Tue May 7 17:34:39 UTC 2024 I: starting to build bamtools/trixie/arm64 on jenkins on '2024-05-07 17:34' Tue May 7 17:34:39 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_17/34634/console.log Tue May 7 17:34:39 UTC 2024 I: Downloading source for trixie/bamtools=2.5.2+dfsg-5 --2024-05-07 17:34:39-- http://deb.debian.org/debian/pool/main/b/bamtools/bamtools_2.5.2%2bdfsg-5.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2513 (2.5K) [text/prs.lines.tag] Saving to: ‘bamtools_2.5.2+dfsg-5.dsc’ 0K .. 100% 295M=0s 2024-05-07 17:34:39 (295 MB/s) - ‘bamtools_2.5.2+dfsg-5.dsc’ saved [2513/2513] Tue May 7 17:34:39 UTC 2024 I: bamtools_2.5.2+dfsg-5.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: bamtools Binary: bamtools, libbamtools-dev, libbamtools2.5.2, libbamtools-doc Architecture: any all Version: 2.5.2+dfsg-5 Maintainer: Debian Med Packaging Team Uploaders: Michael R. Crusoe , Andreas Tille , Kevin Murray , Étienne Mollier Homepage: https://github.com/pezmaster31/bamtools/wiki Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/bamtools Vcs-Git: https://salsa.debian.org/med-team/bamtools.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), d-shlibs, cmake, zlib1g-dev, libjsoncpp-dev, help2man, doxygen, pkg-config Package-List: bamtools deb science optional arch=any libbamtools-dev deb libdevel optional arch=any libbamtools-doc deb doc optional arch=all libbamtools2.5.2 deb libs optional arch=any Checksums-Sha1: 22affe59a445f08e603c3f9d5378b32d06fbccd7 155732 bamtools_2.5.2+dfsg.orig.tar.xz 9ed811f07b3d00b0243e92519ee085739d65386a 10412 bamtools_2.5.2+dfsg-5.debian.tar.xz Checksums-Sha256: bba4d268cb9457cd836b59c60eac6a9f25e10cd9aea646f03e5deffb82c1c5c1 155732 bamtools_2.5.2+dfsg.orig.tar.xz 6a126c8007d9889ec20495231c4f119485e4f8ada6c70570bd59888365e625a8 10412 bamtools_2.5.2+dfsg-5.debian.tar.xz Files: a29fafa8a0f930c3029749245032e886 155732 bamtools_2.5.2+dfsg.orig.tar.xz 6599f77962b28a80f43063d18a6306c2 10412 bamtools_2.5.2+dfsg-5.debian.tar.xz Dgit: d6bbd015dfe9f74968f9233ca0f95bbb45764f85 debian archive/debian/2.5.2+dfsg-5 https://git.dgit.debian.org/bamtools -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmV8l2QUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdoTRA//UDX7rfaL4eIfzGNDhQVs1/6eIbAy ihOQ4Jsz8PJvyUnx87HTXyuXNVPtT+i1QxtxBzIqam58I7zpuco/rU1Nt1Hcfzl3 lV7kj3pSKg4LPe7gyf8DjvN+Jrdo38c1DzBIuSMvmw0xhnLI724AzPkpBUeq0bHz YxrJYdBt7ZxkO50RjnzxwGf/GQK6/2o8iIhjwsWd7hTEOhyoMVq+DHa8WzPevPoA nBJ57m4H4w9SeBMbeIr25m/PI1c/xJwzMr2kX/g6l+SITDunGADfkW36EQ/V+W9p FeplqBKV83FRzd0x9k0wD/uYeV0oX0C9ltLbr2vcyHtVfjIv0znEm0gS3+GxVujG AQ0GA4bzIsD16hikreOSlA7tjeMcrZNv/TgO6qt6WhLh3D7sU05gl4fr9ctwEsIb MTMZg4JvSPhFr9hvYVrPmRz1JaqgkKipLAPzDzcd22yWxRDus5S15CB02FTdLxg6 u2GCfzvda8PN+TsHRFmcUAmOB9ukr8xDKCOuf/sgAvIc3O5biAy9S9Q6FRnfKESj AOERMCAc2Sucf4cqjqX5i0eIxyjygOgZKOzkKnntZuVgT5zgW3BwBiYQU76i180c 5ncWoU9MyUC84IRoB0mGP4I7Yh29uOoZRlCZLkRuHcp7JWHCUKWyJNRLXFX8EyzS Lsi9KQuXyKS8gzg= =GXPw -----END PGP SIGNATURE----- Tue May 7 17:34:40 UTC 2024 I: Checking whether the package is not for us Tue May 7 17:34:40 UTC 2024 I: Starting 1st build on remote node codethink03-arm64.debian.net. Tue May 7 17:34:40 UTC 2024 I: Preparing to do remote build '1' on codethink03-arm64.debian.net. Tue May 7 17:35:37 UTC 2024 I: Deleting $TMPDIR on codethink03-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Mon Jun 9 11:57:41 -12 2025 I: pbuilder-time-stamp: 1749513461 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 [bamtools_2.5.2+dfsg-5.dsc] I: copying [./bamtools_2.5.2+dfsg.orig.tar.xz] I: copying [./bamtools_2.5.2+dfsg-5.debian.tar.xz] I: Extracting source gpgv: Signature made Fri Dec 15 18:13:56 2023 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./bamtools_2.5.2+dfsg-5.dsc: no acceptable signature found dpkg-source: info: extracting bamtools in bamtools-2.5.2+dfsg dpkg-source: info: unpacking bamtools_2.5.2+dfsg.orig.tar.xz dpkg-source: info: unpacking bamtools_2.5.2+dfsg-5.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 0001-ignore-thirdparty-and-fix-jsoncpp.patch dpkg-source: info: applying shared_and_static.patch dpkg-source: info: applying typo.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2230421/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='350ad8f2b4ce4d188f8563c2cf6f39e5' 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='2230421' 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.XQAGj21I/pbuilderrc_bUO1 --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.XQAGj21I/b1 --logfile b1/build.log bamtools_2.5.2+dfsg-5.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 codethink03-arm64 6.1.0-21-cloud-arm64 #1 SMP Debian 6.1.90-1 (2024-05-03) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 9 17:47 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2230421/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), d-shlibs, cmake, zlib1g-dev, libjsoncpp-dev, help2man, doxygen, pkg-config dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19743 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 d-shlibs; however: Package d-shlibs 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 libjsoncpp-dev; however: Package libjsoncpp-dev is not installed. pbuilder-satisfydepends-dummy depends on help2man; however: Package help2man is not installed. pbuilder-satisfydepends-dummy depends on doxygen; however: Package doxygen is not installed. pbuilder-satisfydepends-dummy depends on pkg-config; however: Package pkg-config is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} cmake{a} cmake-data{a} d-shlibs{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} doxygen{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} help2man{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13t64{a} libbrotli1{a} libbsd0{a} libclang-cpp16t64{a} libclang1-16t64{a} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libedit2{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfmt9{a} libgssapi-krb5-2{a} libicu72{a} libjsoncpp-dev{a} libjsoncpp25{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} libllvm16t64{a} liblocale-gettext-perl{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libpipeline1{a} libpkgconf3{a} libproc2-0{a} libpsl5t64{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libuv1t64{a} libxml2{a} libz3-4{a} m4{a} man-db{a} pkg-config{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: ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx psmisc publicsuffix wget 0 packages upgraded, 71 newly installed, 0 to remove and 0 not upgraded. Need to get 83.3 MB of archives. After unpacking 394 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 liblocale-gettext-perl arm64 1.07-7 [14.8 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 libproc2-0 arm64 2:4.0.4-4 [61.7 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 procps arm64 2:4.0.4-4 [869 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.22 [22.4 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.45-3 [314 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.45-3 [100 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.45-3 [43.0 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.21-14+b1 [160 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b1 [69.0 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-4 [1130 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.40-8 [93.0 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.7-2 [36.5 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.12.1-1 [1394 kB] Get: 14 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.71-3 [332 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.21-14 [496 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 libicu72 arm64 72.1-4+b1 [9224 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.9.14+dfsg-1.3+b3 [624 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 libarchive13t64 arm64 3.7.2-2 [321 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 libbrotli1 arm64 1.1.0-2+b3 [295 kB] Get: 23 http://deb.debian.org/debian trixie/main arm64 libkrb5support0 arm64 1.20.1-6+b1 [33.0 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 libcom-err2 arm64 1.47.1~rc2-1 [22.5 kB] Get: 25 http://deb.debian.org/debian trixie/main arm64 libk5crypto3 arm64 1.20.1-6+b1 [80.5 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 libkeyutils1 arm64 1.6.3-3 [9112 B] Get: 27 http://deb.debian.org/debian trixie/main arm64 libkrb5-3 arm64 1.20.1-6+b1 [315 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 