sbuild (Debian sbuild) 0.78.1 (09 February 2019) on gcc131.bak.milne.osuosl.org +==============================================================================+ | bamtools 2.5.1+dfsg-7 (armhf) Sat, 30 May 2020 15:30:50 +0000 | +==============================================================================+ Package: bamtools Version: 2.5.1+dfsg-7 Source Version: 2.5.1+dfsg-7 Distribution: unstable Machine Architecture: amd64 Host Architecture: armhf Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/unstable-amd64-sbuild-1dc639be-1882-4e05-a91e-dc8ee90dbc33' with '<>' I: NOTICE: Log filtering will replace 'build/bamtools-fFTabv/resolver-u0nPrO' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://debian.oregonstate.edu/debian unstable InRelease [146 kB] Get:2 http://debian.oregonstate.edu/debian unstable/main Sources.diff/Index [27.9 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 Packages.diff/Index [27.9 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main Sources 2020-05-30-0801.37.pdiff [3890 B] Get:5 http://debian.oregonstate.edu/debian unstable/main Sources 2020-05-30-1400.21.pdiff [8075 B] Get:5 http://debian.oregonstate.edu/debian unstable/main Sources 2020-05-30-1400.21.pdiff [8075 B] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-05-30-0801.37.pdiff [1853 B] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-05-30-1400.21.pdiff [5167 B] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-05-30-1400.21.pdiff [5167 B] Get:8 http://debian.oregonstate.edu/debian unstable/main armhf Packages [7966 kB] Fetched 8187 kB in 2s (5268 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'bamtools' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/bamtools.git Please use: git clone https://salsa.debian.org/med-team/bamtools.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 211 kB of source archives. Get:1 http://debian.oregonstate.edu/debian unstable/main bamtools 2.5.1+dfsg-7 (dsc) [2388 B] Get:2 http://debian.oregonstate.edu/debian unstable/main bamtools 2.5.1+dfsg-7 (tar) [197 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main bamtools 2.5.1+dfsg-7 (diff) [11.7 kB] Fetched 211 kB in 0s (1896 kB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/bamtools-fFTabv/bamtools-2.5.1+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/bamtools-fFTabv' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), d-shlibs, cmake, zlib1g-dev, libjsoncpp-dev, help2man, doxygen, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-armhf:amd64, libc-dev:armhf, libstdc++-dev:armhf Filtered Build-Depends: debhelper-compat (= 13), d-shlibs, cmake, zlib1g-dev, libjsoncpp-dev, help2man, doxygen, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-armhf:amd64, libc-dev:armhf, libstdc++-dev:armhf dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [439 B] Get:5 copy:/<>/apt_archive ./ Packages [529 B] Fetched 1925 B in 0s (74.4 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev binutils-arm-linux-gnueabihf bsdmainutils build-essential cmake cmake-data cpp-9-arm-linux-gnueabihf cpp-arm-linux-gnueabihf cross-config crossbuild-essential-armhf d-shlibs debhelper dh-autoreconf dh-strip-nondeterminism doxygen dpkg-cross dwz file g++ g++-9 g++-9-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-10-base:armhf gcc-10-cross-base gcc-9-arm-linux-gnueabihf gcc-9-arm-linux-gnueabihf-base gcc-9-base:armhf gcc-9-cross-base gcc-arm-linux-gnueabihf gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libarchive13 libasan5:armhf libasan5-armhf-cross libatomic1:armhf libatomic1-armhf-cross libbrotli1 libbsd0 libc6:armhf libc6-armhf-cross libc6-dev libc6-dev:armhf libc6-dev-armhf-cross libclang1-9 libconfig-auto-perl libconfig-inifiles-perl libcroco3 libcrypt-dev libcrypt-dev:armhf libcrypt1:armhf libcurl4 libdebhelper-perl libdebian-dpkgcross-perl libedit2 libelf1 libexpat1 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-9-dev:armhf libgcc-9-dev-armhf-cross libgcc-s1:armhf libgcc-s1-armhf-cross libglib2.0-0 libgomp1:armhf libgomp1-armhf-cross libgssapi-krb5-2 libicu63 libio-string-perl libjsoncpp-dev:armhf libjsoncpp1 libjsoncpp1:armhf libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common libllvm9 liblocale-gettext-perl libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libpipeline1 libprocps8 libpsl5 librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libssh2-1 libssl1.1 libstdc++-9-dev libstdc++-9-dev:armhf libstdc++-9-dev-armhf-cross libstdc++6:armhf libstdc++6-armhf-cross libsub-override-perl libtool libubsan1:armhf libubsan1-armhf-cross libuchardet0 libuv1 libxapian30 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl libz3-4 linux-libc-dev:armhf linux-libc-dev-armhf-cross m4 man-db po-debconf procps sensible-utils ucf zlib1g:armhf zlib1g-dev:armhf Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc wamerican | wordlist whois vacation cmake-doc ninja-build gcc-9-locales cpp-doc dh-make doxygen-latex doxygen-doc doxygen-gui graphviz binutils-multiarch g++-multilib g++-9-multilib gcc-9-doc manpages-dev flex bison gdb-arm-linux-gnueabihf gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff lrzip glibc-doc:armhf libc-l10n:armhf locales:armhf glibc-doc manpages-dev:armhf krb5-doc krb5-user libstdc++-9-doc libstdc++-9-doc:armhf libtool-doc gfortran | fortran95-compiler gcj-jdk xapian-tools libyaml-shell-perl m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libidn2-0:armhf ca-certificates libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales libgpm2 publicsuffix libsasl2-modules libltdl-dev libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl | libyaml-syck-perl libmail-sendmail-perl psmisc The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-arm-linux-gnueabihf bsdmainutils build-essential cmake cmake-data cpp-9-arm-linux-gnueabihf cpp-arm-linux-gnueabihf cross-config crossbuild-essential-armhf d-shlibs debhelper dh-autoreconf dh-strip-nondeterminism doxygen dpkg-cross dwz file g++ g++-9 g++-9-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-10-base:armhf gcc-10-cross-base gcc-9-arm-linux-gnueabihf gcc-9-arm-linux-gnueabihf-base gcc-9-base:armhf gcc-9-cross-base gcc-arm-linux-gnueabihf gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libarchive13 libasan5:armhf libasan5-armhf-cross libatomic1:armhf libatomic1-armhf-cross libbrotli1 libbsd0 libc6:armhf libc6-armhf-cross libc6-dev libc6-dev:armhf libc6-dev-armhf-cross libclang1-9 libconfig-auto-perl libconfig-inifiles-perl libcroco3 libcrypt-dev libcrypt-dev:armhf libcrypt1:armhf libcurl4 libdebhelper-perl libdebian-dpkgcross-perl libedit2 libelf1 libexpat1 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-9-dev:armhf libgcc-9-dev-armhf-cross libgcc-s1:armhf libgcc-s1-armhf-cross libglib2.0-0 libgomp1:armhf libgomp1-armhf-cross libgssapi-krb5-2 libicu63 libio-string-perl libjsoncpp-dev:armhf libjsoncpp1 libjsoncpp1:armhf libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common libllvm9 liblocale-gettext-perl libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libpipeline1 libprocps8 libpsl5 librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libssh2-1 libssl1.1 libstdc++-9-dev libstdc++-9-dev:armhf libstdc++-9-dev-armhf-cross libstdc++6:armhf libstdc++6-armhf-cross libsub-override-perl libtool libubsan1:armhf libubsan1-armhf-cross libuchardet0 libuv1 libxapian30 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl libz3-4 linux-libc-dev:armhf linux-libc-dev-armhf-cross m4 man-db po-debconf procps sbuild-build-depends-main-dummy:armhf sensible-utils ucf zlib1g:armhf zlib1g-dev:armhf 0 upgraded, 132 newly installed, 0 to remove and 0 not upgraded. Need to get 127 MB of archives. After this operation, 517 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [956 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 libbsd0 amd64 0.10.0-1 [107 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 bsdmainutils amd64 11.1.2+b1 [191 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 libuchardet0 amd64 0.0.6-3 [64.9 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 groff-base amd64 1.22.4-5 [920 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libpipeline1 amd64 1.5.2-2 [33.9 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 man-db amd64 2.9.1-1 [1308 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 liblocale-gettext-perl amd64 1.07-4 [18.8 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main armhf gcc-10-base armhf 10.1.0-3 [197 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main armhf gcc-9-base armhf 9.3.0-13 [197 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 libncurses6 amd64 6.2-1 [102 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 libprocps8 amd64 2:3.3.16-5 [62.7 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 procps amd64 2:3.3.16-5 [262 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 sensible-utils all 0.0.12+nmu1 [16.0 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic-mgc amd64 1:5.38-5 [262 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic1 amd64 1:5.38-5 [120 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 file amd64 1:5.38-5 [67.9 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 gettext-base amd64 0.19.8.1-10 [123 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 ucf all 3.0042 [73.9 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 m4 amd64 1.4.18-4 [203 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 autoconf all 2.69-11.1 [341 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 automake all 1:1.16.2-1 [775 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 autopoint all 0.19.8.1-10 [435 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-arm-linux-gnueabihf amd64 2.34-8 [2750 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 libcrypt-dev amd64 1:4.4.16-1 [104 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev amd64 2.30-8 [2631 kB] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-9-dev amd64 9.3.0-13 [1701 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 g++-9 amd64 9.3.0-13 [10.7 MB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 g++ amd64 4:9.2.1-3.1 [1644 B] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 build-essential amd64 12.8 [7640 B] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 cmake-data all 3.16.3-3 [1628 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 libicu63 amd64 63.2-3 [8296 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 libxml2 amd64 2.9.10+dfsg-5 [709 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive13 amd64 3.4.2-1 [337 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libbrotli1 amd64 1.0.7-6.1 [267 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 libkrb5support0 amd64 1.17-7 [64.4 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libk5crypto3 amd64 1.17-7 [115 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libkeyutils1 amd64 1.6.1-2 [15.4 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libssl1.1 amd64 1.1.1g-1 [1543 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libkrb5-3 amd64 1.17-7 [366 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.17-7 [156 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2 [69.0 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2 [106 kB] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 libldap-common all 2.4.50+dfsg-1 [92.9 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 libldap-2.4-2 amd64 2.4.50+dfsg-1 [228 kB] Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 libnghttp2-14 amd64 1.40.0-1 [85.0 kB] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 libpsl5 amd64 0.21.0-1 [55.1 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b1 [60.8 kB] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 libssh2-1 amd64 1.8.0-2.1 [140 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 libcurl4 amd64 7.68.0-1 [321 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 libexpat1 amd64 2.2.9-1 [94.3 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 libjsoncpp1 amd64 1.7.4-3.1 [77.6 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 librhash0 amd64 1.3.9-1 [123 kB] Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 libuv1 amd64 1.38.0-1 [130 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 cmake amd64 3.16.3-3 [3674 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-arm-linux-gnueabihf-base amd64 9.3.0-13cross1 [197 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-9-arm-linux-gnueabihf amd64 9.3.0-13cross1 [6818 kB] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-arm-linux-gnueabihf amd64 4:9.2.1-3.1 [16.7 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 cross-config all 2.6.15-3 [39.9 kB] Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-cross-base all 9.3.0-13cross1 [193 