Wed Jun 5 08:15:40 UTC 2024 I: starting to build hilive/unstable/amd64 on jenkins on '2024-06-05 08:15' Wed Jun 5 08:15:40 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_13/10109/console.log Wed Jun 5 08:15:40 UTC 2024 I: Downloading source for unstable/hilive=2.0a-3 --2024-06-05 08:15:40-- http://deb.debian.org/debian/pool/main/h/hilive/hilive_2.0a-3.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2118 (2.1K) [text/prs.lines.tag] Saving to: ‘hilive_2.0a-3.dsc’ 0K .. 100% 329M=0s 2024-06-05 08:15:40 (329 MB/s) - ‘hilive_2.0a-3.dsc’ saved [2118/2118] Wed Jun 5 08:15:40 UTC 2024 I: hilive_2.0a-3.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: hilive Binary: hilive Architecture: any Version: 2.0a-3 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://gitlab.com/rki_bioinformatics/HiLive2 Standards-Version: 4.4.1 Vcs-Browser: https://salsa.debian.org/med-team/hilive Vcs-Git: https://salsa.debian.org/med-team/hilive.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 12), cmake, libboost-system-dev, libboost-filesystem-dev, libboost-iostreams-dev, libboost-program-options-dev, libhts-dev, libseqan2-dev, zlib1g-dev, liblz4-dev, chrpath, markdown Package-List: hilive deb science optional arch=any Checksums-Sha1: 5705773f60eef87916fe3612b26df04ae3959d32 161788 hilive_2.0a.orig.tar.gz fbe1ef06642fafe9547758eff3f8dde6ad874e66 9000 hilive_2.0a-3.debian.tar.xz Checksums-Sha256: a60e7675988b35d9ebf9472ca7515b40f790654c04e67d35fabf069d91d73bf6 161788 hilive_2.0a.orig.tar.gz 8da7ff9f1fa24befc2a2f14c190da2c1d1f0e924908adcd42710f8a53d97a4db 9000 hilive_2.0a-3.debian.tar.xz Files: 8d393041a814071b4ac6a3db1f1f10e6 161788 hilive_2.0a.orig.tar.gz 455831bc062fe258d0d11b61f583b0d9 9000 hilive_2.0a-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl4gRlURHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEMpA/+JEf5qZaIMlzreWMDxFW+4eCcMvjA18X6 TAv5/xgdu9iQl1B31zkHw8SXon1Tg2kYbc4A2MvP8iRiHMpEvbAO9B3z+NuIlX4P g2WXlplC05XtuYtUXRnQVbZJ74xdfm9OuCkz2EfRsdOFET2mp3W985VWpgFLulA9 R/qPQBAIJACDNL7t/9TweOj/ZTN5eu/lxZewZVHAZLiFrQDB9LQ/2O9RnSzje/cF dBHmLqGJsXzkw/JqU3WfgaAXhTbf3OU/CcR7Ks5nKFP85HvPPM23UnbgzcMhBIZQ F8bl4lEj1lrZ3hhbHtHo3J7Ar5iNuFqd7SrBNPMRAcVqjYZLHIzNcbNGfyGfglc8 hcfV3Xh7cICvJ3xfIAHoCyGGi8fXwviSDnZdNAmdgma+4HkKdikYe9mQ7Ty4SGY6 p6aNWL+X8dJc15MBQ2kg8yN/Oxzh+RLUtG6GdRY6ijHRmZLSkCHO1ppmQph6WlaT JXwic4L0d89wWO29DlLxC6LO7XWbOiToWSAmqA16EvA/MwJGvsHQNgfP855KNIVD 3J6TWteifJ7azGGNle9K64Xh5023JuajXaNMVE4+LIaYnxIaai8pDfBVRo+ABm0G tZwApDo1RS/nh9F6GqyjmcpG2faaUavQgrUoLsiQr1wRdmJrgCD1jD/sVjsUdMkM ITZHcB+VeOg= =0BPt -----END PGP SIGNATURE----- Wed Jun 5 08:15:40 UTC 2024 I: Checking whether the package is not for us Wed Jun 5 08:15:40 UTC 2024 I: Starting 1st build on remote node ionos11-amd64.debian.net. Wed Jun 5 08:15:40 UTC 2024 I: Preparing to do remote build '1' on ionos11-amd64.debian.net. Wed Jun 5 08:19:40 UTC 2024 I: Deleting $TMPDIR on ionos11-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Jun 4 20:15:43 -12 2024 I: pbuilder-time-stamp: 1717575343 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [hilive_2.0a-3.dsc] I: copying [./hilive_2.0a.orig.tar.gz] I: copying [./hilive_2.0a-3.debian.tar.xz] I: Extracting source gpgv: Signature made Thu Jan 16 11:17:41 2020 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./hilive_2.0a-3.dsc: no acceptable signature found dpkg-source: info: extracting hilive in hilive-2.0a dpkg-source: info: unpacking hilive_2.0a.orig.tar.gz dpkg-source: info: unpacking hilive_2.0a-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying do_not_set_rpath.patch dpkg-source: info: applying use_FindSeQan.patch dpkg-source: info: applying use_dynamic_linking.patch dpkg-source: info: applying remove_march_native.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3625685/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=20 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='44f1d5f6440b48a7984dbb8109e2d47d' 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='3625685' 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.5HViDcue/pbuilderrc_hzZC --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.5HViDcue/b1 --logfile b1/build.log hilive_2.0a-3.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://46.16.76.132:3128' I: uname -a Linux ionos11-amd64 6.1.0-21-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.90-1 (2024-05-03) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 5 07:42 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3625685/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: amd64 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 (= 12), cmake, libboost-system-dev, libboost-filesystem-dev, libboost-iostreams-dev, libboost-program-options-dev, libhts-dev, libseqan2-dev, zlib1g-dev, liblz4-dev, chrpath, markdown dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19705 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 (= 12); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on libboost-system-dev; however: Package libboost-system-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-filesystem-dev; however: Package libboost-filesystem-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-iostreams-dev; however: Package libboost-iostreams-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-program-options-dev; however: Package libboost-program-options-dev is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-dev is not installed. pbuilder-satisfydepends-dummy depends on libseqan2-dev; however: Package libseqan2-dev is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on liblz4-dev; however: Package liblz4-dev is not installed. pbuilder-satisfydepends-dummy depends on chrpath; however: Package chrpath is not installed. pbuilder-satisfydepends-dummy depends on markdown; however: Package markdown 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} chrpath{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} icu-devtools{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13t64{a} libboost-atomic1.83-dev{a} libboost-atomic1.83.0{a} libboost-filesystem-dev{a} libboost-filesystem1.83-dev{a} libboost-filesystem1.83.0{a} libboost-iostreams-dev{a} libboost-iostreams1.83-dev{a} libboost-program-options-dev{a} libboost-program-options1.83-dev{a} libboost-program-options1.83.0{a} libboost-regex1.83-dev{a} libboost-regex1.83.0{a} libboost-system-dev{a} libboost-system1.83-dev{a} libboost-system1.83.0{a} libboost1.83-dev{a} libbrotli1{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libcurl4t64{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgssapi-krb5-2{a} libhts-dev{a} libhts3t64{a} libhtscodecs2{a} libicu-dev{a} libicu72{a} libjsoncpp25{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} liblz4-dev{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libpipeline1{a} libproc2-0{a} libpsl5t64{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libseqan2-dev{a} libssh2-1t64{a} libtool{a} libuchardet0{a} libuv1t64{a} libxml2{a} m4{a} man-db{a} markdown{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, 84 newly installed, 0 to remove and 0 not upgraded. Need to get 65.9 MB of archives. After unpacking 400 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 libproc2-0 amd64 2:4.0.4-4 [64.6 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 procps amd64 2:4.0.4-4 [880 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.22 [22.4 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3 [314 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3 [105 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3 [42.9 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.21-14+b1 [161 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-4 [1180 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.1-8 [96.0 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.7-2 [38.0 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.12.1-1 [1411 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.71-3 [332 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.21-14 [496 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 chrpath amd64 0.16-2+b1 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-4+b1 [9395 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg-3 [670 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 libarchive13t64 amd64 3.7.2-2.1 [346 kB] Get: 22 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b3 [305 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.20.1-6+b1 [33.3 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.1-1 [22.9 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.20.1-6+b1 [79.8 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-3 [8952 B] Get: 27 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.20.1-6+b1 [333 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.20.1-6+b1 [135 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-6 [19.5 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-6 [56.9 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 libldap-2.5-0 amd64 2.5.17+dfsg-1 [186 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.61.0-1+b1 [75.6 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1 [56.8 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b4 [58.5 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.0-5 [215 kB] Get: 36 http://deb.debian.org/debian unstable/main amd64 libcurl4t64 amd64 8.8.0-1 [441 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.6.2-1 [103 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 libjsoncpp25 amd64 1.9.5-6+b2 [81.9 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 librhash0 amd64 1.4.3-3+b1 [132 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 libuv1t64 amd64 1.48.0-4 [148 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 cmake-data all 3.29.4-1 [2167 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 cmake amd64 3.29.4-1 [10.7 MB] Get: 43 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-7 [517 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 46 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 47 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 48 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 49 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.191-1+b1 [189 kB] Get: 50 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 51 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.21-14+b1 [1301 kB] Get: 52 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 53 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 54 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.15.3 [901 kB] Get: 55 http://deb.debian.org/debian unstable/main amd64 icu-devtools amd64 72.1-4+b1 [208 kB] Get: 56 http://deb.debian.org/debian unstable/main amd64 libboost1.83-dev amd64 1.83.0-3 [10.6 MB] Get: 57 http://deb.debian.org/debian unstable/main amd64 libboost-atomic1.83.0 amd64 1.83.0-3 [233 kB] Get: 58 http://deb.debian.org/debian unstable/main amd64 libboost-atomic1.83-dev amd64 1.83.0-3 [235 kB] Get: 59 http://deb.debian.org/debian unstable/main amd64 libboost-filesystem1.83.0 amd64 1.83.0-3 [280 kB] Get: 60 http://deb.debian.org/debian unstable/main amd64 libboost-system1.83.0 amd64 1.83.0-3 [230 kB] Get: 61 http://deb.debian.org/debian unstable/main amd64 libboost-system1.83-dev amd64 1.83.0-3 [231 kB] Get: 62 http://deb.debian.org/debian unstable/main amd64 libboost-filesystem1.83-dev amd64 1.83.0-3 [295 kB] Get: 63 http://deb.debian.org/debian unstable/main amd64 libboost-filesystem-dev amd64 1.83.0.2+b2 [3628 B] Get: 64 http://deb.debian.org/debian unstable/main amd64 libboost-regex1.83.0 amd64 1.83.0-3 [324 kB] Get: 65 http://deb.debian.org/debian unstable/main amd64 libicu-dev amd64 72.1-4+b1 [10.4 MB] Get: 66 http://deb.debian.org/debian unstable/main amd64 libboost-regex1.83-dev amd64 1.83.0-3 [342 kB] Get: 67 http://deb.debian.org/debian unstable/main amd64 libboost-iostreams1.83-dev amd64 1.83.0-3 [260 kB] Get: 68 http://deb.debian.org/debian unstable/main amd64 libboost-iostreams-dev amd64 1.83.0.2+b2 [3580 B] Get: 69 http://deb.debian.org/debian unstable/main amd64 libboost-program-options1.83.0 amd64 1.83.0-3 [345 kB] Get: 70 http://deb.debian.org/debian unstable/main amd64 libboost-program-options1.83-dev amd64 1.83.0-3 [373 kB] Get: 71 http://deb.debian.org/debian unstable/main amd64 libboost-program-options-dev amd64 1.83.0.2+b2 [3612 B] Get: 72 http://deb.debian.org/debian unstable/main amd64 libboost-system-dev amd64 1.83.0.2+b2 [3736 B] Get: 73 http://deb.debian.org/debian unstable/main amd64 libcurl3t64-gnutls amd64 8.8.0-1 [434 kB] Get: 74 http://deb.debian.org/debian unstable/main amd64 libcurl4-gnutls-dev amd64 8.8.0-1 [540 kB] Get: 75 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.20-1 [46.0 kB] Get: 76 http://deb.debian.org/debian unstable/main amd64 libdeflate-dev amd64 1.20-1 [54.5 kB] Get: 77 http://deb.debian.org/debian unstable/main amd64 libhtscodecs2 amd64 1.6.0-1+b1 [93.0 kB] Get: 78 http://deb.debian.org/debian unstable/main amd64 libhts3t64 amd64 1.20+ds-1 [452 kB] Get: 79 http://deb.debian.org/debian unstable/main amd64 liblzma-dev amd64 5.6.1+really5.4.5-1 [293 kB] Get: 80 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1 [919 kB] Get: 81 http://deb.debian.org/debian unstable/main amd64 libhts-dev amd64 1.20+ds-1 [1684 kB] Get: 82 http://deb.debian.org/debian unstable/main amd64 liblz4-dev amd64 1.9.4-2 [82.8 kB] Get: 83 http://deb.debian.org/debian unstable/main amd64 libseqan2-dev all 2.4.0+dfsg-16 [1216 kB] Get: 84 http://deb.debian.org/debian unstable/main amd64 markdown all 1.0.1-12 [17.7 kB] Fetched 65.9 MB in 3s (21.9 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libproc2-0:amd64. (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 ... 19705 files and directories currently installed.) Preparing to unpack .../00-libproc2-0_2%3a4.0.4-4_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-4) ... Selecting previously unselected package procps. Preparing to unpack .../01-procps_2%3a4.0.4-4_amd64.deb ... Unpacking procps (2:4.0.4-4) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../02-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../03-libmagic-mgc_1%3a5.45-3_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../04-libmagic1t64_1%3a5.45-3_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../05-file_1%3a5.45-3_amd64.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../06-gettext-base_0.21-14+b1_amd64.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../07-libuchardet0_0.0.8-1+b1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../08-groff-base_1.23.0-4_amd64.deb ... Unpacking groff-base (1.23.0-4) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../09-bsdextrautils_2.40.1-8_amd64.deb ... Unpacking bsdextrautils (2.40.1-8) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../10-libpipeline1_1.5.7-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../11-man-db_2.12.1-1_amd64.deb ... Unpacking man-db (2.12.