libgssapi-krb5-2 arm64 1.20.1-6+b1 [124 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-6 [20.1 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-6 [55.3 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 libldap-2.5-0 arm64 2.5.17+dfsg-1 [173 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 libnghttp2-14 arm64 1.61.0-1+b1 [71.0 kB] Get: 33 http://deb.debian.org/debian trixie/main arm64 libpsl5t64 arm64 0.21.2-1.1 [56.8 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b4 [56.7 kB] Get: 35 http://deb.debian.org/debian trixie/main arm64 libssh2-1t64 arm64 1.11.0-4.1+b2 [207 kB] Get: 36 http://deb.debian.org/debian trixie/main arm64 libcurl4t64 arm64 8.7.1-3 [412 kB] Get: 37 http://deb.debian.org/debian trixie/main arm64 libexpat1 arm64 2.6.2-1 [88.7 kB] Get: 38 http://deb.debian.org/debian trixie/main arm64 libjsoncpp25 arm64 1.9.5-6+b2 [73.2 kB] Get: 39 http://deb.debian.org/debian trixie/main arm64 librhash0 arm64 1.4.3-3+b1 [127 kB] Get: 40 http://deb.debian.org/debian trixie/main arm64 libuv1t64 arm64 1.48.0-1.1 [142 kB] Get: 41 http://deb.debian.org/debian trixie/main arm64 cmake-data all 3.29.2-2 [2167 kB] Get: 42 http://deb.debian.org/debian trixie/main arm64 cmake arm64 3.29.2-2 [9059 kB] Get: 43 http://deb.debian.org/debian trixie/main arm64 d-shlibs all 0.106 [10.9 kB] Get: 44 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 45 http://deb.debian.org/debian trixie/main arm64 libtool all 2.4.7-7 [517 kB] Get: 46 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 47 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 48 http://deb.debian.org/debian trixie/main arm64 libsub-override-perl all 0.10-1 [10.6 kB] Get: 49 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 50 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 51 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.191-1+b1 [187 kB] Get: 52 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 53 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.21-14+b1 [1249 kB] Get: 54 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 55 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 56 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.15.3 [901 kB] Get: 57 http://deb.debian.org/debian trixie/main arm64 libbsd0 arm64 0.12.2-1 [129 kB] Get: 58 http://deb.debian.org/debian trixie/main arm64 libedit2 arm64 3.1-20230828-1+b1 [89.1 kB] Get: 59 http://deb.debian.org/debian trixie/main arm64 libz3-4 arm64 4.8.12-3.1+b2 [6508 kB] Get: 60 http://deb.debian.org/debian trixie/main arm64 libllvm16t64 arm64 1:16.0.6-26 [20.8 MB] Get: 61 http://deb.debian.org/debian trixie/main arm64 libclang-cpp16t64 arm64 1:16.0.6-26 [10.5 MB] Get: 62 http://deb.debian.org/debian trixie/main arm64 libclang1-16t64 arm64 1:16.0.6-26 [5927 kB] Get: 63 http://deb.debian.org/debian trixie/main arm64 libfmt9 arm64 9.1.0+ds1-2 [107 kB] Get: 64 http://deb.debian.org/debian trixie/main arm64 doxygen arm64 1.9.8+ds-2+b1 [4484 kB] Get: 65 http://deb.debian.org/debian trixie/main arm64 help2man arm64 1.49.3 [198 kB] Get: 66 http://deb.debian.org/debian trixie/main arm64 libjsoncpp-dev arm64 1.9.5-6+b2 [24.8 kB] Get: 67 http://deb.debian.org/debian trixie/main arm64 libpkgconf3 arm64 1.8.1-1+b2 [35.3 kB] Get: 68 http://deb.debian.org/debian trixie/main arm64 pkgconf-bin arm64 1.8.1-1+b2 [29.3 kB] Get: 69 http://deb.debian.org/debian trixie/main arm64 pkgconf arm64 1.8.1-1+b2 [26.2 kB] Get: 70 http://deb.debian.org/debian trixie/main arm64 pkg-config arm64 1.8.1-1+b2 [14.0 kB] Get: 71 http://deb.debian.org/debian trixie/main arm64 zlib1g-dev arm64 1:1.3.dfsg-3.1 [915 kB] Fetched 83.3 MB in 0s (253 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package liblocale-gettext-perl. (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 ... 19743 files and directories currently installed.) Preparing to unpack .../00-liblocale-gettext-perl_1.07-7_arm64.deb ... Unpacking liblocale-gettext-perl (1.07-7) ... Selecting previously unselected package libproc2-0:arm64. Preparing to unpack .../01-libproc2-0_2%3a4.0.4-4_arm64.deb ... Unpacking libproc2-0:arm64 (2:4.0.4-4) ... Selecting previously unselected package procps. 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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/bamtools-2.5.2+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 > ../bamtools_2.5.2+dfsg-5_source.changes dpkg-buildpackage: info: source package bamtools dpkg-buildpackage: info: source version 2.5.2+dfsg-5 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 debian/rules execute_after_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg' test ! -f docs/Doxyfile.orig || mv docs/Doxyfile.orig docs/Doxyfile make[1]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure cd obj-aarch64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb 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 < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- The CXX compiler identification is GNU 13.2.0 -- 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 PkgConfig: /usr/bin/pkg-config (found version "1.8.1") -- Checking for one of the modules 'jsoncpp>=1' Found system JsonCpp, not using bundled version -- Found ZLIB: /usr/lib/aarch64-linux-gnu/libz.so (found version "1.3") -- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY -- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY - Success -- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY -- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY - Success -- Performing Test COMPILER_HAS_DEPRECATED_ATTR -- Performing Test COMPILER_HAS_DEPRECATED_ATTR - Success -- Configuring done (1.4s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu debian/rules override_dh_auto_build-indep make[1]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg' cp docs/Doxyfile docs/Doxyfile.orig doxygen -u docs/Doxyfile warning: Tag 'SYMBOL_CACHE_SIZE' at line 300 of file 'docs/Doxyfile' has become obsolete. 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Searching for dot files... Searching for msc files... Searching for dia files... Searching for files to exclude Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/utils Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/sam Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam Searching INPUT for files to process... Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/utils Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/sam Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/algorithms Reading and parsing tag files Parsing files Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/algorithms/Sort.h... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/algorithms/Sort.h... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/api_global.h... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/api_global.h... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAlgorithms.h... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAlgorithms.h... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAlignment.cpp... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAlignment.cpp... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAlignment.h... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAlignment.h... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAux.h... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAux.h... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamConstants.h... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamConstants.h... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamIndex.h... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamIndex.h... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamMultiReader.h... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamMultiReader.h... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamReader.cpp... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamReader.cpp... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamReader.h... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamReader.h... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamWriter.cpp... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamWriter.cpp... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamWriter.h... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamWriter.h... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api//build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp:25: warning: Documentation for undefined enum 'MergeOrder' found. /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAlignment.h:187: warning: documented symbol 'bool BamTools::AddTag' was not declared or defined. /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAlignment.h:307: warning: documented symbol 'template< typename T > bool BamTools::AddTag' was not declared or defined. /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAlignment.h:377: warning: documented symbol 'template< typename T > bool BamTools::EditTag' was not declared or defined. /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAlignment.h:407: warning: documented symbol 'template< typename T > bool BamTools::EditTag' was not declared or defined. /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAlignment.h:434: warning: documented symbol 'template< typename T > bool BamTools::GetTag' was not declared or defined. /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAlignment.h:559: warning: documented symbol 'template< typename T > bool BamTools::GetTag' was not declared or defined. IBamIODevice.h... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/IBamIODevice.h... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamConstants.h... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamConstants.h... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamHeader.cpp... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamHeader.cpp... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamHeader.h... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamHeader.h... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamProgram.cpp... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamProgram.cpp... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamProgram.h... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamProgram.h... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamProgramChain.cpp... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamProgramChain.cpp... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamProgramChain.h... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamProgramChain.h... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamReadGroup.cpp... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamReadGroup.cpp... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamReadGroup.h... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamReadGroup.h... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamReadGroupDictionary.cpp... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamReadGroupDictionary.cpp... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamReadGroupDictionary.h... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamReadGroupDictionary.h... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamSequence.cpp... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamSequence.cpp... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamSequence.h... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamSequence.h... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamSequenceDictionary.cpp... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamSequenceDictionary.cpp... Preprocessing /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamSequenceDictionary.h... Parsing file /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamSequenceDictionary.h... Building macro definition list... Building group list... Building directory list... Building namespace list... Building file list... Building class list... Building concept list... Computing nesting relations for classes... Associating documentation with classes... Associating documentation with concepts... Associating documentation with modules... Building example list... Searching for enumerations... Searching for documented typedefs... Searching for members imported via using declarations... Searching for included using directives... Searching for documented variables... Building interface member list... Building member list... Searching for friends... Searching for documented defines... Computing class inheritance relations... Computing class usage relations... Flushing cached template relations that have become invalid... Computing class relations... Add enum values to enums... Searching for member function documentation... Creating members for template instances... Building page list... Search for main page... Computing page relations... Determining the scope of groups... Computing module relations... Sorting lists... Determining which enums are documented Computing member relations... Building full member lists recursively... Adding members to member groups. Computing member references... Inheriting documentation... Generating disk names... Adding source references... Adding xrefitems... Sorting member lists... Setting anonymous enum type... Computing dependencies between directories... Generating citations page... Counting members... Counting data structures... Resolving user defined references... Finding anchors and sections in the documentation... Transferring function references... Combining using relations... Adding members to index pages... Correcting members for VHDL... Computing tooltip texts... Generating style sheet... Generating search indices... Generating example documentation... Generating file sources... Generating code for file Sort.h... Generating code for file api_global.h... Generating code for file BamAlgorithms.h... Generating code for file BamAlignment.h... Generating code for file BamAux.h... Generating code for file BamConstants.h... Generating code for file BamIndex.h... Generating code for file BamMultiReader.h... Generating code for file BamReader.h... Generating code for file BamWriter.h... Generating code for file IBamIODevice.h... Generating code for file SamConstants.h... Generating code for file SamHeader.h... Generating code for file SamProgram.h... Generating code for file SamProgramChain.h... Generating code for file SamReadGroup.h... Generating code for file SamReadGroupDictionary.h... Generating code for file SamSequence.h... Generating code for file SamSequenceDictionary.h... Generating file documentation... Generating docs for file Sort.h... Generating docs for file api_global.h... Generating docs for file BamAlgorithms.h... Generating docs for file BamAlignment.cpp... Generating docs for file BamAlignment.h... Generating docs for file BamAux.h... Generating docs for file BamConstants.h... Generating docs for file BamIndex.h... Generating docs for file BamMultiReader.cpp... Generating docs for file BamMultiReader.h... Generating docs for file BamReader.cpp... Generating docs for file BamReader.h... Generating docs for file BamWriter.cpp... Generating docs for file BamWriter.h... Generating docs for file IBamIODevice.h... Generating docs for file SamConstants.h... Generating docs for file SamHeader.cpp... Generating docs for file SamHeader.h... Generating docs for file SamProgram.cpp... Generating docs for file SamProgram.h... Generating docs for file SamProgramChain.cpp... Generating docs for file SamProgramChain.h... Generating docs for file SamReadGroup.cpp... Generating docs for file SamReadGroup.h... Generating docs for file SamReadGroupDictionary.cpp... Generating docs for file SamReadGroupDictionary.h... Generating docs for file SamSequence.cpp... Generating docs for file SamSequence.h... Generating docs for file SamSequenceDictionary.cpp... Generating docs for file SamSequenceDictionary.h... Generating page documentation... Generating group documentation... Generating class documentation... Generating concept documentation... Generating module documentation... Generating namespace documentation... Generating docs for namespace BamTools Generating docs for compound BamTools::BamAlignment... Generating docs for compound BamTools::BamIndex... Generating docs for compound BamTools::BamMultiReader... Generating docs for compound BamTools::BamReader... Generating docs for compound BamTools::BamRegion... Generating docs for compound BamTools::BamWriter... Generating docs for compound BamTools::CigarOp... Generating docs for compound BamTools::CustomHeaderTag... Generating docs for compound BamTools::IBamIODevice... Generating docs for compound BamTools::RefData... Generating docs for compound BamTools::SamHeader... Generating docs for compound BamTools::SamProgram... Generating docs for compound BamTools::SamProgramChain... Generating docs for compound BamTools::SamReadGroup... Generating docs for compound