W: cgroups are not available on the host, not using them. I: pbuilder: network access will be disabled during build I: Current time: Wed May 6 14:45:54 +14 2020 I: pbuilder-time-stamp: 1588725954 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-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: using eatmydata during job I: Copying source file I: copying [bamtools_2.5.1+dfsg-3.dsc] I: copying [./bamtools_2.5.1+dfsg.orig.tar.gz] I: copying [./bamtools_2.5.1+dfsg-3.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Fri Apr 6 00:00:14 2018 +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-3.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-3.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 I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/25618/tmp/hooks/D01_modify_environment starting debug: Running on profitbricks-build2-i386. 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/25618/tmp/hooks/D01_modify_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 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 (>= 11), d-shlibs (>= 0.56), 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 ... 19231 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 (>= 11); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on d-shlibs (>= 0.56); 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} bsdmainutils{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} libbsd0{a} libclang1-6.0{a} libcroco3{a} libcurl4{a} libedit2{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libglib2.0-0{a} libgssapi-krb5-2{a} libicu63{a} libjsoncpp-dev{a} libjsoncpp1{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.4-2{a} libldap-common{a} libllvm6.0{a} liblocale-gettext-perl{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libprocps7{a} libpsl5{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libssh2-1{a} libssl1.1{a} libtool{a} libuchardet0{a} libuv1{a} libxml2{a} lsb-base{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 krb5-locales libarchive-cpio-perl libglib2.0-data libgpm2 libltdl-dev libmail-sendmail-perl libsasl2-modules lynx psmisc publicsuffix shared-mime-info wget xdg-user-dirs 0 packages upgraded, 67 newly installed, 0 to remove and 0 not upgraded. Need to get 58.2 MB of archives. After unpacking 225 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main i386 libbsd0 i386 0.9.1-2 [104 kB] Get: 2 http://deb.debian.org/debian buster/main i386 bsdmainutils i386 11.1.2+b1 [193 kB] Get: 3 http://deb.debian.org/debian buster/main i386 libuchardet0 i386 0.0.6-3 [65.2 kB] Get: 4 http://deb.debian.org/debian buster/main i386 groff-base i386 1.22.4-3 [935 kB] Get: 5 http://deb.debian.org/debian buster/main i386 libpipeline1 i386 1.5.1-2 [33.3 kB] Get: 6 http://deb.debian.org/debian buster/main i386 man-db i386 2.8.5-2 [1284 kB] Get: 7 http://deb.debian.org/debian buster/main i386 liblocale-gettext-perl i386 1.07-3+b4 [19.3 kB] Get: 8 http://deb.debian.org/debian buster/main i386 libncurses6 i386 6.1+20181013-2+deb10u2 [109 kB] Get: 9 http://deb.debian.org/debian buster/main i386 libprocps7 i386 2:3.3.15-2 [62.7 kB] Get: 10 http://deb.debian.org/debian buster/main i386 lsb-base all 10.2019051400 [28.4 kB] Get: 11 http://deb.debian.org/debian buster/main i386 procps i386 2:3.3.15-2 [259 kB] Get: 12 http://deb.debian.org/debian buster/main i386 sensible-utils all 0.0.12 [15.8 kB] Get: 13 http://deb.debian.org/debian buster/main i386 libmagic-mgc i386 1:5.35-4+deb10u1 [242 kB] Get: 14 http://deb.debian.org/debian buster/main i386 libmagic1 i386 1:5.35-4+deb10u1 [124 kB] Get: 15 http://deb.debian.org/debian buster/main i386 file i386 1:5.35-4+deb10u1 [66.3 kB] Get: 16 http://deb.debian.org/debian buster/main i386 gettext-base i386 0.19.8.1-9 [124 kB] Get: 17 http://deb.debian.org/debian buster/main i386 libsigsegv2 i386 2.12-2 [33.2 kB] Get: 18 http://deb.debian.org/debian buster/main i386 m4 i386 1.4.18-2 [205 kB] Get: 19 http://deb.debian.org/debian buster/main i386 autoconf all 2.69-11 [341 kB] Get: 20 http://deb.debian.org/debian buster/main i386 autotools-dev all 20180224.1 [77.0 kB] Get: 21 http://deb.debian.org/debian buster/main i386 automake all 1:1.16.1-4 [771 kB] Get: 22 http://deb.debian.org/debian buster/main i386 autopoint all 0.19.8.1-9 [434 kB] Get: 23 http://deb.debian.org/debian buster/main i386 cmake-data all 3.13.4-1 [1476 kB] Get: 24 http://deb.debian.org/debian buster/main i386 libicu63 i386 63.1-6 [8443 kB] Get: 25 http://deb.debian.org/debian buster/main i386 libxml2 i386 2.9.4+dfsg1-7+b3 [721 kB] Get: 26 http://deb.debian.org/debian buster/main i386 libarchive13 i386 3.3.3-4+deb10u1 [351 kB] Get: 27 http://deb.debian.org/debian buster/main i386 libkeyutils1 i386 1.6-6 [15.4 kB] Get: 28 http://deb.debian.org/debian buster/main i386 libkrb5support0 i386 1.17-3 [68.6 kB] Get: 29 http://deb.debian.org/debian buster/main i386 libk5crypto3 i386 1.17-3 [126 kB] Get: 30 http://deb.debian.org/debian buster/main i386 libssl1.1 i386 1.1.1d-0+deb10u2 [1538 kB] Get: 31 http://deb.debian.org/debian buster/main