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../12-m4_1.4.19-4_amd64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../13-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../14-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../15-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../16-autopoint_0.21-14_all.deb ... Unpacking autopoint (0.21-14) ... Selecting previously unselected package chrpath. Preparing to unpack .../17-chrpath_0.16-2+b1_amd64.deb ... Unpacking chrpath (0.16-2+b1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../18-libicu72_72.1-4+b1_amd64.deb ... Unpacking libicu72:amd64 (72.1-4+b1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../19-libxml2_2.12.7+dfsg-3_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg-3) ... Selecting previously unselected package libarchive13t64:amd64. Preparing to unpack .../20-libarchive13t64_3.7.2-2.1_amd64.deb ... Unpacking libarchive13t64:amd64 (3.7.2-2.1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../21-libbrotli1_1.1.0-2+b3_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b3) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../22-libkrb5support0_1.20.1-6+b1_amd64.deb ... Unpacking libkrb5support0:amd64 (1.20.1-6+b1) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../23-libcom-err2_1.47.1-1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.1-1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../24-libk5crypto3_1.20.1-6+b1_amd64.deb ... Unpacking libk5crypto3:amd64 (1.20.1-6+b1) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../25-libkeyutils1_1.6.3-3_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-3) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../26-libkrb5-3_1.20.1-6+b1_amd64.deb ... Unpacking libkrb5-3:amd64 (1.20.1-6+b1) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../27-libgssapi-krb5-2_1.20.1-6+b1_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.20.1-6+b1) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../28-libsasl2-modules-db_2.1.28+dfsg1-6_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg1-6) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../29-libsasl2-2_2.1.28+dfsg1-6_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-6) ... Selecting previously unselected package libldap-2.5-0:amd64. Preparing to unpack .../30-libldap-2.5-0_2.5.17+dfsg-1_amd64.deb ... Unpacking libldap-2.5-0:amd64 (2.5.17+dfsg-1) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../31-libnghttp2-14_1.61.0-1+b1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.61.0-1+b1) ... Selecting previously unselected package libpsl5t64:amd64. Preparing to unpack .../32-libpsl5t64_0.21.2-1.1_amd64.deb ... Unpacking libpsl5t64:amd64 (0.21.2-1.1) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../33-librtmp1_2.4+20151223.gitfa8646d.1-2+b4_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Selecting previously unselected package libssh2-1t64:amd64. Preparing to unpack .../34-libssh2-1t64_1.11.0-5_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.0-5) ... Selecting previously unselected package libcurl4t64:amd64. Preparing to unpack .../35-libcurl4t64_8.8.0-1_amd64.deb ... Unpacking libcurl4t64:amd64 (8.8.0-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../36-libexpat1_2.6.2-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.2-1) ... Selecting previously unselected package libjsoncpp25:amd64. Preparing to unpack .../37-libjsoncpp25_1.9.5-6+b2_amd64.deb ... Unpacking libjsoncpp25:amd64 (1.9.5-6+b2) ... Selecting previously unselected package librhash0:amd64. Preparing to unpack .../38-librhash0_1.4.3-3+b1_amd64.deb ... Unpacking librhash0:amd64 (1.4.3-3+b1) ... Selecting previously unselected package libuv1t64:amd64. Preparing to unpack .../39-libuv1t64_1.48.0-4_amd64.deb ... Unpacking libuv1t64:amd64 (1.48.0-4) ... Selecting previously unselected package cmake-data. Preparing to unpack .../40-cmake-data_3.29.4-1_all.deb ... Unpacking cmake-data (3.29.4-1) ... Selecting previously unselected package cmake. Preparing to unpack .../41-cmake_3.29.4-1_amd64.deb ... Unpacking cmake (3.29.4-1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../42-libdebhelper-perl_13.15.3_all.deb ... Unpacking libdebhelper-perl (13.15.3) ... Selecting previously unselected package libtool. Preparing to unpack .../43-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../44-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../45-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../46-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../47-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../48-libelf1t64_0.191-1+b1_amd64.deb ... Unpacking libelf1t64:amd64 (0.191-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../49-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../50-gettext_0.21-14+b1_amd64.deb ... Unpacking gettext (0.21-14+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../51-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../52-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../53-debhelper_13.15.3_all.deb ... Unpacking debhelper (13.15.3) ... Selecting previously unselected package icu-devtools. Preparing to unpack .../54-icu-devtools_72.1-4+b1_amd64.deb ... Unpacking icu-devtools (72.1-4+b1) ... Selecting previously unselected package libboost1.83-dev:amd64. Preparing to unpack .../55-libboost1.83-dev_1.83.0-3_amd64.deb ... Unpacking libboost1.83-dev:amd64 (1.83.0-3) ... Selecting previously unselected package libboost-atomic1.83.0:amd64. Preparing to unpack .../56-libboost-atomic1.83.0_1.83.0-3_amd64.deb ... Unpacking libboost-atomic1.83.0:amd64 (1.83.0-3) ... Selecting previously unselected package libboost-atomic1.83-dev:amd64. Preparing to unpack .../57-libboost-atomic1.83-dev_1.83.0-3_amd64.deb ... Unpacking libboost-atomic1.83-dev:amd64 (1.83.0-3) ... Selecting previously unselected package libboost-filesystem1.83.0:amd64. Preparing to unpack .../58-libboost-filesystem1.83.0_1.83.0-3_amd64.deb ... Unpacking libboost-filesystem1.83.0:amd64 (1.83.0-3) ... Selecting previously unselected package libboost-system1.83.0:amd64. Preparing to unpack .../59-libboost-system1.83.0_1.83.0-3_amd64.deb ... Unpacking libboost-system1.83.0:amd64 (1.83.0-3) ... Selecting previously unselected package libboost-system1.83-dev:amd64. Preparing to unpack .../60-libboost-system1.83-dev_1.83.0-3_amd64.deb ... Unpacking libboost-system1.83-dev:amd64 (1.83.0-3) ... Selecting previously unselected package libboost-filesystem1.83-dev:amd64. Preparing to unpack .../61-libboost-filesystem1.83-dev_1.83.0-3_amd64.deb ... Unpacking libboost-filesystem1.83-dev:amd64 (1.83.0-3) ... Selecting previously unselected package libboost-filesystem-dev:amd64. Preparing to unpack .../62-libboost-filesystem-dev_1.83.0.2+b2_amd64.deb ... Unpacking libboost-filesystem-dev:amd64 (1.83.0.2+b2) ... Selecting previously unselected package libboost-regex1.83.0:amd64. Preparing to unpack .../63-libboost-regex1.83.0_1.83.0-3_amd64.deb ... Unpacking libboost-regex1.83.0:amd64 (1.83.0-3) ... Selecting previously unselected package libicu-dev:amd64. Preparing to unpack .../64-libicu-dev_72.1-4+b1_amd64.deb ... Unpacking libicu-dev:amd64 (72.1-4+b1) ... Selecting previously unselected package libboost-regex1.83-dev:amd64. Preparing to unpack .../65-libboost-regex1.83-dev_1.83.0-3_amd64.deb ... Unpacking libboost-regex1.83-dev:amd64 (1.83.0-3) ... Selecting previously unselected package libboost-iostreams1.83-dev:amd64. Preparing to unpack .../66-libboost-iostreams1.83-dev_1.83.0-3_amd64.deb ... Unpacking libboost-iostreams1.83-dev:amd64 (1.83.0-3) ... Selecting previously unselected package libboost-iostreams-dev:amd64. Preparing to unpack .../67-libboost-iostreams-dev_1.83.0.2+b2_amd64.deb ... Unpacking libboost-iostreams-dev:amd64 (1.83.0.2+b2) ... Selecting previously unselected package libboost-program-options1.83.0:amd64. Preparing to unpack .../68-libboost-program-options1.83.0_1.83.0-3_amd64.deb ... Unpacking libboost-program-options1.83.0:amd64 (1.83.0-3) ... Selecting previously unselected package