Sun Mar 2 08:12:39 UTC 2025 I: starting to build ngmlr/trixie/arm64 on jenkins on '2025-03-02 08:12' Sun Mar 2 08:12:39 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_9/62334/console.log Sun Mar 2 08:12:39 UTC 2025 I: Downloading source for trixie/ngmlr=0.2.7+git20210816.a2a31fb+dfsg-2 --2025-03-02 08:12:39-- http://deb.debian.org/debian/pool/main/n/ngmlr/ngmlr_0.2.7%2bgit20210816.a2a31fb%2bdfsg-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2209 (2.2K) [text/prs.lines.tag] Saving to: ‘ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2.dsc’ 0K .. 100% 382M=0s 2025-03-02 08:12:39 (382 MB/s) - ‘ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2.dsc’ saved [2209/2209] Sun Mar 2 08:12:39 UTC 2025 I: ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: ngmlr Binary: ngmlr Architecture: any Version: 0.2.7+git20210816.a2a31fb+dfsg-2 Maintainer: Debian Med Packaging Team Uploaders: Nilesh Patra Homepage: https://github.com/philres/ngmlr Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/med-team/ngmlr Vcs-Git: https://salsa.debian.org/med-team/ngmlr.git Testsuite: autopkgtest Testsuite-Triggers: bedtools, samtools Build-Depends: debhelper-compat (= 13), cmake, zlib1g-dev, libssw-dev, libtclap-dev, libhts-dev, libsimde-dev Package-List: ngmlr deb science optional arch=any Checksums-Sha1: 162e7971ec0b0a830c2ff517f2fe83ccc36b30fd 667893 ngmlr_0.2.7+git20210816.a2a31fb+dfsg.orig.tar.gz d242cf198d0aa22b3ff3f682707f72a2424b8352 8084 ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2.debian.tar.xz Checksums-Sha256: df7d9a0074b4d5d307258b8f23e1df2960f6af071bac07c41e64d38ef442592d 667893 ngmlr_0.2.7+git20210816.a2a31fb+dfsg.orig.tar.gz e919ef334b228ca2e49701a28f0a5f40939a1fb0d3c5a0fe83032ca14d32cba1 8084 ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2.debian.tar.xz Files: 3f5470714ec6bf26aa5e24df22e66b92 667893 ngmlr_0.2.7+git20210816.a2a31fb+dfsg.orig.tar.gz 2efd9c80430797646299ab17ae555b6c 8084 ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJGBAEBCgAwFiEEPpmlJvXcwMu/HO6mALrnSzQzafEFAmFoIRoSHG5pbGVzaEBk ZWJpYW4ub3JnAAoJEAC650s0M2nx4XkP/3Ia0pduXZczXZ4lJp65pwxVe6kj6ENu iTUenTZUJuKigqMmSExqNR+isiCIuc9azXOoSImsEQgV5ioNECb7o7D6n0EfjIpz 4wgqAxzS+PtPbdjd3mYMU6tSUNOdGfU3H3Ruzh83G1X/E3QmpHqiig4A2oQ4775D gp5TzI80ibdd7JGPSvrxQv3dZ7fWkLMoFFSkn2DKES9Nt6X4ohsiAUs0TADkbVu0 1+QCJXqG+BguGEK1XDac9imKJ9NaVA+rTBjRoQaEbAGfwX5HICjhRnayY4d0oDU8 k74DVUFdgRkMd7bzYdBpxVtYwjkLXisXP5lIsrIEwQDBZvL6lxFMHK/UHU946vC7 S+8Fn3c4L8lCpOcuKLv0z48YyvmCUFMy+jgQuw/Nx2obyjAvP7BpKcRg8yQKBqfX 1Bbdu0r3s0Lv8lzYs/8Ui6Ww4g2E9U9YApTnjmkiyGk/rpg9RHbfBSbNwVZBu2zs nKPSVrSAyeKWFuOpZZFNowhuvFkuytVB7l9N68AAa8LkgwPV7sgjXeL+pU4zWqxv iayLUFirV10K5zIBh7+N4eqXg2/yLAs4vYZ51EUrTP3gLYFly85YDx2oIB6Hd3OK yCEoULFyePmcy5cAVn6SPiLii10xwNfmAYvfdoaytaaG1/wPLU8Bb2q7fL4lSe+/ JMcxrCSbuMh6 =kL8F -----END PGP SIGNATURE----- Sun Mar 2 08:12:39 UTC 2025 I: Checking whether the package is not for us Sun Mar 2 08:12:39 UTC 2025 I: Starting 1st build on remote node codethink04-arm64.debian.net. Sun Mar 2 08:12:39 UTC 2025 I: Preparing to do remote build '1' on codethink04-arm64.debian.net. Sun Mar 2 08:13:27 UTC 2025 I: Deleting $TMPDIR on codethink04-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat Mar 1 20:12:41 -12 2025 I: pbuilder-time-stamp: 1740903161 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-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 [ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2.dsc] I: copying [./ngmlr_0.2.7+git20210816.a2a31fb+dfsg.orig.tar.gz] I: copying [./ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2.dsc: unsupported subcommand dpkg-source: info: extracting ngmlr in ngmlr-0.2.7+git20210816.a2a31fb+dfsg dpkg-source: info: unpacking ngmlr_0.2.7+git20210816.a2a31fb+dfsg.orig.tar.gz dpkg-source: info: unpacking ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use-system-libs.patch dpkg-source: info: applying spellings.patch dpkg-source: info: applying simde.patch dpkg-source: info: applying VarArgsDefines.patch dpkg-source: info: applying AlignmentBuffer_noMatch.patch dpkg-source: info: applying fix-arm64.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/204760/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='trixie' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='45173f80c1cd44879283f45864c5dbf5' 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='204760' 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.CJsisMUt/pbuilderrc_qhEx --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.CJsisMUt/b1 --logfile b1/build.log ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2.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 6.1.0-31-cloud-arm64 #1 SMP Debian 6.1.128-1 (2025-02-07) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin I: user script /srv/workspace/pbuilder/204760/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), cmake, zlib1g-dev, libssw-dev, libtclap-dev, libhts-dev, libsimde-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 ... 