i386 libkrb5-3 i386 1.17-3 [396 kB] Get: 32 http://deb.debian.org/debian buster/main i386 libgssapi-krb5-2 i386 1.17-3 [168 kB] Get: 33 http://deb.debian.org/debian buster/main i386 libsasl2-modules-db i386 2.1.27+dfsg-1+deb10u1 [70.1 kB] Get: 34 http://deb.debian.org/debian buster/main i386 libsasl2-2 i386 2.1.27+dfsg-1+deb10u1 [110 kB] Get: 35 http://deb.debian.org/debian buster/main i386 libldap-common all 2.4.47+dfsg-3+deb10u1 [89.6 kB] Get: 36 http://deb.debian.org/debian buster/main i386 libldap-2.4-2 i386 2.4.47+dfsg-3+deb10u1 [236 kB] Get: 37 http://deb.debian.org/debian buster/main i386 libnghttp2-14 i386 1.36.0-2+deb10u1 [90.3 kB] Get: 38 http://deb.debian.org/debian buster/main i386 libpsl5 i386 0.20.2-2 [54.4 kB] Get: 39 http://deb.debian.org/debian buster/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2 [64.2 kB] Get: 40 http://deb.debian.org/debian buster/main i386 libssh2-1 i386 1.8.0-2.1 [147 kB] Get: 41 http://deb.debian.org/debian buster/main i386 libcurl4 i386 7.64.0-4 [358 kB] Get: 42 http://deb.debian.org/debian buster/main i386 libexpat1 i386 2.2.6-2+deb10u1 [104 kB] Get: 43 http://deb.debian.org/debian buster/main i386 libjsoncpp1 i386 1.7.4-3 [85.0 kB] Get: 44 http://deb.debian.org/debian buster/main i386 librhash0 i386 1.3.8-1 [135 kB] Get: 45 http://deb.debian.org/debian buster/main i386 libuv1 i386 1.24.1-1 [116 kB] Get: 46 http://deb.debian.org/debian buster/main i386 cmake i386 3.13.4-1 [3747 kB] Get: 47 http://deb.debian.org/debian buster/main i386 d-shlibs all 0.84 [17.2 kB] Get: 48 http://deb.debian.org/debian buster/main i386 libtool all 2.4.6-9 [547 kB] Get: 49 http://deb.debian.org/debian buster/main i386 dh-autoreconf all 19 [16.9 kB] Get: 50 http://deb.debian.org/debian buster/main i386 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 51 http://deb.debian.org/debian buster/main i386 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 52 http://deb.debian.org/debian buster/main i386 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 53 http://deb.debian.org/debian buster/main i386 libelf1 i386 0.176-1.1 [166 kB] Get: 54 http://deb.debian.org/debian buster/main i386 dwz i386 0.12-3 [81.4 kB] Get: 55 http://deb.debian.org/debian buster/main i386 libglib2.0-0 i386 2.58.3-2+deb10u2 [1334 kB] Get: 56 http://deb.debian.org/debian buster/main i386 libcroco3 i386 0.6.12-3 [151 kB] Get: 57 http://deb.debian.org/debian buster/main i386 gettext i386 0.19.8.1-9 [1314 kB] Get: 58 http://deb.debian.org/debian buster/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 59 http://deb.debian.org/debian buster/main i386 po-debconf all 1.0.21 [248 kB] Get: 60 http://deb.debian.org/debian buster/main i386 debhelper all 12.1.1 [1016 kB] Get: 61 http://deb.debian.org/debian buster/main i386 libedit2 i386 3.1-20181209-1 [98.2 kB] Get: 62 http://deb.debian.org/debian buster/main i386 libllvm6.0 i386 1:6.0.1-10 [16.4 MB] Get: 63 http://deb.debian.org/debian buster/main i386 libclang1-6.0 i386 1:6.0.1-10 [7959 kB] Get: 64 http://deb.debian.org/debian buster/main i386 doxygen i386 1.8.13-10 [4004 kB] Get: 65 http://deb.debian.org/debian buster/main i386 help2man i386 1.47.8 [177 kB] Get: 66 http://deb.debian.org/debian buster/main i386 libjsoncpp-dev i386 1.7.4-3 [87.7 kB] Get: 67 http://deb.debian.org/debian buster/main i386 zlib1g-dev i386 1:1.2.11.dfsg-1 [216 kB] Fetched 58.2 MB in 47s (1248 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:i386. (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 ... 19231 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-2_i386.deb ... Unpacking libbsd0:i386 (0.9.1-2) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_i386.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../02-libuchardet0_0.0.6-3_i386.deb ... Unpacking libuchardet0:i386 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../03-groff-base_1.22.4-3_i386.deb ... Unpacking groff-base (1.22.4-3) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../04-libpipeline1_1.5.1-2_i386.deb ... Unpacking libpipeline1:i386 (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../05-man-db_2.8.5-2_i386.deb ... Unpacking man-db (2.8.5-2) ... Selecting previously unselected package liblocale-gettext-perl. Preparing to unpack .../06-liblocale-gettext-perl_1.07-3+b4_i386.deb ... Unpacking liblocale-gettext-perl (1.07-3+b4) ... Selecting previously unselected package libncurses6:i386. Preparing to unpack .../07-libncurses6_6.1+20181013-2+deb10u2_i386.deb ... Unpacking libncurses6:i386 (6.1+20181013-2+deb10u2) ... Selecting previously unselected package libprocps7:i386. Preparing to unpack .../08-libprocps7_2%3a3.3.15-2_i386.deb ... Unpacking libprocps7:i386 (2:3.3.15-2) ... Selecting previously unselected package lsb-base. Preparing to unpack .../09-lsb-base_10.2019051400_all.deb ... Unpacking lsb-base (10.2019051400) ... Selecting previously unselected package procps. Preparing to unpack .../10-procps_2%3a3.3.15-2_i386.deb ... Unpacking procps (2:3.3.15-2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../11-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../12-libmagic-mgc_1%3a5.35-4+deb10u1_i386.deb ... Unpacking libmagic-mgc (1:5.35-4+deb10u1) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../13-libmagic1_1%3a5.35-4+deb10u1_i386.deb ... Unpacking libmagic1:i386 (1:5.35-4+deb10u1) ... Selecting previously unselected package file. Preparing to unpack .../14-file_1%3a5.35-4+deb10u1_i386.deb ... Unpacking file (1:5.35-4+deb10u1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../15-gettext-base_0.19.8.1-9_i386.