libboost-program-options1.83-dev:amd64. Preparing to unpack .../69-libboost-program-options1.83-dev_1.83.0-3_amd64.deb ... Unpacking libboost-program-options1.83-dev:amd64 (1.83.0-3) ... Selecting previously unselected package libboost-program-options-dev:amd64. Preparing to unpack .../70-libboost-program-options-dev_1.83.0.2+b2_amd64.deb ... Unpacking libboost-program-options-dev:amd64 (1.83.0.2+b2) ... Selecting previously unselected package libboost-system-dev:amd64. Preparing to unpack .../71-libboost-system-dev_1.83.0.2+b2_amd64.deb ... Unpacking libboost-system-dev:amd64 (1.83.0.2+b2) ... Selecting previously unselected package libcurl3t64-gnutls:amd64. Preparing to unpack .../72-libcurl3t64-gnutls_8.8.0-1_amd64.deb ... Unpacking libcurl3t64-gnutls:amd64 (8.8.0-1) ... Selecting previously unselected package libcurl4-gnutls-dev:amd64. Preparing to unpack .../73-libcurl4-gnutls-dev_8.8.0-1_amd64.deb ... Unpacking libcurl4-gnutls-dev:amd64 (8.8.0-1) ... Selecting previously unselected package libdeflate0:amd64. Preparing to unpack .../74-libdeflate0_1.20-1_amd64.deb ... Unpacking libdeflate0:amd64 (1.20-1) ... Selecting previously unselected package libdeflate-dev:amd64. Preparing to unpack .../75-libdeflate-dev_1.20-1_amd64.deb ... Unpacking libdeflate-dev:amd64 (1.20-1) ... Selecting previously unselected package libhtscodecs2:amd64. Preparing to unpack .../76-libhtscodecs2_1.6.0-1+b1_amd64.deb ... Unpacking libhtscodecs2:amd64 (1.6.0-1+b1) ... Selecting previously unselected package libhts3t64:amd64. Preparing to unpack .../77-libhts3t64_1.20+ds-1_amd64.deb ... Unpacking libhts3t64:amd64 (1.20+ds-1) ... Selecting previously unselected package liblzma-dev:amd64. Preparing to unpack .../78-liblzma-dev_5.6.1+really5.4.5-1_amd64.deb ... Unpacking liblzma-dev:amd64 (5.6.1+really5.4.5-1) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../79-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1) ... Selecting previously unselected package libhts-dev:amd64. Preparing to unpack .../80-libhts-dev_1.20+ds-1_amd64.deb ... Unpacking libhts-dev:amd64 (1.20+ds-1) ... Selecting previously unselected package liblz4-dev:amd64. Preparing to unpack .../81-liblz4-dev_1.9.4-2_amd64.deb ... Unpacking liblz4-dev:amd64 (1.9.4-2) ... Selecting previously unselected package libseqan2-dev. Preparing to unpack .../82-libseqan2-dev_2.4.0+dfsg-16_all.deb ... Unpacking libseqan2-dev (2.4.0+dfsg-16) ... Selecting previously unselected package markdown. Preparing to unpack .../83-markdown_1.0.1-12_all.deb ... Unpacking markdown (1.0.1-12) ... Setting up libhtscodecs2:amd64 (1.6.0-1+b1) ... Setting up libexpat1:amd64 (2.6.2-1) ... Setting up libpipeline1:amd64 (1.5.7-2) ... Setting up libboost-program-options1.83.0:amd64 (1.83.0-3) ... Setting up libkeyutils1:amd64 (1.6.3-3) ... Setting up libboost1.83-dev:amd64 (1.83.0-3) ... Setting up libicu72:amd64 (72.1-4+b1) ... Setting up bsdextrautils (2.40.1-8) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libboost-regex1.83.0:amd64 (1.83.0-3) ... Setting up libdebhelper-perl (13.15.3) ... Setting up libbrotli1:amd64 (1.1.0-2+b3) ... Setting up libboost-system1.83.0:amd64 (1.83.0-3) ... Setting up libuv1t64:amd64 (1.48.0-4) ... Setting up libmagic1t64:amd64 (1:5.45-3) ... Setting up libboost-program-options1.83-dev:amd64 (1.83.0-3) ... Setting up libpsl5t64:amd64 (0.21.2-1.1) ... Setting up libnghttp2-14:amd64 (1.61.0-1+b1) ... Setting up libdeflate0:amd64 (1.20-1) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up libcom-err2:amd64 (1.47.1-1) ... Setting up file (1:5.45-3) ... Setting up libboost-filesystem1.83.0:amd64 (1.83.0-3) ... Setting up libelf1t64:amd64 (0.191-1+b1) ... Setting up libkrb5support0:amd64 (1.20.1-6+b1) ... Setting up libseqan2-dev (2.4.0+dfsg-16) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-6) ... Setting up libboost-atomic1.83.0:amd64 (1.83.0-3) ... Setting up autotools-dev (20220109.1) ... Setting up libboost-program-options-dev:amd64 (1.83.0.2+b2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Setting up libproc2-0:amd64 (2:4.0.4-4) ... Setting up autopoint (0.21-14) ... Setting up libjsoncpp25:amd64 (1.9.5-6+b2) ... Setting up icu-devtools (72.1-4+b1) ... Setting up liblz4-dev:amd64 (1.9.4-2) ... Setting up libk5crypto3:amd64 (1.20.1-6+b1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-6) ... Setting up libboost-atomic1.83-dev:amd64 (1.83.0-3) ... Setting up autoconf (2.71-3) ... Setting up liblzma-dev:amd64 (5.6.1+really5.4.5-1) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.22) ... Setting up librhash0:amd64 (1.4.3-3+b1) ... Setting up libuchardet0:amd64 (0.0.8-1+b1) ... Setting up procps (2:4.0.4-4) ... Setting up cmake-data (3.29.4-1) ... Setting up libkrb5-3:amd64 (1.20.1-6+b1) ... Setting up libboost-system1.83-dev:amd64 (1.83.0-3) ... Setting up libssh2-1t64:amd64 (1.11.0-5) ... Setting up libdeflate-dev:amd64 (1.20-1) ... Setting up libicu-dev:amd64 (72.1-4+b1) ... Setting up libxml2:amd64 (2.12.7+dfsg-3) ... Setting up chrpath (0.16-2+b1) ... Setting up markdown (1.0.1-12) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.21-14+b1) ... Setting up libtool (2.4.7-7) ... Setting up libboost-system-dev:amd64 (1.83.0.2+b2) ... Setting up libboost-filesystem1.83-dev:amd64 (1.83.0-3) ... Setting up libldap-2.5-0:amd64 (2.5.17+dfsg-1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-6+b1) ... Setting up libboost-regex1.83-dev:amd64 (1.83.0-3) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-4) ... Setting up libarchive13t64:amd64 (3.7.2-2.1) ... Setting up libboost-filesystem-dev:amd64 (1.83.0.2+b2) ... Setting up libcurl4t64:amd64 (8.8.0-1) ... Setting up libboost-iostreams1.83-dev:amd64 (1.83.0-3) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libcurl3t64-gnutls:amd64 (8.8.0-1) ... Setting up libboost-iostreams-dev:amd64 (1.83.0.2+b2) ... Setting up libcurl4-gnutls-dev:amd64 (8.8.0-1) ... Setting up man-db (2.12.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up cmake (3.29.4-1) ... Setting up libhts3t64:amd64 (1.20+ds-1) ... Setting up libhts-dev:amd64 (1.20+ds-1) ... Setting up debhelper (13.15.3) ... Processing triggers for libc-bin (2.38-12) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.34-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/reproducible-path/hilive-2.0a/ && 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 > ../hilive_2.0a-3_source.changes dpkg-buildpackage: info: source package hilive dpkg-buildpackage: info: source version 2.0a-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean dh_clean debian/rules build dh build dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/hilive-2.0a' dh_auto_configure -- -DSEQAN_PATH=/usr/lib/seqan/ cd obj-x86_64-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 "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DSEQAN_PATH=/usr/lib/seqan/ .. -- 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 Boost: /usr/lib/x86_64-linux-gnu/cmake/Boost-1.83.0/BoostConfig.cmake (found version "1.83.0") found components: system filesystem program_options iostreams -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.3.1") -- Performing Test CXX14_BUILTIN -- Performing Test CXX14_BUILTIN - Success CMake Warning (dev) at /usr/share/cmake/seqan/seqan-config.cmake:218 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): CMakeLists.txt:102 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. -- Looking for C++ include execinfo.h -- Looking for C++ include execinfo.h - found -- Found Seqan: /usr/include (found version "2.4.0") -- Configuring done (1.0s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/hilive-2.0a' dh_auto_build cd obj-x86_64-linux-gnu && make -j20 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/hilive-2.0a -B/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' make -f CMakeFiles/HiLiveLibs.dir/build.make CMakeFiles/HiLiveLibs.dir/depend make[3]: Entering directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' cd /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hilive-2.0a /build/reproducible-path/hilive-2.0a /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles/HiLiveLibs.