I: pbuilder: network access will be disabled during build I: Current time: Sun Aug 15 02:17:59 +14 2021 I: pbuilder-time-stamp: 1628943479 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration 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_2.5.1+dfsg-9.dsc] I: copying [./bamtools_2.5.1+dfsg.orig.tar.gz] I: copying [./bamtools_2.5.1+dfsg-9.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.5MiMQnZS/trustedkeys.kbx': General error gpgv: Signature made Fri Apr 16 09:50:42 2021 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./bamtools_2.5.1+dfsg-9.dsc dpkg-source: info: extracting bamtools in bamtools-2.5.1+dfsg dpkg-source: info: unpacking bamtools_2.5.1+dfsg.orig.tar.gz dpkg-source: info: unpacking bamtools_2.5.1+dfsg-9.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying doxygen-tweak dpkg-source: info: applying 0001-ignore-thirdparty-and-fix-jsoncpp.patch dpkg-source: info: applying 0003-remove-custom-ExportHeader-function-use-install-inst.patch dpkg-source: info: applying 0006-Doxygen-reproducibility dpkg-source: info: applying 0008_Cmake_Test.patch dpkg-source: info: applying spelling dpkg-source: info: applying tiddit.patch dpkg-source: info: applying shared_and_static.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1986/tmp/hooks/D01_modify_environment starting debug: Running on cbxi4a. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/1986/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/1986/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="1" [2]="4" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") BASH_VERSION='5.1.4(1)-release' BUILDDIR=/build BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=armhf DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=4' DIRSTACK=() DISTRIBUTION= EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=arm HOST_ARCH=armhf IFS=' ' INVOCATION_ID=bb848087bdd54623a4f0e7d9b1818209 LANG=C LANGUAGE=it_CH:it LC_ALL=C MACHTYPE=arm-unknown-linux-gnueabihf MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnueabihf PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=1986 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.17znz02jwX/pbuilderrc_EcpG --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.17znz02jwX/b2 --logfile b2/build.log --extrapackages usrmerge bamtools_2.5.1+dfsg-9.dsc' SUDO_GID=113 SUDO_UID=107 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://10.0.0.15:8000/ I: uname -a Linux i-capture-the-hostname 5.10.0-8-armmp #1 SMP Debian 5.10.46-4 (2021-08-03) armv7l GNU/Linux I: ls -l /bin total 3580 -rwxr-xr-x 1 root root 816764 Aug 5 10:25 bash -rwxr-xr-x 3 root root 26052 Jul 21 2020 bunzip2 -rwxr-xr-x 3 root root 26052 Jul 21 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 21 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 21 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 21 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 5 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 21 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 21 2020 bzgrep -rwxr-xr-x 3 root root 26052 Jul 21 2020 bzip2 -rwxr-xr-x 1 root root 9636 Jul 21 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 21 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 21 2020 bzmore -rwxr-xr-x 1 root root 26668 Sep 23 2020 cat -rwxr-xr-x 1 root root 43104 Sep 23 2020 chgrp -rwxr-xr-x 1 root root 38984 Sep 23 2020 chmod -rwxr-xr-x 1 root root 43112 Sep 23 2020 chown -rwxr-xr-x 1 root root 92616 Sep 23 2020 cp -rwxr-xr-x 1 root root 75524 Dec 11 2020 dash -rwxr-xr-x 1 root root 75880 Sep 23 2020 date -rwxr-xr-x 1 root root 55436 Sep 23 2020 dd -rwxr-xr-x 1 root root 59912 Sep 23 2020 df -rwxr-xr-x 1 root root 96764 Sep 23 2020 dir -rwxr-xr-x 1 root root 55012 Jul 29 09:09 dmesg lrwxrwxrwx 1 root root 8 Nov 8 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 8 2019 domainname -> hostname -rwxr-xr-x 1 root root 22508 Sep 23 2020 echo -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep -rwxr-xr-x 1 root root 22496 Sep 23 2020 false -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep -rwxr-xr-x 1 root root 47492 Jul 29 09:09 findmnt -rwsr-xr-x 1 root root 26076 Feb 27 06:12 fusermount -rwxr-xr-x 1 root root 124508 Nov 10 2020 grep -rwxr-xr-x 2 root root 2346 Mar 3 13:30 gunzip -rwxr-xr-x 1 root root 6376 Mar 3 13:30 gzexe -rwxr-xr-x 1 root root 64212 Mar 3 13:30 gzip -rwxr-xr-x 1 root root 13784 Nov 8 2019 hostname -rwxr-xr-x 1 root root 43180 Sep 23 2020 ln -rwxr-xr-x 1 root root 35068 Feb 8 2020 login -rwxr-xr-x 1 root root 96764 Sep 23 2020 ls -rwxr-xr-x 1 root root 99940 Jul 29 09:09 lsblk -rwxr-xr-x 1 root root 51408 Sep 23 2020 mkdir -rwxr-xr-x 1 root root 43184 Sep 23 2020 mknod -rwxr-xr-x 1 root root 30780 Sep 23 2020 mktemp -rwxr-xr-x 1 root root 34408 Jul 29 09:09 more -rwsr-xr-x 1 root root 34400 Jul 29 09:09 mount -rwxr-xr-x 1 root root 9824 Jul 29 09:09 mountpoint -rwxr-xr-x 1 root root 88524 Sep 23 2020 mv lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 19 05:38 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 26652 Sep 23 2020 pwd lrwxrwxrwx 1 root root 4 Aug 5 10:25 rbash -> bash -rwxr-xr-x 1 root root 30740 Sep 23 2020 readlink -rwxr-xr-x 1 root root 43104 Sep 23 2020 rm -rwxr-xr-x 1 root root 30732 Sep 23 2020 rmdir -rwxr-xr-x 1 root root 14144 Sep 28 2020 run-parts -rwxr-xr-x 1 root root 76012 Dec 23 2018 sed lrwxrwxrwx 1 root root 4 Aug 15 02:20 sh -> bash lrwxrwxrwx 1 root root 4 Aug 14 23:28 sh.distrib -> dash -rwxr-xr-x 1 root root 22532 Sep 23 2020 sleep -rwxr-xr-x 1 root root 55360 Sep 23 2020 stty -rwsr-xr-x 1 root root 46704 Jul 29 09:09 su -rwxr-xr-x 1 root root 22532 Sep 23 2020 sync -rwxr-xr-x 1 root root 340872 Feb 17 23:55 tar -rwxr-xr-x 1 root root 9808 Sep 28 2020 tempfile -rwxr-xr-x 1 root root 67696 Sep 23 2020 touch -rwxr-xr-x 1 root root 22496 Sep 23 2020 true -rwxr-xr-x 1 root root 9636 Feb 27 06:12 ulockmgr_server -rwsr-xr-x 1 root root 22108 Jul 29 09:09 umount -rwxr-xr-x 1 root root 22520 Sep 23 2020 uname -rwxr-xr-x 2 root root 2346 Mar 3 13:30 uncompress -rwxr-xr-x 1 root root 96764 Sep 23 2020 vdir -rwxr-xr-x 1 root root 38512 Jul 29 09:09 wdctl lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 3 13:30 zcat -rwxr-xr-x 1 root root 1678 Mar 3 13:30 zcmp -rwxr-xr-x 1 root root 5880 Mar 3 13:30 zdiff -rwxr-xr-x 1 root root 29 Mar 3 13:30 zegrep -rwxr-xr-x 1 root root 29 Mar 3 13:30 zfgrep -rwxr-xr-x 1 root root 2081 Mar 3 13:30 zforce -rwxr-xr-x 1 root root 7585 Mar 3 13:30 zgrep -rwxr-xr-x 1 root root 2206 Mar 3 13:30 zless -rwxr-xr-x 1 root root 1842 Mar 3 13:30 zmore -rwxr-xr-x 1 root root 4553 Mar 3 13:30 znew I: user script /srv/workspace/pbuilder/1986/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: armhf 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 dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19398 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. 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} libarchive13{a} libbrotli1{a} libbsd0{a} libclang-cpp11{a} libclang1-11{a} libcurl4{a} libdebhelper-perl{a} libedit2{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libicu67{a} libjsoncpp-dev{a} libjsoncpp24{a} libldap-2.4-2{a} libllvm11{a} liblocale-gettext-perl{a} libmagic-mgc{a} libmagic1{a} libmd0{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libprocps8{a} libpsl5{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libssh2-1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libuv1{a} libxml2{a} libz3-4{a} m4{a} man-db{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 libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx psmisc publicsuffix wget 0 packages upgraded, 63 newly installed, 0 to remove and 0 not upgraded. Need to get 64.2 MB of archives. After unpacking 253 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main armhf bsdextrautils armhf 2.36.1-8 [138 kB] Get: 2 http://deb.debian.org/debian bullseye/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB] Get: 3 http://deb.debian.org/debian bullseye/main armhf groff-base armhf 1.22.4-6 [847 kB] Get: 4 http://deb.debian.org/debian bullseye/main armhf libpipeline1 armhf 1.5.3-1 [30.1 kB] Get: 5 http://deb.debian.org/debian bullseye/main armhf man-db armhf 2.9.4-2 [1319 kB] Get: 6 http://deb.debian.org/debian bullseye/main armhf liblocale-gettext-perl armhf 1.07-4+b1 [18.3 kB] Get: 7 http://deb.debian.org/debian bullseye/main armhf libncurses6 armhf 6.2+20201114-2 [80.5 kB] Get: 8 http://deb.debian.org/debian bullseye/main armhf libprocps8 armhf 2:3.3.17-5 [60.7 kB] Get: 9 http://deb.debian.org/debian bullseye/main armhf procps armhf 2:3.3.17-5 [492 kB] Get: 10 http://deb.debian.org/debian bullseye/main armhf sensible-utils all 0.0.14 [14.8 kB] Get: 11 http://deb.debian.org/debian bullseye/main armhf libmagic-mgc armhf 1:5.39-3 [273 kB] Get: 12 http://deb.debian.org/debian bullseye/main armhf libmagic1 armhf 1:5.39-3 [117 kB] Get: 13 http://deb.debian.org/debian bullseye/main armhf file armhf 1:5.39-3 [68.1 kB] Get: 14 http://deb.debian.org/debian bullseye/main armhf gettext-base armhf 0.21-4 [171 kB] Get: 15 http://deb.debian.org/debian bullseye/main armhf libsigsegv2 armhf 2.13-1 [34.0 kB] Get: 16 http://deb.debian.org/debian bullseye/main armhf m4 armhf 1.4.18-5 [192 kB] Get: 17 http://deb.debian.org/debian bullseye/main armhf autoconf all 2.69-14 [313 kB] Get: 18 http://deb.debian.org/debian bullseye/main armhf autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 19 http://deb.debian.org/debian bullseye/main armhf automake all 1:1.16.3-2 [814 kB] Get: 20 http://deb.debian.org/debian bullseye/main armhf autopoint all 0.21-4 [510 kB] Get: 21 http://deb.debian.org/debian bullseye/main armhf cmake-data all 3.18.4-2 [1725 kB] Get: 22 http://deb.debian.org/debian bullseye/main armhf libicu67 armhf 67.1-7 [8319 kB] Get: 23 http://deb.debian.org/debian bullseye/main armhf libxml2 armhf 2.9.10+dfsg-6.7 [602 kB] Get: 24 http://deb.debian.org/debian bullseye/main armhf libarchive13 armhf 3.4.3-2+b1 [304 kB] Get: 25 http://deb.debian.org/debian bullseye/main armhf libbrotli1 armhf 1.0.9-2+b2 [262 kB] Get: 26 http://deb.debian.org/debian bullseye/main armhf libsasl2-modules-db armhf 2.1.27+dfsg-2.1 [67.6 kB] Get: 27 http://deb.debian.org/debian bullseye/main armhf libsasl2-2 armhf 2.1.27+dfsg-2.1 [99.1 kB] Get: 28 http://deb.debian.org/debian bullseye/main armhf libldap-2.4-2 armhf 2.4.57+dfsg-3 [210 kB] Get: 29 http://deb.debian.org/debian bullseye/main armhf libnghttp2-14 armhf 1.43.0-1 [65.6 kB] Get: 30 http://deb.debian.org/debian bullseye/main armhf libpsl5 armhf 0.21.0-1.2 [56.1 kB] Get: 31 