciaccess0 arm64 0.17-3+b3 [51.2 kB] Get: 77 http://deb.debian.org/debian unstable/main arm64 libxau6 arm64 1:1.0.11-1 [20.6 kB] Get: 78 http://deb.debian.org/debian unstable/main arm64 libxdmcp6 arm64 1:1.1.5-1 [27.8 kB] Get: 79 http://deb.debian.org/debian unstable/main arm64 libxcb1 arm64 1.17.0-2+b1 [143 kB] Get: 80 http://deb.debian.org/debian unstable/main arm64 libx11-data all 2:1.8.12-1 [343 kB] Get: 81 http://deb.debian.org/debian unstable/main arm64 libx11-6 arm64 2:1.8.12-1 [795 kB] Get: 82 http://deb.debian.org/debian unstable/main arm64 libxext6 arm64 2:1.3.4-1+b3 [49.2 kB] Get: 83 http://deb.debian.org/debian unstable/main arm64 libxnvctrl0 arm64 535.171.04-1+b2 [14.0 kB] Get: 84 http://deb.debian.org/debian unstable/main arm64 ocl-icd-libopencl1 arm64 2.3.2-1+b2 [39.3 kB] Get: 85 http://deb.debian.org/debian unstable/main arm64 libhwloc-plugins arm64 2.12.0-1 [17.8 kB] Get: 86 http://deb.debian.org/debian unstable/main arm64 libibumad3 arm64 56.0-3 [28.5 kB] Get: 87 http://deb.debian.org/debian unstable/main arm64 libibmad5 arm64 56.0-3 [42.3 kB] Get: 88 http://deb.debian.org/debian unstable/main arm64 libnl-3-dev arm64 3.7.0-2 [102 kB] Get: 89 http://deb.debian.org/debian unstable/main arm64 libnl-route-3-dev arm64 3.7.0-2 [199 kB] Get: 90 http://deb.debian.org/debian unstable/main arm64 libibverbs-dev arm64 56.0-3 [642 kB] Get: 91 http://deb.debian.org/debian unstable/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 92 http://deb.debian.org/debian unstable/main arm64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 93 http://deb.debian.org/debian unstable/main arm64 libmunge2 arm64 0.5.16-1 [19.2 kB] Get: 94 http://deb.debian.org/debian unstable/main arm64 libpmix2t64 arm64 5.0.7-1 [585 kB] Get: 95 http://deb.debian.org/debian unstable/main arm64 libucx0 arm64 1.18.1+ds-2+b1 [1016 kB] Get: 96 http://deb.debian.org/debian unstable/main arm64 libopenmpi40 arm64 5.0.7-1 [2087 kB] Get: 97 http://deb.debian.org/debian unstable/main arm64 openmpi-common all 5.0.7-1 [97.2 kB] Get: 98 http://deb.debian.org/debian unstable/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 99 http://deb.debian.org/debian unstable/main arm64 libpmix-dev arm64 5.0.7-1 [3947 kB] Get: 100 http://deb.debian.org/debian unstable/main arm64 openmpi-bin arm64 5.0.7-1 [180 kB] Get: 101 http://deb.debian.org/debian unstable/main arm64 libopenmpi-dev arm64 5.0.7-1 [1089 kB] Get: 102 http://deb.debian.org/debian unstable/main arm64 mpi-default-dev arm64 1.18 [3372 B] Fetched 101 MB in 1s (143 MB/s) Preconfiguring packages ... 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 ... 19919 files and directories currently installed.) Preparing to unpack .../000-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../001-libmagic-mgc_1%3a5.46-3_arm64.deb ... Unpacking libmagic-mgc (1:5.46-3) ... Selecting previously unselected package libmagic1t64:arm64. 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Unpacking libucx0:arm64 (1.18.1+ds-2+b1) ... Selecting previously unselected package libopenmpi40:arm64. Preparing to unpack .../095-libopenmpi40_5.0.7-1_arm64.deb ... Unpacking libopenmpi40:arm64 (5.0.7-1) ... Selecting previously unselected package openmpi-common. Preparing to unpack .../096-openmpi-common_5.0.7-1_all.deb ... Unpacking openmpi-common (5.0.7-1) ... Selecting previously unselected package zlib1g-dev:arm64. Preparing to unpack .../097-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1+b1_arm64.deb ... Unpacking zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1+b1) ... Selecting previously unselected package libpmix-dev:arm64. Preparing to unpack .../098-libpmix-dev_5.0.7-1_arm64.deb ... Unpacking libpmix-dev:arm64 (5.0.7-1) ... Selecting previously unselected package openmpi-bin. Preparing to unpack .../099-openmpi-bin_5.0.7-1_arm64.deb ... Unpacking openmpi-bin (5.0.7-1) ... Selecting previously unselected package libopenmpi-dev:arm64. 