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-10-cross-base all 10.1.0-3cross1 [194 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-armhf-cross all 2.30-2cross1 [1111 kB] Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-s1-armhf-cross all 10.1.0-3cross1 [36.2 kB] Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 libgomp1-armhf-cross all 10.1.0-3cross1 [82.4 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 libatomic1-armhf-cross all 10.1.0-3cross1 [6632 B] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 libasan5-armhf-cross all 9.3.0-13cross1 [363 kB] Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++6-armhf-cross all 10.1.0-3cross1 [380 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 libubsan1-armhf-cross all 10.1.0-3cross1 [115 kB] Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-9-dev-armhf-cross all 9.3.0-13cross1 [659 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-arm-linux-gnueabihf amd64 9.3.0-13cross1 [7180 kB] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-arm-linux-gnueabihf amd64 4:9.2.1-3.1 [1476 B] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 linux-libc-dev-armhf-cross all 5.4.19-1cross1 [1155 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev-armhf-cross all 2.30-2cross1 [2118 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-9-dev-armhf-cross all 9.3.0-13cross1 [1725 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 g++-9-arm-linux-gnueabihf amd64 9.3.0-13cross1 [7406 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 g++-arm-linux-gnueabihf amd64 4:9.2.1-3.1 [1184 B] Get:79 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-inifiles-perl all 3.000003-1 [52.1 kB] Get:80 http://debian.oregonstate.edu/debian unstable/main amd64 libio-string-perl all 1.08-3 [12.3 kB] Get:81 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-namespacesupport-perl all 1.12-1 [14.8 kB] Get:82 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-base-perl all 1.09-1 [20.4 kB] Get:83 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-perl all 1.02+dfsg-1 [59.0 kB] Get:84 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-libxml-perl amd64 2.0134+dfsg-2 [343 kB] Get:85 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:86 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-perl all 1.30-1 [67.7 kB] Get:87 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-auto-perl all 0.44-1 [19.5 kB] Get:88 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-which-perl all 1.23-1 [16.6 kB] Get:89 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-homedir-perl all 1.004-1 [42.7 kB] Get:90 http://debian.oregonstate.edu/debian unstable/main amd64 libdebian-dpkgcross-perl all 2.6.15-3 [38.7 kB] Get:91 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-cross all 2.6.15-3 [49.3 kB] Get:92 http://debian.oregonstate.edu/debian unstable/main amd64 crossbuild-essential-armhf all 12.8 [6644 B] Get:93 http://debian.oregonstate.edu/debian unstable/main amd64 d-shlibs all 0.91 [17.6 kB] Get:94 http://debian.oregonstate.edu/debian unstable/main amd64 libtool all 2.4.6-14 [513 kB] Get:95 http://debian.oregonstate.edu/debian unstable/main amd64 dh-autoreconf all 19 [16.9 kB] Get:96 http://debian.oregonstate.edu/debian unstable/main amd64 libdebhelper-perl all 13.1 [187 kB] Get:97 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:98 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get:99 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.8.1-1 [25.2 kB] Get:100 http://debian.oregonstate.edu/debian unstable/main amd64 dh-strip-nondeterminism all 1.8.1-1 [14.9 kB] Get:101 http://debian.oregonstate.edu/debian unstable/main amd64 libelf1 amd64 0.176-1.1 [161 kB] Get:102 http://debian.oregonstate.edu/debian unstable/main amd64 dwz amd64 0.13-5 [151 kB] Get:103 http://debian.oregonstate.edu/debian unstable/main amd64 libglib2.0-0 amd64 2.64.2-1 [1343 kB] Get:104 http://debian.oregonstate.edu/debian unstable/main amd64 libcroco3 amd64 0.6.13-1 [146 kB] Get:105 http://debian.oregonstate.edu/debian unstable/main amd64 gettext amd64 0.19.8.1-10 [1303 kB] Get:106 http://debian.oregonstate.edu/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get:107 http://debian.oregonstate.edu/debian unstable/main amd64 po-debconf all 1.0.21 [248 kB] Get:108 http://debian.oregonstate.edu/debian unstable/main amd64 debhelper all 13.1 [1012 kB] Get:109 http://debian.oregonstate.edu/debian unstable/main amd64 libedit2 amd64 3.1-20191231-1 [95.4 kB] Get:110 http://debian.oregonstate.edu/debian unstable/main amd64 libz3-4 amd64 4.8.7-4 [6790 kB] Get:111 http://debian.oregonstate.edu/debian unstable/main amd64 libllvm9 amd64 1:9.0.1-12 [15.0 MB] Get:112 http://debian.oregonstate.edu/debian unstable/main amd64 libclang1-9 amd64 1:9.0.1-12 [6713 kB] Get:113 http://debian.oregonstate.edu/debian unstable/main amd64 libxapian30 amd64 1.4.15-1 [1085 kB] Get:114 http://debian.oregonstate.edu/debian unstable/main amd64 doxygen amd64 1.8.17-1 [9482 kB] Get:115 http://debian.oregonstate.edu/debian unstable/main amd64 help2man amd64 1.47.15 [181 kB] Get:116 http://debian.oregonstate.edu/debian unstable/main armhf libgcc-s1 armhf 10.1.0-3 [36.2 kB] Get:117 http://debian.oregonstate.edu/debian unstable/main armhf libcrypt1 armhf 1:4.4.16-1 [101 kB] Get:118 http://debian.oregonstate.edu/debian unstable/main armhf libc6 armhf 2.30-8 [2343 kB] Get:119 http://debian.oregonstate.edu/debian unstable/main armhf libasan5 armhf 9.3.0-13 [370 kB] Get:120 http://debian.oregonstate.edu/debian unstable/main armhf libatomic1 armhf 10.1.0-3 [6884 B] Get:121 http://debian.oregonstate.edu/debian unstable/main armhf linux-libc-dev armhf 5.6.14-1 [1095 kB] Get:122 http://debian.oregonstate.edu/debian unstable/main armhf libcrypt-dev armhf 1:4.4.16-1 [120 kB] Get:123 http://debian.oregonstate.edu/debian unstable/main armhf libc6-dev armhf 2.30-8 [2136 kB] Get:124 http://debian.oregonstate.edu/debian unstable/main armhf libgomp1 armhf 10.1.0-3 [84.3 kB] Get:125 http://debian.oregonstate.edu/debian unstable/main armhf libstdc++6 armhf 10.1.0-3 [420 kB] Get:126 http://debian.oregonstate.edu/debian unstable/main armhf libubsan1 armhf 10.1.0-3 [116 kB] Get:127 http://debian.oregonstate.edu/debian unstable/main armhf libgcc-9-dev armhf 9.3.0-13 [662 kB] Get:128 http://debian.oregonstate.edu/debian unstable/main armhf libjsoncpp1 armhf 1.7.4-3.1 [67.2 kB] Get:129 http://debian.oregonstate.edu/debian unstable/main armhf libjsoncpp-dev armhf 1.7.4-3.1 [85.2 kB] Get:130 http://debian.oregonstate.edu/debian unstable/main armhf libstdc++-9-dev armhf 9.3.0-13 [1756 kB] Get:131 http://debian.oregonstate.edu/debian unstable/main armhf zlib1g armhf 1:1.2.11.dfsg-2 [85.4 kB] Get:132 http://debian.oregonstate.edu/debian unstable/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [185 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 127 MB in 1s (120 MB/s) Selecting previously unselected package libbsd0:amd64. (Reading database ... 12643 files and directories currently installed.) Preparing to unpack .../000-libbsd0_0.10.0-1_amd64.deb ... Unpacking libbsd0:amd64 (0.10.0-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../001-bsdmainutils_11.1.2+b1_amd64.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../002-libuchardet0_0.0.6-3_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../003-groff-base_1.22.4-5_amd64.deb ... Unpacking groff-base (1.22.4-5) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../004-libpipeline1_1.5.2-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.2-2) ... Selecting previously unselected package man-db. Preparing to unpack .../005-man-db_2.9.1-1_amd64.deb ... Unpacking man-db (2.9.1-1) ... 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Unpacking binutils-arm-linux-gnueabihf (2.34-8) ... Selecting previously unselected package libcrypt-dev:amd64. Preparing to unpack .../025-libcrypt-dev_1%3a4.4.16-1_amd64.deb ... Unpacking libcrypt-dev:amd64 (1:4.4.16-1) ... Selecting previously unselected package libc6-dev:amd64. Preparing to unpack .../026-libc6-dev_2.30-8_amd64.deb ... Unpacking libc6-dev:amd64 (2.30-8) ... Selecting previously unselected package libstdc++-9-dev:amd64. Preparing to unpack .../027-libstdc++-9-dev_9.3.0-13_amd64.deb ... Unpacking libstdc++-9-dev:amd64 (9.3.0-13) ... Selecting previously unselected package g++-9. Preparing to unpack .../028-g++-9_9.3.0-13_amd64.deb ... Unpacking g++-9 (9.3.0-13) ... Selecting previously unselected package g++. Preparing to unpack .../029-g++_4%3a9.2.1-3.1_amd64.deb ... Unpacking g++ (4:9.2.1-3.1) ... Selecting previously unselected package build-essential. Preparing to unpack .../030-build-essential_12.8_amd64.deb ... Unpacking build-essential (12.8) ... 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Setting up libxml-sax-base-perl (1.09-1) ... Setting up libio-string-perl (1.08-3) ... Setting up gcc-10-base:armhf (10.1.0-3) ... Setting up autotools-dev (20180224.1) ... Setting up libz3-4:amd64 (4.8.7-4) ... Setting up cross-config (2.6.15-3) ... Setting up libuv1:amd64 (1.38.0-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b1) ... Setting up libncurses6:amd64 (6.2-1) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up linux-libc-dev-armhf-cross (5.4.19-1cross1) ... Setting up autopoint (0.19.8.1-10) ... Setting up d-shlibs (0.91) ... Setting up gcc-9-cross-base (9.3.0-13cross1) ... Setting up libk5crypto3:amd64 (1.17-7) ... Setting up gcc-10-cross-base (10.1.0-3cross1) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2) ... Setting up sensible-utils (0.0.12+nmu1) ... Setting up librhash0:amd64 (1.3.9-1) ... Setting up libcrypt-dev:amd64 (1:4.4.16-1) ... Setting up libuchardet0:amd64 (0.0.6-3) ... Setting up libsub-override-perl (0.09-2) ... Setting up libc6-dev:amd64 (2.30-8) ... Setting up libssh2-1:amd64 (1.8.0-2.1) ... Setting up cmake-data (3.16.3-3) ... Setting up libkrb5-3:amd64 (1.17-7) ... Setting up libfile-homedir-perl (1.004-1) ... Setting up libbsd0:amd64 (0.10.0-1) ... Setting up binutils-arm-linux-gnueabihf (2.34-8) ... Setting up libelf1:amd64 (0.176-1.1) ... Setting up libxml2:amd64 (2.9.10+dfsg-5) ... Setting up liblocale-gettext-perl (1.07-4) ... Setting up libprocps8:amd64 (2:3.3.16-5) ... Setting up libjsoncpp1:amd64 (1.7.4-3.1) ... Setting up gcc-9-base:armhf (9.3.0-13) ... Setting up libgomp1-armhf-cross (10.1.0-3cross1) ... Setting up libfile-stripnondeterminism-perl (1.8.1-1) ... Setting up libstdc++-9-dev:amd64 (9.3.0-13) ... Setting up libtool (2.4.6-14) ... Setting up cpp-9-arm-linux-gnueabihf (9.3.0-13cross1) ... Setting up libarchive13:amd64 (3.4.2-1) ... Setting up libgcc-s1-armhf-cross (10.1.0-3cross1) ... Setting up libedit2:amd64 (3.1-20191231-1) ... Setting up libc6-dev-armhf-cross (2.30-2cross1) ... Setting up libldap-2.4-2:amd64 (2.4.50+dfsg-1) ... Setting up m4 (1.4.18-4) ... Setting up libatomic1-armhf-cross (10.1.0-3cross1) ... Setting up libasan5-armhf-cross (9.3.0-13cross1) ... Setting up help2man (1.47.15) ... Setting up libstdc++6-armhf-cross (10.1.0-3cross1) ... Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libgssapi-krb5-2:amd64 (1.17-7) ... Setting up libcroco3:amd64 (0.6.13-1) ... Setting up libubsan1-armhf-cross (10.1.0-3cross1) ... Setting up ucf (3.0042) ... Setting up g++-9 (9.3.0-13) ... Setting up autoconf (2.69-11.1) ... Setting up dh-strip-nondeterminism (1.8.1-1) ... Setting up g++ (4:9.2.1-3.1) ... update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode Setting up dwz (0.13-5) ... Setting up groff-base (1.22.4-5) ... Setting up procps (2:3.3.16-5) ... update-alternatives: using /usr/bin/w.procps to provide /usr/bin/w (w) in auto mode Setting up libgcc-9-dev-armhf-cross (9.3.0-13cross1) ... Setting up build-essential (12.8) ... Setting up libcurl4:amd64 (7.68.0-1) ... Setting up libllvm9:amd64 (1:9.0.1-12) ... Setting up cpp-arm-linux-gnueabihf (4:9.2.1-3.1) ... Setting up automake (1:1.16.2-1) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up gettext (0.19.8.1-10) ... Setting up libclang1-9 (1:9.0.1-12) ... Setting up man-db (2.9.