http://deb.debian.org/debian bullseye/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [55.2 kB] Get: 32 http://deb.debian.org/debian bullseye/main armhf libssh2-1 armhf 1.9.0-2 [143 kB] Get: 33 http://deb.debian.org/debian bullseye/main armhf libcurl4 armhf 7.74.0-1.3+b1 [310 kB] Get: 34 http://deb.debian.org/debian bullseye/main armhf libexpat1 armhf 2.2.10-2 [76.3 kB] Get: 35 http://deb.debian.org/debian bullseye/main armhf libjsoncpp24 armhf 1.9.4-4 [68.5 kB] Get: 36 http://deb.debian.org/debian bullseye/main armhf librhash0 armhf 1.4.1-2 [144 kB] Get: 37 http://deb.debian.org/debian bullseye/main armhf libuv1 armhf 1.40.0-2 [120 kB] Get: 38 http://deb.debian.org/debian bullseye/main armhf cmake armhf 3.18.4-2 [3534 kB] Get: 39 http://deb.debian.org/debian bullseye/main armhf d-shlibs all 0.98 [17.9 kB] Get: 40 http://deb.debian.org/debian bullseye/main armhf libdebhelper-perl all 13.3.4 [189 kB] Get: 41 http://deb.debian.org/debian bullseye/main armhf libtool all 2.4.6-15 [513 kB] Get: 42 http://deb.debian.org/debian bullseye/main armhf dh-autoreconf all 20 [17.1 kB] Get: 43 http://deb.debian.org/debian bullseye/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 44 http://deb.debian.org/debian bullseye/main armhf libsub-override-perl all 0.09-2 [10.2 kB] Get: 45 http://deb.debian.org/debian bullseye/main armhf libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 46 http://deb.debian.org/debian bullseye/main armhf dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 47 http://deb.debian.org/debian bullseye/main armhf libelf1 armhf 0.183-1 [161 kB] Get: 48 http://deb.debian.org/debian bullseye/main armhf dwz armhf 0.13+20210201-1 [179 kB] Get: 49 http://deb.debian.org/debian bullseye/main armhf gettext armhf 0.21-4 [1243 kB] Get: 50 http://deb.debian.org/debian bullseye/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 51 http://deb.debian.org/debian bullseye/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 52 http://deb.debian.org/debian bullseye/main armhf debhelper all 13.3.4 [1049 kB] Get: 53 http://deb.debian.org/debian bullseye/main armhf libmd0 armhf 1.0.3-3 [27.4 kB] Get: 54 http://deb.debian.org/debian bullseye/main armhf libbsd0 armhf 0.11.3-1 [103 kB] Get: 55 http://deb.debian.org/debian bullseye/main armhf libedit2 armhf 3.1-20191231-2+b1 [81.1 kB] Get: 56 http://deb.debian.org/debian bullseye/main armhf libz3-4 armhf 4.8.10-1 [5959 kB] Get: 57 http://deb.debian.org/debian bullseye/main armhf libllvm11 armhf 1:11.0.1-2 [15.4 MB] Get: 58 http://deb.debian.org/debian bullseye/main armhf libclang-cpp11 armhf 1:11.0.1-2 [8197 kB] Get: 59 http://deb.debian.org/debian bullseye/main armhf libclang1-11 armhf 1:11.0.1-2 [4579 kB] Get: 60 http://deb.debian.org/debian bullseye/main armhf doxygen armhf 1.9.1-1 [3765 kB] Get: 61 http://deb.debian.org/debian bullseye/main armhf help2man armhf 1.48.1 [190 kB] Get: 62 http://deb.debian.org/debian bullseye/main armhf libjsoncpp-dev armhf 1.9.4-4 [25.4 kB] Get: 63 http://deb.debian.org/debian bullseye/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [185 kB] Fetched 64.2 MB in 12s (5352 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (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 ... 19398 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-8_armhf.deb ... Unpacking bsdextrautils (2.36.1-8) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../01-libuchardet0_0.0.7-1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_armhf.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../03-libpipeline1_1.5.3-1_armhf.deb ... Unpacking libpipeline1:armhf (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.4-2_armhf.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package liblocale-gettext-perl. Preparing to unpack .../05-liblocale-gettext-perl_1.07-4+b1_armhf.deb ... Unpacking liblocale-gettext-perl (1.07-4+b1) ... Selecting previously unselected package libncurses6:armhf. Preparing to unpack .../06-libncurses6_6.2+20201114-2_armhf.deb ... Unpacking libncurses6:armhf (6.2+20201114-2) ... Selecting previously unselected package libprocps8:armhf. Preparing to unpack .../07-libprocps8_2%3a3.3.17-5_armhf.deb ... Unpacking libprocps8:armhf (2:3.3.17-5) ... Selecting previously unselected package procps. Preparing to unpack .../08-procps_2%3a3.3.17-5_armhf.deb ... 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Setting up libpsl5:armhf (0.21.0-1.2) ... Setting up bsdextrautils (2.36.1-8) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:armhf (67.1-7) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.3.4) ... Setting up libbrotli1:armhf (1.0.9-2+b2) ... Setting up libnghttp2-14:armhf (1.43.0-1) ... Setting up libmagic1:armhf (1:5.39-3) ... Setting up gettext-base (0.21-4) ... Setting up file (1:5.39-3) ... Setting up libsasl2-modules-db:armhf (2.1.27+dfsg-2.1) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libz3-4:armhf (4.8.10-1) ... Setting up libuv1:armhf (1.40.0-2) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libncurses6:armhf (6.2+20201114-2) ... Setting up libsigsegv2:armhf (2.13-1) ... Setting up autopoint (0.21-4) ... Setting up d-shlibs (0.98) ... Setting up libsasl2-2:armhf (2.1.27+dfsg-2.1) ... Setting up libjsoncpp24:armhf (1.9.4-4) ... Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-2) ... Setting up libmd0:armhf (1.0.3-3) ... Setting up sensible-utils (0.0.14) ... Setting up librhash0:armhf (1.4.1-2) ... Setting up libuchardet0:armhf (0.0.7-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libssh2-1:armhf (1.9.0-2) ... Setting up cmake-data (3.18.4-2) ... Setting up libbsd0:armhf (0.11.3-1) ... Setting up libelf1:armhf (0.183-1) ... Setting up libxml2:armhf (2.9.10+dfsg-6.7) ... Setting up liblocale-gettext-perl (1.07-4+b1) ... Setting up libprocps8:armhf (2:3.3.17-5) ... Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up libjsoncpp-dev:armhf (1.9.4-4) ... Setting up gettext (0.21-4) ... Setting up libtool (2.4.6-15) ... Setting up libarchive13:armhf (3.4.3-2+b1) ... Setting up libedit2:armhf (3.1-20191231-2+b1) ... Setting up libldap-2.4-2:armhf (2.4.57+dfsg-3) ... Setting up m4 (1.4.18-5) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up help2man (1.48.1) ... Setting up libllvm11:armhf (1:11.0.1-2) ... Setting up libclang1-11 (1:11.0.1-2) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... Setting up dwz (0.13+20210201-1) ... Setting up groff-base (1.22.4-6) ... Setting up procps (2:3.3.17-5) ... Setting up libcurl4:armhf (7.74.0-1.3+b1) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libclang-cpp11 (1:11.0.1-2) ... Setting up dh-autoreconf (20) ... Setting up doxygen (1.9.1-1) ... Setting up cmake (3.18.4-2) ... Setting up debhelper (13.3.4) ... Processing triggers for libc-bin (2.31-13) ... 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... The following additional packages will be installed: libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl The following NEW packages will be installed: libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl usrmerge 0 upgraded, 4 newly installed, 0 to remove and 0 not upgraded. Need to get 59.5 kB of archives. After this operation, 157 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian bullseye/main armhf libnumber-compare-perl all 0.03-1.1 [6956 B] Get:2 http://deb.debian.org/debian bullseye/main armhf libtext-glob-perl all 0.11-1 [8888 B] Get:3 http://deb.debian.org/debian bullseye/main armhf libfile-find-rule-perl all 0.34-1 [30.6 kB] Get:4 http://deb.debian.org/debian bullseye/main armhf usrmerge all 25 [13.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 59.5 kB in 1s (58.3 kB/s) Selecting previously unselected package libnumber-compare-perl. (Reading database ... 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Unpacking libfile-find-rule-perl (0.34-1) ... Selecting previously unselected package usrmerge. Preparing to unpack .../archives/usrmerge_25_all.deb ... Unpacking usrmerge (25) ... Setting up libtext-glob-perl (0.11-1) ... Setting up libnumber-compare-perl (0.03-1.1) ... Setting up libfile-find-rule-perl (0.34-1) ... Setting up usrmerge (25) ... The system has been successfully converted. Processing triggers for man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. I: Building the package hostname: Name or service not known I: Running cd /build/bamtools-2.5.1+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../bamtools_2.5.1+dfsg-9_source.changes dpkg-buildpackage: info: source package bamtools dpkg-buildpackage: info: source version 2.5.1+dfsg-9 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure cd obj-arm-linux-gnueabihf && 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_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/arm-linux-gnueabihf .. -- The CXX compiler identification is GNU 10.2.1 -- 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 CMake Deprecation Warning at CMakeLists.txt:22 (cmake_policy): The OLD behavior for policy CMP0042 will be removed from a future version of CMake. The cmake-policies(7) manual explains that the OLD behaviors of all policies are deprecated and that a policy should be set to OLD only under specific short-term circumstances. Projects should be ported to the NEW behavior and not rely on setting a policy to OLD. -- Could NOT find PkgConfig (missing: PKG_CONFIG_EXECUTABLE) -- Checking for one of the modules 'jsoncpp>=1' Did NOT find system JsonCpp, instead using bundled version -- Found ZLIB: /usr/lib/arm-linux-gnueabihf/libz.so (found version "1.2.11") -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY -- Build files have been written to: /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf debian/rules override_dh_auto_build-indep make[1]: Entering directory '/build/bamtools-2.5.1+dfsg' doxygen -u docs/Doxyfile warning: Tag 'SYMBOL_CACHE_SIZE' at line 300 of file 'docs/Doxyfile' has become obsolete. This tag has been removed. warning: Tag 'SHOW_DIRECTORIES' at line 500 of file 'docs/Doxyfile' has become obsolete. This tag has been removed. warning: Tag 'COLS_IN_ALPHA_INDEX' at line 801 of file 'docs/Doxyfile' has become obsolete. This tag has been removed. warning: Tag 'HTML_ALIGN_MEMBERS' at line 862 of file 'docs/Doxyfile' has become obsolete. This tag has been removed. warning: Tag 'USE_INLINE_TREES' at line 1032 of file 'docs/Doxyfile' has become obsolete. This tag has been removed. warning: Tag 'XML_SCHEMA' at line 1244 of file 'docs/Doxyfile' has become obsolete. This tag has been removed. warning: Tag 'XML_DTD' at line 1250 of file 'docs/Doxyfile' has become obsolete. This tag has been removed. warning: Tag 'PERL_PATH' at line 1411 of file 'docs/Doxyfile' has become obsolete. This tag has been removed. warning: Tag 'MSCGEN_PATH' at line 1433 of file 'docs/Doxyfile' has become obsolete. This tag has been removed. Configuration file 'docs/Doxyfile' updated. doxygen docs/Doxyfile warning: argument 'a4wide' for option PAPER_TYPE is not a valid enum value Using the default: a4! Doxygen version used: 1.9.1 Searching for include files... Searching for example files... Searching for images... Searching for dot files... Searching for msc files... Searching for dia files... Searching for files to exclude Searching for files in directory /build/bamtools-2.5.1+dfsg/src/api/internal Searching for files in directory /build/bamtools-2.5.1+dfsg/src/api/internal/bam Searching for files in directory /build/bamtools-2.5.1+dfsg/src/api/internal/index Searching for files in directory /build/bamtools-2.5.1+dfsg/src/api/internal/io Searching for files in directory /build/bamtools-2.5.1+dfsg/src/api/internal/sam Searching for files in directory /build/bamtools-2.5.1+dfsg/src/api/internal/utils Searching INPUT for files to process... Searching for files in directory /build/bamtools-2.5.1+dfsg/src/api Searching for files in directory /build/bamtools-2.5.1+dfsg/src/api/algorithms Searching for files in directory /build/bamtools-2.5.1+dfsg/src/api/internal Searching for files in directory /build/bamtools-2.5.1+dfsg/src/api/internal/bam Searching for files in directory /build/bamtools-2.5.1+dfsg/src/api/internal/index Searching for files in directory /build/bamtools-2.5.1+dfsg/src/api/internal/io Searching for files in directory /build/bamtools-2.5.1+dfsg/src/api/internal/sam Searching for files in directory /build/bamtools-2.5.1+dfsg/src/api/internal/utils Reading and parsing tag files Parsing files Preprocessing /build/bamtools-2.5.1+dfsg/src/api/algorithms/Sort.h... Parsing file /build/bamtools-2.5.1+dfsg/src/api/algorithms/Sort.h... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/api_global.h... Parsing file /build/bamtools-2.5.1+dfsg/src/api/api_global.h... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/BamAlgorithms.h... Parsing file /build/bamtools-2.5.1+dfsg/src/api/BamAlgorithms.h... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/BamAlignment.cpp... Parsing file /build/bamtools-2.5.1+dfsg/src/api/BamAlignment.cpp... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/BamAlignment.h... Parsing file /build/bamtools-2.5.1+dfsg/src/api/BamAlignment.h... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/BamAux.h... Parsing file /build/bamtools-2.5.1+dfsg/src/api/BamAux.h... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/BamConstants.h... Parsing file /build/bamtools-2.5.1+dfsg/src/api/BamConstants.h... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/BamIndex.h... Parsing file /build/bamtools-2.5.1+dfsg/src/api/BamIndex.h... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/BamMultiReader.cpp... Parsing file /build/bamtools-2.5.1+dfsg/src/api/BamMultiReader.cpp... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/BamMultiReader.h... Parsing file /build/bamtools-2.5.1+dfsg/src/api/BamMultiReader.h... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/BamReader.cpp... Parsing file /build/bamtools-2.5.1+dfsg/src/api/BamReader.cpp... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/BamReader.h... Parsing file /build/bamtools-2.5.1+dfsg/src/api/BamReader.h... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/BamWriter.cpp... Parsing file /build/bamtools-2.5.1+dfsg/src/api/BamWriter.cpp... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/BamWriter.h... Parsing file /build/bamtools-2.5.1+dfsg/src/api/BamWriter.h... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/IBamIODevice.h... Parsing file /build/bamtools-2.5.1+dfsg/src/api/IBamIODevice.h... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/SamConstants.h... Parsing file /build/bamtools-2.5.1+dfsg/src/api/SamConstants.h... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/SamHeader.cpp... Parsing file /build/bamtools-2.5.1+dfsg/src/api/SamHeader.cpp... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/SamHeader.h... Parsing file /build/bamtools-2.5.1+dfsg/src/api/SamHeader.h... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/SamProgram.cpp... Parsing file /build/bamtools-2.5.1+dfsg/src/api/SamProgram.cpp... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/SamProgram.h... Parsing file /build/bamtools-2.5.1+dfsg/src/api/SamProgram.h... Preprocessing /build/bamtools-2.5.1+d/build/bamtools-2.5.1+dfsg/src/api/BamMultiReader.cpp:25: warning: Documentation for undefined enum 'MergeOrder' found. /build/bamtools-2.5.1+dfsg/src/api/BamAlignment.h:188: warning: documented symbol 'bool BamTools::AddTag' was not declared or defined. /build/bamtools-2.5.1+dfsg/src/api/BamAlignment.h:304: warning: documented symbol 'template< typename T > bool BamTools::AddTag' was not declared or defined. /build/bamtools-2.5.1+dfsg/src/api/BamAlignment.h:369: warning: documented symbol 'template< typename T > bool BamTools::EditTag' was not declared or defined. /build/bamtools-2.5.1+dfsg/src/api/BamAlignment.h:395: warning: documented symbol 'template< typename T > bool BamTools::EditTag' was not declared or defined. /build/bamtools-2.5.1+dfsg/src/api/BamAlignment.h:418: warning: documented symbol 'template< typename T > bool BamTools::GetTag' was not declared or defined. /build/bamtools-2.5.1+dfsg/src/api/BamAlignment.h:543: warning: documented symbol 'template< typename T > bool BamTools::GetTag' was not declared or defined. fsg/src/api/SamProgramChain.cpp... Parsing file /build/bamtools-2.5.1+dfsg/src/api/SamProgramChain.cpp... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/SamProgramChain.h... Parsing file /build/bamtools-2.5.1+dfsg/src/api/SamProgramChain.h... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/SamReadGroup.cpp... Parsing file /build/bamtools-2.5.1+dfsg/src/api/SamReadGroup.cpp... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/SamReadGroup.h... Parsing file /build/bamtools-2.5.1+dfsg/src/api/SamReadGroup.h... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/SamReadGroupDictionary.cpp... Parsing file /build/bamtools-2.5.1+dfsg/src/api/SamReadGroupDictionary.cpp... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/SamReadGroupDictionary.h... Parsing file /build/bamtools-2.5.1+dfsg/src/api/SamReadGroupDictionary.h... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/SamSequence.cpp... Parsing file /build/bamtools-2.5.1+dfsg/src/api/SamSequence.cpp... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/SamSequence.h... Parsing file /build/bamtools-2.5.1+dfsg/src/api/SamSequence.h... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/SamSequenceDictionary.cpp... Parsing file /build/bamtools-2.5.1+dfsg/src/api/SamSequenceDictionary.cpp... Preprocessing /build/bamtools-2.5.1+dfsg/src/api/SamSequenceDictionary.h... Parsing file /build/bamtools-2.5.1+dfsg/src/api/SamSequenceDictionary.h... Building macro definition list... Building group list... Building directory list... Building namespace list... Building file list... Building class list... Computing nesting relations for classes... Associating documentation with classes... 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... 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 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 code for file Sort.h... Generating file documentation... 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 docs for file Sort.h... Generating page documentation... Generating group documentation... Generating class documentation... Generating namespace index... Generating docs for namespace BamTools Generating docs for compound BamTools::BamAlignment... Generating docs for compound BamTools::CigarOp... Generating docs for compound BamTools::RefData... Generating docs for compound BamTools::BamRegion... Generating docs for compound BamTools::CustomHeaderTag... Generating docs for compound BamTools::BamIndex... Generating docs for compound BamTools::BamMultiReader... Generating docs for compound BamTools::BamReader... Generating docs for compound BamTools::BamWriter... Generating docs for compound BamTools::IBamIODevice... 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 module index... Generating namespace index... Generating namespace member 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... lookup cache used 1173/65536 hits=4513 misses=1214 finished... mv docs/Doxyfile.bak docs/Doxyfile make[1]: Leaving directory '/build/bamtools-2.5.1+dfsg' dh_auto_build -Nlibbamtools-doc cd obj-arm-linux-gnueabihf && make -j4 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/bamtools-2.5.1+dfsg -B/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/CMakeFiles /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' make -f src/api/CMakeFiles/BamTools_static.dir/build.make src/api/CMakeFiles/BamTools_static.dir/depend make -f src/api/CMakeFiles/BamTools.dir/build.make src/api/CMakeFiles/BamTools.dir/depend make[3]: Entering directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/bamtools-2.5.1+dfsg /build/bamtools-2.5.1+dfsg/src/api /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api/CMakeFiles/BamTools_static.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/bamtools-2.5.1+dfsg /build/bamtools-2.5.1+dfsg/src/api /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api/CMakeFiles/BamTools.dir/DependInfo.cmake --color= Dependee "/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api/CMakeFiles/BamTools.dir/DependInfo.cmake" is newer than depender "/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api/CMakeFiles/BamTools.dir/depend.internal". Dependee "/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api/CMakeFiles/BamTools.dir/depend.internal". Dependee "/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api/CMakeFiles/BamTools_static.dir/DependInfo.cmake" is newer than depender "/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api/CMakeFiles/BamTools_static.dir/depend.internal". Dependee "/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api/CMakeFiles/BamTools_static.dir/depend.internal". Scanning dependencies of target BamTools make[3]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' make -f src/api/CMakeFiles/BamTools.dir/build.make src/api/CMakeFiles/BamTools.dir/build make[3]: Entering directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' Scanning dependencies of target BamTools_static make[3]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' make -f src/api/CMakeFiles/BamTools_static.dir/build.make src/api/CMakeFiles/BamTools_static.dir/build make[3]: Entering directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' [ 1%] Building CXX object src/api/CMakeFiles/BamTools.dir/BamAlignment.