sbuild (Debian sbuild) 0.81.2+deb11u1 (31 August 2022) on debian-ci-siliconvalley +==============================================================================+ | libvcflib 1.0.3+dfsg-2 (armhf) Sat, 03 Dec 2022 10:18:39 +0000 | +==============================================================================+ Package: libvcflib Version: 1.0.3+dfsg-2 Source Version: 1.0.3+dfsg-2 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/sid-amd64-sbuild-a255a6f1-b126-40fb-8aa9-6aae4a424b0b' with '<>' I: NOTICE: Log filtering will replace 'build/libvcflib-yGpKWH/resolver-u0F4En' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://localhost:3142/debian sid InRelease [161 kB] Get:2 http://localhost:3142/debian sid/main Sources.diff/Index [63.6 kB] Get:3 http://localhost:3142/debian sid/main amd64 Packages.diff/Index [63.6 kB] Get:4 http://localhost:3142/debian sid/main Sources T-2022-12-03-0803.53-F-2022-12-03-0204.41.pdiff [32.4 kB] Get:4 http://localhost:3142/debian sid/main Sources T-2022-12-03-0803.53-F-2022-12-03-0204.41.pdiff [32.4 kB] Get:5 http://localhost:3142/debian sid/main amd64 Packages T-2022-12-03-0803.53-F-2022-12-03-0204.41.pdiff [36.0 kB] Get:5 http://localhost:3142/debian sid/main amd64 Packages T-2022-12-03-0803.53-F-2022-12-03-0204.41.pdiff [36.0 kB] Get:6 http://localhost:3142/debian sid/main armhf Packages [9050 kB] Fetched 9406 kB in 3s (3572 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: dpkg dpkg-dev libdpkg-perl liblzma5 rpcsvc-proto xz-utils 6 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 6663 kB of archives. After this operation, 10.2 kB of additional disk space will be used. Get:1 http://localhost:3142/debian sid/main amd64 dpkg amd64 1.21.11 [2404 kB] Get:2 http://localhost:3142/debian sid/main amd64 liblzma5 amd64 5.2.9-0.0 [189 kB] Get:3 http://localhost:3142/debian sid/main amd64 xz-utils amd64 5.2.9-0.0 [340 kB] Get:4 http://localhost:3142/debian sid/main amd64 dpkg-dev all 1.21.11 [2202 kB] Get:5 http://localhost:3142/debian sid/main amd64 libdpkg-perl all 1.21.11 [1465 kB] Get:6 http://localhost:3142/debian sid/main amd64 rpcsvc-proto amd64 1.4.3-1 [63.3 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 6663 kB in 0s (165 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 15684 files and directories currently installed.) Preparing to unpack .../dpkg_1.21.11_amd64.deb ... Unpacking dpkg (1.21.11) over (1.21.10) ... Setting up dpkg (1.21.11) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 15684 files and directories currently installed.) Preparing to unpack .../xz-utils_5.2.9-0.0_amd64.deb ... Unpacking xz-utils (5.2.9-0.0) over (5.2.8-0.0) ... Preparing to unpack .../dpkg-dev_1.21.11_all.deb ... Unpacking dpkg-dev (1.21.11) over (1.21.10) ... Preparing to unpack .../libdpkg-perl_1.21.11_all.deb ... Unpacking libdpkg-perl (1.21.11) over (1.21.10) ... Preparing to unpack .../rpcsvc-proto_1.4.3-1_amd64.deb ... Unpacking rpcsvc-proto (1.4.3-1) over (1.4.2-4) ... Setting up rpcsvc-proto (1.4.3-1) ... Setting up xz-utils (5.2.9-0.0) ... Setting up libdpkg-perl (1.21.11) ... Setting up dpkg-dev (1.21.11) ... Processing triggers for libc-bin (2.36-6) ... +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'libvcflib' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/libvcflib.git Please use: git clone https://salsa.debian.org/med-team/libvcflib.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 7567 kB of source archives. Get:1 http://localhost:3142/debian sid/main libvcflib 1.0.3+dfsg-2 (dsc) [2301 B] Get:2 http://localhost:3142/debian sid/main libvcflib 1.0.3+dfsg-2 (tar) [7556 kB] Get:3 http://localhost:3142/debian sid/main libvcflib 1.0.3+dfsg-2 (diff) [8100 B] Fetched 7567 kB in 2s (4231 kB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/libvcflib-yGpKWH/libvcflib-1.0.3+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/libvcflib-yGpKWH' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), cmake, markdown, libtabixpp-dev, libbz2-dev, libdisorder-dev, libsmithwaterman-dev, libssw-dev, libfastahack-dev, pkg-config, debhelper, 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), cmake, markdown, libtabixpp-dev, libbz2-dev, libdisorder-dev, libsmithwaterman-dev, libssw-dev, libfastahack-dev, pkg-config, debhelper, 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 [488 