19916 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 cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libssw-dev; however: Package libssw-dev is not installed. pbuilder-satisfydepends-dummy depends on libtclap-dev; however: Package libtclap-dev is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-dev is not installed. pbuilder-satisfydepends-dummy depends on libsimde-dev; however: Package libsimde-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} cmake{a} cmake-data{a} comerr-dev{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} krb5-multidev{a} libarchive-zip-perl{a} libarchive13t64{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libcurl4t64{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1t64{a} libevent-2.1-7t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libhts-dev{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libidn2-0{a} libidn2-dev{a} libjsoncpp26{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} libldap-dev{a} libldap2{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls-dev{a} libngtcp2-crypto-gnutls8{a} libngtcp2-dev{a} libp11-kit-dev{a} libp11-kit0{a} libpipeline1{a} libpkgconf3{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} librhash1{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsimde-dev{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libssw-dev{a} libssw0{a} libtasn1-6{a} libtasn1-6-dev{a} libtclap-dev{a} libtool{a} libuchardet0{a} libunbound8{a} libunistring5{a} libuv1t64{a} libxml2{a} libzstd-dev{a} m4{a} man-db{a} nettle-dev{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libtasn1-doc linux-sysctl-defaults lynx psmisc publicsuffix wget 0 packages upgraded, 108 newly installed, 0 to remove and 0 not upgraded. Need to get 57.6 MB of archives. After unpacking 227 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 libproc2-0 arm64 2:4.0.4-7 [62.4 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 procps arm64 2:4.0.4-7 [868 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.45-3+b1 [314 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.45-3+b1 [102 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.45-3+b1 [43.4 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.23.1-1 [241 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-7 [1129 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.40.4-5 [92.0 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-5 [284 kB] Get: 14 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.72-3 [493 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.17-3 [862 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.23.1-1 [770 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 cmake-data all 3.31.5-2 [2267 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 libicu72 arm64 72.1-6 [9239 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.2+b2 [630 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 libarchive13t64 arm64 3.7.4-1.1 [323 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 libbrotli1 arm64 1.1.0-2+b7 [308 kB] Get: 23 http://deb.debian.org/debian trixie/main arm64 libkrb5support0 arm64 1.21.3-4 [32.2 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 libcom-err2 arm64 1.47.2-1 [23.9 kB] Get: 25 http://deb.debian.org/debian trixie/main arm64 libk5crypto3 arm64 1.21.3-4 [81.5 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 libkeyutils1 arm64 1.6.3-4 [9352 B] Get: 27 http://deb.debian.org/debian trixie/main arm64 libkrb5-3 arm64 1.21.3-4 [308 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 libgssapi-krb5-2 arm64 1.21.3-4 [127 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 libunistring5 arm64 1.3-1 [449 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 libidn2-0 arm64 2.3.7-2+b1 [127 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-8+b1 [20.3 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-8+b1 [55.7 kB] Get: 33 http://deb.debian.org/debian trixie/main arm64 libldap2 arm64 2.6.9+dfsg-1 [179 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 libnghttp2-14 arm64 1.64.0-1 [71.3 kB] Get: 35 http://deb.debian.org/debian trixie/main arm64 libnghttp3-9 arm64 1.6.0-2 [60.5 kB] Get: 36 http://deb.debian.org/debian trixie/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get: 37 http://deb.debian.org/debian trixie/main arm64 libffi8 arm64 3.4.7-1 [21.2 kB] Get: 38 http://deb.debian.org/debian trixie/main arm64 libp11-kit0 arm64 0.25.5-3 [409 kB] Get: 39 http://deb.debian.org/debian trixie/main arm64 libtasn1-6 arm64 4.20.0-2 [47.3 kB] Get: 40 http://deb.debian.org/debian trixie/main arm64 libgnutls30t64 arm64 3.8.9-2 [1374 kB] Get: 41 http://deb.debian.org/debian trixie/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b5 [56.8 kB] Get: 42 http://deb.debian.org/debian trixie/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get: 43 http://deb.debian.org/debian trixie/main arm64 libcurl4t64 arm64 8.12.1-3 [339 kB] Get: 44 http://deb.debian.org/debian trixie/main arm64 libexpat1 arm64 2.6.4-1 [90.7 kB] Get: 45 http://deb.debian.org/debian trixie/main arm64 libjsoncpp26 arm64 1.9.6-3 [72.9 kB] Get: 46 http://deb.debian.org/debian trixie/main arm64 librhash1 arm64 1.4.5-1 [129 kB] Get: 47 http://deb.debian.org/debian trixie/main arm64 libuv1t64 arm64 1.50.0-2 [148 kB] Get: 48 http://deb.debian.org/debian trixie/main arm64 cmake arm64 3.31.5-2 [9907 kB] Get: 49 http://deb.debian.org/debian trixie/main arm64 comerr-dev arm64 2.1-1.47.2-1 [55.9 kB] Get: 50 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 51 http://deb.debian.org/debian trixie/main arm64 libtool all 2.5.4-3 [539 kB] Get: 52 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 53 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 54 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 55 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 56 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 57 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 58 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.23.1-1 [1610 kB] Get: 59 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 60 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 61 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.24.1 [920 kB] Get: 62 http://deb.debian.org/debian trixie/main arm64 libgssrpc4t64 arm64 1.21.3-4 [56.9 kB] Get: 63 http://deb.debian.org/debian trixie/main arm64 libkadm5clnt-mit12 arm64 1.21.3-4 [41.0 kB] Get: 64 http://deb.debian.org/debian trixie/main arm64 libkdb5-10t64 arm64 1.21.3-4 [41.0 kB] Get: 65 http://deb.debian.org/debian trixie/main arm64 libkadm5srv-mit12 arm64 1.21.3-4 [53.1 kB] Get: 66 http://deb.debian.org/debian trixie/main arm64 krb5-multidev arm64 1.21.3-4 [126 kB] Get: 67 http://deb.debian.org/debian trixie/main arm64 libbrotli-dev arm64 1.1.0-2+b7 [308 kB] Get: 68 http://deb.debian.org/debian trixie/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Get: 69 http://deb.debian.org/debian trixie/main arm64 libngtcp2-16 arm64 1.9.1-1 [109 kB] Get: 70 http://deb.debian.org/debian trixie/main arm64 libngtcp2-crypto-gnutls8 arm64 1.9.1-1 [17.3 kB] Get: 71 http://deb.debian.org/debian trixie/main arm64 libcurl3t64-gnutls arm64 8.12.1-3 [336 kB] Get: 72 http://deb.debian.org/debian trixie/main arm64 libevent-2.1-7t64 arm64 2.1.12-stable-10+b1 [170 kB] Get: 73 http://deb.debian.org/debian trixie/main arm64 libunbound8 arm64 1.22.0-1+b1 [553 kB] Get: 74 http://deb.debian.org/debian trixie/main arm64 libgnutls-dane0t64 arm64 3.8.9-2 [452 kB] Get: 75 http://deb.debian.org/debian trixie/main arm64 libgnutls-openssl27t64 arm64 3.8.9-2 [452 kB] Get: 76 http://deb.debian.org/debian trixie/main arm64 libidn2-dev arm64 2.3.7-2+b1 [122 kB] Get: 77 http://deb.debian.org/debian trixie/main arm64 libp11-kit-dev arm64 0.25.5-3 [208 kB] Get: 78 http://deb.debian.org/debian trixie/main arm64 libtasn1-6-dev arm64 4.20.0-2 [96.7 kB] Get: 79 http://deb.debian.org/debian trixie/main arm64 libgmpxx4ldbl arm64 2:6.3.0+dfsg-3 [329 kB] Get: 80 http://deb.debian.org/debian trixie/main arm64 libgmp-dev arm64 2:6.3.0+dfsg-3 [621 kB] Get: 81 http://deb.debian.org/debian trixie/main arm64 nettle-dev arm64 3.10.1-1 [1325 kB] Get: 82 http://deb.debian.org/debian trixie/main arm64 libgnutls28-dev arm64 3.8.9-2 [1419 kB] Get: 83 http://deb.debian.org/debian trixie/main arm64 libkrb5-dev arm64 1.21.3-4 [15.9 kB] Get: 84 http://deb.debian.org/debian trixie/main arm64 libldap-dev arm64 2.6.9+dfsg-1 [305 kB] Get: 85 http://deb.debian.org/debian trixie/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 86 http://deb.debian.org/debian trixie/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 87 http://deb.debian.org/debian trixie/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 88 http://deb.debian.org/debian trixie/main arm64 libnghttp2-dev arm64 1.64.0-1 [112 kB] Get: 89 http://deb.debian.org/debian trixie/main arm64 libnghttp3-dev arm64 1.6.0-2 [86.5 kB] Get: 90 http://deb.debian.org/debian trixie/main arm64 libngtcp2-crypto-gnutls-dev arm64 1.9.1-1 [23.0 kB] Get: 91 http://deb.debian.org/debian trixie/main arm64 libngtcp2-dev arm64 1.9.1-1 [162 kB] Get: 92 http://deb.debian.org/debian trixie/main arm64 libpsl-dev arm64 0.21.2-1.1+b1 [77.9 kB] Get: 93 http://deb.debian.org/debian trixie/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 94 http://deb.debian.org/debian trixie/main arm64 librtmp-dev arm64 2.4+20151223.gitfa8646d.1-2+b5 [67.5 kB] Get: 95 http://deb.debian.org/debian trixie/main arm64 libssl-dev arm64 3.4.1-1 [3232 kB] Get: 96 http://deb.debian.org/debian trixie/main arm64 libssh2-1-dev arm64 1.11.1-1 [388 kB] Get: 97 http://deb.debian.org/debian trixie/main arm64 libzstd-dev arm64 1.5.6+dfsg-2 [329 kB] Get: 98 http://deb.debian.org/debian trixie/main arm64 libcurl4-gnutls-dev arm64 8.12.1-3 [465 kB] Get: 99 http://deb.debian.org/debian trixie/main arm64 libdeflate0 arm64 1.23-1+b1 [42.5 kB] Get: 100 http://deb.debian.org/debian trixie/main arm64 libdeflate-dev arm64 1.23-1+b1 [51.4 kB] Get: 101 http://deb.debian.org/debian trixie/main arm64 libhtscodecs2 arm64 1.6.1-2 [74.7 kB] Get: 102 http://deb.debian.org/debian trixie/main arm64 libhts3t64 arm64 1.21+ds-1 [426 kB] Get: 103 http://deb.debian.org/debian trixie/main arm64 liblzma-dev arm64 5.6.3-1+b1 [312 kB] Get: 104 http://deb.debian.org/debian trixie/main arm64 libhts-dev arm64 1.21+ds-1 [1658 kB] Get: 105 http://deb.debian.org/debian trixie/main