BamTools::SamReadGroupDictionary... Generating docs for compound BamTools::SamSequence... Generating docs for compound BamTools::SamSequenceDictionary... Generating docs for namespace BamTools::Algorithms Generating docs for compound BamTools::Algorithms::Sort... Generating docs for nested compound BamTools::Algorithms::Sort::ByName... Generating docs for nested compound BamTools::Algorithms::Sort::ByPosition... Generating docs for nested compound BamTools::Algorithms::Sort::ByTag... Generating docs for nested compound BamTools::Algorithms::Sort::Unsorted... Generating docs for namespace BamTools::Constants Generating graph info page... Generating directory documentation... Generating index page... Generating page index... Generating topic index... Generating module index... Generating module member index... Generating namespace index... Generating namespace member index... Generating concept index... Generating annotated compound index... Generating alphabetical compound index... Generating hierarchical class index... Generating member index... Generating file index... Generating file member index... Generating example index... finalizing index lists... writing tag file... Running plantuml with JAVA... type lookup cache used 1077/65536 hits=2076 misses=1118 symbol lookup cache used 1050/65536 hits=5949 misses=1050 finished... make[1]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg' dh_auto_build -Nlibbamtools-doc cd obj-aarch64-linux-gnu && make -j12 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/bamtools-2.5.2+dfsg -B/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/CMakeFiles /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/BamTools.dir/build.make src/CMakeFiles/BamTools.dir/depend make -f src/CMakeFiles/BamTools_static.dir/build.make src/CMakeFiles/BamTools_static.dir/depend make[3]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bamtools-2.5.2+dfsg /build/reproducible-path/bamtools-2.5.2+dfsg/src /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src/CMakeFiles/BamTools.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bamtools-2.5.2+dfsg /build/reproducible-path/bamtools-2.5.2+dfsg/src /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src/CMakeFiles/BamTools_static.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/BamTools_static.dir/build.make src/CMakeFiles/BamTools_static.dir/build make[3]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/BamTools.dir/build.make src/CMakeFiles/BamTools.dir/build make[3]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' [ 1%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o [ 2%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamReader.cpp.o [ 4%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamReader.cpp.o [ 3%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamWriter.cpp.o [ 5%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o -MF CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/BamReader.cpp.o -MF CMakeFiles/BamTools.dir/api/BamReader.cpp.o.d -o CMakeFiles/BamTools.dir/api/BamReader.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamReader.cpp [ 6%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o -MF CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o.d -o CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAlignment.cpp cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/BamReader.cpp.o -MF CMakeFiles/BamTools_static.dir/api/BamReader.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/BamReader.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamReader.cpp [ 7%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamProgramChain.cpp.o [ 8%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamHeader.cpp.o [ 9%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamReadGroup.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o -MF CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAlignment.cpp [ 10%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o -MF CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o.d -o CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/BamWriter.cpp.o -MF CMakeFiles/BamTools_static.dir/api/BamWriter.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/BamWriter.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamWriter.cpp [ 11%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamProgram.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamHeader.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamHeader.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamHeader.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamHeader.cpp [ 12%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamWriter.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamProgram.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamProgram.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamProgram.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamProgram.cpp cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/BamWriter.cpp.o -MF CMakeFiles/BamTools.dir/api/BamWriter.cpp.o.d -o CMakeFiles/BamTools.dir/api/BamWriter.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamWriter.cpp cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamProgramChain.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamProgramChain.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamProgramChain.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamProgramChain.cpp cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamReadGroup.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamReadGroup.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamReadGroup.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamReadGroup.cpp In file included from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiMerger_p.h:32, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.h:29, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp:16: /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/algorithms/Sort.h:64:18: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 64 | typedef std::binary_function AlignmentSortBase; | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/bits/stl_tree.h:65, from /usr/include/c++/13/map:62, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamMultiReader.h:13, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp:15: /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiMerger_p.h:52:52: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 52 | struct API_NO_EXPORT MergeItemSorter : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 13%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamReadGroupDictionary.cpp [ 14%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamSequence.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamSequence.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamSequence.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamSequence.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamSequence.cpp [ 15%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamHeader.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamHeader.cpp.o -MF CMakeFiles/BamTools.dir/api/SamHeader.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamHeader.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamHeader.cpp [ 16%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamSequenceDictionary.cpp [ 17%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamProgram.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamProgram.cpp.o -MF CMakeFiles/BamTools.dir/api/SamProgram.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamProgram.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamProgram.cpp In file included from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiMerger_p.h:32, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.h:29, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp:16: /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/algorithms/Sort.h:64:18: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 64 | typedef std::binary_function AlignmentSortBase; | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/bits/stl_tree.h:65, from /usr/include/c++/13/map:62, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamMultiReader.h:13, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp:15: /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiMerger_p.h:52:52: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 52 | struct API_NO_EXPORT MergeItemSorter : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 18%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamHeader_p.cpp [ 19%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.cpp [ 20%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamRandomAccessController_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamRandomAccessController_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/bam/BamRandomAccessController_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/bam/BamRandomAccessController_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamRandomAccessController_p.cpp [ 21%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamProgramChain.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamProgramChain.cpp.o -MF CMakeFiles/BamTools.dir/api/SamProgramChain.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamProgramChain.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamProgramChain.cpp [ 22%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamReader_p.cpp [ 23%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamWriter_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamWriter_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/bam/BamWriter_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/bam/BamWriter_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamWriter_p.cpp [ 24%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamReadGroup.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamReadGroup.cpp.o -MF CMakeFiles/BamTools.dir/api/SamReadGroup.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamReadGroup.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamReadGroup.cpp [ 25%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/index/BamIndexFactory_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/index/BamIndexFactory_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/index/BamIndexFactory_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/index/BamIndexFactory_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamIndexFactory_p.cpp In file included from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiMerger_p.h:32, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.h:29, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.cpp:10: /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/algorithms/Sort.h:64:18: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 64 | typedef std::binary_function AlignmentSortBase; | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /usr/include/c++/13/stdexcept:39, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/shared/bamtools_global.h:72, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/api_global.h:14, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.h:13: /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiMerger_p.h:52:52: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 52 | struct API_NO_EXPORT MergeItemSorter : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 26%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamReadGroupDictionary.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamReadGroupDictionary.cpp.o -MF CMakeFiles/BamTools.dir/api/SamReadGroupDictionary.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamReadGroupDictionary.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamReadGroupDictionary.cpp [ 27%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamSequence.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamSequence.cpp.o -MF CMakeFiles/BamTools.dir/api/SamSequence.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamSequence.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamSequence.cpp [ 28%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp [ 29%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp [ 30%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o -MF CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamSequenceDictionary.cpp [ 31%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamHeader_p.cpp [ 32%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/BamDeviceFactory_p.cpp [ 33%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.cpp [ 34%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/BamFile_p.cpp [ 35%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o -c 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Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/BamPipe_p.cpp [ 38%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/BgzfStream_p.cpp [ 39%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/ByteArray_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/ByteArray_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/ByteArray_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/ByteArray_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/ByteArray_p.cpp In file included from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiMerger_p.h:32, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.h:29, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.cpp:10: /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/algorithms/Sort.h:64:18: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 64 | typedef std::binary_function AlignmentSortBase; | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /usr/include/c++/13/stdexcept:39, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/shared/bamtools_global.h:72, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/api_global.h:14, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.h:13: /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiMerger_p.h:52:52: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 52 | struct API_NO_EXPORT MergeItemSorter : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 40%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/HostAddress_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/HostAddress_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/HostAddress_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/HostAddress_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/HostAddress_p.cpp [ 41%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamRandomAccessController_p.cpp [ 42%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/HostInfo_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/HostInfo_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/HostInfo_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/HostInfo_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/HostInfo_p.cpp [ 43%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamReader_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/bam/BamReader_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/bam/BamReader_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/bam/BamReader_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamReader_p.cpp [ 44%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamWriter_p.cpp [ 45%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/HttpHeader_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/HttpHeader_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/HttpHeader_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/HttpHeader_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/HttpHeader_p.cpp [ 46%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/ILocalIODevice_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/ILocalIODevice_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/ILocalIODevice_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/ILocalIODevice_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/ILocalIODevice_p.cpp [ 47%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/RollingBuffer_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/RollingBuffer_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/RollingBuffer_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/RollingBuffer_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/RollingBuffer_p.cpp [ 48%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/TcpSocketEngine_p.cpp [ 50%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocket_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocket_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocket_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocket_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/TcpSocket_p.cpp [ 51%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatParser_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatParser_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatParser_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatParser_p.cpp.o -c 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/build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/sam/SamFormatPrinter_p.cpp [ 53%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/sam/SamHeaderValidator_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/sam/SamHeaderValidator_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/sam/SamHeaderValidator_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/sam/SamHeaderValidator_p.cpp.o -c 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CMakeFiles/BamTools_static.dir/api/internal/sam/SamHeaderValidator_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/utils/BamException_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o [ 72%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/TcpSocketEngine_p.cpp /usr/bin/ranlib libbamtools.a make[3]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' [ 72%] Built target BamTools_static [ 73%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/TcpSocket_p.cpp [ 74%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/sam/SamFormatParser_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/sam/SamFormatParser_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/sam/SamFormatParser_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/sam/SamFormatParser_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/sam/SamFormatParser_p.cpp [ 75%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/sam/SamFormatPrinter_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/sam/SamFormatPrinter_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/sam/SamFormatPrinter_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/sam/SamFormatPrinter_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/sam/SamFormatPrinter_p.cpp [ 76%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/sam/SamHeaderValidator_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/sam/SamHeaderValidator_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/sam/SamHeaderValidator_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/sam/SamHeaderValidator_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/sam/SamHeaderValidator_p.cpp [ 77%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/utils/BamException_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/utils/BamException_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/utils/BamException_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/utils/BamException_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/utils/BamException_p.cpp [ 78%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/TcpSocketEngine_unix_p.cpp [ 79%] Linking CXX shared library libbamtools.so cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libbamtools.so.2.5.2 -o libbamtools.so.2.5.2 CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o CMakeFiles/BamTools.dir/api/BamReader.cpp.o 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CMakeFiles/BamTools.dir/api/internal/io/BamFile_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamFtp_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamHttp_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamPipe_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BgzfStream_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/ByteArray_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/HostAddress_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/HostInfo_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/HttpHeader_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/ILocalIODevice_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/RollingBuffer_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o CMakeFiles/BamTools.dir/api/internal/sam/SamFormatParser_p.cpp.o CMakeFiles/BamTools.dir/api/internal/sam/SamFormatPrinter_p.cpp.o CMakeFiles/BamTools.dir/api/internal/sam/SamHeaderValidator_p.cpp.o CMakeFiles/BamTools.dir/api/internal/utils/BamException_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o -lz cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cmake -E cmake_symlink_library libbamtools.so.2.5.2 libbamtools.so.2.5.2 libbamtools.so make[3]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' [ 79%] Built target BamTools make -f src/CMakeFiles/BamTools-utils.dir/build.make src/CMakeFiles/BamTools-utils.dir/depend make[3]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bamtools-2.5.2+dfsg /build/reproducible-path/bamtools-2.5.2+dfsg/src /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src 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-Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools-utils.dir/utils/bamtools_pileup_engine.cpp.o -MF CMakeFiles/BamTools-utils.dir/utils/bamtools_pileup_engine.cpp.o.d -o CMakeFiles/BamTools-utils.dir/utils/bamtools_pileup_engine.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/utils/bamtools_pileup_engine.cpp cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools-utils.dir/utils/bamtools_utilities.cpp.o -MF CMakeFiles/BamTools-utils.dir/utils/bamtools_utilities.cpp.o.d -o CMakeFiles/BamTools-utils.dir/utils/bamtools_utilities.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/utils/bamtools_utilities.cpp cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools-utils.dir/utils/bamtools_options.cpp.o -MF CMakeFiles/BamTools-utils.dir/utils/bamtools_options.cpp.o.d -o CMakeFiles/BamTools-utils.dir/utils/bamtools_options.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/utils/bamtools_options.cpp /build/reproducible-path/bamtools-2.5.2+dfsg/src/utils/bamtools_fasta.cpp: In member function 'bool BamTools::Fasta::FastaPrivate::CreateIndex(const std::string&)': /build/reproducible-path/bamtools-2.5.2+dfsg/src/utils/bamtools_fasta.cpp:161:15: warning: comparison is always true due to limited range of data type [-Wtype-limits] 161 | while ((c >= 0) && (c != '\n')) { | ~~^~~~ [ 84%] Linking CXX static library libBamTools-utils.a cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/BamTools-utils.dir/cmake_clean_target.cmake cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools-utils.dir/link.txt --verbose=1 /usr/bin/ar qc libBamTools-utils.a "CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o" "CMakeFiles/BamTools-utils.dir/utils/bamtools_options.cpp.o" "CMakeFiles/BamTools-utils.dir/utils/bamtools_pileup_engine.cpp.o" "CMakeFiles/BamTools-utils.dir/utils/bamtools_utilities.cpp.o" /usr/bin/ranlib libBamTools-utils.a make[3]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' [ 84%] Built target BamTools-utils make -f src/CMakeFiles/bamtools_cmd.dir/build.make src/CMakeFiles/bamtools_cmd.dir/depend make[3]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bamtools-2.5.2+dfsg /build/reproducible-path/bamtools-2.5.2+dfsg/src /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src/CMakeFiles/bamtools_cmd.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/bamtools_cmd.dir/build.make src/CMakeFiles/bamtools_cmd.dir/build make[3]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' [ 85%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_count.cpp.o [ 87%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o [ 86%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_convert.cpp.o [ 88%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o [ 89%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_merge.cpp.o [ 90%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_index.cpp.o [ 91%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_header.cpp.o [ 92%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_random.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_convert.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_convert.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_convert.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_convert.cpp cd 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-ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_filter.cpp [ 93%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong 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src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_index.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_index.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_index.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_index.cpp cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_merge.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_merge.