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package libsigsegv2:i386. Preparing to unpack .../16-libsigsegv2_2.12-2_i386.deb ... Unpacking libsigsegv2:i386 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../17-m4_1.4.18-2_i386.deb ... Unpacking m4 (1.4.18-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../18-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../19-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../20-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../21-autopoint_0.19.8.1-9_all.deb ... Unpacking autopoint (0.19.8.1-9) ... Selecting previously unselected package cmake-data. Preparing to unpack .../22-cmake-data_3.13.4-1_all.deb ... Unpacking cmake-data (3.13.4-1) ... Selecting previously unselected package libicu63:i386. Preparing to unpack .../23-libicu63_63.1-6_i386.deb ... Unpacking libicu63:i386 (63.1-6) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../24-libxml2_2.9.4+dfsg1-7+b3_i386.deb ... Unpacking libxml2:i386 (2.9.4+dfsg1-7+b3) ... Selecting previously unselected package libarchive13:i386. Preparing to unpack .../25-libarchive13_3.3.3-4+deb10u1_i386.deb ... Unpacking libarchive13:i386 (3.3.3-4+deb10u1) ... Selecting previously unselected package libkeyutils1:i386. Preparing to unpack .../26-libkeyutils1_1.6-6_i386.deb ... Unpacking libkeyutils1:i386 (1.6-6) ... Selecting previously unselected package libkrb5support0:i386. Preparing to unpack .../27-libkrb5support0_1.17-3_i386.deb ... Unpacking libkrb5support0:i386 (1.17-3) ... Selecting previously unselected package libk5crypto3:i386. Preparing to unpack .../28-libk5crypto3_1.17-3_i386.deb ... Unpacking libk5crypto3:i386 (1.17-3) ... Selecting previously unselected package libssl1.1:i386. Preparing to unpack .../29-libssl1.1_1.1.1d-0+deb10u2_i386.deb ... Unpacking libssl1.1:i386 (1.1.1d-0+deb10u2) ... Selecting previously unselected package libkrb5-3:i386. Preparing to unpack .../30-libkrb5-3_1.17-3_i386.deb ... Unpacking libkrb5-3:i386 (1.17-3) ... Selecting previously unselected package libgssapi-krb5-2:i386. Preparing to unpack .../31-libgssapi-krb5-2_1.17-3_i386.deb ... Unpacking libgssapi-krb5-2:i386 (1.17-3) ... Selecting previously unselected package libsasl2-modules-db:i386. Preparing to unpack .../32-libsasl2-modules-db_2.1.27+dfsg-1+deb10u1_i386.deb ... Unpacking libsasl2-modules-db:i386 (2.1.27+dfsg-1+deb10u1) ... Selecting previously unselected package libsasl2-2:i386. Preparing to unpack .../33-libsasl2-2_2.1.27+dfsg-1+deb10u1_i386.deb ... Unpacking libsasl2-2:i386 (2.1.27+dfsg-1+deb10u1) ... Selecting previously unselected package libldap-common. Preparing to unpack .../34-libldap-common_2.4.47+dfsg-3+deb10u1_all.deb ... Unpacking libldap-common (2.4.47+dfsg-3+deb10u1) ... Selecting previously unselected package libldap-2.4-2:i386. Preparing to unpack .../35-libldap-2.4-2_2.4.47+dfsg-3+deb10u1_i386.deb ... Unpacking libldap-2.4-2:i386 (2.4.47+dfsg-3+deb10u1) ... Selecting previously unselected package libnghttp2-14:i386. Preparing to unpack .../36-libnghttp2-14_1.36.0-2+deb10u1_i386.deb ... Unpacking libnghttp2-14:i386 (1.36.0-2+deb10u1) ... Selecting previously unselected package libpsl5:i386. Preparing to unpack .../37-libpsl5_0.20.2-2_i386.deb ... Unpacking libpsl5:i386 (0.20.2-2) ... Selecting previously unselected package librtmp1:i386. Preparing to unpack .../38-librtmp1_2.4+20151223.gitfa8646d.1-2_i386.deb ... 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Processing triggers for libc-bin (2.28-10) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package 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 dpkg-buildpackage: info: source package bamtools dpkg-buildpackage: info: source version 2.5.1+dfsg-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 fakeroot debian/rules clean dh clean dh_clean debian/rules build dh build dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure-arch make[1]: Entering directory '/build/bamtools-2.5.1+dfsg' dh_auto_configure --arch -- -DBUILD_SHARED_LIBS=on cd obj-i686-linux-gnu && 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 "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/i386-linux-gnu -DBUILD_SHARED_LIBS=on .. -- The CXX compiler identification is GNU 8.3.0 -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- 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/i386-linux-gnu/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-i686-linux-gnu make[1]: Leaving directory '/build/bamtools-2.5.1+dfsg' 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 `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. Configuration file `docs/Doxyfile' updated. doxygen docs/Doxyfile 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+dfsg/src/api/SamProgramChain./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:187: warning: documented symbol `bool BamTools::AddTag' was not declared or defined. /build/bamtools-2.5.1+dfsg/src/api/BamAlignment.h:303: warning: documented symbol `template< typename T > bool BamTools::AddTag' was not declared or defined. /build/bamtools-2.5.1+dfsg/src/api/BamAlignment.h:368: warning: documented symbol `template< typename T > bool BamTools::EditTag' was not declared or defined. /build/bamtools-2.5.1+dfsg/src/api/BamAlignment.h:394: warning: documented symbol `template< typename T > bool BamTools::EditTag' was not declared or defined. /build/bamtools-2.5.1+dfsg/src/api/BamAlignment.h:417: warning: documented symbol `template< typename T > bool BamTools::GetTag' was not declared or defined. /build/bamtools-2.5.1+dfsg/src/api/BamAlignment.h:542: warning: documented symbol `template< typename T > bool BamTools::GetTag' was not declared or defined. 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 group list... Building directory list... Building namespace list... Building file list... Building class list... Associating documentation with classes... Computing nesting relations for 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... Freeing entry tree 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... Computing dependencies between directories... Generating citations page... 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... 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::BamIndex... Generating docs for compound BamTools::BamMultiReader... Generating docs for compound BamTools::BamReader... Generating docs for compound BamTools::BamRegion... Generating docs for compound BamTools::BamWriter... Generating docs for compound BamTools::CigarOp... Generating docs for compound BamTools::CustomHeaderTag... Generating docs for compound BamTools::IBamIODevice... Generating docs for compound BamTools::RefData... Generating docs for compound BamTools::SamHeader... Generating docs for compound BamTools::SamProgram... Generating docs for compound BamTools::SamProgramChain... Generating docs for compound BamTools::SamReadGroup... Generating docs for compound BamTools::SamReadGroupDictionary... Generating docs for compound BamTools::SamSequence... Generating docs for compound BamTools::SamSequenceDictionary... Generating docs for namespace BamTools::Algorithms Generating docs for compound BamTools::Algorithms::Sort... Generating docs for nested compound BamTools::Algorithms::Sort::ByName... Generating docs for nested compound BamTools::Algorithms::Sort::ByPosition... Generating docs for nested compound BamTools::Algorithms::Sort::ByTag... Generating docs for nested compound BamTools::Algorithms::Sort::Unsorted... Generating docs for namespace BamTools::Constants Generating graph info page... Generating directory documentation... Generating index page... Generating page index... Generating 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... lookup cache used 1188/65536 hits=6495 misses=1216 finished... mv docs/Doxyfile.bak docs/Doxyfile make[1]: Leaving directory '/build/bamtools-2.5.1+dfsg' dh_auto_build -Nlibbamtools-doc cd obj-i686-linux-gnu && make -j10 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' /usr/bin/cmake -S/build/bamtools-2.5.1+dfsg -B/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/CMakeFiles /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' 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-i686-linux-gnu' cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu && /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-i686-linux-gnu /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/src/api /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/src/api/CMakeFiles/BamTools.dir/DependInfo.cmake --color= Scanning dependencies of target BamTools make[3]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' 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-i686-linux-gnu' [ 1%] Building CXX object src/api/CMakeFiles/BamTools.dir/BamAlignment.cpp.o [ 3%] Building CXX object src/api/CMakeFiles/BamTools.dir/BamReader.cpp.o [ 5%] Building CXX object src/api/CMakeFiles/BamTools.dir/BamMultiReader.cpp.o [ 6%] Building CXX object src/api/CMakeFiles/BamTools.dir/BamWriter.cpp.o [ 8%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamProgramChain.cpp.o [ 10%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamHeader.cpp.o [ 11%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamProgram.cpp.o [ 13%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamReadGroup.cpp.o [ 15%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamReadGroupDictionary.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE 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-ffile-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 cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 [ 16%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamSequence.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat 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-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 -ffile-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 cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 [ 23%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/bam/BamRandomAccessController_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 [ 25%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/bam/BamReader_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-prefix-map=/build/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat 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/build/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp [ 32%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/index/BamToolsIndex_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 [ 33%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BamDeviceFactory_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 [ 35%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BamFile_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 [ 37%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BamFtp_p.cpp.o cd 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-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 cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 [ 42%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BgzfStream_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 [ 44%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/ByteArray_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 [ 45%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/HostAddress_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 [ 47%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/HostInfo_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 /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] 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 struct IPv6Address ^~~~~~~~~~~ [ 49%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/HttpHeader_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 [ 50%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/ILocalIODevice_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 [ 61%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/sam/SamFormatPrinter_p.cpp.o [ 52%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/TcpSocketEngine_p.cpp.o [ 57%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/TcpSocketEngine_unix_p.cpp.o [ 59%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/sam/SamFormatParser_p.cpp.o [ 55%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/TcpSocket_p.cpp.o [ 54%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/RollingBuffer_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 [ 62%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/sam/SamHeaderValidator_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 [ 64%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/utils/BamException_p.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 [ 66%] Linking CXX shared library libbamtools.so cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/src/api && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-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-i686-linux-gnu/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-i686-linux-gnu' [ 66%] 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-i686-linux-gnu' cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu && /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-i686-linux-gnu /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/src/utils /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/src/utils/CMakeFiles/BamTools-utils.dir/DependInfo.cmake --color= Scanning dependencies of target BamTools-utils make[3]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' 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-i686-linux-gnu' [ 72%] Building CXX object src/utils/CMakeFiles/BamTools-utils.dir/bamtools_utilities.cpp.o [ 72%] Building CXX object src/utils/CMakeFiles/BamTools-utils.dir/bamtools_pileup_engine.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 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cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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 -ffile-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 [ 74%] Linking CXX static library libbamtools-utils.a cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/src/utils && /usr/bin/cmake -P CMakeFiles/BamTools-utils.dir/cmake_clean_target.cmake cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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-i686-linux-gnu' [ 74%] 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-i686-linux-gnu' cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu && /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-i686-linux-gnu /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/src/toolkit /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/src/toolkit/CMakeFiles/bamtools_cmd.dir/DependInfo.cmake --color= Scanning dependencies of target bamtools_cmd make[3]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' 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-i686-linux-gnu' [ 76%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_coverage.cpp.o [ 77%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_filter.