arm64 libsimde-dev all 0.8.2-2 [467 kB] Get: 106 http://deb.debian.org/debian trixie/main arm64 libssw0 arm64 1.1-15+b2 [20.0 kB] Get: 107 http://deb.debian.org/debian trixie/main arm64 libssw-dev arm64 1.1-15+b2 [23.4 kB] Get: 108 http://deb.debian.org/debian trixie/main arm64 libtclap-dev arm64 1.2.5-1+b1 [3359 kB] Fetched 57.6 MB in 0s (156 MB/s) Preconfiguring packages ... Selecting previously unselected package libproc2-0:arm64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19916 files and directories currently installed.) Preparing to unpack .../000-libproc2-0_2%3a4.0.4-7_arm64.deb ... Unpacking libproc2-0:arm64 (2:4.0.4-7) ... Selecting previously unselected package procps. Preparing to unpack .../001-procps_2%3a4.0.4-7_arm64.deb ... Unpacking procps (2:4.0.4-7) ... Selecting previously unselected package sensible-utils. 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Selecting previously unselected package libbrotli1:arm64. Preparing to unpack .../021-libbrotli1_1.1.0-2+b7_arm64.deb ... Unpacking libbrotli1:arm64 (1.1.0-2+b7) ... Selecting previously unselected package libkrb5support0:arm64. Preparing to unpack .../022-libkrb5support0_1.21.3-4_arm64.deb ... Unpacking libkrb5support0:arm64 (1.21.3-4) ... Selecting previously unselected package libcom-err2:arm64. Preparing to unpack .../023-libcom-err2_1.47.2-1_arm64.deb ... Unpacking libcom-err2:arm64 (1.47.2-1) ... Selecting previously unselected package libk5crypto3:arm64. Preparing to unpack .../024-libk5crypto3_1.21.3-4_arm64.deb ... Unpacking libk5crypto3:arm64 (1.21.3-4) ... Selecting previously unselected package libkeyutils1:arm64. Preparing to unpack .../025-libkeyutils1_1.6.3-4_arm64.deb ... Unpacking libkeyutils1:arm64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:arm64. Preparing to unpack .../026-libkrb5-3_1.21.3-4_arm64.deb ... Unpacking libkrb5-3:arm64 (1.21.3-4) ... Selecting previously unselected package libgssapi-krb5-2:arm64. Preparing to unpack .../027-libgssapi-krb5-2_1.21.3-4_arm64.deb ... Unpacking libgssapi-krb5-2:arm64 (1.21.3-4) ... Selecting previously unselected package libunistring5:arm64. Preparing to unpack .../028-libunistring5_1.3-1_arm64.deb ... Unpacking libunistring5:arm64 (1.3-1) ... Selecting previously unselected package libidn2-0:arm64. Preparing to unpack .../029-libidn2-0_2.3.7-2+b1_arm64.deb ... Unpacking libidn2-0:arm64 (2.3.7-2+b1) ... Selecting previously unselected package libsasl2-modules-db:arm64. Preparing to unpack .../030-libsasl2-modules-db_2.1.28+dfsg1-8+b1_arm64.deb ... Unpacking libsasl2-modules-db:arm64 (2.1.28+dfsg1-8+b1) ... Selecting previously unselected package libsasl2-2:arm64. Preparing to unpack .../031-libsasl2-2_2.1.28+dfsg1-8+b1_arm64.deb ... Unpacking libsasl2-2:arm64 (2.1.28+dfsg1-8+b1) ... Selecting previously unselected package libldap2:arm64. 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Preparing to unpack .../038-libtasn1-6_4.20.0-2_arm64.deb ... Unpacking libtasn1-6:arm64 (4.20.0-2) ... Selecting previously unselected package libgnutls30t64:arm64. Preparing to unpack .../039-libgnutls30t64_3.8.9-2_arm64.deb ... Unpacking libgnutls30t64:arm64 (3.8.9-2) ... Selecting previously unselected package librtmp1:arm64. Preparing to unpack .../040-librtmp1_2.4+20151223.gitfa8646d.1-2+b5_arm64.deb ... Unpacking librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b5) ... Selecting previously unselected package libssh2-1t64:arm64. Preparing to unpack .../041-libssh2-1t64_1.11.1-1_arm64.deb ... Unpacking libssh2-1t64:arm64 (1.11.1-1) ... Selecting previously unselected package libcurl4t64:arm64. Preparing to unpack .../042-libcurl4t64_8.12.1-3_arm64.deb ... Unpacking libcurl4t64:arm64 (8.12.1-3) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../043-libexpat1_2.6.4-1_arm64.deb ... Unpacking libexpat1:arm64 (2.6.4-1) ... 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Unpacking libelf1t64:arm64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../056-dwz_0.15-1+b1_arm64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../057-gettext_0.23.1-1_arm64.deb ... Unpacking gettext (0.23.1-1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../058-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../059-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../060-debhelper_13.24.1_all.deb ... Unpacking debhelper (13.24.1) ... Selecting previously unselected package libgssrpc4t64:arm64. Preparing to unpack .../061-libgssrpc4t64_1.21.3-4_arm64.deb ... Unpacking libgssrpc4t64:arm64 (1.21.3-4) ... Selecting previously unselected package libkadm5clnt-mit12:arm64. Preparing to unpack .../062-libkadm5clnt-mit12_1.21.3-4_arm64.deb ... Unpacking libkadm5clnt-mit12:arm64 (1.21.3-4) ... Selecting previously unselected package libkdb5-10t64:arm64. Preparing to unpack .../063-libkdb5-10t64_1.21.3-4_arm64.deb ... Unpacking libkdb5-10t64:arm64 (1.21.3-4) ... Selecting previously unselected package libkadm5srv-mit12:arm64. Preparing to unpack .../064-libkadm5srv-mit12_1.21.3-4_arm64.deb ... Unpacking libkadm5srv-mit12:arm64 (1.21.3-4) ... Selecting previously unselected package