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libxml-sax-perl (1.02+dfsg-1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up intltool-debian (0.35.0+20060710.5) ... Setting up doxygen (1.8.17-1) ... Setting up gcc-9-arm-linux-gnueabihf (9.3.0-13cross1) ... Setting up libxml-libxml-perl (2.0134+dfsg-2) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libstdc++-9-dev-armhf-cross (9.3.0-13cross1) ... Setting up cmake (3.16.3-3) ... Setting up gcc-arm-linux-gnueabihf (4:9.2.1-3.1) ... Setting up po-debconf (1.0.21) ... Setting up g++-9-arm-linux-gnueabihf (9.3.0-13cross1) ... Setting up libxml-simple-perl (2.25-1) ... Setting up g++-arm-linux-gnueabihf (4:9.2.1-3.1) ... Setting up libconfig-auto-perl (0.44-1) ... Setting up libdebian-dpkgcross-perl (2.6.15-3) ... Setting up dpkg-cross (2.6.15-3) ... Setting up crossbuild-essential-armhf (12.8) ... Setting up libcrypt1:armhf (1:4.4.16-1) ... Setting up libgcc-s1:armhf (10.1.0-3) ... Setting up dh-autoreconf (19) ... Setting up libc6:armhf (2.30-8) ... Setting up libcrypt-dev:armhf (1:4.4.16-1) ... Setting up libc6-dev:armhf (2.30-8) ... Setting up libstdc++6:armhf (10.1.0-3) ... Setting up libjsoncpp1:armhf (1.7.4-3.1) ... Setting up libjsoncpp-dev:armhf (1.7.4-3.1) ... Setting up debhelper (13.1) ... Setting up zlib1g:armhf (1:1.2.11.dfsg-2) ... Setting up libgomp1:armhf (10.1.0-3) ... Setting up libasan5:armhf (9.3.0-13) ... Setting up libatomic1:armhf (10.1.0-3) ... Setting up libubsan1:armhf (10.1.0-3) ... Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-2) ... Setting up libgcc-9-dev:armhf (9.3.0-13) ... Setting up libstdc++-9-dev:armhf (9.3.0-13) ... Setting up sbuild-build-depends-main-dummy:armhf (0.invalid.0) ... Processing triggers for libc-bin (2.30-8) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (armhf included in any all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.19.0-9-amd64 #1 SMP Debian 4.19.118-2 (2020-04-29) amd64 (x86_64) Toolchain package versions: binutils_2.34-8 dpkg-dev_1.19.7 g++-9_9.3.0-13 gcc-9_9.3.0-13 libc6-dev_2.30-8 libstdc++-9-dev_9.3.0-13 libstdc++-9-dev-armhf-cross_9.3.0-13cross1 libstdc++6_10.1.0-3 libstdc++6-armhf-cross_10.1.0-3cross1 linux-libc-dev_5.6.14-1 Package versions: adduser_3.118 apt_2.1.5 autoconf_2.69-11.1 automake_1:1.16.2-1 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11 base-passwd_3.5.47 bash_5.0-6 binutils_2.34-8 binutils-arm-linux-gnueabihf_2.34-8 binutils-common_2.34-8 binutils-x86-64-linux-gnu_2.34-8 bsdmainutils_11.1.2+b1 bsdutils_1:2.35.2-2 build-essential_12.8 bzip2_1.0.8-3 cmake_3.16.3-3 cmake-data_3.16.3-3 coreutils_8.30-3+b1 cpp_4:9.2.1-3.1 cpp-8_8.4.0-4 cpp-9_9.3.0-13 cpp-9-arm-linux-gnueabihf_9.3.0-13cross1 cpp-arm-linux-gnueabihf_4:9.2.1-3.1 cross-config_2.6.15-3 crossbuild-essential-armhf_12.8 d-shlibs_0.91 dash_0.5.10.2-7 debconf_1.5.74 debhelper_13.1 debian-archive-keyring_2019.1 debianutils_4.11 dh-autoreconf_19 dh-strip-nondeterminism_1.8.1-1 diffutils_1:3.7-3 doxygen_1.8.17-1 dpkg_1.19.7 dpkg-cross_2.6.15-3 dpkg-dev_1.19.7 dwz_0.13-5 e2fsprogs_1.45.6-1 fakeroot_1.24-1 fdisk_2.35.2-2 file_1:5.38-5 findutils_4.7.0-1 g++_4:9.2.1-3.1 g++-9_9.3.0-13 g++-9-arm-linux-gnueabihf_9.3.0-13cross1 g++-arm-linux-gnueabihf_4:9.2.1-3.1 gcc_4:9.2.1-3.1 gcc-10-base_10.1.0-3 gcc-10-cross-base_10.1.0-3cross1 gcc-8-base_8.4.0-4 gcc-9_9.3.0-13 gcc-9-arm-linux-gnueabihf_9.3.0-13cross1 gcc-9-arm-linux-gnueabihf-base_9.3.0-13cross1 gcc-9-base_9.3.0-13 gcc-9-cross-base_9.3.0-13cross1 gcc-arm-linux-gnueabihf_4:9.2.1-3.1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gpgv_2.2.20-1 grep_3.4-1 groff-base_1.22.4-5 gzip_1.10-2 help2man_1.47.15 hostname_3.23 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-8 libapt-pkg5.0_1.8.4 libapt-pkg6.0_2.1.5 libarchive-zip-perl_1.68-1 libarchive13_3.4.2-1 libasan5_9.3.0-13 libasan5-armhf-cross_9.3.0-13cross1 libatomic1_10.1.0-3 libatomic1-armhf-cross_10.1.0-3cross1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3 libaudit1_1:2.8.5-3+b1 libbinutils_2.34-8 libblkid1_2.35.2-2 libbrotli1_1.0.7-6.1 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-3 libc-bin_2.30-8 libc-dev-bin_2.30-8 libc6_2.30-8 libc6-armhf-cross_2.30-2cross1 libc6-dev_2.30-8 libc6-dev-armhf-cross_2.30-2cross1 libcap-ng0_0.7.9-2.1+b2 libcc1-0_10.1.0-3 libclang1-9_1:9.0.1-12 libcom-err2_1.45.6-1 libconfig-auto-perl_0.44-1 libconfig-inifiles-perl_3.000003-1 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.16-1 libcrypt1_1:4.4.16-1 libctf-nobfd0_2.34-8 libctf0_2.34-8 libcurl4_7.68.0-1 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.252 libdebhelper-perl_13.1 libdebian-dpkgcross-perl_2.6.15-3 libdpkg-perl_1.19.7 libedit2_3.1-20191231-1 libelf1_0.176-1.1 libexpat1_2.2.9-1 libext2fs2_1.45.6-1 libfakeroot_1.24-1 libfdisk1_2.35.2-2 libffi6_3.2.1-9 libffi7_3.3-4 libfile-homedir-perl_1.004-1 libfile-stripnondeterminism-perl_1.8.1-1 libfile-which-perl_1.23-1 libgcc-9-dev_9.3.0-13 libgcc-9-dev-armhf-cross_9.3.0-13cross1 libgcc-s1_10.1.0-3 libgcc-s1-armhf-cross_10.1.0-3cross1 libgcrypt20_1.8.5-5 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libglib2.0-0_2.64.2-1 libgmp10_2:6.2.0+dfsg-4 libgnutls30_3.6.13-2 libgomp1_10.1.0-3 libgomp1-armhf-cross_10.1.0-3cross1 libgpg-error0_1.37-1 libgssapi-krb5-2_1.17-7 libhogweed4_3.5.1+really3.4.1-1 libhogweed5_3.5.1+really3.5.1-2 libicu63_63.2-3 libidn2-0_2.3.0-1 libio-string-perl_1.08-3 libisl19_0.20-2 libisl22_0.22.1-1 libitm1_10.1.0-3 libjsoncpp-dev_1.7.4-3.1 libjsoncpp1_1.7.4-3.1 libk5crypto3_1.17-7 libkeyutils1_1.6.1-2 libkrb5-3_1.17-7 libkrb5support0_1.17-7 libldap-2.4-2_2.4.50+dfsg-1 libldap-common_2.4.50+dfsg-1 libllvm9_1:9.0.1-12 liblocale-gettext-perl_1.07-4 liblsan0_10.1.0-3 liblz4-1_1.9.2-2 liblzma5_5.2.4-1+b1 libmagic-mgc_1:5.38-5 libmagic1_1:5.38-5 libmount1_2.35.2-2 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libmpx2_8.4.0-4 libncurses6_6.2-1 libncursesw6_6.2-1 libnettle6_3.5.1+really3.4.1-1 libnettle7_3.5.1+really3.5.1-2 libnghttp2-14_1.40.0-1 libp11-kit0_0.23.20-1 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpcre2-8-0_10.34-7 libpcre3_2:8.39-12+b1 libperl5.28_5.28.1-6 libperl5.30_5.30.2-1 libpipeline1_1.5.2-2 libprocps8_2:3.3.16-5 libpsl5_0.21.0-1 libquadmath0_10.1.0-3 librhash0_1.3.9-1 librtmp1_2.4+20151223.gitfa8646d.1-2+b1 libsasl2-2_2.1.27+dfsg-2 libsasl2-modules-db_2.1.27+dfsg-2 libseccomp2_2.4.3-1+b1 libselinux1_3.0-1+b3 libsemanage-common_3.0-1 libsemanage1_3.0-1+b3 libsepol1_3.0-1 libsigsegv2_2.12-2 libsmartcols1_2.35.2-2 libss2_1.45.6-1 libssh2-1_1.8.0-2.1 libssl1.1_1.1.1g-1 libstdc++-9-dev_9.3.0-13 libstdc++-9-dev-armhf-cross_9.3.0-13cross1 libstdc++6_10.1.0-3 libstdc++6-armhf-cross_10.1.0-3cross1 libsub-override-perl_0.09-2 libsystemd0_245.5-3 libtasn1-6_4.16.0-2 libtinfo6_6.2-1 libtool_2.4.6-14 libtsan0_10.1.0-3 libubsan1_10.1.0-3 libubsan1-armhf-cross_10.1.0-3cross1 libuchardet0_0.0.6-3 libudev1_245.5-3 libunistring2_0.9.10-2 libuuid1_2.35.2-2 libuv1_1.38.0-1 libxapian30_1.4.15-1 libxml-libxml-perl_2.0134+dfsg-2 libxml-namespacesupport-perl_1.12-1 libxml-sax-base-perl_1.09-1 libxml-sax-perl_1.02+dfsg-1 libxml-simple-perl_2.25-1 libxml2_2.9.10+dfsg-5 libyaml-perl_1.30-1 libz3-4_4.8.7-4 libzstd1_1.4.4+dfsg-3 linux-libc-dev_5.6.14-1 linux-libc-dev-armhf-cross_5.4.19-1cross1 login_1:4.8.1-1 logsave_1.45.6-1 lsb-base_11.1.0 m4_1.4.18-4 make_4.3-1 man-db_2.9.1-1 mawk_1.3.4.20200120-2 mount_2.35.2-2 ncurses-base_6.2-1 ncurses-bin_6.2-1 passwd_1:4.8.1-1 patch_2.7.6-6 perl_5.30.2-1 perl-base_5.30.2-1 perl-modules-5.28_5.28.1-6 perl-modules-5.30_5.30.2-1 po-debconf_1.0.21 procps_2:3.3.16-5 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 sysvinit-utils_2.96-3 tar_1.30+dfsg-7 tzdata_2020a-1 ucf_3.0042 util-linux_2.35.2-2 xz-utils_5.2.4-1+b1 zlib1g_1:1.2.11.dfsg-2 zlib1g-dev_1:1.2.11.dfsg-2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: bamtools Binary: bamtools, libbamtools-dev, libbamtools2.5.1, libbamtools-doc Architecture: any all Version: 2.5.1+dfsg-7 Maintainer: Debian Med Packaging Team Uploaders: Michael R. Crusoe , Andreas Tille , Kevin Murray , Dominique Belhachemi Homepage: https://github.com/pezmaster31/bamtools/wiki Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/bamtools Vcs-Git: https://salsa.debian.org/med-team/bamtools.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), d-shlibs, cmake, zlib1g-dev, libjsoncpp-dev, help2man, doxygen Package-List: bamtools deb science optional arch=any libbamtools-dev deb libdevel optional arch=any libbamtools-doc deb doc optional arch=all libbamtools2.5.1 deb libs optional arch=any Checksums-Sha1: 0274c3250223060da999b74bb3804aad7f62da7e 196644 bamtools_2.5.1+dfsg.orig.tar.gz fc0f966d87304d7281c82a0f4f0f289307664aba 11660 bamtools_2.5.1+dfsg-7.debian.tar.xz Checksums-Sha256: 034873ddc9cbe557af9f081893083c361aff55e079448b22d856a667c50110ef 196644 bamtools_2.5.1+dfsg.orig.tar.gz e3425f6ca3b6966e8c10f87b48946fcf0aa9e995342585ceb165acb65e6b4869 11660 bamtools_2.5.1+dfsg-7.debian.tar.xz Files: 012e7ec1a1c9bc44b62794ba9c855de0 196644 bamtools_2.5.1+dfsg.orig.tar.gz f084343e7311dd271112399d94bcbe96 11660 bamtools_2.5.1+dfsg-7.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl7Q7dMRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHFSA/8DZ5hsanwJmeM/mJTohGW6oDJ11UHxntG UiviA/XUDd17N/nLr0fmVvaWkfzE/z5/PKBVBuuNjMyOiuSGVVCWxRirwH0t4YGF CYW5ss5i4zwTBJixkTUR6Z9cZbsBm6n0y3SRQbmFmymOgiwcAZQH9Spwr4kDkSdi XcWObzkxnSM4TArbGMzQddVLU3RLvF/4h3HOx+xIkxeTHEM/xo4yDOhelpl8hXFa t1mRaMW3Dr7wsRJrOzxX1SIzLyCSc5duPQxx1eLJMukFVJxCKHyGrkFcd8DTjkD2 2yHB0zEC3/BbfsrU7YfsjUk5UJQRvzygvvN2+tya5WkKFSs7adS8I0W88wPfgab5 wKaR/3cIWDhJYYf8Yr5gMN2YhNDGrH5mUZB3bIG0hRMMuiggNPoLvrew6GR0021X mvqK+LWxj1IQbntz9cysQZ3FP1VG2mzmYhKNChTET3vi+iYfkEgMtvG3nG8xNA2i OvV90yDr0M/ZSqHiiCwRVPWG1rHw7q1pP6ZhtGDem8t5QTZ+JcZNnoxzsuisP1Bb f/5aPHuh50KR912izn8dITwhh4iGOw+w+df5fRgw0m1AOzq7AoHfaLsHzAiAOGbJ L7zOJojRTTANYHVo8tqiL0/KCOh6dEmPAyVKHvsc3JmzCyaS2NII1mlCzQFbySCK UyQg1G/WtXY= =/AZC -----END PGP SIGNATURE----- gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Fri May 29 11:11:15 2020 UTC 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-7.dsc dpkg-source: info: extracting bamtools in /<> dpkg-source: info: unpacking bamtools_2.5.1+dfsg.orig.tar.gz dpkg-source: info: unpacking bamtools_2.5.1+dfsg-7.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 Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf CONFIG_SITE=/etc/dpkg-cross/cross-config.armhf DEB_BUILD_OPTIONS=nocheck HOME=/sbuild-nonexistent LANG=en_US.UTF-8 LC_ALL=C.UTF-8 LOGNAME=helmut PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=unstable-amd64-sbuild SCHROOT_CHROOT_NAME=unstable-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1003 SCHROOT_GROUP=helmut SCHROOT_SESSION_ID=unstable-amd64-sbuild-1dc639be-1882-4e05-a91e-dc8ee90dbc33 SCHROOT_UID=1003 SCHROOT_USER=helmut SHELL=/bin/sh USER=helmut dpkg-buildpackage ----------------- Command: dpkg-buildpackage -aarmhf -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package bamtools dpkg-buildpackage: info: source version 2.5.1+dfsg-7 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-architecture: warning: specified GNU system type arm-linux-gnueabihf does not match CC system type x86_64-linux-gnu, try setting a correct CC environment variable dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a 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_SYSTEM_NAME=Linux -DCMAKE_SYSTEM_PROCESSOR=armv7l -DCMAKE_C_COMPILER=arm-linux-gnueabihf-gcc -DCMAKE_CXX_COMPILER=arm-linux-gnueabihf-g\+\+ -DPKG_CONFIG_EXECUTABLE=/usr/bin/arm-linux-gnueabihf-pkg-config -DPKGCONFIG_EXECUTABLE=/usr/bin/arm-linux-gnueabihf-pkg-config -DQMAKE_EXECUTABLE=/usr/bin/arm-linux-gnueabihf-qmake -DCMAKE_INSTALL_LIBDIR=lib/arm-linux-gnueabihf .. -- The CXX compiler identification is GNU 9.3.0 -- Check for working CXX compiler: /usr/bin/arm-linux-gnueabihf-g++ -- Check for working CXX compiler: /usr/bin/arm-linux-gnueabihf-g++ -- 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. -- Found PkgConfig: /usr/bin/arm-linux-gnueabihf-pkg-config (found version "") -- 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_C_COMPILER CMAKE_EXPORT_NO_PACKAGE_REGISTRY PKGCONFIG_EXECUTABLE QMAKE_EXECUTABLE -- Build files have been written to: /<>/obj-arm-linux-gnueabihf dh_auto_build -a cd obj-arm-linux-gnueabihf && make -j1 "INSTALL=install --strip-program=true" make[1]: Entering directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/<> -B/<>/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/obj-arm-linux-gnueabihf/CMakeFiles /<>/obj-arm-linux-gnueabihf/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/<>/obj-arm-linux-gnueabihf' make -f src/api/CMakeFiles/BamTools_static.dir/build.make src/api/CMakeFiles/BamTools_static.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src/api /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/src/api /<>/obj-arm-linux-gnueabihf/src/api/CMakeFiles/BamTools_static.dir/DependInfo.cmake --color= Scanning dependencies of target BamTools_static make[3]: Leaving directory '/<>/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 '/<>/obj-arm-linux-gnueabihf' [ 1%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/BamAlignment.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/BamAlignment.cpp.o -c /<>/src/api/BamAlignment.cpp [ 2%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/BamMultiReader.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/BamMultiReader.cpp.o -c /<>/src/api/BamMultiReader.cpp [ 3%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/BamReader.