B] Get:5 copy:/<>/apt_archive ./ Packages [559 B] Fetched 2004 B in 0s (0 B/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 bsdextrautils cmake cmake-data cpp-12-arm-linux-gnueabihf cpp-arm-linux-gnueabihf cross-config crossbuild-essential-armhf debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++-12-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-11-base:armhf gcc-12-arm-linux-gnueabihf gcc-12-arm-linux-gnueabihf-base gcc-12-base:armhf gcc-12-cross-base gcc-arm-linux-gnueabihf gettext gettext-base groff-base intltool-debian libarchive-zip-perl libarchive13 libasan6:armhf libasan8-armhf-cross libatomic1:armhf libatomic1-armhf-cross libbrotli1 libbrotli1:armhf libbz2-1.0:armhf libbz2-dev:armhf libc6:armhf libc6-armhf-cross libc6-dev:armhf libc6-dev-armhf-cross libcom-err2:armhf libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev:armhf libcrypt1:armhf libcurl3-gnutls:armhf libcurl4 libcurl4-gnutls-dev:armhf libdb5.3:armhf libdebhelper-perl libdebian-dpkgcross-perl libdeflate-dev:armhf libdeflate0:armhf libdisorder-dev:armhf libdisorder0:armhf libelf1 libexpat1 libfastahack-dev:armhf libfastahack0:armhf libffi8:armhf libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-11-dev:armhf libgcc-12-dev-armhf-cross libgcc-s1:armhf libgcc-s1-armhf-cross libgmp10:armhf libgnutls30:armhf libgomp1:armhf libgomp1-armhf-cross libgssapi-krb5-2:armhf libhogweed6:armhf libhts-dev:armhf libhts3:armhf libhtscodecs2:armhf libicu72 libidn2-0:armhf libio-string-perl libjsoncpp25 libk5crypto3:armhf libkeyutils1:armhf libkrb5-3:armhf libkrb5support0:armhf libldap-2.5-0 libldap-2.5-0:armhf liblocale-gettext-perl liblzma-dev:armhf liblzma5:armhf libmagic-mgc libmagic1 libncurses6 libncursesw6 libnettle8:armhf libnghttp2-14 libnghttp2-14:armhf libnsl-dev:armhf libnsl2:armhf libp11-kit0:armhf libpipeline1 libpkgconf3 libprocps8 libpsl5 libpsl5:armhf librhash0 librtmp1 librtmp1:armhf libsasl2-2 libsasl2-2:armhf libsasl2-modules-db libsasl2-modules-db:armhf libsmithwaterman-dev:armhf libsmithwaterman0:armhf libssh2-1 libssh2-1:armhf libssl3:armhf libssw-dev:armhf libssw0:armhf libstdc++-11-dev:armhf libstdc++-12-dev-armhf-cross libstdc++6:armhf libstdc++6-armhf-cross libsub-override-perl libtabixpp-dev:armhf libtabixpp0:armhf libtasn1-6:armhf libtirpc-dev:armhf libtirpc3:armhf libtool libubsan1:armhf libubsan1-armhf-cross libuchardet0 libunistring2:armhf libuv1 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl libzstd1:armhf linux-libc-dev:armhf linux-libc-dev-armhf-cross m4 man-db markdown pkg-config:armhf pkgconf:armhf pkgconf-bin po-debconf procps sensible-utils ucf zlib1g:armhf zlib1g-dev:armhf Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc cmake-doc cmake-format elpa-cmake-mode ninja-build gcc-12-locales cpp-12-doc cpp-doc dh-make binutils-multiarch gcc-12-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 libnss-nis:armhf libnss-nisplus:armhf manpages-dev:armhf libcurl4-doc:armhf libgnutls28-dev:armhf libidn11-dev:armhf libkrb5-dev:armhf libldap2-dev:armhf librtmp-dev:armhf libssh2-1-dev:armhf gnutls-bin:armhf krb5-doc:armhf krb5-user:armhf liblzma-doc:armhf libstdc++-11-doc:armhf libtool-doc gfortran | fortran95-compiler gcj-jdk libyaml-shell-perl m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx bzip2-doc:armhf ca-certificates:armhf ca-certificates libarchive-cpio-perl krb5-locales:armhf libldap-common libldap-common:armhf libgpm2 publicsuffix publicsuffix:armhf libsasl2-modules libsasl2-modules:armhf 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 bsdextrautils cmake cmake-data cpp-12-arm-linux-gnueabihf cpp-arm-linux-gnueabihf cross-config crossbuild-essential-armhf debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++-12-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-11-base:armhf gcc-12-arm-linux-gnueabihf gcc-12-arm-linux-gnueabihf-base gcc-12-base:armhf gcc-12-cross-base gcc-arm-linux-gnueabihf gettext gettext-base groff-base intltool-debian libarchive-zip-perl libarchive13 libasan6:armhf libasan8-armhf-cross libatomic1:armhf libatomic1-armhf-cross libbrotli1 libbrotli1:armhf libbz2-1.0:armhf libbz2-dev:armhf libc6:armhf libc6-armhf-cross libc6-dev:armhf libc6-dev-armhf-cross libcom-err2:armhf libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev:armhf libcrypt1:armhf libcurl3-gnutls:armhf