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/BamAlignment.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/BamAlignment.cpp [ 2%] Building CXX object src/api/CMakeFiles/BamTools.dir/BamReader.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/BamReader.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/BamReader.cpp [ 3%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/BamAlignment.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/BamAlignment.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/BamAlignment.cpp [ 4%] Building CXX object src/api/CMakeFiles/BamTools.dir/BamMultiReader.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/BamMultiReader.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/BamMultiReader.cpp [ 5%] Building CXX object src/api/CMakeFiles/BamTools.dir/BamWriter.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/BamWriter.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/BamWriter.cpp [ 6%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamHeader.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamHeader.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/SamHeader.cpp [ 7%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamProgram.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamProgram.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/SamProgram.cpp [ 8%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamProgramChain.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamProgramChain.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/SamProgramChain.cpp [ 9%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/BamMultiReader.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/BamMultiReader.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/BamMultiReader.cpp [ 10%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamReadGroup.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamReadGroup.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/SamReadGroup.cpp [ 11%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamReadGroupDictionary.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamReadGroupDictionary.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/SamReadGroupDictionary.cpp [ 12%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamSequence.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamSequence.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/SamSequence.cpp [ 13%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/BamReader.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/BamReader.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/BamReader.cpp [ 14%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/BamWriter.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/BamWriter.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/BamWriter.cpp [ 15%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamSequenceDictionary.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamSequenceDictionary.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/SamSequenceDictionary.cpp [ 16%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/bam/BamHeader_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/bam/BamHeader_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/bam/BamHeader_p.cpp [ 17%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/SamHeader.cpp.o [ 18%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/bam/BamMultiReader_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/SamHeader.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/SamHeader.cpp cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/bam/BamMultiReader_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/bam/BamMultiReader_p.cpp [ 19%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/bam/BamRandomAccessController_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/bam/BamRandomAccessController_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/bam/BamRandomAccessController_p.cpp [ 20%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/bam/BamReader_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/bam/BamReader_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/bam/BamReader_p.cpp [ 21%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/SamProgram.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/SamProgram.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/SamProgram.cpp [ 22%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/bam/BamWriter_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/bam/BamWriter_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/bam/BamWriter_p.cpp [ 23%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/SamProgramChain.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/SamProgramChain.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/SamProgramChain.cpp [ 24%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/index/BamIndexFactory_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/index/BamIndexFactory_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamIndexFactory_p.cpp [ 25%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/SamReadGroup.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/SamReadGroup.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/SamReadGroup.cpp [ 26%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/index/BamStandardIndex_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/index/BamStandardIndex_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp [ 27%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/index/BamToolsIndex_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/index/BamToolsIndex_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.cpp [ 28%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/SamReadGroupDictionary.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/SamReadGroupDictionary.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/SamReadGroupDictionary.cpp [ 29%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BamDeviceFactory_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/BamDeviceFactory_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/BamDeviceFactory_p.cpp [ 30%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BamFile_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/BamFile_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/BamFile_p.cpp In file included from /usr/include/c++/10/bits/stl_algo.h:61, from /usr/include/c++/10/algorithm:62, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:18: /usr/include/c++/10/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = long long unsigned int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/10/bits/stl_heap.h:223:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 223 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/10/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = long long int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/10/bits/stl_heap.h:223:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In file included from /usr/include/c++/10/algorithm:62, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:18: /usr/include/c++/10/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/10/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1839 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/10/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/10/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/10/bits/stl_algo.h:1945:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1945 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/stl_algo.h:1945:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/10/bits/stl_algo.h:1959:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1959 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/10/bits/stl_algo.h:1945:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1945 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/stl_algo.h:1945:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/10/bits/stl_algo.h:1959:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1959 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/10/vector:72, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.h:25, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:10: /usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const BamTools::Internal::BtiBlock&}; _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator]': /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/10/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1839 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In file included from /usr/include/c++/10/vector:67, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.h:25, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:10: /usr/include/c++/10/bits/stl_vector.h: In member function 'void BamTools::Internal::BamToolsIndex::ReadBlocks(const BamTools::Internal::BtiReferenceSummary&, BamTools::Internal::BtiBlockVector&)': /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1198 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/10/vector:72, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.h:25, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:10: /usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {BamTools::Internal::BtiReferenceSummary}; _Tp = BamTools::Internal::BtiReferenceSummary; _Alloc = std::allocator]': /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/vector.tcc: In member function 'void BamTools::Internal::BamToolsIndex::InitializeFileSummary(const int&)': /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/10/vector:67, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.h:25, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:10: /usr/include/c++/10/bits/stl_vector.h: In member function 'virtual bool BamTools::Internal::BamToolsIndex::Create()': /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1198 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1198 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1198 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/10/bits/stl_algo.h: In member function 'void BamTools::Internal::BamStandardIndex::SortLinearOffsets(BamTools::Internal::BaiLinearOffsetVector&)': /usr/include/c++/10/bits/stl_algo.h:1974:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1974 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1975 