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Setting up libevent-2.1-7t64:arm64 (2.1.12-stable-10+b1) ... Setting up libibmad5:arm64 (56.0-3) ... Setting up libcom-err2:arm64 (1.47.2-1+b1) ... Setting up file (1:5.46-3) ... Setting up libelf1t64:arm64 (0.192-4) ... Setting up libkrb5support0:arm64 (1.21.3-5) ... Setting up autotools-dev (20240727.1) ... Setting up libz3-4:arm64 (4.13.3-1) ... Setting up libmunge2:arm64 (0.5.16-1) ... Setting up libx11-data (2:1.8.12-1) ... Setting up libunistring5:arm64 (1.3-2) ... Setting up libhwloc15:arm64 (2.12.0-1) ... Setting up autopoint (0.23.1-1) ... Setting up libk5crypto3:arm64 (1.21.3-5) ... Setting up libltdl7:arm64 (2.5.4-4) ... Setting up libgfortran5:arm64 (14.2.0-19) ... Setting up autoconf (2.72-3) ... Setting up zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libffi8:arm64 (3.4.7-1) ... Setting up libnuma1:arm64 (2.0.18-1+b1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up ocl-icd-libopencl1:arm64 (2.3.2-1+b2) ... Setting up libuchardet0:arm64 (0.0.8-1+b2) ... Setting up libnl-3-200:arm64 (3.7.0-2) ... Setting up openmpi-common (5.0.7-1) ... Setting up libx11-6:arm64 (2:1.8.12-1) ... Setting up libkrb5-3:arm64 (1.21.3-5) ... Setting up libevent-core-2.1-7t64:arm64 (2.1.12-stable-10+b1) ... Setting up libicu76:arm64 (76.1-3) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libfido2-1:arm64 (1.15.0-1+b1) ... Setting up libgsl28:arm64 (2.8+dfsg-5) ... Setting up libdrm-common (2.4.124-1) ... Setting up libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.3+b1) ... Setting up automake (1:1.17-4) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libgfortran-14-dev:arm64 (14.2.0-19) ... Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... Setting up gettext (0.23.1-1) ... Setting up libgsl-dev (2.8+dfsg-5) ... Setting up libtool (2.5.4-4) ... Setting up libevent-pthreads-2.1-7t64:arm64 (2.1.12-stable-10+b1) ... Setting up libevent-openssl-2.1-7t64:arm64 (2.1.12-stable-10+b1) ... Setting up libxext6:arm64 (2:1.3.4-1+b3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libnuma-dev:arm64 (2.0.18-1+b1) ... Setting up libnl-route-3-200:arm64 (3.7.0-2) ... Setting up libxnvctrl0:arm64 (535.171.04-1+b2) ... Setting up dh-autoreconf (20) ... Setting up libltdl-dev:arm64 (2.5.4-4) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libllvm17t64:arm64 (1:17.0.6-21+b1) ... Setting up libgssapi-krb5-2:arm64 (1.21.3-5) ... Setting up libevent-extra-2.1-7t64:arm64 (2.1.12-stable-10+b1) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up libdrm2:arm64 (2.4.124-1) ... Setting up libnl-3-dev:arm64 (3.7.0-2) ... Setting up groff-base (1.23.0-7) ... Setting up gfortran-14-aarch64-linux-gnu (14.2.0-19) ... Setting up libhwloc-dev:arm64 (2.12.0-1) ... Setting up libamd-comgr2:arm64 (6.0+git20231212.4510c28+dfsg-3+b2) ... Setting up gfortran-14 (14.2.0-19) ... Setting up libdrm-amdgpu1:arm64 (2.4.124-1) ... Setting up libibverbs1:arm64 (56.0-3) ... Setting up ibverbs-providers:arm64 (56.0-3) ... Setting up openssh-client (1:9.9p2-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhwloc-plugins:arm64 (2.12.0-1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libnl-route-3-dev:arm64 (3.7.0-2) ... Setting up libevent-dev (2.1.12-stable-10+b1) ... Setting up libpmix2t64:arm64 (5.0.7-1) ... Setting up librdmacm1t64:arm64 (56.0-3) ... Setting up libpmix-dev:arm64 (5.0.7-1) ... Setting up libhsakmt1:arm64 (6.2.4+ds-1) ... Setting up libfabric1:arm64 (2.0.0-4) ... Setting up debhelper (13.24.1) ... Setting up libibverbs-dev:arm64 (56.0-3) ... Setting up libhsa-runtime64-1:arm64 (6.1.2-3) ... Setting up libamdhip64-5 (5.7.1-5+b1) ... Setting up libucx0:arm64 (1.18.1+ds-2+b1) ... Setting up libopenmpi40:arm64 (5.0.7-1) ... Setting up openmpi-bin (5.0.7-1) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode update-alternatives: warning: skip creation of /usr/share/man/man1/mpiexec.1.gz because associated file /usr/share/man/man1/mpiexec.openmpi.1.gz (of link group mpirun) doesn't exist update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up libopenmpi-dev:arm64 (5.0.7-1) ... 