krb5-multidev:arm64. Preparing to unpack .../065-krb5-multidev_1.21.3-4_arm64.deb ... Unpacking krb5-multidev:arm64 (1.21.3-4) ... Selecting previously unselected package libbrotli-dev:arm64. Preparing to unpack .../066-libbrotli-dev_1.1.0-2+b7_arm64.deb ... Unpacking libbrotli-dev:arm64 (1.1.0-2+b7) ... Selecting previously unselected package libbz2-dev:arm64. Preparing to unpack .../067-libbz2-dev_1.0.8-6_arm64.deb ... Unpacking libbz2-dev:arm64 (1.0.8-6) ... Selecting previously unselected package libngtcp2-16:arm64. Preparing to unpack .../068-libngtcp2-16_1.9.1-1_arm64.deb ... Unpacking libngtcp2-16:arm64 (1.9.1-1) ... Selecting previously unselected package libngtcp2-crypto-gnutls8:arm64. Preparing to unpack .../069-libngtcp2-crypto-gnutls8_1.9.1-1_arm64.deb ... Unpacking libngtcp2-crypto-gnutls8:arm64 (1.9.1-1) ... Selecting previously unselected package libcurl3t64-gnutls:arm64. Preparing to unpack .../070-libcurl3t64-gnutls_8.12.1-3_arm64.deb ... Unpacking libcurl3t64-gnutls:arm64 (8.12.1-3) ... Selecting previously unselected package libevent-2.1-7t64:arm64. Preparing to unpack .../071-libevent-2.1-7t64_2.1.12-stable-10+b1_arm64.deb ... Unpacking libevent-2.1-7t64:arm64 (2.1.12-stable-10+b1) ... Selecting previously unselected package libunbound8:arm64. Preparing to unpack .../072-libunbound8_1.22.0-1+b1_arm64.deb ... Unpacking libunbound8:arm64 (1.22.0-1+b1) ... Selecting previously unselected package libgnutls-dane0t64:arm64. Preparing to unpack .../073-libgnutls-dane0t64_3.8.9-2_arm64.deb ... Unpacking libgnutls-dane0t64:arm64 (3.8.9-2) ... Selecting previously unselected package libgnutls-openssl27t64:arm64. Preparing to unpack .../074-libgnutls-openssl27t64_3.8.9-2_arm64.deb ... Unpacking libgnutls-openssl27t64:arm64 (3.8.9-2) ... Selecting previously unselected package libidn2-dev:arm64. Preparing to unpack .../075-libidn2-dev_2.3.7-2+b1_arm64.deb ... Unpacking libidn2-dev:arm64 (2.3.7-2+b1) ... Selecting previously unselected package libp11-kit-dev:arm64. Preparing to unpack .../076-libp11-kit-dev_0.25.5-3_arm64.deb ... Unpacking libp11-kit-dev:arm64 (0.25.5-3) ... Selecting previously unselected package libtasn1-6-dev:arm64. Preparing to unpack .../077-libtasn1-6-dev_4.20.0-2_arm64.deb ... Unpacking libtasn1-6-dev:arm64 (4.20.0-2) ... Selecting previously unselected package libgmpxx4ldbl:arm64. Preparing to unpack .../078-libgmpxx4ldbl_2%3a6.3.0+dfsg-3_arm64.deb ... Unpacking libgmpxx4ldbl:arm64 (2:6.3.0+dfsg-3) ... Selecting previously unselected package libgmp-dev:arm64. Preparing to unpack .../079-libgmp-dev_2%3a6.3.0+dfsg-3_arm64.deb ... Unpacking libgmp-dev:arm64 (2:6.3.0+dfsg-3) ... Selecting previously unselected package nettle-dev:arm64. Preparing to unpack .../080-nettle-dev_3.10.1-1_arm64.deb ... Unpacking nettle-dev:arm64 (3.10.1-1) ... Selecting previously unselected package libgnutls28-dev:arm64. Preparing to unpack .../081-libgnutls28-dev_3.8.9-2_arm64.deb ... Unpacking libgnutls28-dev:arm64 (3.8.9-2) ... Selecting previously unselected package libkrb5-dev:arm64. Preparing to unpack .../082-libkrb5-dev_1.21.3-4_arm64.deb ... Unpacking libkrb5-dev:arm64 (1.21.3-4) ... Selecting previously unselected package libldap-dev:arm64. Preparing to unpack .../083-libldap-dev_2.6.9+dfsg-1_arm64.deb ... 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/ && 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 > ../ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2_source.changes dpkg-buildpackage: info: source package ngmlr dpkg-buildpackage: info: source version 0.2.7+git20210816.a2a31fb+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Nilesh Patra dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean --buildsystem cmake debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg' dh_auto_clean rm -rf bin make[1]: Leaving directory '/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg' dh_autoreconf_clean -O--buildsystem=cmake dh_clean -O--buildsystem=cmake debian/rules binary dh binary --buildsystem cmake dh_update_autotools_config -O--buildsystem=cmake dh_autoreconf -O--buildsystem=cmake dh_auto_configure -O--buildsystem=cmake cd obj-aarch64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/aarch64-linux-gnu .. CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found ZLIB: /usr/lib/aarch64-linux-gnu/libz.so (found version "1.3.1") -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Performing Test COMPILER_SUPPORTS_CXX11 -- Performing Test COMPILER_SUPPORTS_CXX11 - Success CMake Deprecation Warning at src/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. 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-MF CMakeFiles/ngmlr.dir/AlignmentMatrixFast.cpp.o.d -o CMakeFiles/ngmlr.dir/AlignmentMatrixFast.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/AlignmentMatrixFast.cpp [ 32%] Building CXX object src/CMakeFiles/ngmlr.dir/Logging.cpp.o cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/CS.cpp.o -MF CMakeFiles/ngmlr.dir/CS.cpp.o.d -o CMakeFiles/ngmlr.dir/CS.