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/BamReader.cpp.o -c /<>/src/api/BamReader.cpp [ 4%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/BamWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/BamWriter.cpp.o -c /<>/src/api/BamWriter.cpp [ 5%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/SamHeader.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/SamHeader.cpp.o -c /<>/src/api/SamHeader.cpp [ 6%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/SamProgram.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/SamProgram.cpp.o -c /<>/src/api/SamProgram.cpp [ 7%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/SamProgramChain.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/SamProgramChain.cpp.o -c /<>/src/api/SamProgramChain.cpp [ 8%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/SamReadGroup.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/SamReadGroup.cpp.o -c /<>/src/api/SamReadGroup.cpp [ 9%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/SamReadGroupDictionary.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/SamReadGroupDictionary.cpp.o -c /<>/src/api/SamReadGroupDictionary.cpp [ 10%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/SamSequence.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/SamSequence.cpp.o -c /<>/src/api/SamSequence.cpp [ 11%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/SamSequenceDictionary.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools_static.dir/SamSequenceDictionary.cpp.o -c /<>/src/api/SamSequenceDictionary.cpp [ 12%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/bam/BamHeader_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/bam/BamHeader_p.cpp [ 13%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/bam/BamMultiReader_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/bam/BamMultiReader_p.cpp [ 14%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/bam/BamRandomAccessController_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/bam/BamRandomAccessController_p.cpp [ 15%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/bam/BamReader_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/bam/BamReader_p.cpp [ 16%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/bam/BamWriter_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/bam/BamWriter_p.cpp [ 17%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/index/BamIndexFactory_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/index/BamIndexFactory_p.cpp [ 18%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/index/BamStandardIndex_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/index/BamStandardIndex_p.cpp In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /<>/src/api/internal/index/BamStandardIndex_p.h:26, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67, from /<>/src/api/internal/index/BamStandardIndex_p.h:26, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void BamTools::Internal::BamStandardIndex::MergeAlignmentChunks(BamTools::Internal::BaiAlignmentChunkVector&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /<>/src/api/internal/index/BamStandardIndex_p.h:26, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67, from /<>/src/api/internal/index/BamStandardIndex_p.h:26, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void BamTools::Internal::BamStandardIndex::SaveLinearOffsetEntry(BamTools::Internal::BaiLinearOffsetVector&, const int&, const int&, const uint64_t&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /<>/src/api/internal/index/BamStandardIndex_p.h:26, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void BamTools::Internal::BamStandardIndex::CalculateCandidateOffsets(const BamTools::Internal::BaiReferenceSummary&, const uint64_t&, std::set&, std::vector&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: 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/arm-linux-gnueabihf/include/c++/9/algorithm:62, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:18: /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1879:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1879 | __final_insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1879:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1889 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61, from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:18: /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:18: /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1939 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In member function ‘void BamTools::Internal::BamStandardIndex::GetOffset(const BamTools::BamRegion&, int64_t&, bool*)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1889 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61, from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:18: /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:18: /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1939 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In member function ‘void BamTools::Internal::BamStandardIndex::WriteLinearOffsets(const int&, BamTools::Internal::BaiLinearOffsetVector&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1970:31: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1970 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In member function ‘void BamTools::Internal::BamStandardIndex::SortLinearOffsets(BamTools::Internal::BaiLinearOffsetVector&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1970:31: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1970 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ [ 19%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/index/BamToolsIndex_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/index/BamToolsIndex_p.cpp In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /<>/src/api/internal/index/BamToolsIndex_p.h:25, from /<>/src/api/internal/index/BamToolsIndex_p.cpp:10: /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void BamTools::Internal::BamToolsIndex::InitializeFileSummary(const int&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: 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/arm-linux-gnueabihf/include/c++/9/vector:67, from /<>/src/api/internal/index/BamToolsIndex_p.h:25, from /<>/src/api/internal/index/BamToolsIndex_p.cpp:10: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void BamTools::Internal::BamToolsIndex::ReadBlocks(const BamTools::Internal::BtiReferenceSummary&, BamTools::Internal::BtiBlockVector&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘virtual bool BamTools::Internal::BamToolsIndex::Create()’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 20%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/BamDeviceFactory_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/BamDeviceFactory_p.cpp [ 21%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/BamFile_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/BamFile_p.cpp [ 22%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/BamFtp_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/BamFtp_p.cpp [ 23%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/BamHttp_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/BamHttp_p.cpp [ 24%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/BamPipe_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/BamPipe_p.cpp [ 25%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/BgzfStream_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/BgzfStream_p.cpp [ 26%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/ByteArray_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/ByteArray_p.cpp [ 27%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/HostAddress_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/HostAddress_p.cpp /<>/src/api/internal/io/HostAddress_p.cpp: In member function ‘void BamTools::Internal::HostAddress::Clear()’: /<>/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 /<>/src/api/internal/io/HostAddress_p.cpp:10: /<>/src/api/internal/io/HostAddress_p.h:31:8: note: ‘struct BamTools::Internal::IPv6Address’ declared here 31 | struct IPv6Address | ^~~~~~~~~~~ [ 28%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/HostInfo_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/HostInfo_p.cpp [ 29%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/HttpHeader_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/HttpHeader_p.cpp [ 30%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/ILocalIODevice_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/ILocalIODevice_p.cpp [ 31%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/RollingBuffer_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/RollingBuffer_p.cpp [ 32%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/TcpSocket_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/TcpSocket_p.cpp [ 33%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/TcpSocketEngine_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/TcpSocketEngine_p.cpp [ 34%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/io/TcpSocketEngine_unix_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/TcpSocketEngine_unix_p.cpp [ 35%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/sam/SamFormatParser_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/sam/SamFormatParser_p.cpp [ 36%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/sam/SamFormatPrinter_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/sam/SamFormatPrinter_p.cpp [ 37%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/sam/SamHeaderValidator_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/sam/SamHeaderValidator_p.cpp [ 38%] Building CXX object src/api/CMakeFiles/BamTools_static.dir/internal/utils/BamException_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/utils/BamException_p.cpp [ 39%] Linking CXX static library libbamtools.a cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/cmake -P CMakeFiles/BamTools_static.dir/cmake_clean_target.cmake cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools_static.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-ar qc libbamtools.a CMakeFiles/BamTools_static.dir/BamAlignment.cpp.o CMakeFiles/BamTools_static.dir/BamMultiReader.cpp.o CMakeFiles/BamTools_static.dir/BamReader.cpp.o CMakeFiles/BamTools_static.dir/BamWriter.cpp.o CMakeFiles/BamTools_static.dir/SamHeader.cpp.o CMakeFiles/BamTools_static.dir/SamProgram.cpp.o CMakeFiles/BamTools_static.dir/SamProgramChain.cpp.o CMakeFiles/BamTools_static.dir/SamReadGroup.cpp.o CMakeFiles/BamTools_static.dir/SamReadGroupDictionary.cpp.o CMakeFiles/BamTools_static.dir/SamSequence.cpp.o CMakeFiles/BamTools_static.dir/SamSequenceDictionary.cpp.o 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/arm-linux-gnueabihf-ranlib libbamtools.a make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 39%] Built target BamTools_static make -f src/api/CMakeFiles/BamTools.dir/build.make src/api/CMakeFiles/BamTools.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src/api /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/src/api /<>/obj-arm-linux-gnueabihf/src/api/CMakeFiles/BamTools.dir/DependInfo.cmake --color= Scanning dependencies of target BamTools make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f src/api/CMakeFiles/BamTools.dir/build.make src/api/CMakeFiles/BamTools.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 40%] Building CXX object src/api/CMakeFiles/BamTools.dir/BamAlignment.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/BamAlignment.cpp.o -c /<>/src/api/BamAlignment.cpp [ 41%] Building CXX object src/api/CMakeFiles/BamTools.dir/BamMultiReader.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/BamMultiReader.cpp.o -c /<>/src/api/BamMultiReader.cpp [ 42%] Building CXX object src/api/CMakeFiles/BamTools.dir/BamReader.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/BamReader.cpp.o -c /<>/src/api/BamReader.cpp [ 43%] Building CXX object src/api/CMakeFiles/BamTools.dir/BamWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/BamWriter.cpp.o -c /<>/src/api/BamWriter.cpp [ 44%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamHeader.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamHeader.cpp.o -c /<>/src/api/SamHeader.cpp [ 45%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamProgram.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamProgram.cpp.o -c /<>/src/api/SamProgram.cpp [ 46%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamProgramChain.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamProgramChain.cpp.o -c /<>/src/api/SamProgramChain.cpp [ 47%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamReadGroup.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamReadGroup.cpp.o -c /<>/src/api/SamReadGroup.cpp [ 48%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamReadGroupDictionary.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamReadGroupDictionary.cpp.o -c /<>/src/api/SamReadGroupDictionary.cpp [ 50%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamSequence.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamSequence.cpp.o -c /<>/src/api/SamSequence.cpp [ 51%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamSequenceDictionary.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamSequenceDictionary.cpp.o -c /<>/src/api/SamSequenceDictionary.cpp [ 52%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/bam/BamHeader_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/bam/BamHeader_p.cpp [ 53%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/bam/BamMultiReader_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/bam/BamMultiReader_p.cpp [ 54%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/bam/BamRandomAccessController_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/bam/BamRandomAccessController_p.cpp [ 55%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/bam/BamReader_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/bam/BamReader_p.cpp [ 56%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/bam/BamWriter_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/bam/BamWriter_p.cpp [ 57%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/index/BamIndexFactory_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/index/BamIndexFactory_p.cpp [ 58%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/index/BamStandardIndex_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/index/BamStandardIndex_p.cpp In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /<>/src/api/internal/index/BamStandardIndex_p.h:26, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67, from /<>/src/api/internal/index/BamStandardIndex_p.h:26, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void BamTools::Internal::BamStandardIndex::MergeAlignmentChunks(BamTools::Internal::BaiAlignmentChunkVector&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /<>/src/api/internal/index/BamStandardIndex_p.h:26, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67, from /<>/src/api/internal/index/BamStandardIndex_p.h:26, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void BamTools::Internal::BamStandardIndex::SaveLinearOffsetEntry(BamTools::Internal::BaiLinearOffsetVector&, const int&, const int&, const uint64_t&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /<>/src/api/internal/index/BamStandardIndex_p.h:26, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:10: /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void BamTools::Internal::BamStandardIndex::CalculateCandidateOffsets(const BamTools::Internal::BaiReferenceSummary&, const uint64_t&, std::set&, std::vector&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: 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/arm-linux-gnueabihf/include/c++/9/algorithm:62, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:18: /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61, from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:18: /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:18: /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1939 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In member function ‘void BamTools::Internal::BamStandardIndex::GetOffset(const BamTools::BamRegion&, int64_t&, bool*)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1889 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61, from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:18: /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from /<>/src/api/internal/index/BamStandardIndex_p.cpp:18: /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1939 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In member function ‘void BamTools::Internal::BamStandardIndex::SortLinearOffsets(BamTools::Internal::BaiLinearOffsetVector&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1889 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ [ 59%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/index/BamToolsIndex_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/index/BamToolsIndex_p.cpp In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /<>/src/api/internal/index/BamToolsIndex_p.h:25, from /<>/src/api/internal/index/BamToolsIndex_p.cpp:10: /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void BamTools::Internal::BamToolsIndex::InitializeFileSummary(const int&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: 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/arm-linux-gnueabihf/include/c++/9/vector:67, from /<>/src/api/internal/index/BamToolsIndex_p.h:25, from /<>/src/api/internal/index/BamToolsIndex_p.cpp:10: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void BamTools::Internal::BamToolsIndex::ReadBlocks(const BamTools::Internal::BtiReferenceSummary&, BamTools::Internal::BtiBlockVector&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘virtual bool BamTools::Internal::BamToolsIndex::Create()’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 60%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BamDeviceFactory_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/BamDeviceFactory_p.cpp [ 61%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BamFile_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/BamFile_p.cpp [ 62%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BamFtp_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/BamFtp_p.cpp [ 63%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BamHttp_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/BamHttp_p.cpp [ 64%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BamPipe_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/BamPipe_p.cpp [ 65%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BgzfStream_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/BgzfStream_p.cpp [ 66%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/ByteArray_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/ByteArray_p.cpp [ 67%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/HostAddress_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/HostAddress_p.cpp /<>/src/api/internal/io/HostAddress_p.cpp: In member function ‘void BamTools::Internal::HostAddress::Clear()’: /<>/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 /<>/src/api/internal/io/HostAddress_p.cpp:10: /<>/src/api/internal/io/HostAddress_p.h:31:8: note: ‘struct BamTools::Internal::IPv6Address’ declared here 31 | struct IPv6Address | ^~~~~~~~~~~ [ 68%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/HostInfo_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/HostInfo_p.cpp [ 69%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/HttpHeader_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/HttpHeader_p.cpp [ 70%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/ILocalIODevice_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/ILocalIODevice_p.cpp [ 71%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/RollingBuffer_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/RollingBuffer_p.cpp [ 72%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/TcpSocket_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/TcpSocket_p.cpp [ 73%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/TcpSocketEngine_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/TcpSocketEngine_p.cpp [ 74%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/TcpSocketEngine_unix_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/io/TcpSocketEngine_unix_p.cpp [ 75%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/sam/SamFormatParser_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/sam/SamFormatParser_p.cpp [ 76%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/sam/SamFormatPrinter_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/sam/SamFormatPrinter_p.cpp [ 77%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/sam/SamHeaderValidator_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/sam/SamHeaderValidator_p.cpp [ 78%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/utils/BamException_p.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/api/internal/utils/BamException_p.cpp [ 79%] Linking CXX shared library libbamtools.so cd /<>/obj-arm-linux-gnueabihf/src/api && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/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 '/<>/obj-arm-linux-gnueabihf' [ 79%] Built target BamTools make -f src/utils/CMakeFiles/BamTools-utils.dir/build.make src/utils/CMakeFiles/BamTools-utils.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src/utils /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/src/utils /<>/obj-arm-linux-gnueabihf/src/utils/CMakeFiles/BamTools-utils.dir/DependInfo.cmake --color= Scanning dependencies of target BamTools-utils make[3]: Leaving directory '/<>/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 '/<>/obj-arm-linux-gnueabihf' [ 80%] Building CXX object src/utils/CMakeFiles/BamTools-utils.dir/bamtools_fasta.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/utils && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_UTILS_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/src/api -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools-utils.dir/bamtools_fasta.cpp.o -c /<>/src/utils/bamtools_fasta.cpp In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /<>/src/utils/bamtools_fasta.cpp:20: /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67, from /<>/src/utils/bamtools_fasta.cpp:20: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘bool BamTools::Fasta::FastaPrivate::CreateIndex(const string&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘bool BamTools::Fasta::FastaPrivate::LoadIndexData()’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 81%] Building CXX object src/utils/CMakeFiles/BamTools-utils.dir/bamtools_options.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/utils && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_UTILS_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/src/api -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools-utils.dir/bamtools_options.cpp.o -c /<>/src/utils/bamtools_options.cpp [ 82%] Building CXX object src/utils/CMakeFiles/BamTools-utils.dir/bamtools_pileup_engine.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/utils && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_UTILS_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/src/api -g -O2 -fdebug-prefix-map=/<>=. -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 /<>/src/utils/bamtools_pileup_engine.cpp [ 83%] Building CXX object src/utils/CMakeFiles/BamTools-utils.dir/bamtools_utilities.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/utils && /usr/bin/arm-linux-gnueabihf-g++ -DBAMTOOLS_UTILS_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/src/api -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools-utils.dir/bamtools_utilities.cpp.o -c /<>/src/utils/bamtools_utilities.cpp [ 84%] Linking CXX static library libbamtools-utils.a cd /<>/obj-arm-linux-gnueabihf/src/utils && /usr/bin/cmake -P CMakeFiles/BamTools-utils.dir/cmake_clean_target.cmake cd /<>/obj-arm-linux-gnueabihf/src/utils && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools-utils.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-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/arm-linux-gnueabihf-ranlib libbamtools-utils.a make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 84%] 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 '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src/toolkit /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/src/toolkit /<>/obj-arm-linux-gnueabihf/src/toolkit/CMakeFiles/bamtools_cmd.dir/DependInfo.cmake --color= Scanning dependencies of target bamtools_cmd make[3]: Leaving directory '/<>/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 '/<>/obj-arm-linux-gnueabihf' [ 85%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_convert.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/src/api -I/<>/src/utils -I/<>/obj-arm-linux-gnueabihf/src/toolkit -I/<>/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_convert.cpp.o -c /<>/src/toolkit/bamtools_convert.cpp [ 86%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_count.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/src/api -I/<>/src/utils -I/<>/obj-arm-linux-gnueabihf/src/toolkit -I/<>/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_count.cpp.o -c /<>/src/toolkit/bamtools_count.cpp [ 87%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_coverage.