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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-i686-linux-gnu/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -ffile-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 [ 79%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_count.cpp.o [ 81%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_header.cpp.o [ 83%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_index.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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-i686-linux-gnu/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -ffile-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 /build/bamtools-2.5.1+dfsg/src/toolkit/bamtools_filter.cpp [ 86%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_merge.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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-i686-linux-gnu/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -ffile-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 cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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-i686-linux-gnu/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -ffile-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 cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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-i686-linux-gnu/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -ffile-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_index.cpp.o -c /build/bamtools-2.5.1+dfsg/src/toolkit/bamtools_index.cpp cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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-i686-linux-gnu/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -ffile-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_merge.cpp.o -c /build/bamtools-2.5.1+dfsg/src/toolkit/bamtools_merge.cpp [ 89%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_resolve.cpp.o [ 91%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_revert.cpp.o [ 91%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_random.cpp.o [ 91%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_convert.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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-i686-linux-gnu/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -ffile-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_random.cpp.o -c /build/bamtools-2.5.1+dfsg/src/toolkit/bamtools_random.cpp cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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-i686-linux-gnu/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -ffile-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 cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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-i686-linux-gnu/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -ffile-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 cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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-i686-linux-gnu/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -ffile-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_revert.cpp.o -c /build/bamtools-2.5.1+dfsg/src/toolkit/bamtools_revert.cpp [ 93%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_sort.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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-i686-linux-gnu/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -ffile-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_sort.cpp.o -c /build/bamtools-2.5.1+dfsg/src/toolkit/bamtools_sort.cpp [ 94%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_split.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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-i686-linux-gnu/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -ffile-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 [ 96%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_stats.cpp.o cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/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-i686-linux-gnu/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -ffile-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-i686-linux-gnu/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-i686-linux-gnu/src/toolkit -I/build/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -ffile-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-i686-linux-gnu/src/toolkit && /usr/bin/cmake -E cmake_link_script CMakeFiles/bamtools_cmd.