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/CS.cpp cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/AlignmentMatrix.cpp.o -MF CMakeFiles/ngmlr.dir/AlignmentMatrix.cpp.o.d -o CMakeFiles/ngmlr.dir/AlignmentMatrix.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/AlignmentMatrix.cpp [ 36%] Building CXX object src/CMakeFiles/ngmlr.dir/ConvexAlignFast.cpp.o cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/CSstatic.cpp.o -MF CMakeFiles/ngmlr.dir/CSstatic.cpp.o.d -o CMakeFiles/ngmlr.dir/CSstatic.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/CSstatic.cpp cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/LinearRegression.cpp.o -MF CMakeFiles/ngmlr.dir/LinearRegression.cpp.o.d -o CMakeFiles/ngmlr.dir/LinearRegression.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/LinearRegression.cpp cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/ArgParser.cpp.o -MF CMakeFiles/ngmlr.dir/ArgParser.cpp.o.d -o CMakeFiles/ngmlr.dir/ArgParser.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/ArgParser.cpp cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/ConvexAlign.cpp.o -MF CMakeFiles/ngmlr.dir/ConvexAlign.cpp.o.d -o CMakeFiles/ngmlr.dir/ConvexAlign.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/ConvexAlign.cpp cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/ConvexAlignFast.cpp.o -MF CMakeFiles/ngmlr.dir/ConvexAlignFast.cpp.o.d -o CMakeFiles/ngmlr.dir/ConvexAlignFast.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/ConvexAlignFast.cpp [ 40%] Building CXX object src/CMakeFiles/ngmlr.dir/NGM.cpp.o cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/Logging.cpp.o -MF CMakeFiles/ngmlr.dir/Logging.cpp.o.d -o CMakeFiles/ngmlr.dir/Logging.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/Logging.cpp [ 48%] Building CXX object src/CMakeFiles/ngmlr.dir/main.cpp.o [ 48%] Building CXX object src/CMakeFiles/ngmlr.dir/MappedRead.cpp.o cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/NGM.cpp.o -MF CMakeFiles/ngmlr.dir/NGM.cpp.o.d -o CMakeFiles/ngmlr.dir/NGM.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/NGM.cpp cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/main.cpp.o -MF CMakeFiles/ngmlr.dir/main.cpp.o.d -o CMakeFiles/ngmlr.dir/main.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/main.cpp cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/MappedRead.cpp.o -MF CMakeFiles/ngmlr.dir/MappedRead.cpp.o.d -o CMakeFiles/ngmlr.dir/MappedRead.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/MappedRead.cpp /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/main.cpp:56:153: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 56 | Log.Message("ngmlr %s%s (build: %s %s, start: %s)", version.str().c_str(), cDebug ? " debug" : "", __DATE__, __TIME__, currentDateTime().c_str()); | ^ /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/main.cpp:56:108: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 56 | Log.Message("ngmlr %s%s (build: %s %s, start: %s)", version.str().c_str(), cDebug ? " debug" : "", __DATE__, __TIME__, currentDateTime().c_str()); | ^~~~~~~~ [ 52%] Building CXX object src/CMakeFiles/ngmlr.dir/NGMTask.cpp.o [ 56%] Building CXX object src/CMakeFiles/ngmlr.dir/AlignmentBuffer.cpp.o cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/NGMTask.cpp.o -MF CMakeFiles/ngmlr.dir/NGMTask.cpp.o.d -o CMakeFiles/ngmlr.dir/NGMTask.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/NGMTask.cpp cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/AlignmentBuffer.cpp.o -MF CMakeFiles/ngmlr.dir/AlignmentBuffer.cpp.o.d -o CMakeFiles/ngmlr.dir/AlignmentBuffer.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/AlignmentBuffer.cpp /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/Logging.cpp: In function ‘std::string add_timestamp(std::string)’: /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/Logging.cpp:118:41: warning: ‘%02i’ directive writing between 2 and 11 bytes into a region of size between 8 and 15 [-Wformat-overflow=] 118 | sprintf(timestamp, "%4i-%02i-%02i_%02i-%02i-%02i", tm->tm_year + 1900, tm->tm_mon + 1, tm->tm_mday, tm->tm_hour, tm->tm_min, | ^~~~ /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/Logging.cpp:118:36: note: directive argument in the range [-2147483647, 2147483647] 118 | sprintf(timestamp, "%4i-%02i-%02i_%02i-%02i-%02i", tm->tm_year + 1900, tm->tm_mon + 1, tm->tm_mday, tm->tm_hour, tm->tm_min, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:970, from /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/Logging.cpp:7: In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘std::string add_timestamp(std::string)’ at /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/Logging.cpp:118:10: /usr/include/aarch64-linux-gnu/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 20 and 72 bytes into a destination of size 20 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 60%] Building CXX object src/CMakeFiles/ngmlr.dir/PrefixTable.cpp.o cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/PrefixTable.cpp.o -MF CMakeFiles/ngmlr.dir/PrefixTable.cpp.o.d -o CMakeFiles/ngmlr.dir/PrefixTable.