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/src/api -I/<>/src/utils -I/<>/obj-arm-linux-gnueabihf/src/toolkit -I/<>/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_coverage.cpp.o -c /<>/src/toolkit/bamtools_coverage.cpp [ 88%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_filter.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/src/api -I/<>/src/utils -I/<>/obj-arm-linux-gnueabihf/src/toolkit -I/<>/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_filter.cpp.o -c /<>/src/toolkit/bamtools_filter.cpp [ 89%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_header.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/src/api -I/<>/src/utils -I/<>/obj-arm-linux-gnueabihf/src/toolkit -I/<>/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_header.cpp.o 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-I/<>/src/api -I/<>/src/utils -I/<>/obj-arm-linux-gnueabihf/src/toolkit -I/<>/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_resolve.cpp.o -c /<>/src/toolkit/bamtools_resolve.cpp [ 94%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_revert.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/src/api -I/<>/src/utils -I/<>/obj-arm-linux-gnueabihf/src/toolkit -I/<>/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_revert.cpp.o -c /<>/src/toolkit/bamtools_revert.cpp [ 95%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_sort.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/src/api -I/<>/src/utils -I/<>/obj-arm-linux-gnueabihf/src/toolkit -I/<>/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_sort.cpp.o -c /<>/src/toolkit/bamtools_sort.cpp [ 96%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_split.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/src/api -I/<>/src/utils -I/<>/obj-arm-linux-gnueabihf/src/toolkit -I/<>/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_split.cpp.o -c /<>/src/toolkit/bamtools_split.cpp [ 97%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_stats.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/src/api -I/<>/src/utils -I/<>/obj-arm-linux-gnueabihf/src/toolkit -I/<>/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_stats.cpp.o -c /<>/src/toolkit/bamtools_stats.cpp [ 98%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools.cpp.o cd /<>/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/src/api -I/<>/src/utils -I/<>/obj-arm-linux-gnueabihf/src/toolkit -I/<>/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools.cpp.o -c /<>/src/toolkit/bamtools.cpp [100%] Linking CXX executable bamtools cd /<>/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/cmake -E cmake_link_script CMakeFiles/bamtools_cmd.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -fdebug-prefix-map=/<>=. -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,/<>/obj-arm-linux-gnueabihf/src/api: ../utils/libbamtools-utils.a -ljsoncpp ../api/libbamtools.so.2.5.1 make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target bamtools_cmd make[2]: Leaving directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /<>/obj-arm-linux-gnueabihf/CMakeFiles 0 make[1]: Leaving directory '/<>/obj-arm-linux-gnueabihf' create-stamp debian/debhelper-build-stamp dh_testroot -a dh_prep -a dh_auto_install -a cd obj-arm-linux-gnueabihf && make -j1 install DESTDIR=/<>/bamtools-2.5.1\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/<> -B/<>/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/<>/obj-arm-linux-gnueabihf' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /<>/debian/tmp/usr/include/bamtools/shared/bamtools_global.h -- Installing: /<>/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig/bamtools-1.pc -- Installing: /<>/debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.so.2.5.1 -- Installing: /<>/debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.so -- Installing: /<>/debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.a -- Installing: /<>/debian/tmp/usr/include/bamtools/api/api_global.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/BamAlgorithms.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/BamAlignment.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/BamAux.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/BamConstants.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/BamIndex.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/BamMultiReader.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/BamReader.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/BamWriter.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/IBamIODevice.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/SamConstants.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/SamHeader.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/SamProgram.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/SamProgramChain.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/SamReadGroup.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/SamReadGroupDictionary.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/SamSequence.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/SamSequenceDictionary.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/algorithms/Sort.h -- Installing: /<>/debian/tmp/usr/bin/bamtools -- Set runtime path of "/<>/debian/tmp/usr/bin/bamtools" to "" make[1]: Leaving directory '/<>/obj-arm-linux-gnueabihf' debian/rules override_dh_install-arch make[1]: Entering directory '/<>' 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 /<>/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 '/<>' dh_installdocs -a dh_installchangelogs -a dh_installman -a dh_lintian -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a -a dh_strip -a -a dh_makeshlibs -a -a dh_shlibdeps -a -a 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 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 dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: package libbamtools-dev: substitution variable ${devlibs:Depends} unused, but is defined dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'bamtools' in '../bamtools_2.5.1+dfsg-7_armhf.deb'. dpkg-deb: building package 'bamtools-dbgsym' in '../bamtools-dbgsym_2.5.1+dfsg-7_armhf.deb'. dpkg-deb: building package 'libbamtools-dev' in '../libbamtools-dev_2.5.1+dfsg-7_armhf.deb'. dpkg-deb: building package 'libbamtools2.5.1' in '../libbamtools2.5.1_2.5.1+dfsg-7_armhf.deb'. dpkg-deb: building package 'libbamtools2.5.1-dbgsym' in '../libbamtools2.5.1-dbgsym_2.5.1+dfsg-7_armhf.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../bamtools_2.5.1+dfsg-7_armhf.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2020-05-30T15:33:57Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ bamtools_2.5.1+dfsg-7_armhf.changes: ------------------------------------ Format: 1.8 Date: Fri, 29 May 2020 13:00:25 +0200 Source: bamtools Binary: bamtools bamtools-dbgsym libbamtools-dev libbamtools2.5.1 libbamtools2.5.1-dbgsym Built-For-Profiles: cross nocheck Architecture: armhf Version: 2.5.1+dfsg-7 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: bamtools - toolkit for manipulating BAM (genome alignment) files libbamtools-dev - C++ API for manipulating BAM (genome alignment) files libbamtools2.5.1 - dynamic library for manipulating BAM (genome alignment) files Closes: 961777 Changes: bamtools (2.5.1+dfsg-7) unstable; urgency=medium . * Override dh_auto_install-indep Closes: #961777 Checksums-Sha1: b40fbd17c423b09646ccb18f13562f4590524a13 3144468 bamtools-dbgsym_2.5.1+dfsg-7_armhf.deb ce43711a4fbfea39660a682b5569432d280937b2 6979 bamtools_2.5.1+dfsg-7_armhf.buildinfo d775efa7f0b1d9d784912555c1fc293e1dbece6a 155556 bamtools_2.5.1+dfsg-7_armhf.deb 222e72375bf12eecd51d6fe11dc1e7b6efb58739 196268 libbamtools-dev_2.5.1+dfsg-7_armhf.deb 0d05b6f30175451a0043d04512c8d6ead40b7664 2356704 libbamtools2.5.1-dbgsym_2.5.1+dfsg-7_armhf.deb 33f83d0907b460e214aa42f2af6974bed09dd2b6 140052 libbamtools2.5.1_2.5.1+dfsg-7_armhf.deb Checksums-Sha256: 0e5a3349c700b67735684dc331036031fbee3885af8cd4b3899f237e752fee8f 3144468 bamtools-dbgsym_2.5.1+dfsg-7_armhf.deb 186227b6f32ecc0127a78295848513c9151edf23bae5b3829e6f45cc022f9840 6979 bamtools_2.5.1+dfsg-7_armhf.buildinfo 1291f2cc524cfbdce3ff646fa8e5e0448609a625e7f7e772f40d734afd67e0a0 155556 bamtools_2.5.1+dfsg-7_armhf.deb 8a140547c6c3c4e22b1af0cb7949ca619a16156d274013225939882f88c4361b 196268 libbamtools-dev_2.5.1+dfsg-7_armhf.deb 4bc04ad193b1919b2dd25ce3cc103e0d65c0a8bc7b4c74b15c6b62d8c8fbd514 2356704 libbamtools2.5.1-dbgsym_2.5.1+dfsg-7_armhf.deb f4d551a37cf96104b712b47a4877b0b1c8f2603e7c8adef7ce694c05c4ab79cd 140052 libbamtools2.5.1_2.5.1+dfsg-7_armhf.deb Files: 954e8190c28d81884fc8c40ff42ce593 3144468 debug optional bamtools-dbgsym_2.5.1+dfsg-7_armhf.deb 8531371d18cf4cf66a2c377a12fb9d9d 6979 science optional bamtools_2.5.1+dfsg-7_armhf.buildinfo 3524b90bd5b3bb27d3847758d7788433 155556 science optional bamtools_2.5.1+dfsg-7_armhf.deb 2f1613b3a8f2359100bbf5d0bf0db352 196268 libdevel optional libbamtools-dev_2.5.1+dfsg-7_armhf.deb f81c453cc2e13ec23b59cc4f049ed4f7 2356704 debug optional libbamtools2.5.1-dbgsym_2.5.1+dfsg-7_armhf.deb 8aeba3e6c27c2e2e74214bf807bfc949 140052 libs optional libbamtools2.5.1_2.5.1+dfsg-7_armhf.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: bamtools Binary: bamtools libbamtools-dev libbamtools2.5.1 libbamtools-doc Architecture: armhf Version: 2.5.1+dfsg-7 Checksums-Md5: 954e8190c28d81884fc8c40ff42ce593 3144468 bamtools-dbgsym_2.5.1+dfsg-7_armhf.deb 3524b90bd5b3bb27d3847758d7788433 155556 bamtools_2.5.1+dfsg-7_armhf.deb 2f1613b3a8f2359100bbf5d0bf0db352 196268 libbamtools-dev_2.5.1+dfsg-7_armhf.deb f81c453cc2e13ec23b59cc4f049ed4f7 2356704 libbamtools2.5.1-dbgsym_2.5.1+dfsg-7_armhf.deb 8aeba3e6c27c2e2e74214bf807bfc949 140052 libbamtools2.5.1_2.5.1+dfsg-7_armhf.deb Checksums-Sha1: b40fbd17c423b09646ccb18f13562f4590524a13 3144468 bamtools-dbgsym_2.5.1+dfsg-7_armhf.deb d775efa7f0b1d9d784912555c1fc293e1dbece6a 155556 bamtools_2.5.1+dfsg-7_armhf.deb 222e72375bf12eecd51d6fe11dc1e7b6efb58739 196268 libbamtools-dev_2.5.1+dfsg-7_armhf.deb 0d05b6f30175451a0043d04512c8d6ead40b7664 2356704 libbamtools2.5.1-dbgsym_2.5.1+dfsg-7_armhf.deb 33f83d0907b460e214aa42f2af6974bed09dd2b6 140052 libbamtools2.5.1_2.5.1+dfsg-7_armhf.deb Checksums-Sha256: 0e5a3349c700b67735684dc331036031fbee3885af8cd4b3899f237e752fee8f 3144468 bamtools-dbgsym_2.5.1+dfsg-7_armhf.deb 1291f2cc524cfbdce3ff646fa8e5e0448609a625e7f7e772f40d734afd67e0a0 155556 bamtools_2.5.1+dfsg-7_armhf.deb 8a140547c6c3c4e22b1af0cb7949ca619a16156d274013225939882f88c4361b 196268 libbamtools-dev_2.5.1+dfsg-7_armhf.deb 4bc04ad193b1919b2dd25ce3cc103e0d65c0a8bc7b4c74b15c6b62d8c8fbd514 2356704 libbamtools2.5.1-dbgsym_2.5.1+dfsg-7_armhf.deb f4d551a37cf96104b712b47a4877b0b1c8f2603e7c8adef7ce694c05c4ab79cd 140052 libbamtools2.5.1_2.5.1+dfsg-7_armhf.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Sat, 30 May 2020 15:33:56 +0000 Build-Path: /<> Installed-Build-Depends: adduser (= 3.118), apt (= 2.1.5), autoconf (= 2.69-11.1), automake (= 1:1.16.2-1), autopoint (= 0.19.8.1-10), autotools-dev (= 20180224.1), base-files (= 11), base-passwd (= 3.5.47), bash (= 5.0-6), binutils (= 2.34-8), binutils-common (= 2.34-8), binutils-x86-64-linux-gnu (= 2.34-8), bsdmainutils (= 11.1.2+b1), bsdutils (= 1:2.35.2-2), build-essential (= 12.8), bzip2 (= 1.0.8-3), cmake (= 3.16.3-3), cmake-data (= 3.16.3-3), coreutils (= 8.30-3+b1), cpp (= 4:9.2.1-3.1), cpp-9 (= 9.3.0-13), d-shlibs (= 0.91), dash (= 0.5.10.2-7), debconf (= 1.5.74), debhelper (= 13.1), debian-archive-keyring (= 2019.1), debianutils (= 4.11), dh-autoreconf (= 19), dh-strip-nondeterminism (= 1.8.1-1), diffutils (= 1:3.7-3), doxygen (= 1.8.17-1), dpkg (= 1.19.7), dpkg-dev (= 1.19.7), dwz (= 0.13-5), file (= 1:5.38-5), findutils (= 4.7.0-1), g++ (= 4:9.2.1-3.1), g++-9 (= 9.3.0-13), gcc (= 4:9.2.1-3.1), gcc-10-base (= 10.1.0-3), gcc-9 (= 9.3.0-13), gcc-9-base (= 9.3.0-13), gettext (= 0.19.8.1-10), gettext-base (= 0.19.8.1-10), gpgv (= 2.2.20-1), grep (= 3.4-1), groff-base (= 1.22.4-5), gzip (= 1.10-2), help2man (= 1.47.15), hostname (= 3.23), init-system-helpers (= 1.57), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.2.53-8), libapt-pkg6.0 (= 2.1.5), libarchive-zip-perl (= 1.68-1), libarchive13 (= 3.4.2-1), libasan5 (= 9.3.0-13), libatomic1 (= 10.1.0-3), libattr1 (= 1:2.4.48-5), libaudit-common (= 1:2.8.5-3), libaudit1 (= 1:2.8.5-3+b1), libbinutils (= 2.34-8), libblkid1 (= 2.35.2-2), libbrotli1 (= 1.0.7-6.1), libbsd0 (= 0.10.0-1), libbz2-1.0 (= 1.0.8-3), libc-bin (= 2.30-8), libc-dev-bin (= 2.30-8), libc6 (= 2.30-8), libc6-dev (= 2.30-8), libcap-ng0 (= 0.7.9-2.1+b2), libcc1-0 (= 10.1.0-3), libclang1-9 (= 1:9.0.1-12), libcom-err2 (= 1.45.6-1), libcroco3 (= 0.6.13-1), libcrypt-dev (= 1:4.4.16-1), libcrypt1 (= 