libcurl4 libcurl4-gnutls-dev:armhf libdb5.3:armhf libdebhelper-perl libdebian-dpkgcross-perl libdeflate-dev:armhf libdeflate0:armhf libdisorder-dev:armhf libdisorder0:armhf libelf1 libexpat1 libfastahack-dev:armhf libfastahack0:armhf libffi8:armhf libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-11-dev:armhf libgcc-12-dev-armhf-cross libgcc-s1:armhf libgcc-s1-armhf-cross libgmp10:armhf libgnutls30:armhf libgomp1:armhf libgomp1-armhf-cross libgssapi-krb5-2:armhf libhogweed6:armhf libhts-dev:armhf libhts3:armhf libhtscodecs2:armhf libicu72 libidn2-0:armhf libio-string-perl libjsoncpp25 libk5crypto3:armhf libkeyutils1:armhf libkrb5-3:armhf libkrb5support0:armhf libldap-2.5-0 libldap-2.5-0:armhf liblocale-gettext-perl liblzma-dev:armhf liblzma5:armhf libmagic-mgc libmagic1 libncurses6 libncursesw6 libnettle8:armhf libnghttp2-14 libnghttp2-14:armhf libnsl-dev:armhf libnsl2:armhf libp11-kit0:armhf libpipeline1 libpkgconf3 libprocps8 libpsl5 libpsl5:armhf librhash0 librtmp1 librtmp1:armhf libsasl2-2 libsasl2-2:armhf libsasl2-modules-db libsasl2-modules-db:armhf libsmithwaterman-dev:armhf libsmithwaterman0:armhf libssh2-1 libssh2-1:armhf libssl3:armhf libssw-dev:armhf libssw0:armhf libstdc++-11-dev:armhf libstdc++-12-dev-armhf-cross libstdc++6:armhf libstdc++6-armhf-cross libsub-override-perl libtabixpp-dev:armhf libtabixpp0:armhf libtasn1-6:armhf libtirpc-dev:armhf libtirpc3:armhf libtool libubsan1:armhf libubsan1-armhf-cross libuchardet0 libunistring2:armhf libuv1 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl libzstd1:armhf linux-libc-dev:armhf linux-libc-dev-armhf-cross m4 man-db markdown pkg-config:armhf pkgconf:armhf pkgconf-bin po-debconf procps sbuild-build-depends-main-dummy:armhf sensible-utils ucf zlib1g:armhf zlib1g-dev:armhf 0 upgraded, 161 newly installed, 0 to remove and 0 not upgraded. Need to get 106 MB of archives. After this operation, 399 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [984 B] Get:2 http://localhost:3142/debian sid/main amd64 liblocale-gettext-perl amd64 1.07-4+b3 [15.1 kB] Get:3 http://localhost:3142/debian sid/main amd64 libncurses6 amd64 6.3+20220423-2 [102 kB] Get:4 http://localhost:3142/debian sid/main amd64 libncursesw6 amd64 6.3+20220423-2 [133 kB] Get:5 http://localhost:3142/debian sid/main amd64 libprocps8 amd64 2:3.3.17-7.1 [45.1 kB] Get:6 http://localhost:3142/debian sid/main amd64 procps amd64 2:3.3.17-7.1 [482 kB] Get:7 http://localhost:3142/debian sid/main amd64 sensible-utils all 0.0.17 [21.5 kB] Get:8 http://localhost:3142/debian sid/main amd64 libmagic-mgc amd64 1:5.41-4 [295 kB] Get:9 http://localhost:3142/debian sid/main amd64 libmagic1 amd64 1:5.41-4 [129 kB] Get:10 http://localhost:3142/debian sid/main amd64 file amd64 1:5.41-4 [67.0 kB] Get:11 http://localhost:3142/debian sid/main amd64 gettext-base amd64 0.21-10 [160 kB] Get:12 http://localhost:3142/debian sid/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get:13 http://localhost:3142/debian sid/main amd64 groff-base amd64 1.22.4-9 [916 kB] Get:14 http://localhost:3142/debian sid/main amd64 bsdextrautils amd64 2.38.1-4 [86.2 kB] Get:15 http://localhost:3142/debian sid/main amd64 libpipeline1 amd64 1.5.7-1 [38.5 kB] Get:16 http://localhost:3142/debian sid/main amd64 man-db amd64 2.11.1-1 [1384 kB] Get:17 http://localhost:3142/debian sid/main amd64 ucf all 3.0043 [74.0 kB] Get:18 http://localhost:3142/debian sid/main amd64 m4 amd64 1.4.19-1 [291 kB] Get:19 http://localhost:3142/debian sid/main amd64 autoconf all 2.71-2 [343 kB] Get:20 http://localhost:3142/debian sid/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get:21 http://localhost:3142/debian sid/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get:22 http://localhost:3142/debian sid/main amd64 autopoint all 0.21-10 [495 kB] Get:23 http://localhost:3142/debian sid/main amd64 binutils-arm-linux-gnueabihf amd64 2.39-8 [3230 kB] Get:24 http://localhost:3142/debian sid/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get:25 http://localhost:3142/debian sid/main amd64 libxml2 amd64 2.9.14+dfsg-1.1+b2 [687 kB] Get:26 http://localhost:3142/debian sid/main amd64 libarchive13 amd64 3.6.0-1 [350 kB] Get:27 http://localhost:3142/debian sid/main amd64 libbrotli1 amd64 1.0.9-2+b5 [279 kB] Get:28 http://localhost:3142/debian sid/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-10 [20.3 kB] Get:29 http://localhost:3142/debian sid/main amd64 libsasl2-2 amd64 2.1.28+dfsg-10 [59.7 kB] Get:30 http://localhost:3142/debian sid/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-2+b1 [183 kB] Get:31 http://localhost:3142/debian sid/main amd64 libnghttp2-14 amd64 1.50.0-1+b1 [73.1 kB] Get:32 http://localhost:3142/debian sid/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get:33 http://localhost:3142/debian sid/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:34 http://localhost:3142/debian sid/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get:35 http://localhost:3142/debian sid/main amd64 libcurl4 amd64 7.86.0-2 [364 kB] Get:36 http://localhost:3142/debian sid/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get:37 http://localhost:3142/debian sid/main amd64 libjsoncpp25 amd64 1.9.5-4 [78.6 kB] Get:38 http://localhost:3142/debian sid/main amd64 librhash0 amd64 1.4.3-3 [134 kB] Get:39 http://localhost:3142/debian sid/main amd64 libuv1 amd64 1.44.2-1 [140 kB] Get:40 http://localhost:3142/debian sid/main amd64 cmake-data all 3.25.1-1 [2026 kB] Get:41 http://localhost:3142/debian sid/main amd64 cmake amd64 3.25.1-1 [8692 kB] Get:42 http://localhost:3142/debian sid/main amd64 gcc-12-arm-linux-gnueabihf-base amd64 12.2.0-9cross2 [37.3 kB] Get:43 http://localhost:3142/debian sid/main amd64 cpp-12-arm-linux-gnueabihf amd64 12.2.0-9cross2 [8666 kB] Get:44 http://localhost:3142/debian sid/main amd64 cpp-arm-linux-gnueabihf amd64 4:12.2.0-1 [17.2 kB] Get:45 http://localhost:3142/debian sid/main amd64 cross-config all 2.6.19 [16.3 kB] Get:46 http://localhost:3142/debian sid/main amd64 gcc-12-cross-base all 12.2.0-9cross2 [32.8 kB] Get:47 http://localhost:3142/debian sid/main amd64 libc6-armhf-cross all 2.36-3cross1 [872 kB] Get:48 http://localhost:3142/debian sid/main amd64 libgcc-s1-armhf-cross all 12.2.0-9cross2 [36.7 kB] Get:49 http://localhost:3142/debian sid/main amd64 libgomp1-armhf-cross all 12.2.0-9cross2 [94.8 kB] Get:50 http://localhost:3142/debian sid/main amd64 libatomic1-armhf-cross all 12.2.0-9cross2 [6772 B] Get:51 http://localhost:3142/debian sid/main amd64 libasan8-armhf-cross all 12.2.0-9cross2 [2113 kB] Get:52 http://localhost:3142/debian sid/main amd64 libstdc++6-armhf-cross all 12.2.0-9cross2 [476 kB] Get:53 http://localhost:3142/debian sid/main amd64 libubsan1-armhf-cross all 12.2.0-9cross2 [855 kB] Get:54 http://localhost:3142/debian sid/main amd64 libgcc-12-dev-armhf-cross all 12.2.0-9cross2 [742 kB] Get:55 http://localhost:3142/debian sid/main amd64 gcc-12-arm-linux-gnueabihf amd64 12.2.0-9cross2 [17.0 MB] Get:56 http://localhost:3142/debian sid/main amd64 gcc-arm-linux-gnueabihf amd64 4:12.2.0-1 [1464 B] Get:57 http://localhost:3142/debian sid/main amd64 linux-libc-dev-armhf-cross all 6.0.6-2cross1 [1763 kB] Get:58 http://localhost:3142/debian sid/main amd64 libc6-dev-armhf-cross all 2.36-3cross1 [1260 kB] Get:59 http://localhost:3142/debian sid/main amd64 libstdc++-12-dev-armhf-cross all 12.2.0-9cross2 [2036 kB] Get:60 http://localhost:3142/debian sid/main amd64 g++-12-arm-linux-gnueabihf amd64 12.2.0-9cross2 [9595 kB] Get:61 http://localhost:3142/debian sid/main amd64 g++-arm-linux-gnueabihf amd64 4:12.2.0-1 [1180 B] Get:62 http://localhost:3142/debian sid/main amd64 libconfig-inifiles-perl all 3.000003-1 [52.1 kB] Get:63 http://localhost:3142/debian sid/main amd64 libio-string-perl all 1.08-3.1 [11.8 kB] Get:64 http://localhost:3142/debian sid/main amd64 libxml-namespacesupport-perl all 1.12-2 [15.1 kB] Get:65 http://localhost:3142/debian sid/main amd64 libxml-sax-base-perl all 1.09-3 [20.6 kB] Get:66 http://localhost:3142/debian sid/main amd64 libxml-sax-perl all 1.02+dfsg-3 [59.4 kB] Get:67 http://localhost:3142/debian sid/main amd64 libxml-libxml-perl amd64 2.0207+dfsg+really+2.0134-1+b1 [322 kB] Get:68 http://localhost:3142/debian sid/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:69 http://localhost:3142/debian sid/main amd64 libyaml-perl all 1.30-2 [63.4 kB] Get:70 http://localhost:3142/debian sid/main amd64 libconfig-auto-perl all 0.44-2 [19.2 kB] Get:71 http://localhost:3142/debian sid/main amd64 libfile-which-perl all 1.27-2 [15.1 kB] Get:72 http://localhost:3142/debian sid/main amd64 libfile-homedir-perl all 1.006-2 [42.4 kB] Get:73 