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1976 | __comp); | ~~~~~~~ /usr/include/c++/10/bits/stl_algo.h:1886:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1886 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/stl_algo.h:1891:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1891 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ [ 31%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BamFtp_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/BamFtp_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/BamFtp_p.cpp [ 32%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BamHttp_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/BamHttp_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/BamHttp_p.cpp In file included from /usr/include/c++/10/vector:72, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.h:26, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const BamTools::Internal::BaiAlignmentChunk&}; _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator]': /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 In file included from /usr/include/c++/10/vector:67, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.h:26, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/include/c++/10/bits/stl_vector.h: In member function 'void BamTools::Internal::BamStandardIndex::MergeAlignmentChunks(BamTools::Internal::BaiAlignmentChunkVector&)': /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1198 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1198 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/10/bits/stl_vector.h: In member function 'void BamTools::Internal::BamStandardIndex::SaveAlignmentChunkToBin(BamTools::Internal::BaiBinMap&, const uint32_t&, const uint64_t&, const uint64_t&)': /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1198 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1198 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/10/vector:72, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.h:26, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]': /usr/include/c++/10/bits/vector.tcc:509:5: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/10/vector:67, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.h:26, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/include/c++/10/bits/stl_vector.h: In member function 'void BamTools::Internal::BamStandardIndex::SaveLinearOffsetEntry(BamTools::Internal::BaiLinearOffsetVector&, const int&, const int&, const uint64_t&)': /usr/include/c++/10/bits/stl_vector.h:960:18: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 960 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 33%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/SamSequence.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/SamSequence.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/SamSequence.cpp In file included from /usr/include/c++/10/vector:72, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.h:26, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {long long int}; _Tp = long long int; _Alloc = std::allocator]': /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 /usr/include/c++/10/bits/vector.tcc: In member function 'void BamTools::Internal::BamStandardIndex::CalculateCandidateOffsets(const BamTools::Internal::BaiReferenceSummary&, const uint64_t&, std::set&, std::vector&)': /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:185:1: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 185 | } | ^ In file included from /usr/include/c++/10/algorithm:62, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:18: /usr/include/c++/10/bits/stl_algo.h: In member function 'void BamTools::Internal::BamStandardIndex::GetOffset(const BamTools::BamRegion&, int64_t&, bool*)': /usr/include/c++/10/bits/stl_algo.h:1974:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1974 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1975 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1976 | __comp); | ~~~~~~~ /usr/include/c++/10/bits/stl_algo.h:1886:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1886 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/stl_algo.h:1891:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1891 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ [ 34%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BamPipe_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/BamPipe_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/BamPipe_p.cpp [ 35%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/SamSequenceDictionary.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/SamSequenceDictionary.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/SamSequenceDictionary.cpp [ 36%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BgzfStream_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/BgzfStream_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/BgzfStream_p.cpp [ 37%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/ByteArray_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/ByteArray_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/ByteArray_p.cpp [ 38%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/HostAddress_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/HostAddress_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/HostAddress_p.cpp /build/bamtools-2.5.1+dfsg/src/api/internal/io/HostAddress_p.cpp: In member function 'void BamTools::Internal::HostAddress::Clear()': /build/bamtools-2.5.1+dfsg/src/api/internal/io/HostAddress_p.cpp:273:49: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'struct BamTools::Internal::IPv6Address'; use assignment or value-initialization instead [-Wclass-memaccess] 273 | memset(&m_ip6Address, 0, sizeof(IPv6Address)); | ^ In file included from /build/bamtools-2.5.1+dfsg/src/api/internal/io/HostAddress_p.cpp:10: /build/bamtools-2.5.1+dfsg/src/api/internal/io/HostAddress_p.h:31:8: note: 'struct BamTools::Internal::IPv6Address' declared here 31 | struct IPv6Address | ^~~~~~~~~~~ [ 39%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/HostInfo_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/HostInfo_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/HostInfo_p.cpp [ 40%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/HttpHeader_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/HttpHeader_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/HttpHeader_p.cpp [ 41%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/ILocalIODevice_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/ILocalIODevice_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/ILocalIODevice_p.cpp [ 42%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/bam/BamHeader_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/bam/BamHeader_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/bam/BamHeader_p.cpp [ 43%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/RollingBuffer_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/RollingBuffer_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/RollingBuffer_p.cpp [ 44%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/TcpSocket_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/TcpSocket_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/TcpSocket_p.cpp [ 45%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/bam/BamMultiReader_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/bam/BamMultiReader_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/bam/BamMultiReader_p.cpp [ 46%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/TcpSocketEngine_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/TcpSocketEngine_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/TcpSocketEngine_p.cpp [ 47%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/TcpSocketEngine_unix_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/TcpSocketEngine_unix_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/TcpSocketEngine_unix_p.cpp [ 48%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/sam/SamFormatParser_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/sam/SamFormatParser_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/sam/SamFormatParser_p.cpp [ 50%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/sam/SamFormatPrinter_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/sam/SamFormatPrinter_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/sam/SamFormatPrinter_p.cpp [ 51%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/sam/SamHeaderValidator_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/sam/SamHeaderValidator_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/sam/SamHeaderValidator_p.cpp [ 52%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/utils/BamException_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/utils/BamException_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/utils/BamException_p.cpp [ 53%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/bam/BamRandomAccessController_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/bam/BamRandomAccessController_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/bam/BamRandomAccessController_p.cpp [ 54%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/bam/BamReader_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/bam/BamReader_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/bam/BamReader_p.cpp [ 55%] Linking CXX shared library libbamtools.so cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libbamtools.so.2.5.1 -o libbamtools.so.2.5.1 CMakeFiles/BamTools.dir/BamAlignment.cpp.o CMakeFiles/BamTools.dir/BamMultiReader.cpp.o CMakeFiles/BamTools.dir/BamReader.cpp.o CMakeFiles/BamTools.dir/BamWriter.cpp.o CMakeFiles/BamTools.dir/SamHeader.cpp.o CMakeFiles/BamTools.dir/SamProgram.cpp.o CMakeFiles/BamTools.dir/SamProgramChain.cpp.o CMakeFiles/BamTools.dir/SamReadGroup.cpp.o CMakeFiles/BamTools.dir/SamReadGroupDictionary.cpp.o CMakeFiles/BamTools.dir/SamSequence.cpp.o CMakeFiles/BamTools.dir/SamSequenceDictionary.cpp.o CMakeFiles/BamTools.dir/internal/bam/BamHeader_p.cpp.o CMakeFiles/BamTools.dir/internal/bam/BamMultiReader_p.cpp.o CMakeFiles/BamTools.dir/internal/bam/BamRandomAccessController_p.cpp.o CMakeFiles/BamTools.dir/internal/bam/BamReader_p.cpp.o CMakeFiles/BamTools.dir/internal/bam/BamWriter_p.cpp.o CMakeFiles/BamTools.dir/internal/index/BamIndexFactory_p.cpp.o CMakeFiles/BamTools.dir/internal/index/BamStandardIndex_p.cpp.o CMakeFiles/BamTools.dir/internal/index/BamToolsIndex_p.cpp.o CMakeFiles/BamTools.dir/internal/io/BamDeviceFactory_p.cpp.o CMakeFiles/BamTools.dir/internal/io/BamFile_p.cpp.o