1:4.4.16-1), libctf-nobfd0 (= 2.34-8), libctf0 (= 2.34-8), libcurl4 (= 7.68.0-1), libdb5.3 (= 5.3.28+dfsg1-0.6), libdebconfclient0 (= 0.252), libdebhelper-perl (= 13.1), libdpkg-perl (= 1.19.7), libedit2 (= 3.1-20191231-1), libelf1 (= 0.176-1.1), libexpat1 (= 2.2.9-1), libffi7 (= 3.3-4), libfile-stripnondeterminism-perl (= 1.8.1-1), libgcc-9-dev (= 9.3.0-13), libgcc-s1 (= 10.1.0-3), libgcrypt20 (= 1.8.5-5), libgdbm-compat4 (= 1.18.1-5), libgdbm6 (= 1.18.1-5), libglib2.0-0 (= 2.64.2-1), libgmp10 (= 2:6.2.0+dfsg-4), libgnutls30 (= 3.6.13-2), libgomp1 (= 10.1.0-3), libgpg-error0 (= 1.37-1), libgssapi-krb5-2 (= 1.17-7), libhogweed5 (= 3.5.1+really3.5.1-2), libicu63 (= 63.2-3), libidn2-0 (= 2.3.0-1), libisl22 (= 0.22.1-1), libitm1 (= 10.1.0-3), libjsoncpp-dev (= 1.7.4-3.1), libjsoncpp1 (= 1.7.4-3.1), libk5crypto3 (= 1.17-7), libkeyutils1 (= 1.6.1-2), libkrb5-3 (= 1.17-7), libkrb5support0 (= 1.17-7), libldap-2.4-2 (= 2.4.50+dfsg-1), libldap-common (= 2.4.50+dfsg-1), libllvm9 (= 1:9.0.1-12), liblocale-gettext-perl (= 1.07-4), liblsan0 (= 10.1.0-3), liblz4-1 (= 1.9.2-2), liblzma5 (= 5.2.4-1+b1), libmagic-mgc (= 1:5.38-5), libmagic1 (= 1:5.38-5), libmount1 (= 2.35.2-2), libmpc3 (= 1.1.0-1), libmpfr6 (= 4.0.2-1), libncurses6 (= 6.2-1), libncursesw6 (= 6.2-1), libnettle7 (= 3.5.1+really3.5.1-2), libnghttp2-14 (= 1.40.0-1), libp11-kit0 (= 0.23.20-1), libpam-modules (= 1.3.1-5), libpam-modules-bin (= 1.3.1-5), libpam-runtime (= 1.3.1-5), libpam0g (= 1.3.1-5), libpcre2-8-0 (= 10.34-7), libpcre3 (= 2:8.39-12+b1), libperl5.30 (= 5.30.2-1), libpipeline1 (= 1.5.2-2), libprocps8 (= 2:3.3.16-5), libpsl5 (= 0.21.0-1), libquadmath0 (= 10.1.0-3), librhash0 (= 1.3.9-1), librtmp1 (= 2.4+20151223.gitfa8646d.1-2+b1), libsasl2-2 (= 2.1.27+dfsg-2), libsasl2-modules-db (= 2.1.27+dfsg-2), libseccomp2 (= 2.4.3-1+b1), libselinux1 (= 3.0-1+b3), libsemanage-common (= 3.0-1), libsemanage1 (= 3.0-1+b3), libsepol1 (= 3.0-1), libsigsegv2 (= 2.12-2), libsmartcols1 (= 2.35.2-2), libssh2-1 (= 1.8.0-2.1), libssl1.1 (= 1.1.1g-1), libstdc++-9-dev (= 9.3.0-13), libstdc++6 (= 10.1.0-3), libsub-override-perl (= 0.09-2), libsystemd0 (= 245.5-3), libtasn1-6 (= 4.16.0-2), libtinfo6 (= 6.2-1), libtool (= 2.4.6-14), libtsan0 (= 10.1.0-3), libubsan1 (= 10.1.0-3), libuchardet0 (= 0.0.6-3), libudev1 (= 245.5-3), libunistring2 (= 0.9.10-2), libuuid1 (= 2.35.2-2), libuv1 (= 1.38.0-1), libxapian30 (= 1.4.15-1), libxml2 (= 2.9.10+dfsg-5), libz3-4 (= 4.8.7-4), libzstd1 (= 1.4.4+dfsg-3), linux-libc-dev (= 5.6.14-1), login (= 1:4.8.1-1), lsb-base (= 11.1.0), m4 (= 1.4.18-4), make (= 4.3-1), man-db (= 2.9.1-1), mawk (= 1.3.4.20200120-2), ncurses-base (= 6.2-1), ncurses-bin (= 6.2-1), passwd (= 1:4.8.1-1), patch (= 2.7.6-6), perl (= 5.30.2-1), perl-base (= 5.30.2-1), perl-modules-5.30 (= 5.30.2-1), po-debconf (= 1.0.21), procps (= 2:3.3.16-5), sed (= 4.7-1), sensible-utils (= 0.0.12+nmu1), sysvinit-utils (= 2.96-3), tar (= 1.30+dfsg-7), util-linux (= 2.35.2-2), xz-utils (= 5.2.4-1+b1), zlib1g (= 1:1.2.11.dfsg-2), zlib1g-dev (= 1:1.2.11.dfsg-2) Environment: DEB_BUILD_OPTIONS="nocheck parallel=1" DEB_BUILD_PROFILES="cross nocheck" LANG="en_US.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1590750025" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ bamtools-dbgsym_2.5.1+dfsg-7_armhf.deb -------------------------------------- new Debian package, version 2.0. size 3144468 bytes: control archive=536 bytes. 385 bytes, 12 lines control 106 bytes, 1 lines md5sums Package: bamtools-dbgsym Source: bamtools Version: 2.5.1+dfsg-7 Auto-Built-Package: debug-symbols Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 3198 Depends: bamtools (= 2.5.1+dfsg-7) Section: debug Priority: optional Description: debug symbols for bamtools Build-Ids: 9295fbde0adac58fcb6752c24397fb8a8d5e2456 drwxr-xr-x root/root 0 2020-05-29 11:00 ./ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/lib/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/lib/debug/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/lib/debug/.build-id/92/ -rw-r--r-- root/root 3264200 2020-05-29 11:00 ./usr/lib/debug/.build-id/92/95fbde0adac58fcb6752c24397fb8a8d5e2456.debug drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/share/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/share/doc/ lrwxrwxrwx root/root 0 2020-05-29 11:00 ./usr/share/doc/bamtools-dbgsym -> bamtools bamtools_2.5.1+dfsg-7_armhf.deb ------------------------------- new Debian package, version 2.0. size 155556 bytes: control archive=1512 bytes. 1805 bytes, 37 lines control 622 bytes, 9 lines md5sums Package: bamtools Version: 2.5.1+dfsg-7 Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 389 Depends: libbamtools2.5.1 (>= 2.5.1+dfsg), libc6 (>= 2.4), libgcc-s1 (>= 3.5), libjsoncpp1 (>= 1.7.4), libstdc++6 (>= 9) Section: science Priority: optional Homepage: https://github.com/pezmaster31/bamtools/wiki Description: toolkit for manipulating BAM (genome alignment) files BamTools facilitates research analysis and data management using BAM files. It copes with the enormous amount of data produced by current sequencing technologies that is typically stored in compressed, binary formats that are not easily handled by the text-based parsers commonly used in bioinformatics research. . BamTools provides both a C++ API for BAM file support as well as a command-line toolkit. . This is the bamtools command-line toolkit. . Available bamtools commands: convert Converts between BAM and a number of other formats count Prints number of alignments in BAM file(s) coverage Prints coverage statistics from the input BAM file filter Filters BAM file(s) by user-specified criteria header Prints BAM header information index Generates index for BAM file merge Merge multiple BAM files into single file random Select random alignments from existing BAM file(s), intended more as a testing tool. resolve Resolves paired-end reads (marking the IsProperPair flag as needed) revert Removes duplicate marks and restores original base qualities sort Sorts the BAM file according to some criteria split Splits a BAM file on user-specified property, creating a new BAM output file for each value found stats Prints some basic statistics from input BAM file(s) drwxr-xr-x root/root 0 2020-05-29 11:00 ./ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/bin/ -rwxr-xr-x root/root 374300 2020-05-29 11:00 ./usr/bin/bamtools drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/share/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/share/doc/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/share/doc/bamtools/ -rw-r--r-- root/root 262 2020-05-29 11:00 ./usr/share/doc/bamtools/README.test -rw-r--r-- root/root 2408 2020-05-29 11:00 ./usr/share/doc/bamtools/changelog.Debian.gz -rw-r--r-- root/root 1665 2020-05-29 11:00 ./usr/share/doc/bamtools/copyright -rw-r--r-- root/root 352 2020-05-29 11:00 ./usr/share/doc/bamtools/filter_script -rw-r--r-- root/root 1302 2020-05-29 11:00 ./usr/share/doc/bamtools/run-unit-test -rw-r--r-- root/root 375 2020-05-29 11:00 ./usr/share/doc/bamtools/sam_spec_example.bam drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/share/lintian/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 71 2020-05-29 11:00 ./usr/share/lintian/overrides/bamtools drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/share/man/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/share/man/man1/ -rw-r--r-- root/root 792 2020-05-29 11:00 ./usr/share/man/man1/bamtools.1.gz libbamtools-dev_2.5.1+dfsg-7_armhf.deb -------------------------------------- new Debian package, version 2.0. size 196268 bytes: control archive=1584 bytes. 994 bytes, 25 lines control 1891 bytes, 25 lines md5sums Package: libbamtools-dev Source: bamtools Version: 2.5.1+dfsg-7 Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 989 Depends: libbamtools2.5.1 (= 2.5.1+dfsg-7) Suggests: libbamtools-doc (= 2.5.1+dfsg-7) Breaks: libbamtools2.4.0 (<< 2.5.1+dfsg-2~) Replaces: libbamtools2.4.0 (<< 2.5.1+dfsg-2~) Section: libdevel Priority: optional Multi-Arch: same Homepage: https://github.com/pezmaster31/bamtools/wiki Description: C++ API for manipulating BAM (genome alignment) files BamTools facilitates research analysis and data management using BAM files. It copes with the enormous amount of data produced by current sequencing technologies that is typically stored in compressed, binary formats that are not easily handled by the text-based parsers commonly used in bioinformatics research. . BamTools provides both a C++ API for BAM file support as well as a command-line toolkit. . This is the developers API package. drwxr-xr-x root/root 0 2020-05-29 11:00 ./ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/include/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/include/bamtools/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/include/bamtools/api/ -rw-r--r-- root/root 848 2017-12-23 18:10 ./usr/include/bamtools/api/BamAlgorithms.h -rw-r--r-- root/root 22851 2020-05-29 11:00 ./usr/include/bamtools/api/BamAlignment.h -rw-r--r-- root/root 14259 2017-12-23 18:10 ./usr/include/bamtools/api/BamAux.h -rw-r--r-- root/root 9317 2020-05-29 11:00 ./usr/include/bamtools/api/BamConstants.h -rw-r--r-- root/root 2754 2017-12-23 18:10 ./usr/include/bamtools/api/BamIndex.h -rw-r--r-- root/root 4242 2017-12-23 18:10 ./usr/include/bamtools/api/BamMultiReader.h -rw-r--r-- root/root 3780 2017-12-23 18:10 ./usr/include/bamtools/api/BamReader.h -rw-r--r-- root/root 1950 2017-12-23 18:10 ./usr/include/bamtools/api/BamWriter.h -rw-r--r-- 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./usr/include/bamtools/api/api_global.h drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/include/bamtools/shared/ -rw-r--r-- root/root 2346 2017-12-23 18:10 ./usr/include/bamtools/shared/bamtools_global.h drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/lib/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/lib/arm-linux-gnueabihf/ -rw-r--r-- root/root 876460 2020-05-29 11:00 ./usr/lib/arm-linux-gnueabihf/libbamtools.a lrwxrwxrwx root/root 0 2020-05-29 11:00 ./usr/lib/arm-linux-gnueabihf/libbamtools.so -> libbamtools.so.2.5.1 drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/lib/arm-linux-gnueabihf/pkgconfig/ -rw-r--r-- root/root 246 2020-05-29 11:00 ./usr/lib/arm-linux-gnueabihf/pkgconfig/bamtools-1.pc drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/share/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/share/cmake/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/share/cmake/bamtools/ -rw-r--r-- root/root 1574 2020-05-29 11:00 ./usr/share/cmake/bamtools/bamtools-config.cmake drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/share/doc/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/share/doc/libbamtools-dev/ -rw-r--r-- root/root 2408 2020-05-29 11:00 ./usr/share/doc/libbamtools-dev/changelog.Debian.gz -rw-r--r-- root/root 1665 2020-05-29 11:00 ./usr/share/doc/libbamtools-dev/copyright libbamtools2.5.1-dbgsym_2.5.1+dfsg-7_armhf.deb ---------------------------------------------- new Debian package, version 2.0. size 2356704 bytes: control archive=556 bytes. 426 bytes, 13 lines control 106 bytes, 1 lines md5sums Package: libbamtools2.5.1-dbgsym Source: bamtools Version: 2.5.1+dfsg-7 Auto-Built-Package: debug-symbols Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 2429 Depends: libbamtools2.5.1 (= 2.5.1+dfsg-7) Section: debug Priority: optional Multi-Arch: same Description: debug symbols for libbamtools2.5.1 Build-Ids: 9ec1040b927cd6562ce5993289907f370283e085 drwxr-xr-x root/root 0 2020-05-29 11:00 ./ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/lib/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/lib/debug/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/lib/debug/.build-id/9e/ -rw-r--r-- root/root 2476752 2020-05-29 11:00 ./usr/lib/debug/.build-id/9e/c1040b927cd6562ce5993289907f370283e085.debug drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/share/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/share/doc/ lrwxrwxrwx root/root 0 2020-05-29 11:00 ./usr/share/doc/libbamtools2.5.1-dbgsym -> libbamtools2.5.1 libbamtools2.5.1_2.5.1+dfsg-7_armhf.deb --------------------------------------- new Debian package, version 2.0. size 140052 bytes: control archive=1064 bytes. 