http://localhost:3142/debian sid/main amd64 libdebian-dpkgcross-perl all 2.6.19 [15.3 kB] Get:74 http://localhost:3142/debian sid/main amd64 dpkg-cross all 2.6.19 [25.6 kB] Get:75 http://localhost:3142/debian sid/main amd64 crossbuild-essential-armhf all 12.9 [6708 B] Get:76 http://localhost:3142/debian sid/main amd64 libdebhelper-perl all 13.11.1 [80.8 kB] Get:77 http://localhost:3142/debian sid/main amd64 libtool all 2.4.7-5 [517 kB] Get:78 http://localhost:3142/debian sid/main amd64 dh-autoreconf all 20 [17.1 kB] Get:79 http://localhost:3142/debian sid/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:80 http://localhost:3142/debian sid/main amd64 libsub-override-perl all 0.09-4 [9304 B] Get:81 http://localhost:3142/debian sid/main amd64 libfile-stripnondeterminism-perl all 1.13.0-2 [19.4 kB] Get:82 http://localhost:3142/debian sid/main amd64 dh-strip-nondeterminism all 1.13.0-2 [8556 B] Get:83 http://localhost:3142/debian sid/main amd64 libelf1 amd64 0.188-1 [172 kB] Get:84 http://localhost:3142/debian sid/main amd64 dwz amd64 0.14+20220924-2 [109 kB] Get:85 http://localhost:3142/debian sid/main amd64 gettext amd64 0.21-10 [1300 kB] Get:86 http://localhost:3142/debian sid/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:87 http://localhost:3142/debian sid/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get:88 http://localhost:3142/debian sid/main amd64 debhelper all 13.11.1 [941 kB] Get:89 http://localhost:3142/debian sid/main armhf gcc-11-base armhf 11.3.0-8 [209 kB] Get:90 http://localhost:3142/debian sid/main armhf gcc-12-base armhf 12.2.0-9 [37.0 kB] Get:91 http://localhost:3142/debian sid/main armhf libgcc-s1 armhf 12.2.0-9 [36.6 kB] Get:92 http://localhost:3142/debian sid/main armhf libc6 armhf 2.36-6 [2184 kB] Get:93 http://localhost:3142/debian sid/main armhf libasan6 armhf 11.3.0-8 [1971 kB] Get:94 http://localhost:3142/debian sid/main armhf libatomic1 armhf 12.2.0-9 [7044 B] Get:95 http://localhost:3142/debian sid/main armhf libbrotli1 armhf 1.0.9-2+b5 [261 kB] Get:96 http://localhost:3142/debian sid/main armhf libbz2-1.0 armhf 1.0.8-5+b1 [44.1 kB] Get:97 http://localhost:3142/debian sid/main armhf linux-libc-dev armhf 6.0.10-2 [1650 kB] Get:98 http://localhost:3142/debian sid/main armhf libcrypt1 armhf 1:4.4.33-1 [95.6 kB] Get:99 http://localhost:3142/debian sid/main armhf libcrypt-dev armhf 1:4.4.33-1 [125 kB] Get:100 http://localhost:3142/debian sid/main armhf libcom-err2 armhf 1.46.6~rc1-1+b1 [14.1 kB] Get:101 http://localhost:3142/debian sid/main armhf libkrb5support0 armhf 1.20.1-1 [29.2 kB] Get:102 http://localhost:3142/debian sid/main armhf libk5crypto3 armhf 1.20.1-1 [74.4 kB] Get:103 http://localhost:3142/debian sid/main armhf libkeyutils1 armhf 1.6.3-1 [14.7 kB] Get:104 http://localhost:3142/debian sid/main armhf libssl3 armhf 3.0.7-1 [1656 kB] Get:105 http://localhost:3142/debian sid/main armhf libkrb5-3 armhf 1.20.1-1 [287 kB] Get:106 http://localhost:3142/debian sid/main armhf libgssapi-krb5-2 armhf 1.20.1-1 [111 kB] Get:107 http://localhost:3142/debian sid/main armhf libtirpc3 armhf 1.3.3+ds-1 [72.9 kB] Get:108 http://localhost:3142/debian sid/main armhf libnsl2 armhf 1.3.0-2 [33.9 kB] Get:109 http://localhost:3142/debian sid/main armhf libtirpc-dev armhf 1.3.3+ds-1 [182 kB] Get:110 http://localhost:3142/debian sid/main armhf libnsl-dev armhf 1.3.0-2 [62.1 kB] Get:111 http://localhost:3142/debian sid/main armhf libc6-dev armhf 2.36-6 [1264 kB] Get:112 http://localhost:3142/debian sid/main armhf libbz2-dev armhf 1.0.8-5+b1 [28.1 kB] Get:113 http://localhost:3142/debian sid/main armhf libgmp10 armhf 2:6.2.1+dfsg1-1.1 [514 kB] Get:114 http://localhost:3142/debian sid/main armhf libnettle8 armhf 3.8.1-2 [296 kB] Get:115 http://localhost:3142/debian sid/main armhf libhogweed6 armhf 3.8.1-2 [315 kB] Get:116 http://localhost:3142/debian sid/main armhf libunistring2 armhf 1.0-2 [409 kB] Get:117 http://localhost:3142/debian sid/main armhf libidn2-0 armhf 2.3.3-1+b1 [120 kB] Get:118 http://localhost:3142/debian sid/main armhf libffi8 armhf 3.4.4-1 [19.5 kB] Get:119 http://localhost:3142/debian sid/main armhf libp11-kit0 armhf 0.24.1-1 [326 kB] Get:120 http://localhost:3142/debian sid/main armhf libtasn1-6 armhf 4.19.0-2 [51.2 kB] Get:121 http://localhost:3142/debian sid/main armhf libgnutls30 armhf 3.7.8-4 [1304 kB] Get:122 