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-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-i686-linux-gnu/src/api: ../utils/libbamtools-utils.a -ljsoncpp ../api/libbamtools.so.2.5.1 make[3]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' [100%] Built target bamtools_cmd make[2]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' 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-i686-linux-gnu && make -j10 test ARGS\+=-j10 make[2]: Entering directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' Running tests... /usr/bin/ctest --force-new-ctest-process -j10 Test project /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu Start 1: bamtools_help Start 2: bamtools_stats 1/2 Test #1: bamtools_help .................... 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Passed 0.26 sec 100% tests passed, 0 tests failed out of 2 Total Test time (real) = 0.65 sec make[2]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' make[1]: Leaving directory '/build/bamtools-2.5.1+dfsg' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary dh_testroot dh_prep dh_auto_install cd obj-i686-linux-gnu && make -j10 install DESTDIR=/build/bamtools-2.5.1\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' /usr/bin/cmake -S/build/bamtools-2.5.1+dfsg -B/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/CMakeFiles /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' 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-i686-linux-gnu' cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu && /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-i686-linux-gnu /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/src/api /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/src/api/CMakeFiles/BamTools.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' 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-i686-linux-gnu' make[3]: Nothing to be done for 'src/api/CMakeFiles/BamTools.dir/build'. make[3]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' [ 66%] 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-i686-linux-gnu' cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu && /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-i686-linux-gnu /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/src/utils /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/src/utils/CMakeFiles/BamTools-utils.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' 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-i686-linux-gnu' make[3]: Nothing to be done for 'src/utils/CMakeFiles/BamTools-utils.dir/build'. make[3]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' [ 74%] 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-i686-linux-gnu' cd /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu && /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-i686-linux-gnu /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/src/toolkit /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/src/toolkit/CMakeFiles/bamtools_cmd.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' 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-i686-linux-gnu' make[3]: Nothing to be done for 'src/toolkit/CMakeFiles/bamtools_cmd.dir/build'. make[3]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' [100%] Built target bamtools_cmd make[2]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/bamtools-2.5.1+dfsg/obj-i686-linux-gnu' Install the project... /usr/bin/cmake -P 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/i386-linux-gnu/pkgconfig/bamtools-1.pc -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/lib/i386-linux-gnu/libbamtools.so.2.5.1 -- Installing: /build/bamtools-2.5.1+dfsg/debian/tmp/usr/lib/i386-linux-gnu/libbamtools.so -- 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-i686-linux-gnu' 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_install -Nlibbamtools-doc dh_installdocs dh_installchangelogs dh_installman dh_lintian dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_strip dh_makeshlibs dh_shlibdeps dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'libbamtools2.5.1' in '../libbamtools2.5.1_2.5.1+dfsg-3_i386.deb'. dpkg-deb: building package 'bamtools-dbgsym' in '../bamtools-dbgsym_2.5.1+dfsg-3_i386.deb'. dpkg-deb: building package 'bamtools' in '../bamtools_2.5.1+dfsg-3_i386.deb'. dpkg-deb: building package 'libbamtools2.5.1-dbgsym' in '../libbamtools2.5.1-dbgsym_2.5.1+dfsg-3_i386.deb'. dpkg-deb: building package 'libbamtools-dev' in '../libbamtools-dev_2.5.1+dfsg-3_i386.deb'. dpkg-deb: building package 'libbamtools-doc' in '../libbamtools-doc_2.5.1+dfsg-3_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../bamtools_2.5.1+dfsg-3_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration I: user script /srv/workspace/pbuilder/25618/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/25618/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/25618 and its subdirectories I: Current time: Wed May 6 14:54:53 +14 2020 I: pbuilder-time-stamp: 1588726493