901 bytes, 22 lines control 243 bytes, 3 lines md5sums 51 bytes, 1 lines shlibs 65 bytes, 2 lines triggers Package: libbamtools2.5.1 Source: bamtools Version: 2.5.1+dfsg-7 Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 345 Depends: libc6 (>= 2.15), libgcc-s1 (>= 3.5), libstdc++6 (>= 9), zlib1g (>= 1:1.1.4) Section: libs Priority: optional Multi-Arch: same Homepage: https://github.com/pezmaster31/bamtools/wiki Description: dynamic library for manipulating BAM (genome alignment) files BamTools facilitates research analysis and data management using BAM files. It copes with the enormous amount of data produced by current sequencing technologies that is typically stored in compressed, binary formats that are not easily handled by the text-based parsers commonly used in bioinformatics research. . BamTools provides both a C++ API for BAM file support as well as a command-line toolkit. . This is the runtime library. drwxr-xr-x root/root 0 2020-05-29 11:00 ./ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/lib/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/lib/arm-linux-gnueabihf/ -rw-r--r-- root/root 337316 2020-05-29 11:00 ./usr/lib/arm-linux-gnueabihf/libbamtools.so.2.5.1 drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/share/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/share/doc/ drwxr-xr-x root/root 0 2020-05-29 11:00 ./usr/share/doc/libbamtools2.5.1/ -rw-r--r-- root/root 2408 2020-05-29 11:00 ./usr/share/doc/libbamtools2.5.1/changelog.Debian.gz -rw-r--r-- root/root 1665 2020-05-29 11:00 ./usr/share/doc/libbamtools2.5.1/copyright lintian ------- Setup apt archive ----------------- Merged Build-Depends: lintian:amd64 Filtered Build-Depends: lintian:amd64 dpkg-deb: building package 'sbuild-build-depends-lintian-dummy' in '/<>/apt_archive/sbuild-build-depends-lintian-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [963 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [573 B] Get:5 copy:/<>/apt_archive ./ Packages [663 B] Fetched 2199 B in 0s (88.2 kB/s) Reading package lists... Reading package lists... Install lintian build dependencies (apt-based resolver) ------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: diffstat gpg gpgconf libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libcapture-tiny-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libcpanel-json-xs-perl libdevel-callchecker-perl libdevel-size-perl libdigest-hmac-perl libdynaloader-functions-perl libemail-address-xs-perl libemail-valid-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libfuture-perl libhtml-parser-perl libhtml-tagset-perl libimport-into-perl libio-async-loop-epoll-perl libio-async-perl libio-socket-ssl-perl libipc-system-simple-perl libjson-maybexs-perl liblinux-epoll-perl liblist-compare-perl liblist-moreutils-perl liblist-utilsby-perl libmailtools-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libnamespace-clean-perl libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libpath-tiny-perl libreadline8 librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsqlite3-0 libstrictures-perl libstruct-dumb-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-name-perl libsub-quote-perl libtext-glob-perl libtext-levenshtein-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libxml-writer-perl libyaml-0-2 libyaml-libyaml-perl lintian netbase patchutils perl-openssl-defaults readline-common t1utils Suggested packages: libxml-parser-perl libdata-dump-perl ca-certificates libscalar-number-perl libbareword-filehandles-perl libindirect-perl libmultidimensional-perl libdevel-lexalias-perl libdevel-stacktrace-perl libwww-perl binutils-multiarch libtext-template-perl readline-doc Recommended packages: gnupg libhttp-message-perl libasync-mergepoint-perl libsereal-perl libtest-fatal-perl libtest-refcount-perl libdigest-bubblebabble-perl libnet-dns-sec-perl libnet-libidn-perl libperl4-corelibs-perl libauthen-sasl-perl libpackage-stash-xs-perl libref-util-perl libtype-tiny-xs-perl libperlio-gzip-perl The following NEW packages will be installed: diffstat gpg gpgconf libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libcapture-tiny-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libcpanel-json-xs-perl libdevel-callchecker-perl libdevel-size-perl libdigest-hmac-perl libdynaloader-functions-perl libemail-address-xs-perl libemail-valid-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libfuture-perl libhtml-parser-perl libhtml-tagset-perl libimport-into-perl libio-async-loop-epoll-perl libio-async-perl libio-socket-ssl-perl libipc-system-simple-perl libjson-maybexs-perl liblinux-epoll-perl liblist-compare-perl liblist-moreutils-perl liblist-utilsby-perl libmailtools-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libnamespace-clean-perl libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libpath-tiny-perl libreadline8 librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsqlite3-0 libstrictures-perl libstruct-dumb-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-name-perl libsub-quote-perl libtext-glob-perl libtext-levenshtein-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libxml-writer-perl libyaml-0-2 libyaml-libyaml-perl lintian netbase patchutils perl-openssl-defaults readline-common sbuild-build-depends-lintian-dummy:armhf t1utils 0 upgraded, 80 newly installed, 0 to remove and 0 not upgraded. Need to get 7839 kB of archives. After this operation, 22.4 MB of additional disk space will be used. 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Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 libhtml-tagset-perl all 3.20-4 [13.0 kB] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 liburi-perl all 1.76-2 [90.2 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 libhtml-parser-perl amd64 3.72-5 [105 kB] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 libimport-into-perl all 1.002005-1 [11.6 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 libstruct-dumb-perl all 0.12-1 [12.9 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 libio-async-perl all 0.75-1 [269 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 liblinux-epoll-perl amd64 0.017-1 [16.8 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 libio-async-loop-epoll-perl all 0.20-1 [11.9 kB] Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 libjson-maybexs-perl all 1.004002-1 [13.1 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-compare-perl all 0.53-1 [68.9 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-moreutils-perl amd64 0.416-1+b5 [63.6 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-utilsby-perl all 0.11-1 [15.4 kB] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 librole-tiny-perl all 2.001004-1 [20.8 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 libstrictures-perl all 2.000006-1 [18.6 kB] Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-quote-perl all 2.006006-1 [21.0 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 libmoo-perl all 2.004000-1 [59.4 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 libmoox-aliases-perl all 0.001006-1 [10.2 kB] Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 libpackage-stash-perl all 0.38-1 [21.7 kB] Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-identify-perl amd64 0.14-1+b2 [12.0 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-name-perl amd64 0.26-1 [13.5 kB] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 libnamespace-clean-perl all 0.27-1 [17.3 kB] Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 libpath-tiny-perl all 0.112-1 [53.5 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 libsereal-decoder-perl amd64 4.011+ds-1 [106 kB] Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 libsereal-encoder-perl amd64 4.011+ds-1 [108 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-levenshtein-perl all 0.13-1 [11.1 kB] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 libtype-tiny-perl all 1.010001-1 [338 kB] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 libunicode-utf8-perl amd64 0.62-1+b1 [20.2 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-writer-perl all 0.625-1 [29.7 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-0-2 amd64 0.2.2-1 [49.6 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-libyaml-perl amd64 0.82+repack-1 [35.6 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 patchutils amd64 0.3.4-2+b1 [91.4 kB] Get:79 http://debian.oregonstate.edu/debian unstable/main amd64 t1utils amd64 1.41-4 [62.1 kB] Get:80 http://debian.oregonstate.edu/debian unstable/main amd64 lintian all 2.78.0 [1290 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 7839 kB in 0s (43.0 MB/s) Selecting previously unselected package readline-common. (Reading database ... 23235 files and directories currently installed.) Preparing to unpack .../00-readline-common_8.0-4_all.deb ... Unpacking readline-common (8.0-4) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../01-libreadline8_8.0-4_amd64.deb ... Unpacking libreadline8:amd64 (8.0-4) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.1_all.deb ... Unpacking netbase (6.1) ... Selecting previously unselected package diffstat. Preparing to unpack .../03-diffstat_1.63-1_amd64.deb ... Unpacking diffstat (1.63-1) ... Selecting previously unselected package libassuan0:amd64. Preparing to unpack .../04-libassuan0_2.5.3-7_amd64.deb ... Unpacking libassuan0:amd64 (2.5.3-7) ... Selecting previously unselected package gpgconf. Preparing to unpack .../05-gpgconf_2.2.20-1_amd64.deb ... Unpacking gpgconf (2.2.20-1) ... Selecting previously unselected package libsqlite3-0:amd64. 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Setting up libtry-tiny-perl (0.30-1) ... Setting up perl-openssl-defaults:amd64 (5) ... Setting up libtext-levenshtein-perl (0.13-1) ... Setting up libassuan0:amd64 (2.5.3-7) ... Setting up libconfig-tiny-perl (2.24-1) ... Setting up libsereal-encoder-perl (4.011+ds-1) ... Setting up liblist-utilsby-perl (0.11-1) ... Setting up libnumber-compare-perl (0.03-1) ... Setting up libio-async-perl (0.75-1) ... Setting up patchutils (0.3.4-2+b1) ... Setting up libjson-maybexs-perl (1.004002-1) ... Setting up libfile-find-rule-perl (0.34-1) ... Setting up libdigest-hmac-perl (1.03+dfsg-2) ... Setting up libipc-system-simple-perl (1.30-1) ... Setting up libnet-domain-tld-perl (1.75-1) ... Setting up libxml-writer-perl (0.625-1) ... Setting up t1utils (1.41-4) ... Setting up liblinux-epoll-perl (0.017-1) ... Setting up diffstat (1.63-1) ... Setting up libvariable-magic-perl (0.62-1+b2) ... Setting up libb-hooks-op-check-perl (0.22-1+b2) ... Setting up libsub-exporter-progressive-perl (0.001013-1) ... Setting up libcapture-tiny-perl (0.48-1) ... Setting up libtimedate-perl (2.3300-1) ... Setting up libsub-name-perl (0.26-1) ... Setting up libpath-tiny-perl (0.112-1) ... Setting up librole-tiny-perl (2.001004-1) ... Setting up netbase (6.1) ... Setting up libstrictures-perl (2.000006-1) ... Setting up libsub-quote-perl (2.006006-1) ... Setting up libclass-xsaccessor-perl (1.19-3+b4) ... Setting up libexporter-tiny-perl (1.002002-1) ... Setting up libfont-ttf-perl (1.06-1) ... Setting up libnet-ip-perl (1.26-2) ... Setting up readline-common (8.0-4) ... Setting up libsereal-decoder-perl (4.011+ds-1) ... Setting up liburi-perl (1.76-2) ... Setting up libemail-address-xs-perl (1.04-1+b2) ... Setting up libnet-ssleay-perl (1.88-3) ... Setting up libfile-basedir-perl (0.08-1) ... Setting up liblist-moreutils-perl (0.416-1+b5) ... Setting up libreadline8:amd64 (8.0-4) ... Setting up libtype-tiny-perl (1.010001-1) ... Setting up libnet-dns-perl (1.23-1) ... Setting up libdevel-callchecker-perl (0.008-1+b1) ... Setting up libio-async-loop-epoll-perl (0.20-1) ... Setting up libhtml-parser-perl (3.72-5) ... Setting up gpgconf (2.2.20-1) ... Setting up libio-socket-ssl-perl (2.067-1) ... Setting up gpg (2.2.20-1) ... Setting up libparams-classify-perl (0.015-1+b2) ... Setting up libnet-smtp-ssl-perl (1.04-1) ... Setting up libmodule-runtime-perl (0.016-1) ... Setting up libmailtools-perl (2.21-1) ... Setting up libmodule-implementation-perl (0.09-1) ... Setting up libemail-valid-perl (1.202-1) ... Setting up libpackage-stash-perl (0.38-1) ... Setting up libimport-into-perl (1.002005-1) ... Setting up libmoo-perl (2.004000-1) ... Setting up libmoox-aliases-perl (0.001006-1) ... Setting up libb-hooks-endofscope-perl (0.24-1) ... Setting up libnamespace-clean-perl (0.27-1) ... Setting up lintian (2.78.0) ... Setting up sbuild-build-depends-lintian-dummy:armhf (0.invalid.0) ... Processing triggers for man-db (2.9.1-1) ... Not building database; man-db/auto-update is not 'true'. Processing triggers for libc-bin (2.30-8) ... I: Lintian run was successful. +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any Build-Space: 128072 Build-Time: 154 Distribution: unstable Foreign Architectures: armhf Host Architecture: armhf Install-Time: 24 Job: bamtools_2.5.1+dfsg-7 Lintian: pass Machine Architecture: amd64 Package: bamtools Package-Time: 187 Source-Version: 2.5.1+dfsg-7 Space: 128072 Status: successful Version: 2.5.1+dfsg-7 -------------------------------------------------------------------------------- Finished at 2020-05-30T15:33:57Z Build needed 00:03:07, 128072k disk space