http://localhost:3142/debian sid/main armhf libdb5.3 armhf 5.3.28+dfsg1-0.10 [595 kB] Get:123 http://localhost:3142/debian sid/main armhf libsasl2-modules-db armhf 2.1.28+dfsg-10 [19.0 kB] Get:124 http://localhost:3142/debian sid/main armhf libsasl2-2 armhf 2.1.28+dfsg-10 [52.3 kB] Get:125 http://localhost:3142/debian sid/main armhf libldap-2.5-0 armhf 2.5.13+dfsg-2+b1 [158 kB] Get:126 http://localhost:3142/debian sid/main armhf libnghttp2-14 armhf 1.50.0-1+b1 [62.5 kB] Get:127 http://localhost:3142/debian sid/main armhf libpsl5 armhf 0.21.0-1.2 [56.1 kB] Get:128 http://localhost:3142/debian sid/main armhf zlib1g armhf 1:1.2.13.dfsg-1 [73.8 kB] Get:129 http://localhost:3142/debian sid/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [55.2 kB] Get:130 http://localhost:3142/debian sid/main armhf libssh2-1 armhf 1.10.0-3+b1 [163 kB] Get:131 http://localhost:3142/debian sid/main armhf libzstd1 armhf 1.5.2+dfsg-1 [237 kB] Get:132 http://localhost:3142/debian sid/main armhf libcurl3-gnutls armhf 7.86.0-2 [321 kB] Get:133 http://localhost:3142/debian sid/main armhf libcurl4-gnutls-dev armhf 7.86.0-2 [423 kB] Get:134 http://localhost:3142/debian sid/main armhf libdeflate0 armhf 1.14-1 [52.2 kB] Get:135 http://localhost:3142/debian sid/main armhf libdeflate-dev armhf 1.14-1 [48.7 kB] Get:136 http://localhost:3142/debian sid/main armhf libdisorder0 armhf 0.0.2+git20130809.8062ee1-4+b1 [5220 B] Get:137 http://localhost:3142/debian sid/main armhf libdisorder-dev armhf 0.0.2+git20130809.8062ee1-4+b1 [4732 B] Get:138 http://localhost:3142/debian sid/main armhf libstdc++6 armhf 12.2.0-9 [519 kB] Get:139 http://localhost:3142/debian sid/main armhf libfastahack0 armhf 1.0.0+dfsg-10 [24.3 kB] Get:140 http://localhost:3142/debian sid/main armhf libfastahack-dev armhf 1.0.0+dfsg-10 [27.9 kB] Get:141 http://localhost:3142/debian sid/main armhf libgomp1 armhf 12.2.0-9 [97.0 kB] Get:142 http://localhost:3142/debian sid/main armhf libubsan1 armhf 12.2.0-9 [856 kB] Get:143 http://localhost:3142/debian sid/main armhf libgcc-11-dev armhf 11.3.0-8 [708 kB] Get:144 http://localhost:3142/debian sid/main armhf libhtscodecs2 armhf 1.3.0-4 [60.4 kB] Get:145 http://localhost:3142/debian sid/main armhf liblzma5 armhf 5.2.9-0.0 [179 kB] Get:146 http://localhost:3142/debian sid/main armhf libhts3 armhf 1.16+ds-3 [375 kB] Get:147 http://localhost:3142/debian sid/main armhf liblzma-dev armhf 5.2.9-0.0 [236 kB] Get:148 http://localhost:3142/debian sid/main armhf zlib1g-dev armhf 1:1.2.13.dfsg-1 [902 kB] Get:149 http://localhost:3142/debian sid/main armhf libhts-dev armhf 1.16+ds-3 [1517 kB] Get:150 http://localhost:3142/debian sid/main amd64 libpkgconf3 amd64 1.8.0-11 [35.7 kB] Get:151 http://localhost:3142/debian sid/main armhf libsmithwaterman0 armhf 0.0+git20160702.2610e25-12+b1 [33.0 kB] Get:152 http://localhost:3142/debian sid/main armhf libsmithwaterman-dev armhf 0.0+git20160702.2610e25-12+b1 [38.2 kB] Get:153 http://localhost:3142/debian sid/main armhf libssw0 armhf 1.1-13 [21.2 kB] Get:154 http://localhost:3142/debian sid/main armhf libssw-dev armhf 1.1-13 [24.3 kB] Get:155 http://localhost:3142/debian sid/main armhf libstdc++-11-dev armhf 11.3.0-8 [1982 kB] Get:156 http://localhost:3142/debian sid/main armhf libtabixpp0 armhf 1.1.1-1 [8976 B] Get:157 http://localhost:3142/debian sid/main armhf libtabixpp-dev armhf 1.1.1-1 [8368 B] Get:158 http://localhost:3142/debian sid/main amd64 markdown all 1.0.1-12 [17.7 kB] Get:159 http://localhost:3142/debian sid/main amd64 pkgconf-bin amd64 1.8.0-11 [29.2 kB] Get:160 http://localhost:3142/debian sid/main armhf pkgconf armhf 1.8.0-11 [25.6 kB] Get:161 http://localhost:3142/debian sid/main armhf pkg-config armhf 1.8.0-11 [13.4 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 106 MB in 1s (153 MB/s) Selecting previously unselected package liblocale-gettext-perl. (Reading database ... 