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/PrefixTable.cpp [ 64%] Building CXX object src/CMakeFiles/ngmlr.dir/ReadProvider.cpp.o cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/ReadProvider.cpp.o -MF CMakeFiles/ngmlr.dir/ReadProvider.cpp.o.d -o CMakeFiles/ngmlr.dir/ReadProvider.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/ReadProvider.cpp [ 68%] Building CXX object src/CMakeFiles/ngmlr.dir/SamParser.cpp.o cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/SamParser.cpp.o -MF CMakeFiles/ngmlr.dir/SamParser.cpp.o.d -o CMakeFiles/ngmlr.dir/SamParser.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/SamParser.cpp [ 72%] Building CXX object src/CMakeFiles/ngmlr.dir/SAMWriter.cpp.o cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/SAMWriter.cpp.o -MF CMakeFiles/ngmlr.dir/SAMWriter.cpp.o.d -o CMakeFiles/ngmlr.dir/SAMWriter.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/SAMWriter.cpp [ 76%] Building CXX object src/CMakeFiles/ngmlr.dir/SequenceProvider.cpp.o cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/SequenceProvider.cpp.o -MF CMakeFiles/ngmlr.dir/SequenceProvider.cpp.o.d -o CMakeFiles/ngmlr.dir/SequenceProvider.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/SequenceProvider.cpp [ 80%] Building CXX object src/CMakeFiles/ngmlr.dir/OutputReadBuffer.cpp.o cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/OutputReadBuffer.cpp.o -MF CMakeFiles/ngmlr.dir/OutputReadBuffer.cpp.o.d -o CMakeFiles/ngmlr.dir/OutputReadBuffer.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/OutputReadBuffer.cpp [ 84%] Building CXX object src/CMakeFiles/ngmlr.dir/ScoreBuffer.cpp.o cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/ScoreBuffer.cpp.o -MF CMakeFiles/ngmlr.dir/ScoreBuffer.cpp.o.d -o CMakeFiles/ngmlr.dir/ScoreBuffer.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/ScoreBuffer.cpp /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/OutputReadBuffer.cpp: In destructor ‘OutputReadBuffer::~OutputReadBuffer()’: /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/OutputReadBuffer.cpp:17:17: warning: ‘throw’ will always call ‘terminate’ [-Wterminate] 17 | throw "Elements left in buffer!"; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/OutputReadBuffer.cpp:17:17: note: in C++11 destructors default to ‘noexcept’ [ 88%] Building CXX object src/CMakeFiles/ngmlr.dir/StrippedSW.cpp.o cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/StrippedSW.cpp.o -MF CMakeFiles/ngmlr.dir/StrippedSW.cpp.o.d -o CMakeFiles/ngmlr.dir/StrippedSW.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/StrippedSW.cpp [ 92%] Building CXX object src/CMakeFiles/ngmlr.dir/unix.cpp.o cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/unix.cpp.o -MF CMakeFiles/ngmlr.dir/unix.cpp.o.d -o CMakeFiles/ngmlr.dir/unix.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/unix.cpp [ 96%] Building CXX object src/CMakeFiles/ngmlr.dir/unix_threads.cpp.o cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/htslib -I/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/../lib -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/ngmlr.dir/unix_threads.cpp.o -MF CMakeFiles/ngmlr.dir/unix_threads.cpp.o.d -o CMakeFiles/ngmlr.dir/unix_threads.cpp.o -c /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/src/unix_threads.cpp [100%] Linking CXX executable /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/bin/ngmlr-0.2.8/ngmlr cd /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngmlr.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--dependency-file=CMakeFiles/ngmlr.dir/link.d CMakeFiles/ngmlr.dir/AlignmentMatrix.cpp.o CMakeFiles/ngmlr.dir/AlignmentMatrixFast.cpp.o CMakeFiles/ngmlr.dir/ArgParser.cpp.o CMakeFiles/ngmlr.dir/CS.cpp.o CMakeFiles/ngmlr.dir/CSstatic.cpp.o CMakeFiles/ngmlr.dir/ConvexAlign.cpp.o CMakeFiles/ngmlr.dir/ConvexAlignFast.cpp.o CMakeFiles/ngmlr.dir/LinearRegression.cpp.o CMakeFiles/ngmlr.dir/Logging.cpp.o CMakeFiles/ngmlr.dir/MappedRead.cpp.o CMakeFiles/ngmlr.dir/main.cpp.o CMakeFiles/ngmlr.dir/NGM.cpp.o CMakeFiles/ngmlr.dir/NGMTask.cpp.o CMakeFiles/ngmlr.dir/AlignmentBuffer.cpp.o CMakeFiles/ngmlr.dir/PrefixTable.cpp.o CMakeFiles/ngmlr.dir/ReadProvider.cpp.o CMakeFiles/ngmlr.dir/SamParser.cpp.o CMakeFiles/ngmlr.dir/SAMWriter.cpp.o CMakeFiles/ngmlr.dir/SequenceProvider.cpp.o CMakeFiles/ngmlr.dir/OutputReadBuffer.cpp.o CMakeFiles/ngmlr.dir/ScoreBuffer.cpp.o CMakeFiles/ngmlr.dir/StrippedSW.cpp.o CMakeFiles/ngmlr.dir/unix.cpp.o CMakeFiles/ngmlr.dir/unix_threads.cpp.o -o /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/bin/ngmlr-0.2.8/ngmlr -lz -lssw make[3]: Leaving directory '/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu' [100%] Built target ngmlr make[2]: Leaving directory '/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu' dh_auto_test -O--buildsystem=cmake create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=cmake dh_prep -O--buildsystem=cmake dh_auto_install --destdir=debian/ngmlr/ -O--buildsystem=cmake cd obj-aarch64-linux-gnu && make -j12 install DESTDIR=/build/reproducible-path/ngmlr-0.2.7\+git20210816.a2a31fb\+dfsg/debian/ngmlr AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg -B/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/debian/ngmlr/usr/bin/ngmlr