CMakeFiles/BamTools.dir/internal/io/BamFtp_p.cpp.o CMakeFiles/BamTools.dir/internal/io/BamHttp_p.cpp.o CMakeFiles/BamTools.dir/internal/io/BamPipe_p.cpp.o CMakeFiles/BamTools.dir/internal/io/BgzfStream_p.cpp.o CMakeFiles/BamTools.dir/internal/io/ByteArray_p.cpp.o CMakeFiles/BamTools.dir/internal/io/HostAddress_p.cpp.o CMakeFiles/BamTools.dir/internal/io/HostInfo_p.cpp.o CMakeFiles/BamTools.dir/internal/io/HttpHeader_p.cpp.o CMakeFiles/BamTools.dir/internal/io/ILocalIODevice_p.cpp.o CMakeFiles/BamTools.dir/internal/io/RollingBuffer_p.cpp.o CMakeFiles/BamTools.dir/internal/io/TcpSocket_p.cpp.o CMakeFiles/BamTools.dir/internal/io/TcpSocketEngine_p.cpp.o CMakeFiles/BamTools.dir/internal/io/TcpSocketEngine_unix_p.cpp.o CMakeFiles/BamTools.dir/internal/sam/SamFormatParser_p.cpp.o CMakeFiles/BamTools.dir/internal/sam/SamFormatPrinter_p.cpp.o CMakeFiles/BamTools.dir/internal/sam/SamHeaderValidator_p.cpp.o CMakeFiles/BamTools.dir/internal/utils/BamException_p.cpp.o -lz cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/cmake -E cmake_symlink_library libbamtools.so.2.5.1 libbamtools.so.2.5.1 libbamtools.so make[3]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' [ 55%] Built target BamTools make -f src/utils/CMakeFiles/BamTools-utils.dir/build.make src/utils/CMakeFiles/BamTools-utils.dir/depend make[3]: Entering directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/bamtools-2.5.1+dfsg /build/bamtools-2.5.1+dfsg/src/utils /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils/CMakeFiles/BamTools-utils.dir/DependInfo.cmake --color= Dependee "/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils/CMakeFiles/BamTools-utils.dir/DependInfo.cmake" is newer than depender "/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils/CMakeFiles/BamTools-utils.dir/depend.internal". Dependee "/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils/CMakeFiles/BamTools-utils.dir/depend.internal". Scanning dependencies of target BamTools-utils make[3]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' make -f src/utils/CMakeFiles/BamTools-utils.dir/build.make src/utils/CMakeFiles/BamTools-utils.dir/build make[3]: Entering directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' [ 56%] Building CXX object src/utils/CMakeFiles/BamTools-utils.dir/bamtools_fasta.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils && /usr/bin/c++ -DBAMTOOLS_UTILS_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -I/build/bamtools-2.5.1+dfsg/src/api -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools-utils.dir/bamtools_fasta.cpp.o -c /build/bamtools-2.5.1+dfsg/src/utils/bamtools_fasta.cpp [ 57%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/bam/BamWriter_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/bam/BamWriter_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/bam/BamWriter_p.cpp [ 58%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/index/BamIndexFactory_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/index/BamIndexFactory_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamIndexFactory_p.cpp In file included from /usr/include/c++/10/vector:72, from /build/bamtools-2.5.1+dfsg/src/utils/bamtools_fasta.cpp:20: /usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const BamTools::Fasta::FastaPrivate::FastaIndexData&}; _Tp = BamTools::Fasta::FastaPrivate::FastaIndexData; _Alloc = std::allocator]': /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 In file included from /usr/include/c++/10/vector:67, from /build/bamtools-2.5.1+dfsg/src/utils/bamtools_fasta.cpp:20: /usr/include/c++/10/bits/stl_vector.h: In member function 'bool BamTools::Fasta::FastaPrivate::CreateIndex(const string&)': /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1198 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 59%] Building CXX object src/utils/CMakeFiles/BamTools-utils.dir/bamtools_options.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils && /usr/bin/c++ -DBAMTOOLS_UTILS_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -I/build/bamtools-2.5.1+dfsg/src/api -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools-utils.dir/bamtools_options.cpp.o -c /build/bamtools-2.5.1+dfsg/src/utils/bamtools_options.cpp /usr/include/c++/10/bits/stl_vector.h: In member function 'bool BamTools::Fasta::FastaPrivate::LoadIndexData()': /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1198 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 60%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/index/BamStandardIndex_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/index/BamStandardIndex_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp [ 61%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/index/BamToolsIndex_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/index/BamToolsIndex_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.cpp [ 62%] Building CXX object src/utils/CMakeFiles/BamTools-utils.dir/bamtools_pileup_engine.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils && /usr/bin/c++ -DBAMTOOLS_UTILS_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -I/build/bamtools-2.5.1+dfsg/src/api -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools-utils.dir/bamtools_pileup_engine.cpp.o -c /build/bamtools-2.5.1+dfsg/src/utils/bamtools_pileup_engine.cpp In file included from /usr/include/c++/10/bits/stl_algo.h:61, from /usr/include/c++/10/algorithm:62, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:18: /usr/include/c++/10/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = long long unsigned int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/10/bits/stl_heap.h:223:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 223 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/10/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = long long int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/10/bits/stl_heap.h:223:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In file included from /usr/include/c++/10/vector:72, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.h:25, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:10: /usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const BamTools::Internal::BtiBlock&}; _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator]': /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/10/algorithm:62, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:18: /usr/include/c++/10/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/10/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1839 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/10/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In file included from /usr/include/c++/10/vector:67, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.h:25, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:10: /usr/include/c++/10/bits/stl_vector.h: In member function 'void BamTools::Internal::BamToolsIndex::ReadBlocks(const BamTools::Internal::BtiReferenceSummary&, BamTools::Internal::BtiBlockVector&)': /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1198 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/10/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/10/bits/stl_algo.h:1945:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1945 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/stl_algo.h:1945:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/10/bits/stl_algo.h:1959:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1959 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/10/bits/stl_algo.h:1945:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1945 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/stl_algo.h:1945:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/10/bits/stl_algo.h:1959:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1959 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 63%] Building CXX object src/utils/CMakeFiles/BamTools-utils.dir/bamtools_utilities.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils && /usr/bin/c++ -DBAMTOOLS_UTILS_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -I/build/bamtools-2.5.1+dfsg/src/api -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools-utils.dir/bamtools_utilities.cpp.o -c /build/bamtools-2.5.1+dfsg/src/utils/bamtools_utilities.cpp /usr/include/c++/10/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/10/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1839 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In file included from /usr/include/c++/10/vector:72, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.h:25, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:10: /usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {BamTools::Internal::BtiReferenceSummary}; _Tp = BamTools::Internal::BtiReferenceSummary; _Alloc = std::allocator]': /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/vector.tcc: In member function 'void BamTools::Internal::BamToolsIndex::InitializeFileSummary(const int&)': /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/10/vector:67, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.h:25, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:10: /usr/include/c++/10/bits/stl_vector.h: In member function 'virtual bool BamTools::Internal::BamToolsIndex::Create()': /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1198 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1198 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1198 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/10/bits/stl_algo.h: In member function 'void BamTools::Internal::BamStandardIndex::SortLinearOffsets(BamTools::Internal::BaiLinearOffsetVector&)': /usr/include/c++/10/bits/stl_algo.h:1974:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1974 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1975 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1976 | __comp); | ~~~~~~~ /usr/include/c++/10/bits/stl_algo.h:1886:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1886 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/stl_algo.h:1891:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1891 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ [ 64%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/BamDeviceFactory_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/io/BamDeviceFactory_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/BamDeviceFactory_p.cpp In file included from /usr/include/c++/10/vector:72, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.h:26, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const