15684 files and directories currently installed.) Preparing to unpack .../000-liblocale-gettext-perl_1.07-4+b3_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-4+b3) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../001-libncurses6_6.3+20220423-2_amd64.deb ... Unpacking libncurses6:amd64 (6.3+20220423-2) ... Selecting previously unselected package libncursesw6:amd64. Preparing to unpack .../002-libncursesw6_6.3+20220423-2_amd64.deb ... Unpacking libncursesw6:amd64 (6.3+20220423-2) ... Selecting previously unselected package libprocps8:amd64. Preparing to unpack .../003-libprocps8_2%3a3.3.17-7.1_amd64.deb ... Unpacking libprocps8:amd64 (2:3.3.17-7.1) ... Selecting previously unselected package procps. Preparing to unpack .../004-procps_2%3a3.3.17-7.1_amd64.deb ... Unpacking procps (2:3.3.17-7.1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../005-sensible-utils_0.0.17_all.deb ... Unpacking sensible-utils (0.0.17) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../006-libmagic-mgc_1%3a5.41-4_amd64.deb ... Unpacking libmagic-mgc (1:5.41-4) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../007-libmagic1_1%3a5.41-4_amd64.deb ... Unpacking libmagic1:amd64 (1:5.41-4) ... Selecting previously unselected package file. Preparing to unpack .../008-file_1%3a5.41-4_amd64.deb ... Unpacking file (1:5.41-4) ... Selecting previously unselected package gettext-base. Preparing to unpack .../009-gettext-base_0.21-10_amd64.deb ... Unpacking gettext-base (0.21-10) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../010-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../011-groff-base_1.22.4-9_amd64.deb ... Unpacking groff-base (1.22.4-9) ... 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Preparing to unpack .../018-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../019-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../020-autopoint_0.21-10_all.deb ... Unpacking autopoint (0.21-10) ... Selecting previously unselected package binutils-arm-linux-gnueabihf. Preparing to unpack .../021-binutils-arm-linux-gnueabihf_2.39-8_amd64.deb ... Unpacking binutils-arm-linux-gnueabihf (2.39-8) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../022-libicu72_72.1-3_amd64.deb ... Unpacking libicu72:amd64 (72.1-3) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../023-libxml2_2.9.14+dfsg-1.1+b2_amd64.deb ... Unpacking libxml2:amd64 (2.9.14+dfsg-1.1+b2) ... Selecting previously unselected package libarchive13:amd64. Preparing to unpack .../024-libarchive13_3.6.0-1_amd64.deb ... Unpacking libarchive13:amd64 (3.6.0-1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../025-libbrotli1_1.0.9-2+b5_amd64.deb ... Unpacking libbrotli1:amd64 (1.0.9-2+b5) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../026-libsasl2-modules-db_2.1.28+dfsg-10_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../027-libsasl2-2_2.1.28+dfsg-10_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg-10) ... Selecting previously unselected package libldap-2.5-0:amd64. Preparing to unpack .../028-libldap-2.5-0_2.5.13+dfsg-2+b1_amd64.deb ... Unpacking libldap-2.5-0:amd64 (2.5.13+dfsg-2+b1) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../029-libnghttp2-14_1.50.0-1+b1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.50.0-1+b1) ... Selecting previously unselected package libpsl5:amd64. Preparing to unpack .../030-libpsl5_0.21.0-1.2_amd64.deb ... Unpacking libpsl5:amd64 (0.21.0-1.2) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../031-librtmp1_2.4+20151223.gitfa8646d.1-2+b2_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libssh2-1:amd64. Preparing to unpack .../032-libssh2-1_1.10.0-3+b1_amd64.deb ... Unpacking libssh2-1:amd64 (1.10.0-3+b1) ... Selecting previously unselected package libcurl4:amd64. Preparing to unpack .../033-libcurl4_7.86.0-2_amd64.deb ... Unpacking libcurl4:amd64 (7.86.0-2) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../034-libexpat1_2.5.0-1_amd64.deb ... Unpacking libexpat1:amd64 (2.5.0-1) ... Selecting previously unselected package libjsoncpp25:amd64. Preparing to unpack .../035-libjsoncpp25_1.9.5-4_amd64.deb ... Unpacking libjsoncpp25:amd64 (1.9.5-4) ... Selecting previously unselected package librhash0:amd64. Preparing to unpack .../036-librhash0_1.4.3-3_amd64.deb ... Unpacking librhash0:amd64 (1.4.3-3) ... Selecting previously unselected package libuv1:amd64. Preparing to unpack .../037-libuv1_1.44.2-1_amd64.deb ... Unpacking libuv1:amd64 (1.44.2-1) ... Selecting previously unselected package cmake-data. Preparing to unpack .../038-cmake-data_3.25.1-1_all.deb ... Unpacking cmake-data (3.25.1-1) ... Selecting previously unselected package cmake. Preparing to unpack .../039-cmake_3.25.1-1_amd64.deb ... Unpacking cmake (3.25.1-1) ... Selecting previously unselected package gcc-12-arm-linux-gnueabihf-base:amd64. Preparing to unpack .../040-gcc-12-arm-linux-gnueabihf-base_12.2.0-9cross2_amd64.deb ... Unpacking gcc-12-arm-linux-gnueabihf-base:amd64 (12.2.0-9cross2) ... 