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' make -f CMakeFiles/HiLiveLibs.dir/build.make CMakeFiles/HiLiveLibs.dir/build make[3]: Entering directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' [ 6%] Building CXX object CMakeFiles/HiLiveLibs.dir/lib/tools_static.cpp.o [ 12%] Building CXX object CMakeFiles/HiLiveLibs.dir/lib/alnout.cpp.o /usr/bin/c++ -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu -I/build/reproducible-path/hilive-2.0a/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/hilive-2.0a=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -std=c++14 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -MD -MT CMakeFiles/HiLiveLibs.dir/lib/tools_static.cpp.o -MF CMakeFiles/HiLiveLibs.dir/lib/tools_static.cpp.o.d -o CMakeFiles/HiLiveLibs.dir/lib/tools_static.cpp.o -c /build/reproducible-path/hilive-2.0a/lib/tools_static.cpp [ 43%] Building CXX object CMakeFiles/HiLiveLibs.dir/lib/argument_parser.cpp.o [ 43%] Building CXX object CMakeFiles/HiLiveLibs.dir/lib/parallel.cpp.o [ 31%] Building CXX object CMakeFiles/HiLiveLibs.dir/lib/alnstream.cpp.o [ 31%] Building CXX object CMakeFiles/HiLiveLibs.dir/lib/illumina_parsers.cpp.o [ 43%] Building CXX object CMakeFiles/HiLiveLibs.dir/lib/kindex.cpp.o [ 50%] Building CXX object CMakeFiles/HiLiveLibs.dir/lib/tools.cpp.o /usr/bin/c++ -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu -I/build/reproducible-path/hilive-2.0a/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/hilive-2.0a=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -std=c++14 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -MD -MT CMakeFiles/HiLiveLibs.dir/lib/alnstream.cpp.o -MF CMakeFiles/HiLiveLibs.dir/lib/alnstream.cpp.o.d -o CMakeFiles/HiLiveLibs.dir/lib/alnstream.cpp.o -c /build/reproducible-path/hilive-2.0a/lib/alnstream.cpp [ 56%] Building CXX object CMakeFiles/HiLiveLibs.dir/lib/alnread.cpp.o /usr/bin/c++ -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu -I/build/reproducible-path/hilive-2.0a/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/hilive-2.0a=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -std=c++14 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -MD -MT CMakeFiles/HiLiveLibs.dir/lib/alnout.cpp.o -MF CMakeFiles/HiLiveLibs.dir/lib/alnout.cpp.o.d -o CMakeFiles/HiLiveLibs.dir/lib/alnout.cpp.o -c /build/reproducible-path/hilive-2.0a/lib/alnout.cpp /usr/bin/c++ -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu -I/build/reproducible-path/hilive-2.0a/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/hilive-2.0a=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -std=c++14 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -MD -MT CMakeFiles/HiLiveLibs.dir/lib/tools.cpp.o -MF CMakeFiles/HiLiveLibs.dir/lib/tools.cpp.o.d -o CMakeFiles/HiLiveLibs.dir/lib/tools.cpp.o -c /build/reproducible-path/hilive-2.0a/lib/tools.cpp /usr/bin/c++ -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu -I/build/reproducible-path/hilive-2.0a/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/hilive-2.0a=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -std=c++14 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -MD -MT CMakeFiles/HiLiveLibs.dir/lib/illumina_parsers.cpp.o -MF CMakeFiles/HiLiveLibs.dir/lib/illumina_parsers.cpp.o.d -o CMakeFiles/HiLiveLibs.dir/lib/illumina_parsers.cpp.o -c /build/reproducible-path/hilive-2.0a/lib/illumina_parsers.cpp /usr/bin/c++ -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu -I/build/reproducible-path/hilive-2.0a/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/hilive-2.0a=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -std=c++14 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -MD -MT CMakeFiles/HiLiveLibs.dir/lib/parallel.cpp.o -MF CMakeFiles/HiLiveLibs.dir/lib/parallel.cpp.o.d -o CMakeFiles/HiLiveLibs.dir/lib/parallel.cpp.o -c /build/reproducible-path/hilive-2.0a/lib/parallel.cpp /usr/bin/c++ -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu -I/build/reproducible-path/hilive-2.0a/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/hilive-2.0a=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -std=c++14 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -MD -MT CMakeFiles/HiLiveLibs.dir/lib/argument_parser.cpp.o -MF CMakeFiles/HiLiveLibs.dir/lib/argument_parser.cpp.o.d -o CMakeFiles/HiLiveLibs.dir/lib/argument_parser.cpp.o -c /build/reproducible-path/hilive-2.0a/lib/argument_parser.cpp /usr/bin/c++ -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu -I/build/reproducible-path/hilive-2.0a/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/hilive-2.0a=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -std=c++14 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -MD -MT CMakeFiles/HiLiveLibs.dir/lib/alnread.cpp.o -MF CMakeFiles/HiLiveLibs.dir/lib/alnread.cpp.o.d -o CMakeFiles/HiLiveLibs.dir/lib/alnread.cpp.o -c /build/reproducible-path/hilive-2.0a/lib/alnread.cpp /usr/bin/c++ -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu -I/build/reproducible-path/hilive-2.0a/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/hilive-2.0a=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -std=c++14 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -MD -MT CMakeFiles/HiLiveLibs.dir/lib/kindex.cpp.o -MF CMakeFiles/HiLiveLibs.dir/lib/kindex.cpp.o.d -o CMakeFiles/HiLiveLibs.dir/lib/kindex.cpp.o -c /build/reproducible-path/hilive-2.0a/lib/kindex.cpp In file included from /build/reproducible-path/hilive-2.0a/lib/tools.h:11, from /build/reproducible-path/hilive-2.0a/lib/illumina_parsers.h:6, from /build/reproducible-path/hilive-2.0a/lib/illumina_parsers.cpp:1: /build/reproducible-path/hilive-2.0a/lib/tools_static.h: In function 'void ltrim(std::string&)': /build/reproducible-path/hilive-2.0a/lib/tools_static.h:304:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 304 | std::not1(std::ptr_fun(std::isspace)))); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /build/reproducible-path/hilive-2.0a/lib/headers.h:1, from /build/reproducible-path/hilive-2.0a/lib/illumina_parsers.h:4: /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ /build/reproducible-path/hilive-2.0a/lib/tools_static.h: In function 'void rtrim(std::string&)': /build/reproducible-path/hilive-2.0a/lib/tools_static.h:314:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 314 | std::not1(std::ptr_fun(std::isspace))).base(), s.end()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ In file included from /build/reproducible-path/hilive-2.0a/lib/tools.h:11, from /build/reproducible-path/hilive-2.0a/lib/tools.cpp:1: /build/reproducible-path/hilive-2.0a/lib/tools_static.h: In function 'void ltrim(std::string&)': /build/reproducible-path/hilive-2.0a/lib/tools_static.h:304:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 304 | std::not1(std::ptr_fun(std::isspace)))); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /build/reproducible-path/hilive-2.0a/lib/headers.h:1, from /build/reproducible-path/hilive-2.0a/lib/tools_static.h:10: /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ /build/reproducible-path/hilive-2.0a/lib/tools_static.h: In function 'void rtrim(std::string&)': /build/reproducible-path/hilive-2.0a/lib/tools_static.h:314:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 