BamTools::Internal::BaiAlignmentChunk&}; _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator]': /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 In file included from /usr/include/c++/10/vector:67, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.h:26, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/include/c++/10/bits/stl_vector.h: In member function 'void BamTools::Internal::BamStandardIndex::MergeAlignmentChunks(BamTools::Internal::BaiAlignmentChunkVector&)': /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1198 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1198 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/10/bits/stl_vector.h: In member function 'void BamTools::Internal::BamStandardIndex::SaveAlignmentChunkToBin(BamTools::Internal::BaiBinMap&, const uint32_t&, const uint64_t&, const uint64_t&)': /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1198 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1198 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 65%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/BamFile_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/io/BamFile_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/BamFile_p.cpp In file included from /usr/include/c++/10/vector:72, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.h:26, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]': /usr/include/c++/10/bits/vector.tcc:509:5: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 66%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/BamFtp_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/io/BamFtp_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/BamFtp_p.cpp In file included from /usr/include/c++/10/vector:67, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.h:26, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/include/c++/10/bits/stl_vector.h: In member function 'void BamTools::Internal::BamStandardIndex::SaveLinearOffsetEntry(BamTools::Internal::BaiLinearOffsetVector&, const int&, const int&, const uint64_t&)': /usr/include/c++/10/bits/stl_vector.h:960:18: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 960 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/10/vector:72, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.h:26, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {long long int}; _Tp = long long int; _Alloc = std::allocator]': /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 /usr/include/c++/10/bits/vector.tcc: In member function 'void BamTools::Internal::BamStandardIndex::CalculateCandidateOffsets(const BamTools::Internal::BaiReferenceSummary&, const uint64_t&, std::set&, std::vector&)': /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:185:1: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 185 | } | ^ In file included from /usr/include/c++/10/algorithm:62, from /build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:18: /usr/include/c++/10/bits/stl_algo.h: In member function 'void BamTools::Internal::BamStandardIndex::GetOffset(const BamTools::BamRegion&, int64_t&, bool*)': /usr/include/c++/10/bits/stl_algo.h:1974:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1974 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1975 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1976 | __comp); | ~~~~~~~ /usr/include/c++/10/bits/stl_algo.h:1886:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1886 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/10/bits/stl_algo.h:1891:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1891 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ [ 67%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/BamHttp_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/io/BamHttp_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/BamHttp_p.cpp [ 68%] Linking CXX static library libbamtools-utils.a cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils && /usr/bin/cmake -P CMakeFiles/BamTools-utils.dir/cmake_clean_target.cmake cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils && /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/bamtools_fasta.cpp.o CMakeFiles/BamTools-utils.dir/bamtools_options.cpp.o CMakeFiles/BamTools-utils.dir/bamtools_pileup_engine.cpp.o CMakeFiles/BamTools-utils.dir/bamtools_utilities.cpp.o /usr/bin/ranlib libbamtools-utils.a make[3]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' [ 68%] Built target BamTools-utils make -f src/toolkit/CMakeFiles/bamtools_cmd.dir/build.make src/toolkit/CMakeFiles/bamtools_cmd.dir/depend make[3]: Entering directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/bamtools-2.5.1+dfsg /build/bamtools-2.5.1+dfsg/src/toolkit /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit/CMakeFiles/bamtools_cmd.dir/DependInfo.cmake --color= Dependee "/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit/CMakeFiles/bamtools_cmd.dir/DependInfo.cmake" is newer than depender "/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit/CMakeFiles/bamtools_cmd.dir/depend.internal". Dependee "/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit/CMakeFiles/bamtools_cmd.dir/depend.internal". Scanning dependencies of target bamtools_cmd make[3]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' make -f src/toolkit/CMakeFiles/bamtools_cmd.dir/build.make src/toolkit/CMakeFiles/bamtools_cmd.dir/build make[3]: Entering directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' [ 69%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_convert.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -I/build/bamtools-2.5.1+dfsg/src/api -I/build/bamtools-2.5.1+dfsg/src/utils -I/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_convert.cpp.o -c /build/bamtools-2.5.1+dfsg/src/toolkit/bamtools_convert.cpp [ 70%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/BamPipe_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/io/BamPipe_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/BamPipe_p.cpp [ 71%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/BgzfStream_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/io/BgzfStream_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/BgzfStream_p.cpp [ 72%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/ByteArray_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/io/ByteArray_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/ByteArray_p.cpp [ 73%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/HostAddress_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/io/HostAddress_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/HostAddress_p.cpp [ 74%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/HostInfo_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/io/HostInfo_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/HostInfo_p.cpp /build/bamtools-2.5.1+dfsg/src/api/internal/io/HostAddress_p.cpp: In member function 'void BamTools::Internal::HostAddress::Clear()': /build/bamtools-2.5.1+dfsg/src/api/internal/io/HostAddress_p.cpp:273:49: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'struct BamTools::Internal::IPv6Address'; use assignment or value-initialization instead [-Wclass-memaccess] 273 | memset(&m_ip6Address, 0, sizeof(IPv6Address)); | ^ In file included from /build/bamtools-2.5.1+dfsg/src/api/internal/io/HostAddress_p.cpp:10: /build/bamtools-2.5.1+dfsg/src/api/internal/io/HostAddress_p.h:31:8: note: 'struct BamTools::Internal::IPv6Address' declared here 31 | struct IPv6Address | ^~~~~~~~~~~ [ 75%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/HttpHeader_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/io/HttpHeader_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/HttpHeader_p.cpp [ 76%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/ILocalIODevice_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/io/ILocalIODevice_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/ILocalIODevice_p.cpp [ 77%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/RollingBuffer_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/io/RollingBuffer_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/RollingBuffer_p.cpp [ 78%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/TcpSocket_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/io/TcpSocket_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/TcpSocket_p.cpp [ 79%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/TcpSocketEngine_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/io/TcpSocketEngine_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/TcpSocketEngine_p.cpp [ 80%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/TcpSocketEngine_unix_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/io/TcpSocketEngine_unix_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/io/TcpSocketEngine_unix_p.cpp [ 81%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/sam/SamFormatParser_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/sam/SamFormatParser_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/sam/SamFormatParser_p.cpp [ 82%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/sam/SamFormatPrinter_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/sam/SamFormatPrinter_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/sam/SamFormatPrinter_p.cpp [ 83%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_count.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -I/build/bamtools-2.5.1+dfsg/src/api -I/build/bamtools-2.5.1+dfsg/src/utils -I/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_count.cpp.o -c /build/bamtools-2.5.1+dfsg/src/toolkit/bamtools_count.cpp [ 84%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/sam/SamHeaderValidator_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/sam/SamHeaderValidator_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/sam/SamHeaderValidator_p.cpp [ 85%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/utils/BamException_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/internal/utils/BamException_p.cpp.o -c /build/bamtools-2.5.1+dfsg/src/api/internal/utils/BamException_p.cpp [ 86%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_coverage.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -I/build/bamtools-2.5.1+dfsg/src/api -I/build/bamtools-2.5.1+dfsg/src/utils -I/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_coverage.cpp.o -c /build/bamtools-2.5.1+dfsg/src/toolkit/bamtools_coverage.cpp [ 87%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_filter.