make[1]: Leaving directory '/build/reproducible-path/ngmlr-0.2.7+git20210816.a2a31fb+dfsg/obj-aarch64-linux-gnu' dh_installdocs -O--buildsystem=cmake dh_installchangelogs -O--buildsystem=cmake dh_installexamples -O--buildsystem=cmake dh_installman -O--buildsystem=cmake dh_installsystemduser -O--buildsystem=cmake dh_perl -O--buildsystem=cmake dh_link -O--buildsystem=cmake dh_strip_nondeterminism -O--buildsystem=cmake dh_compress -O--buildsystem=cmake dh_fixperms -O--buildsystem=cmake dh_missing -O--buildsystem=cmake dh_dwz -a -O--buildsystem=cmake dh_strip -a -O--buildsystem=cmake dh_makeshlibs -a -O--buildsystem=cmake dh_shlibdeps -a -O--buildsystem=cmake 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 -O--buildsystem=cmake dh_gencontrol -O--buildsystem=cmake dh_md5sums -O--buildsystem=cmake dh_builddeb -O--buildsystem=cmake dpkg-deb: building package 'ngmlr-dbgsym' in '../ngmlr-dbgsym_0.2.7+git20210816.a2a31fb+dfsg-2_arm64.deb'. dpkg-deb: building package 'ngmlr' in '../ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2_arm64.deb'. dpkg-genbuildinfo --build=binary -O../ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2_arm64.buildinfo dpkg-genchanges --build=binary -O../ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2_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/204760 and its subdirectories I: Current time: Sat Mar 1 20:13:26 -12 2025 I: pbuilder-time-stamp: 1740903206 Sun Mar 2 08:13:28 UTC 2025 I: 1st build successful. Starting 2nd build on remote node codethink03-arm64.debian.net. Sun Mar 2 08:13:28 UTC 2025 I: Preparing to do remote build '2' on codethink03-arm64.debian.net. Sun Mar 2 08:15:17 UTC 2025 I: Deleting $TMPDIR on codethink03-arm64.debian.net. Sun Mar 2 08:15:18 UTC 2025 I: ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2_arm64.changes: Format: 1.8 Date: Thu, 14 Oct 2021 17:34:16 +0530 Source: ngmlr Binary: ngmlr ngmlr-dbgsym Architecture: arm64 Version: 0.2.7+git20210816.a2a31fb+dfsg-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Nilesh Patra Description: ngmlr - CoNvex Gap-cost alignMents for Long Reads Changes: ngmlr (0.2.7+git20210816.a2a31fb+dfsg-2) unstable; urgency=medium . * Add patch to fix arm build * d/control: Remove Pranav from uploaders (not active) * d/t/run-unit-test: diff with -u flag Checksums-Sha1: 11bc2bd56b0c3f72b6bd574fc901c557d35b5591 1184436 ngmlr-dbgsym_0.2.7+git20210816.a2a31fb+dfsg-2_arm64.deb 57e7e5f24e7538531f85a840467b8aa4c5451bcd 7505 ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2_arm64.buildinfo 68bfc2ae26afe39d840b787d09b877350b7e4a13 670456 ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2_arm64.deb Checksums-Sha256: 6c0c148e1fa0f186b25499212e46a37873b9ab3efdb371d9e79278bce320a8b5 1184436 ngmlr-dbgsym_0.2.7+git20210816.a2a31fb+dfsg-2_arm64.deb 8304bce7e3e284ff2cb6a300af310f79b5c8bc06125f577b8602a031189d0783 7505 ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2_arm64.buildinfo 3d1aee38f0d8f441c8b3300d3b2ce6bc96ad6196d6afc7e81dc607a29b4b0387 670456 ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2_arm64.deb Files: 280f4ac5ff96233f77223b9a04828ae5 1184436 debug optional ngmlr-dbgsym_0.2.7+git20210816.a2a31fb+dfsg-2_arm64.deb 7bba6ca49626f727137735702ae28ac0 7505 science optional ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2_arm64.buildinfo 2b65c4bb56b75f8b6b9fb4523210ded6 670456 science optional ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2_arm64.deb Sun Mar 2 08:15:19 UTC 2025 I: diffoscope 289 will be used to compare the two builds: Running as unit: rb-diffoscope-arm64_9-62334.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.CJsisMUt/ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.CJsisMUt/ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.CJsisMUt/ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.CJsisMUt/b1/ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.CJsisMUt/b2/ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2_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: 0.003s) 0.003s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 230ms CPU time consumed: 228ms Sun Mar 2 08:15:20 UTC 2025 I: diffoscope 289 found no differences in the changes files, and a .buildinfo file also exists. Sun Mar 2 08:15:20 UTC 2025 I: ngmlr from trixie built successfully and reproducibly on arm64. Sun Mar 2 08:15:21 UTC 2025 I: Submitting .buildinfo files to external archives: Sun Mar 2 08:15:21 UTC 2025 I: Submitting 12K b1/ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2_arm64.buildinfo.asc Sun Mar 2 08:15:22 UTC 2025 I: Submitting 12K b2/ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2_arm64.buildinfo.asc Sun Mar 2 08:15:23 UTC 2025 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun Mar 2 08:15:23 UTC 2025 I: Done submitting .buildinfo files. Sun Mar 2 08:15:23 UTC 2025 I: Removing signed ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2_arm64.buildinfo.asc files: removed './b1/ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2_arm64.buildinfo.asc' removed './b2/ngmlr_0.2.7+git20210816.a2a31fb+dfsg-2_arm64.buildinfo.asc'