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_merge.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_merge.cpp cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_random.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_random.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_random.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_random.cpp cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools.cpp [ 94%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_resolve.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_resolve.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_resolve.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_resolve.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_resolve.cpp [ 95%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_revert.cpp.o [ 96%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_sort.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_revert.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_revert.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_revert.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_revert.cpp cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_sort.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_sort.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_sort.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_sort.cpp In file included from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAlgorithms.h:15, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_count.cpp:12: /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/algorithms/Sort.h:64:18: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 64 | typedef std::binary_function AlignmentSortBase; | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_tool.h:14, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_count.h:13, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_count.cpp:10: /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_sort.cpp:15: /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/algorithms/Sort.h:64:18: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 64 | typedef std::binary_function AlignmentSortBase; | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_tool.h:14, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_sort.h:13, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_sort.cpp:10: /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 97%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_split.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_split.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_split.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_split.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_split.cpp [ 98%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_stats.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_stats.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_stats.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_stats.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_stats.cpp [100%] Linking CXX executable bamtools cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/bamtools_cmd.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bamtools_cmd.dir/toolkit/bamtools.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_convert.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_count.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_header.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_index.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_merge.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_random.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_resolve.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_revert.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_sort.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_split.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_stats.cpp.o -o bamtools -Wl,-rpath,/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src: libBamTools-utils.a -L/usr/lib/aarch64-linux-gnu -ljsoncpp libbamtools.so.2.5.2 make[3]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' [100%] Built target bamtools_cmd make[2]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' debian/rules override_dh_auto_test-arch make[1]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg' cd obj-* && ln -s src/toolkit/ bin dh_auto_test --arch cd obj-aarch64-linux-gnu && make -j12 test ARGS\+=--verbose ARGS\+=-j12 make[2]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' Running tests... /usr/bin/ctest --force-new-ctest-process --verbose -j12 UpdateCTestConfiguration from :/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu Constructing a list of tests Done constructing a list of tests Updating test list for fixtures Added 0 tests to meet fixture requirements Checking test dependency graph... Checking test dependency graph end test 1 Start 1: bamtools_help 1: Test command: /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src/bamtools "--help" 1: Working Directory: /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/tests 1: Test timeout computed to be: 1500 test 2 Start 2: bamtools_stats 2: Test command: /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/src/bamtools "stats" "-in" "/build/reproducible-path/bamtools-2.5.2+dfsg/tests/data/sam_spec_example.bam" 2: Working Directory: /build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu/tests 2: Test timeout computed to be: 1500 1: 1: usage: bamtools [--help] COMMAND [ARGS] 1: 1: Available bamtools commands: 1: convert Converts between BAM and a number of other formats 1: count Prints number of alignments in BAM file(s) 1: coverage Prints coverage statistics from the input BAM file 1: filter Filters BAM file(s) by user-specified criteria 1: header Prints BAM header information 1: index Generates index for BAM file 1: merge Merge multiple BAM files into single file 1: random Select random alignments from existing BAM file(s), intended more as a testing tool. 1: resolve Resolves paired-end reads (marking the IsProperPair flag as needed) 1: revert Removes duplicate marks and restores original base qualities 1: sort Sorts the BAM file according to some criteria 1: split Splits a BAM file on user-specified property, creating a new BAM output file for each value found 1: stats Prints some basic statistics from input BAM file(s) 1: 1: See 'bamtools help COMMAND' for more information on a specific command. 1: 1/2 Test #1: bamtools_help .................... Passed 0.01 sec 2: 2: ********************************************** 2: Stats for BAM file(s): 2: ********************************************** 2: 2: Total reads: 6 2: Mapped reads: 6 (100%) 2: Forward strand: 4 (66.6667%) 2: Reverse strand: 2 (33.3333%) 2: Failed QC: 0 (0%) 2: Duplicates: 0 (0%) 2: Paired-end reads: 2 (33.3333%) 2: 'Proper-pairs': 2 (100%) 2: Both pairs mapped: 2 (100%) 2: Read 1: 1 2: Read 2: 1 2: Singletons: 0 (0%) 2: 2/2 Test #2: bamtools_stats ................... Passed 0.01 sec 100% tests passed, 0 tests failed out of 2 Total Test time (real) = 0.01 sec make[2]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' make[1]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install -Nlibbamtools-doc cd obj-aarch64-linux-gnu && make -j12 install DESTDIR=/build/reproducible-path/bamtools-2.5.2\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/bamtools-2.5.2+dfsg -B/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/libbamtools.so.2.5.2 -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/libbamtools.so -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/libbamtools.a -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/bin/bamtools -- Set non-toolchain portion of runtime path of "/build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/bin/bamtools" to "" -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/BamAlgorithms.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/BamAlignment.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/BamAux.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/BamConstants.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/BamIndex.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/BamMultiReader.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/BamReader.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/BamWriter.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/IBamIODevice.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/SamConstants.