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 mpi-default-dev (1.18) ... Processing triggers for libc-bin (2.41-6) ... 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_1.29-15_source.changes dpkg-buildpackage: info: source package ampliconnoise dpkg-buildpackage: info: source version 1.29-15 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_auto_clean make -j12 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' 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' 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' 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' 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' 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' 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' 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' 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' 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' 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' 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' 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' 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 -j12 "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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/FCluster' 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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/FastaUnique' 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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/NDist' 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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/PyroDist' 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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/PyroNoise' 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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/SeqDist' 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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/PyroNoiseM' 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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/PyroNoiseA' 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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/SeqNoise' 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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/SplitClusterEven' 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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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/aarch64-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/aarch64-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/aarch64-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/aarch64-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/aarch64-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/aarch64-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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/SplitClusterClust' 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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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/aarch64-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/aarch64-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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/Perseus' 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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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/aarch64-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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard" LDFLAGS="-Wl,-z,relro -Wl,-z,now" make) make[2]: Entering directory '/build/reproducible-path/ampliconnoise-1.29/PerseusD' 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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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/aarch64-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 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged 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' in '../ampliconnoise_1.29-15_arm64.deb'. dpkg-deb: building package 'ampliconnoise-dbgsym' in '../ampliconnoise-dbgsym_1.29-15_arm64.deb'. dpkg-genbuildinfo --build=binary -O../ampliconnoise_1.29-15_arm64.buildinfo dpkg-genchanges --build=binary -O../ampliconnoise_1.29-15_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) 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/1342661 and its subdirectories I: Current time: Wed Mar 26 05:39:12 -12 2025 I: pbuilder-time-stamp: 1743010752 Wed Mar 26 17:39:14 UTC 2025 I: 1st build successful. Starting 2nd build on remote node codethink03-arm64.debian.net. Wed Mar 26 17:39:14 UTC 2025 I: Preparing to do remote build '2' on codethink03-arm64.debian.net. Wed Mar 26 17:40:24 UTC 2025 I: Deleting $TMPDIR on codethink03-arm64.debian.net. Wed Mar 26 17:40:25 UTC 2025 I: ampliconnoise_1.29-15_arm64.changes: Format: 1.8 Date: Tue, 26 Nov 2024 22:12:39 +0100 Source: ampliconnoise Binary: ampliconnoise ampliconnoise-dbgsym Architecture: arm64 Version: 1.29-15 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: ampliconnoise - removal of noise from 454 sequenced PCR amplicons Closes: 1087997 Changes: ampliconnoise (1.29-15) unstable; urgency=medium . * d/t/Run.sh: remove openmpi specific --use-hwthread-cpu argument. * d/rules: do not enforce openmpi compiler. * d/bin_override/mpicc: remove now unneeded wrapper. * d/{,t}/control: migrate to mpi-default- packages. This replaces the use of openmpi specifically. (Closes: #1087997) MPICH4 seems to be operating properly with ampliconnoise. Checksums-Sha1: b22bf9dbc56d44ec5cc04e865b17d727b11759dc 446752 ampliconnoise-dbgsym_1.29-15_arm64.deb 735377a9593517510fc862c8a58386bb9dfb4088 7320 ampliconnoise_1.29-15_arm64.buildinfo b6e3d18651e2b02d310f1581e0f5eb71326d5865 1098528 ampliconnoise_1.29-15_arm64.deb Checksums-Sha256: 605e6160dabce8d8cfbb56759aaea2de559f42e78f5d1354c6c0f20a295feac5 446752 ampliconnoise-dbgsym_1.29-15_arm64.deb 9bf1beef04b2152cd16879e249d6d67a14d8f98371599e8a81a2685e61d662de 7320 ampliconnoise_1.29-15_arm64.buildinfo 376ba1833994f4f36c0e27601bf19533fd44e3a54908dc554fa5207293ad8bc5 1098528 ampliconnoise_1.29-15_arm64.deb Files: adc040219dfa2cca602f743111160eca 446752 debug optional ampliconnoise-dbgsym_1.29-15_arm64.deb 04ccca9911d15de783069b3fe095bda8 7320 science optional ampliconnoise_1.29-15_arm64.buildinfo 6b353935ee8a701a394ef7a62f149c31 1098528 science optional ampliconnoise_1.29-15_arm64.deb Wed Mar 26 17:40:26 UTC 2025 I: diffoscope 291 will be used to compare the two builds: Running as unit: rb-diffoscope-arm64_9-66399.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.2q1QQ1ha/ampliconnoise_1.29-15.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.2q1QQ1ha/ampliconnoise_1.29-15.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.2q1QQ1ha/ampliconnoise_1.29-15.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.2q1QQ1ha/b1/ampliconnoise_1.29-15_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.2q1QQ1ha/b2/ampliconnoise_1.29-15_arm64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.004s) 0.004s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 265ms CPU time consumed: 266ms Wed Mar 26 17:40:27 UTC 2025 I: diffoscope 291 found no differences in the changes files, and a .buildinfo file also exists. Wed Mar 26 17:40:27 UTC 2025 I: ampliconnoise from unstable built successfully and reproducibly on arm64. Wed Mar 26 17:40:28 UTC 2025 I: Submitting .buildinfo files to external archives: Wed Mar 26 17:40:28 UTC 2025 I: Submitting 12K b1/ampliconnoise_1.29-15_arm64.buildinfo.asc Wed Mar 26 17:40:31 UTC 2025 I: Submitting 12K b2/ampliconnoise_1.29-15_arm64.buildinfo.asc Wed Mar 26 17:40:34 UTC 2025 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Wed Mar 26 17:40:34 UTC 2025 I: Done submitting .buildinfo files. Wed Mar 26 17:40:34 UTC 2025 I: Removing signed ampliconnoise_1.29-15_arm64.buildinfo.asc files: removed './b1/ampliconnoise_1.29-15_arm64.buildinfo.asc' removed './b2/ampliconnoise_1.29-15_arm64.buildinfo.asc'