314 | std::not1(std::ptr_fun(std::isspace))).base(), s.end()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ In file included from /build/reproducible-path/hilive-2.0a/lib/tools.h:11, from /build/reproducible-path/hilive-2.0a/lib/parallel.h:6, from /build/reproducible-path/hilive-2.0a/lib/parallel.cpp:1: /build/reproducible-path/hilive-2.0a/lib/tools_static.h: In function 'void ltrim(std::string&)': /build/reproducible-path/hilive-2.0a/lib/tools_static.h:304:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 304 | std::not1(std::ptr_fun(std::isspace)))); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /build/reproducible-path/hilive-2.0a/lib/headers.h:1, from /build/reproducible-path/hilive-2.0a/lib/parallel.h:4: /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ /build/reproducible-path/hilive-2.0a/lib/tools_static.h: In function 'void rtrim(std::string&)': /build/reproducible-path/hilive-2.0a/lib/tools_static.h:314:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 314 | std::not1(std::ptr_fun(std::isspace))).base(), s.end()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ In file included from /build/reproducible-path/hilive-2.0a/lib/tools_static.cpp:1: /build/reproducible-path/hilive-2.0a/lib/tools_static.h: In function 'void ltrim(std::string&)': /build/reproducible-path/hilive-2.0a/lib/tools_static.h:304:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 304 | std::not1(std::ptr_fun(std::isspace)))); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /build/reproducible-path/hilive-2.0a/lib/headers.h:1, from /build/reproducible-path/hilive-2.0a/lib/tools_static.h:10: /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ /build/reproducible-path/hilive-2.0a/lib/tools_static.h: In function 'void rtrim(std::string&)': /build/reproducible-path/hilive-2.0a/lib/tools_static.h:314:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 314 | std::not1(std::ptr_fun(std::isspace))).base(), s.end()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ In file included from /build/reproducible-path/hilive-2.0a/lib/tools.h:11, from /build/reproducible-path/hilive-2.0a/lib/kindex.h:7, from /build/reproducible-path/hilive-2.0a/lib/alnout.h:7, from /build/reproducible-path/hilive-2.0a/lib/alnout.cpp:1: /build/reproducible-path/hilive-2.0a/lib/tools_static.h: In function 'void ltrim(std::string&)': /build/reproducible-path/hilive-2.0a/lib/tools_static.h:304:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 304 | std::not1(std::ptr_fun(std::isspace)))); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /build/reproducible-path/hilive-2.0a/lib/headers.h:1, from /build/reproducible-path/hilive-2.0a/lib/alnout.h:4: /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ /build/reproducible-path/hilive-2.0a/lib/tools_static.h: In function 'void rtrim(std::string&)': /build/reproducible-path/hilive-2.0a/lib/tools_static.h:314:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 314 | std::not1(std::ptr_fun(std::isspace))).base(), s.end()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ In file included from /build/reproducible-path/hilive-2.0a/lib/tools.h:11, from /build/reproducible-path/hilive-2.0a/lib/parallel.h:6, from /build/reproducible-path/hilive-2.0a/lib/argument_parser.h:5, from /build/reproducible-path/hilive-2.0a/lib/argument_parser.cpp:1: /build/reproducible-path/hilive-2.0a/lib/tools_static.h: In function 'void ltrim(std::string&)': /build/reproducible-path/hilive-2.0a/lib/tools_static.h:304:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 304 | std::not1(std::ptr_fun(std::isspace)))); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /usr/include/boost/program_options/errors.hpp:12, from /usr/include/boost/program_options/options_description.hpp:12, from /usr/include/boost/program_options.hpp:15, from /build/reproducible-path/hilive-2.0a/lib/argument_parser.h:1: /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ /build/reproducible-path/hilive-2.0a/lib/tools_static.h: In function 'void rtrim(std::string&)': /build/reproducible-path/hilive-2.0a/lib/tools_static.h:314:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 314 | std::not1(std::ptr_fun(std::isspace))).base(), s.end()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ In file included from /build/reproducible-path/hilive-2.0a/lib/tools.h:11, from /build/reproducible-path/hilive-2.0a/lib/kindex.h:7, from /build/reproducible-path/hilive-2.0a/lib/alnstream.h:7, from /build/reproducible-path/hilive-2.0a/lib/alnstream.cpp:1: /build/reproducible-path/hilive-2.0a/lib/tools_static.h: In function 'void ltrim(std::string&)': /build/reproducible-path/hilive-2.0a/lib/tools_static.h:304:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 304 | std::not1(std::ptr_fun(std::isspace)))); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /build/reproducible-path/hilive-2.0a/lib/headers.h:1, from /build/reproducible-path/hilive-2.0a/lib/alnstream.h:4: /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ /build/reproducible-path/hilive-2.0a/lib/tools_static.h: In function 'void rtrim(std::string&)': /build/reproducible-path/hilive-2.0a/lib/tools_static.h:314:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 314 | std::not1(std::ptr_fun(std::isspace))).base(), s.end()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ In file included from /build/reproducible-path/hilive-2.0a/lib/tools.h:11, from /build/reproducible-path/hilive-2.0a/lib/kindex.h:7, from /build/reproducible-path/hilive-2.0a/lib/alnread.h:6, from /build/reproducible-path/hilive-2.0a/lib/alnread.cpp:1: /build/reproducible-path/hilive-2.0a/lib/tools_static.h: In function 'void ltrim(std::string&)': /build/reproducible-path/hilive-2.0a/lib/tools_static.h:304:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 304 | std::not1(std::ptr_fun(std::isspace)))); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /build/reproducible-path/hilive-2.0a/lib/headers.h:1, from /build/reproducible-path/hilive-2.0a/lib/alnread.h:4: /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ /build/reproducible-path/hilive-2.0a/lib/tools_static.h: In function 'void rtrim(std::string&)': /build/reproducible-path/hilive-2.0a/lib/tools_static.h:314:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 314 | std::not1(std::ptr_fun(std::isspace))).base(), s.end()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ In file included from /build/reproducible-path/hilive-2.0a/lib/tools.h:11, from /build/reproducible-path/hilive-2.0a/lib/kindex.h:7, from /build/reproducible-path/hilive-2.0a/lib/kindex.cpp:1: /build/reproducible-path/hilive-2.0a/lib/tools_static.h: In function 'void ltrim(std::string&)': /build/reproducible-path/hilive-2.0a/lib/tools_static.h:304:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 304 | std::not1(std::ptr_fun(std::isspace)))); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /build/reproducible-path/hilive-2.0a/lib/headers.h:1, from /build/reproducible-path/hilive-2.0a/lib/kindex.h:4: /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ /build/reproducible-path/hilive-2.0a/lib/tools_static.h: In function 'void rtrim(std::string&)': /build/reproducible-path/hilive-2.0a/lib/tools_static.h:314:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 314 | std::not1(std::ptr_fun(std::isspace))).base(), s.end()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ /build/reproducible-path/hilive-2.0a/lib/alnstream.cpp: In member function 'uint64_t oAlnStream::lz4write(const char*, uint64_t)': /build/reproducible-path/hilive-2.0a/lib/alnstream.cpp:23:43: warning: 'int LZ4_compress(const char*, char*, int)' is deprecated: use LZ4_compress_default() instead [-Wdeprecated-declarations] 23 | uint32_t compressed_size = LZ4_compress (source, buf.data(), size); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/hilive-2.0a/lib/headers.h:5: /usr/include/lz4.h:765:75: note: declared here 765 | LZ4_DEPRECATED("use LZ4_compress_default() instead") LZ4LIB_API int LZ4_compress (const char* src, char* dest, int srcSize); | ^~~~~~~~~~~~ /build/reproducible-path/hilive-2.0a/lib/alnstream.cpp: In member function 'ReadAlignment* iAlnStream::get_alignment()': /build/reproducible-path/hilive-2.0a/lib/alnstream.cpp:359:12: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 359 | fread(buffer.data(),1,buf_size,fstream); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/hilive-2.0a/lib/alnstream.cpp:389:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 389 | fread(buffer.data(),1,buf_size,fstream); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 62%] Linking CXX static library libHiLiveLibs.a /usr/bin/cmake -P CMakeFiles/HiLiveLibs.