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/SamHeader.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/SamProgram.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/SamProgramChain.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/SamReadGroup.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/SamReadGroupDictionary.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/SamSequence.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/SamSequenceDictionary.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/api_global.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/bamtools_api_export.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/algorithms/Sort.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/shared/bamtools_global.h -- Installing: /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/pkgconfig/bamtools-1.pc make[1]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-aarch64-linux-gnu' debian/rules override_dh_install-arch make[1]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg' dh_install --arch d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-la \ --movedev debian/tmp/usr/include/* usr/include \ --movedev "debian/tmp/usr/lib/*/pkgconfig/*.pc" usr/lib/aarch64-linux-gnu/pkgconfig \ debian/tmp/usr/lib/*/*.so Library package automatic movement utility --> zlib1g-dev package exists. set -e install -d -m 755 debian/libbamtools-dev/usr/lib/aarch64-linux-gnu install -d -m 755 debian/libbamtools2.5.2/usr/lib/aarch64-linux-gnu mv debian/tmp/usr/lib/aarch64-linux-gnu/libbamtools.a debian/libbamtools-dev/usr/lib/aarch64-linux-gnu mv debian/tmp/usr/lib/aarch64-linux-gnu/libbamtools.so debian/libbamtools-dev/usr/lib/aarch64-linux-gnu mv /build/reproducible-path/bamtools-2.5.2+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/libbamtools.so.2.5.2 debian/libbamtools2.5.2/usr/lib/aarch64-linux-gnu PKGDEV=libbamtools-dev PKGSHL=libbamtools2.5.2 install -d -m 755 debian/libbamtools-dev/usr/include mv debian/tmp/usr/include/bamtools debian/libbamtools-dev/usr/include install -d -m 755 debian/libbamtools-dev/usr/lib/aarch64-linux-gnu/pkgconfig mv debian/tmp/usr/lib/*/pkgconfig/*.pc debian/libbamtools-dev/usr/lib/aarch64-linux-gnu/pkgconfig make[1]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg' debian/rules override_dh_install-indep make[1]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg' dh_install --indep rm -f debian/libbamtools-doc/usr/share/doc/libbamtools-dev/html/jquery.js ln -s /usr/share/javascript/jquery/jquery.js debian/libbamtools-doc/usr/share/doc/libbamtools-dev/html/jquery.js make[1]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg' dh_installdocs dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'bamtools' in '../bamtools_2.5.2+dfsg-5_arm64.deb'. dpkg-deb: building package 'bamtools-dbgsym' in '../bamtools-dbgsym_2.5.2+dfsg-5_arm64.deb'. dpkg-deb: building package 'libbamtools-dev' in '../libbamtools-dev_2.5.2+dfsg-5_arm64.deb'. dpkg-deb: building package 'libbamtools2.5.2' in '../libbamtools2.5.2_2.5.2+dfsg-5_arm64.deb'. dpkg-deb: building package 'libbamtools2.5.2-dbgsym' in '../libbamtools2.5.2-dbgsym_2.5.2+dfsg-5_arm64.deb'. dpkg-deb: building package 'libbamtools-doc' in '../libbamtools-doc_2.5.2+dfsg-5_all.deb'. dpkg-genbuildinfo --build=binary -O../bamtools_2.5.2+dfsg-5_arm64.buildinfo dpkg-genchanges --build=binary -O../bamtools_2.5.2+dfsg-5_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/2230421 and its subdirectories I: Current time: Mon Jun 9 11:58:35 -12 2025 I: pbuilder-time-stamp: 1749513515 Tue May 7 17:35:37 UTC 2024 I: 1st build successful. Starting 2nd build on remote node codethink01-arm64.debian.net. Tue May 7 17:35:37 UTC 2024 I: Preparing to do remote build '2' on codethink01-arm64.debian.net. Tue May 7 17:39:53 UTC 2024 I: Deleting $TMPDIR on codethink01-arm64.debian.net. Tue May 7 17:39:54 UTC 2024 I: bamtools_2.5.2+dfsg-5_arm64.changes: Format: 1.8 Date: Fri, 15 Dec 2023 19:09:45 +0100 Source: bamtools Binary: bamtools bamtools-dbgsym libbamtools-dev libbamtools-doc libbamtools2.5.2 libbamtools2.5.2-dbgsym Architecture: arm64 all Version: 2.5.2+dfsg-5 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: bamtools - toolkit for manipulating BAM (genome alignment) files libbamtools-dev - C++ API for manipulating BAM (genome alignment) files libbamtools-doc - docs for dynamic library for manipulating BAM (genome alignment) libbamtools2.5.2 - dynamic library for manipulating BAM (genome alignment) files Closes: 1043881 Changes: bamtools (2.5.2+dfsg-5) unstable; urgency=medium . * d/control: add myself to uploaders. * d/rules: preserve pristine Doxyfile. (Closes: #1043881) * typo.patch: new: fix typo caught by lintian. Checksums-Sha1: d49ab3c6d2fc8eea94d965c035063e5416cc41fe 3312600 bamtools-dbgsym_2.5.2+dfsg-5_arm64.deb 8d0eed1ece2c5c61c8d96bcfca1704699663ea89 8109 bamtools_2.5.2+dfsg-5_arm64.buildinfo cfabdefbe3dfdc19db4cd9d07e6662965c527236 170004 bamtools_2.5.2+dfsg-5_arm64.deb 996058fbc0b2bb6527cd508b039d7770303a030a 211884 libbamtools-dev_2.5.2+dfsg-5_arm64.deb ad37a10a1871608e90dbcee1feb4d2b7826881de 161076 libbamtools-doc_2.5.2+dfsg-5_all.deb aa0a87c89691ea4b98241caa56fbb68590399c20 2662528 libbamtools2.5.2-dbgsym_2.5.2+dfsg-5_arm64.deb d3c753a1ad242155eb1fea5ad8676ffe9aaa7dd2 141268 libbamtools2.5.2_2.5.2+dfsg-5_arm64.deb Checksums-Sha256: 422e7acee95801638c3216a94871e074b868d4d7f10b05b2b403d981f1dae83f 3312600 bamtools-dbgsym_2.5.2+dfsg-5_arm64.deb 000dc4bc7ebe2eb89c415ecaf5cea63f95e542fd26ea4492ac2d1e42ebac8595 8109 bamtools_2.5.2+dfsg-5_arm64.buildinfo ab04cc97d8e8e5358e5db5d9dfdf0e40313c226019b0e16220c16760701440fa 170004 bamtools_2.5.2+dfsg-5_arm64.deb a126a1acf40a44e6e63b94858e1f2474f054fb5b0070a6a610f9742168670a9e 211884 libbamtools-dev_2.5.2+dfsg-5_arm64.deb 39045ffa4b5286829c1bc56362796e7e75d02544b18e238284e120bfa2464b8b 161076 libbamtools-doc_2.5.2+dfsg-5_all.deb 5d9b4314fea4bd13b0643a84832b3ec5e0df8b2a072aaa644aee354560f6fa42 2662528 libbamtools2.5.2-dbgsym_2.5.2+dfsg-5_arm64.deb b31e68229dd3d66a5af26ff95a62b84d81b3ac0dd57bcb21c93297ea39e31890 141268 libbamtools2.5.2_2.5.2+dfsg-5_arm64.deb Files: 43e2220c5e8e4979b5c785c5b00258ab 3312600 debug optional bamtools-dbgsym_2.5.2+dfsg-5_arm64.deb 85073fab83236665add3d356f0c76733 8109 science optional bamtools_2.5.2+dfsg-5_arm64.buildinfo 01ed2e56285535768b90ea0d1f637ae4 170004 science optional bamtools_2.5.2+dfsg-5_arm64.deb ec4cfee5753d3ca40f4f80ee16029a83 211884 libdevel optional libbamtools-dev_2.5.2+dfsg-5_arm64.deb 3c149e316adc3e54c50d2d76cb117344 161076 doc optional libbamtools-doc_2.5.2+dfsg-5_all.deb fe52fe6542e8e364ec8361b0090b633c 2662528 debug optional libbamtools2.5.2-dbgsym_2.5.2+dfsg-5_arm64.deb 7dad8c796330234262213bab4ed89c23 141268 libs optional libbamtools2.5.2_2.5.2+dfsg-5_arm64.deb Tue May 7 17:39:55 UTC 2024 I: diffoscope 265 will be used to compare the two builds: Running as unit: rb-diffoscope-arm64_17-34634.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.XQAGj21I/bamtools_2.5.2+dfsg-5.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.XQAGj21I/bamtools_2.5.2+dfsg-5.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.XQAGj21I/bamtools_2.5.2+dfsg-5.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.XQAGj21I/b1/bamtools_2.5.2+dfsg-5_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.XQAGj21I/b2/bamtools_2.5.2+dfsg-5_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 abc.DotChangesFile ## main (total time: 0.446s) 0.446s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.090s) 0.090s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 803ms CPU time consumed: 795ms Tue May 7 17:39:57 UTC 2024 I: diffoscope 265 found no differences in the changes files, and a .buildinfo file also exists. Tue May 7 17:39:57 UTC 2024 I: bamtools from trixie built successfully and reproducibly on arm64. Tue May 7 17:39:58 UTC 2024 I: Submitting .buildinfo files to external archives: Tue May 7 17:39:58 UTC 2024 I: Submitting 12K b1/bamtools_2.5.2+dfsg-5_arm64.buildinfo.asc Tue May 7 17:39:59 UTC 2024 I: Submitting 12K b2/bamtools_2.5.2+dfsg-5_arm64.buildinfo.asc Tue May 7 17:40:00 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Tue May 7 17:40:00 UTC 2024 I: Done submitting .buildinfo files. Tue May 7 17:40:00 UTC 2024 I: Removing signed bamtools_2.5.2+dfsg-5_arm64.buildinfo.asc files: removed './b1/bamtools_2.5.2+dfsg-5_arm64.buildinfo.asc' removed './b2/bamtools_2.5.2+dfsg-5_arm64.buildinfo.asc'