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -I/build/bamtools-2.5.1+dfsg/src/api -I/build/bamtools-2.5.1+dfsg/src/utils -I/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_filter.cpp.o -c 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CMakeFiles/BamTools_static.dir/internal/bam/BamHeader_p.cpp.o CMakeFiles/BamTools_static.dir/internal/bam/BamMultiReader_p.cpp.o CMakeFiles/BamTools_static.dir/internal/bam/BamRandomAccessController_p.cpp.o CMakeFiles/BamTools_static.dir/internal/bam/BamReader_p.cpp.o CMakeFiles/BamTools_static.dir/internal/bam/BamWriter_p.cpp.o CMakeFiles/BamTools_static.dir/internal/index/BamIndexFactory_p.cpp.o CMakeFiles/BamTools_static.dir/internal/index/BamStandardIndex_p.cpp.o CMakeFiles/BamTools_static.dir/internal/index/BamToolsIndex_p.cpp.o CMakeFiles/BamTools_static.dir/internal/io/BamDeviceFactory_p.cpp.o CMakeFiles/BamTools_static.dir/internal/io/BamFile_p.cpp.o CMakeFiles/BamTools_static.dir/internal/io/BamFtp_p.cpp.o CMakeFiles/BamTools_static.dir/internal/io/BamHttp_p.cpp.o CMakeFiles/BamTools_static.dir/internal/io/BamPipe_p.cpp.o CMakeFiles/BamTools_static.dir/internal/io/BgzfStream_p.cpp.o CMakeFiles/BamTools_static.dir/internal/io/ByteArray_p.cpp.o CMakeFiles/BamTools_static.dir/internal/io/HostAddress_p.cpp.o CMakeFiles/BamTools_static.dir/internal/io/HostInfo_p.cpp.o CMakeFiles/BamTools_static.dir/internal/io/HttpHeader_p.cpp.o CMakeFiles/BamTools_static.dir/internal/io/ILocalIODevice_p.cpp.o CMakeFiles/BamTools_static.dir/internal/io/RollingBuffer_p.cpp.o CMakeFiles/BamTools_static.dir/internal/io/TcpSocket_p.cpp.o CMakeFiles/BamTools_static.dir/internal/io/TcpSocketEngine_p.cpp.o CMakeFiles/BamTools_static.dir/internal/io/TcpSocketEngine_unix_p.cpp.o CMakeFiles/BamTools_static.dir/internal/sam/SamFormatParser_p.cpp.o CMakeFiles/BamTools_static.dir/internal/sam/SamFormatPrinter_p.cpp.o CMakeFiles/BamTools_static.dir/internal/sam/SamHeaderValidator_p.cpp.o CMakeFiles/BamTools_static.dir/internal/utils/BamException_p.cpp.o /usr/bin/ranlib libbamtools.a make[3]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' [ 89%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_header.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -I/build/bamtools-2.5.1+dfsg/src/api -I/build/bamtools-2.5.1+dfsg/src/utils -I/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_header.cpp.o -c /build/bamtools-2.5.1+dfsg/src/toolkit/bamtools_header.cpp [ 89%] Built target BamTools_static [ 90%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_index.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -I/build/bamtools-2.5.1+dfsg/src/api 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/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -I/build/bamtools-2.5.1+dfsg/src/api -I/build/bamtools-2.5.1+dfsg/src/utils -I/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_resolve.cpp.o -c /build/bamtools-2.5.1+dfsg/src/toolkit/bamtools_resolve.cpp [ 94%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_revert.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -I/build/bamtools-2.5.1+dfsg/src/api -I/build/bamtools-2.5.1+dfsg/src/utils 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CMakeFiles/bamtools_cmd.dir/bamtools_sort.cpp.o -c /build/bamtools-2.5.1+dfsg/src/toolkit/bamtools_sort.cpp [ 96%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_split.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -I/build/bamtools-2.5.1+dfsg/src/api -I/build/bamtools-2.5.1+dfsg/src/utils -I/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_split.cpp.o -c /build/bamtools-2.5.1+dfsg/src/toolkit/bamtools_split.cpp [ 97%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_stats.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -I/build/bamtools-2.5.1+dfsg/src/api -I/build/bamtools-2.5.1+dfsg/src/utils -I/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_stats.cpp.o -c /build/bamtools-2.5.1+dfsg/src/toolkit/bamtools_stats.cpp [ 98%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/bamtools-2.5.1+dfsg/src -I/build/bamtools-2.5.1+dfsg/src/api -I/build/bamtools-2.5.1+dfsg/src/utils -I/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools.cpp.o -c /build/bamtools-2.5.1+dfsg/src/toolkit/bamtools.cpp [100%] Linking CXX executable bamtools cd /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/cmake -E cmake_link_script CMakeFiles/bamtools_cmd.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bamtools_cmd.dir/bamtools_convert.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_count.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_coverage.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_filter.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_header.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_index.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_merge.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_random.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_resolve.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_revert.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_sort.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_split.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_stats.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools.cpp.o -o bamtools -Wl,-rpath,/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api: ../utils/libbamtools-utils.a -ljsoncpp ../api/libbamtools.so.2.5.1 make[3]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' [100%] Built target bamtools_cmd make[2]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/CMakeFiles 0 make[1]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' debian/rules override_dh_auto_test-arch make[1]: Entering directory '/build/bamtools-2.5.1+dfsg' cd obj-* && ln -s src/toolkit/ bin dh_auto_test --arch cd obj-arm-linux-gnueabihf && make -j4 test ARGS\+=-j4 make[2]: Entering directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' Running tests... /usr/bin/ctest --force-new-ctest-process -j4 Test project /build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf Start 1: bamtools_help Start 2: bamtools_stats 1/2 Test #2: bamtools_stats ................... 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cmake_install.cmake -- Install configuration: "None" -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/shared/bamtools_global.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig/bamtools-1.pc -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.so.2.5.1 -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.so -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.a -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/api_global.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/BamAlgorithms.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/BamAlignment.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/BamAux.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/BamConstants.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/BamIndex.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/BamMultiReader.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/BamReader.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/BamWriter.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/IBamIODevice.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/SamConstants.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/SamHeader.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/SamProgram.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/SamProgramChain.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/SamReadGroup.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/SamReadGroupDictionary.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/SamSequence.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/SamSequenceDictionary.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/algorithms/Sort.h -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/bin/bamtools -- Set runtime path of "/build/bamtools-2.5.1+dfsg/debian/tmp/usr/bin/bamtools" to "" make[1]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf' debian/rules override_dh_install-arch make[1]: Entering directory '/build/bamtools-2.5.1+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/arm-linux-gnueabihf/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/arm-linux-gnueabihf install -d -m 755 debian/libbamtools2.5.1/usr/lib/arm-linux-gnueabihf mv debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.a debian/libbamtools-dev/usr/lib/arm-linux-gnueabihf mv debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.so debian/libbamtools-dev/usr/lib/arm-linux-gnueabihf mv /build/bamtools-2.5.1+dfsg/debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.so.2.5.1 debian/libbamtools2.5.1/usr/lib/arm-linux-gnueabihf PKGDEV=libbamtools-dev PKGSHL=libbamtools2.5.1 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/arm-linux-gnueabihf/pkgconfig mv debian/tmp/usr/lib/*/pkgconfig/*.pc debian/libbamtools-dev/usr/lib/arm-linux-gnueabihf/pkgconfig make[1]: Leaving directory '/build/bamtools-2.5.1+dfsg' debian/rules override_dh_install-indep make[1]: Entering directory '/build/bamtools-2.5.1+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/bamtools-2.5.1+dfsg' dh_installdocs dh_installchangelogs dh_installman dh_lintian 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 dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libbamtools2.5.1/usr/lib/arm-linux-gnueabihf/libbamtools.so.2.5.1 found in none of the libraries dpkg-shlibdeps: warning: debian/bamtools/usr/bin/bamtools contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dh_installdeb dh_gencontrol dpkg-gencontrol: warning: package libbamtools-dev: substitution variable ${devlibs:Depends} unused, but is defined dh_md5sums dh_builddeb dpkg-deb: building package 'bamtools' in '../bamtools_2.5.1+dfsg-9_armhf.deb'. dpkg-deb: building package 'libbamtools-dev' in '../libbamtools-dev_2.5.1+dfsg-9_armhf.deb'. dpkg-deb: building package 'libbamtools2.5.1-dbgsym' in '../libbamtools2.5.1-dbgsym_2.5.1+dfsg-9_armhf.deb'. dpkg-deb: building package 'bamtools-dbgsym' in '../bamtools-dbgsym_2.5.1+dfsg-9_armhf.deb'. dpkg-deb: building package 'libbamtools2.5.1' in '../libbamtools2.5.1_2.5.1+dfsg-9_armhf.deb'. dpkg-deb: building package 'libbamtools-doc' in '../libbamtools-doc_2.5.1+dfsg-9_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../bamtools_2.5.1+dfsg-9_armhf.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: user script /srv/workspace/pbuilder/1986/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/1986/tmp/hooks/B01_cleanup finished 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/1986 and its subdirectories I: Current time: Sun Aug 15 02:40:10 +14 2021 I: pbuilder-time-stamp: 1628944810