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_link_script CMakeFiles/HiLiveLibs.dir/link.txt --verbose=1 /usr/bin/ar qc libHiLiveLibs.a CMakeFiles/HiLiveLibs.dir/lib/tools_static.cpp.o CMakeFiles/HiLiveLibs.dir/lib/tools.cpp.o CMakeFiles/HiLiveLibs.dir/lib/alnread.cpp.o CMakeFiles/HiLiveLibs.dir/lib/alnstream.cpp.o CMakeFiles/HiLiveLibs.dir/lib/alnout.cpp.o CMakeFiles/HiLiveLibs.dir/lib/illumina_parsers.cpp.o CMakeFiles/HiLiveLibs.dir/lib/kindex.cpp.o CMakeFiles/HiLiveLibs.dir/lib/parallel.cpp.o CMakeFiles/HiLiveLibs.dir/lib/argument_parser.cpp.o /usr/bin/ranlib libHiLiveLibs.a make[3]: Leaving directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' [ 62%] Built target HiLiveLibs make -f CMakeFiles/hilive.dir/build.make CMakeFiles/hilive.dir/depend make -f CMakeFiles/hilive-build.dir/build.make CMakeFiles/hilive-build.dir/depend make -f CMakeFiles/hilive-out.dir/build.make CMakeFiles/hilive-out.dir/depend make[3]: Entering directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' cd /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hilive-2.0a /build/reproducible-path/hilive-2.0a /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles/hilive.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' cd /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hilive-2.0a /build/reproducible-path/hilive-2.0a /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles/hilive-out.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hilive-2.0a /build/reproducible-path/hilive-2.0a /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles/hilive-build.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' make -f CMakeFiles/hilive.dir/build.make CMakeFiles/hilive.dir/build make[3]: Leaving directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' make -f CMakeFiles/hilive-out.dir/build.make CMakeFiles/hilive-out.dir/build make[3]: Leaving directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' make -f CMakeFiles/hilive-build.dir/build.make CMakeFiles/hilive-build.dir/build make[3]: Entering directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' [ 68%] Building CXX object CMakeFiles/hilive.dir/tools/hilive.cpp.o [ 75%] Building CXX object CMakeFiles/hilive-build.dir/tools/build_index.cpp.o [ 81%] Building CXX object CMakeFiles/hilive-out.dir/tools/hilive_out.cpp.o /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu -I/build/reproducible-path/hilive-2.0a/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/hilive-2.0a=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -std=c++14 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -MD -MT CMakeFiles/hilive.dir/tools/hilive.cpp.o -MF CMakeFiles/hilive.dir/tools/hilive.cpp.o.d -o CMakeFiles/hilive.dir/tools/hilive.cpp.o -c /build/reproducible-path/hilive-2.0a/tools/hilive.cpp /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu -I/build/reproducible-path/hilive-2.0a/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/hilive-2.0a=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -std=c++14 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -MD -MT CMakeFiles/hilive-build.dir/tools/build_index.cpp.o -MF CMakeFiles/hilive-build.dir/tools/build_index.cpp.o.d -o CMakeFiles/hilive-build.dir/tools/build_index.cpp.o -c /build/reproducible-path/hilive-2.0a/tools/build_index.cpp /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DHiLive_VERSION_MAJOR=2 -DHiLive_VERSION_MINOR=0 -I/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu -I/build/reproducible-path/hilive-2.0a/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/hilive-2.0a=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -std=c++14 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -MD -MT CMakeFiles/hilive-out.dir/tools/hilive_out.cpp.o -MF CMakeFiles/hilive-out.dir/tools/hilive_out.cpp.o.d -o CMakeFiles/hilive-out.dir/tools/hilive_out.cpp.o -c /build/reproducible-path/hilive-2.0a/tools/hilive_out.cpp In file included from /build/reproducible-path/hilive-2.0a/tools/../lib/tools.h:11, from /build/reproducible-path/hilive-2.0a/tools/../lib/kindex.h:7, from /build/reproducible-path/hilive-2.0a/tools/build_index.cpp:5: /build/reproducible-path/hilive-2.0a/tools/../lib/tools_static.h: In function 'void ltrim(std::string&)': /build/reproducible-path/hilive-2.0a/tools/../lib/tools_static.h:304:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 304 | std::not1(std::ptr_fun(std::isspace)))); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /usr/include/boost/program_options/errors.hpp:12, from /usr/include/boost/program_options/options_description.hpp:12, from /usr/include/boost/program_options.hpp:15, from /build/reproducible-path/hilive-2.0a/tools/build_index.cpp:1: /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ /build/reproducible-path/hilive-2.0a/tools/../lib/tools_static.h: In function 'void rtrim(std::string&)': /build/reproducible-path/hilive-2.0a/tools/../lib/tools_static.h:314:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 314 | std::not1(std::ptr_fun(std::isspace))).base(), s.end()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ In file included from /build/reproducible-path/hilive-2.0a/tools/../lib/tools.h:11, from /build/reproducible-path/hilive-2.0a/tools/../lib/kindex.h:7, from /build/reproducible-path/hilive-2.0a/tools/hilive.cpp:4: /build/reproducible-path/hilive-2.0a/tools/../lib/tools_static.h: In function 'void ltrim(std::string&)': /build/reproducible-path/hilive-2.0a/tools/../lib/tools_static.h:304:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 304 | std::not1(std::ptr_fun(std::isspace)))); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /build/reproducible-path/hilive-2.0a/tools/../lib/headers.h:1, from /build/reproducible-path/hilive-2.0a/tools/hilive.cpp:1: /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ /build/reproducible-path/hilive-2.0a/tools/../lib/tools_static.h: In function 'void rtrim(std::string&)': /build/reproducible-path/hilive-2.0a/tools/../lib/tools_static.h:314:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 314 | std::not1(std::ptr_fun(std::isspace))).base(), s.end()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ In file included from /build/reproducible-path/hilive-2.0a/tools/../lib/tools.h:11, from /build/reproducible-path/hilive-2.0a/tools/../lib/kindex.h:7, from /build/reproducible-path/hilive-2.0a/tools/hilive_out.cpp:5: /build/reproducible-path/hilive-2.0a/tools/../lib/tools_static.h: In function 'void ltrim(std::string&)': /build/reproducible-path/hilive-2.0a/tools/../lib/tools_static.h:304:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 304 | std::not1(std::ptr_fun(std::isspace)))); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /usr/include/boost/program_options/errors.hpp:12, from /usr/include/boost/program_options/options_description.hpp:12, from /usr/include/boost/program_options.hpp:15, from /build/reproducible-path/hilive-2.0a/tools/hilive_out.cpp:1: /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ /build/reproducible-path/hilive-2.0a/tools/../lib/tools_static.h: In function 'void rtrim(std::string&)': /build/reproducible-path/hilive-2.0a/tools/../lib/tools_static.h:314:45: warning: 'std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]' is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 314 | std::not1(std::ptr_fun(std::isspace))).base(), s.end()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:1126:5: note: declared here 1126 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ [ 87%] Linking CXX executable hilive-build /usr/bin/cmake -E cmake_link_script CMakeFiles/hilive-build.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/hilive-2.0a=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive "CMakeFiles/hilive-build.dir/tools/build_index.cpp.o" -o hilive-build libHiLiveLibs.a /usr/lib/x86_64-linux-gnu/libz.so -llz4 /usr/lib/x86_64-linux-gnu/libboost_system.so.1.83.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.83.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.83.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.83.0 -lrt /usr/lib/x86_64-linux-gnu/libz.so -llz4 -lrt /usr/lib/x86_64-linux-gnu/libboost_atomic.so.1.83.0 make[3]: Leaving directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' [ 87%] Built target hilive-build [ 93%] Linking CXX executable hilive-out /usr/bin/cmake -E cmake_link_script CMakeFiles/hilive-out.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/hilive-2.0a=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive "CMakeFiles/hilive-out.dir/tools/hilive_out.cpp.o" -o hilive-out libHiLiveLibs.a /usr/lib/x86_64-linux-gnu/libz.so -llz4 /usr/lib/x86_64-linux-gnu/libboost_system.so.1.83.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.83.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.83.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.83.0 -lrt /usr/lib/x86_64-linux-gnu/libz.so -llz4 -lrt /usr/lib/x86_64-linux-gnu/libboost_atomic.so.1.83.0 make[3]: Leaving directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' [ 93%] Built target hilive-out [100%] Linking CXX executable hilive /usr/bin/cmake -E cmake_link_script CMakeFiles/hilive.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/hilive-2.0a=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/hilive.dir/tools/hilive.cpp.o -o hilive libHiLiveLibs.a /usr/lib/x86_64-linux-gnu/libz.so -llz4 /usr/lib/x86_64-linux-gnu/libboost_system.so.1.83.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.83.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.83.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.83.0 -lrt /usr/lib/x86_64-linux-gnu/libz.so -llz4 -lrt /usr/lib/x86_64-linux-gnu/libboost_atomic.so.1.83.0 make[3]: Leaving directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' [100%] Built target hilive make[2]: Leaving directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/hilive-2.0a/obj-x86_64-linux-gnu' dh_auto_test create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary dh_testroot dh_prep dh_auto_install --destdir=debian/hilive/ debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/hilive-2.0a' chrpath --delete obj-x86_64-linux-gnu/hilive* dh_install make[1]: Leaving directory '/build/reproducible-path/hilive-2.0a' debian/rules override_dh_installdocs make[1]: Entering directory '/build/reproducible-path/hilive-2.0a' markdown README.md > README.html dh_installdocs rm README.html make[1]: Leaving directory '/build/reproducible-path/hilive-2.0a' dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz dh_strip dh_makeshlibs dh_shlibdeps dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'hilive-dbgsym' in '../hilive-dbgsym_2.0a-3_amd64.deb'. dpkg-deb: building package 'hilive' in '../hilive_2.0a-3_amd64.deb'. dpkg-genbuildinfo --build=binary -O../hilive_2.0a-3_amd64.buildinfo dpkg-genchanges --build=binary -O../hilive_2.0a-3_amd64.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/3625685 and its subdirectories I: Current time: Tue Jun 4 20:19:39 -12 2024 I: pbuilder-time-stamp: 1717575579 Wed Jun 5 08:19:40 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos5-amd64.debian.net. Wed Jun 5 08:19:40 UTC 2024 I: Preparing to do remote build '2' on ionos5-amd64.debian.net. Wed Jun 5 08:22:02 UTC 2024 I: Deleting $TMPDIR on ionos5-amd64.debian.net. Wed Jun 5 08:22:03 UTC 2024 I: hilive_2.0a-3_amd64.changes: Format: 1.8 Date: Thu, 16 Jan 2020 11:56:44 +0100 Source: hilive Binary: hilive hilive-dbgsym Architecture: amd64 Version: 2.0a-3 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: hilive - realtime alignment of Illumina reads Changes: hilive (2.0a-3) unstable; urgency=medium . [ Andreas Tille ] * Really install documentation . [ Juhani Numminen ] * Remove undesired build flag -march=native . [ Andreas Tille ] * Set upstream metadata fields: Bug-Database, Bug-Submit, Repository, Repository-Browse. * Remove obsolete field Name from debian/upstream/metadata (already present in machine-readable debian/copyright). Checksums-Sha1: 4f41bee4e7800873ce792ea9378820df8334941b 9585472 hilive-dbgsym_2.0a-3_amd64.deb 9eeb8bceb5aea437be64b9a30dd86eb200702f43 7008 hilive_2.0a-3_amd64.buildinfo 2d29f8b3337034b855c8370b7876ed37ca05a3ed 530228 hilive_2.0a-3_amd64.deb Checksums-Sha256: 994587a4cd9ee8f67a0dc41722ad1849a272f8272f477e9281222d55b57fc08d 9585472 hilive-dbgsym_2.0a-3_amd64.deb 19a497f7ca8fb739a73cad026d36172910795590fd61451814a18d7967bb7a3f 7008 hilive_2.0a-3_amd64.buildinfo 31e26d38e0b9fba63185ac8c49ba7c60056596c889c79103018a5e4dc3099c70 530228 hilive_2.0a-3_amd64.deb Files: be8e5b29df3f1fdf245d8b5df9923f54 9585472 debug optional hilive-dbgsym_2.0a-3_amd64.deb a283995446df020bc6525a2f0c430985 7008 science optional hilive_2.0a-3_amd64.buildinfo 617e6d4a23c6d8525f1a30d673f41df6 530228 science optional hilive_2.0a-3_amd64.deb Wed Jun 5 08:22:04 UTC 2024 I: diffoscope 269 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_13-10109.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.5HViDcue/hilive_2.0a-3.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.5HViDcue/hilive_2.0a-3.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.5HViDcue/hilive_2.0a-3.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.5HViDcue/b1/hilive_2.0a-3_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.5HViDcue/b2/hilive_2.0a-3_amd64.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: 0.468s) 0.468s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.123s) 0.123s 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: 801ms Wed Jun 5 08:22:05 UTC 2024 I: diffoscope 269 found no differences in the changes files, and a .buildinfo file also exists. Wed Jun 5 08:22:05 UTC 2024 I: hilive from unstable built successfully and reproducibly on amd64. Wed Jun 5 08:22:07 UTC 2024 I: Submitting .buildinfo files to external archives: Wed Jun 5 08:22:07 UTC 2024 I: Submitting 8.0K b1/hilive_2.0a-3_amd64.buildinfo.asc Wed Jun 5 08:22:07 UTC 2024 I: Submitting 8.0K b2/hilive_2.0a-3_amd64.buildinfo.asc Wed Jun 5 08:22:08 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Wed Jun 5 08:22:08 UTC 2024 I: Done submitting .buildinfo files. Wed Jun 5 08:22:08 UTC 2024 I: Removing signed hilive_2.0a-3_amd64.buildinfo.asc files: removed './b1/hilive_2.0a-3_amd64.buildinfo.asc' removed './b2/hilive_2.0a-3_amd64.buildinfo.asc'