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Setting up libdebhelper-perl (13.11.1) ... Setting up libbrotli1:amd64 (1.0.9-2+b5) ... Setting up libnghttp2-14:amd64 (1.50.0-1+b1) ... Setting up libmagic1:amd64 (1:5.41-4) ... Setting up linux-libc-dev:armhf (6.0.10-2) ... Setting up libxml-namespacesupport-perl (1.12-2) ... Setting up gettext-base (0.21-10) ... Setting up m4 (1.4.19-1) ... Setting up file (1:5.41-4) ... Setting up libatomic1-armhf-cross (12.2.0-9cross2) ... Setting up libyaml-perl (1.30-2) ... Setting up gcc-12-base:armhf (12.2.0-9) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Setting up libxml-sax-base-perl (1.09-3) ... Setting up libio-string-perl (1.08-3.1) ... Setting up autotools-dev (20220109.1) ... Setting up cross-config (2.6.19) ... Setting up libpkgconf3:amd64 (1.8.0-11) ... Setting up libuv1:amd64 (1.44.2-1) ... Setting up libstdc++6-armhf-cross (12.2.0-9cross2) ... Setting up gcc-12-arm-linux-gnueabihf-base:amd64 (12.2.0-9cross2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libncurses6:amd64 (6.3+20220423-2) ... Setting up linux-libc-dev-armhf-cross (6.0.6-2cross1) ... Setting up autopoint (0.21-10) ... Setting up libjsoncpp25:amd64 (1.9.5-4) ... Setting up libubsan1-armhf-cross (12.2.0-9cross2) ... Setting up pkgconf-bin (1.8.0-11) ... Setting up libncursesw6:amd64 (6.3+20220423-2) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg-10) ... Setting up autoconf (2.71-2) ... Setting up sensible-utils (0.0.17) ... Setting up librhash0:amd64 (1.4.3-3) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libsub-override-perl (0.09-4) ... Setting up libssh2-1:amd64 (1.10.0-3+b1) ... Setting up cmake-data (3.25.1-1) ... Setting up libfile-homedir-perl (1.006-2) ... Setting up binutils-arm-linux-gnueabihf (2.39-8) ... Setting up libelf1:amd64 (0.188-1) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.1+b2) ... Setting up liblocale-gettext-perl (1.07-4+b3) ... Setting up libprocps8:amd64 (2:3.3.17-7.1) ... Setting up markdown (1.0.1-12) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libgomp1-armhf-cross (12.2.0-9cross2) ... Setting up libfile-stripnondeterminism-perl (1.13.0-2) ... Setting up libasan8-armhf-cross (12.2.0-9cross2) ... Setting up gettext (0.21-10) ... Setting up libtool (2.4.7-5) ... Setting up libarchive13:amd64 (3.6.0-1) ... Setting up libc6-dev-armhf-cross (2.36-3cross1) ... Setting up libldap-2.5-0:amd64 (2.5.13+dfsg-2+b1) ... Setting up pkgconf:armhf (1.8.0-11) ... Setting up cpp-12-arm-linux-gnueabihf (12.2.0-9cross2) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up pkg-config:armhf (1.8.0-11) ... Setting up ucf (3.0043) ... Setting up dh-strip-nondeterminism (1.13.0-2) ... Setting up dwz (0.14+20220924-2) ... Setting up libgcc-12-dev-armhf-cross (12.2.0-9cross2) ... Setting up groff-base (1.22.4-9) ... Setting up procps (2:3.3.17-7.1) ... Setting up libcurl4:amd64 (7.86.0-2) ... Setting up cpp-arm-linux-gnueabihf (4:12.2.0-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.11.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libxml-sax-perl (1.02+dfsg-3) ... 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 libstdc++-12-dev-armhf-cross (12.2.0-9cross2) ... Setting up gcc-12-arm-linux-gnueabihf (12.2.0-9cross2) ... Setting up libxml-libxml-perl (2.0207+dfsg+really+2.0134-1+b1) ... 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 cmake (3.25.1-1) ... Setting up gcc-arm-linux-gnueabihf (4:12.2.0-1) ... Setting up g++-12-arm-linux-gnueabihf (12.2.0-9cross2) ... Setting up debhelper (13.11.1) ... Setting up libxml-simple-perl (2.25-1) ... Setting up g++-arm-linux-gnueabihf (4:12.2.0-1) ... Setting up libconfig-auto-perl (0.44-2) ... Setting up libdebian-dpkgcross-perl (2.6.19) ... Setting up dpkg-cross (2.6.19) ... Setting up crossbuild-essential-armhf (12.9) ... Setting up libgcc-s1:armhf (12.2.0-9) ... Setting up libc6:armhf (2.36-6) ... Setting up libffi8:armhf (3.4.4-1) ... Setting up libtasn1-6:armhf (4.19.0-2) ... Setting up libbz2-1.0:armhf (1.0.8-5+b1) ... Setting up libdb5.3:armhf (5.3.28+dfsg1-0.10) ... Setting up libstdc++6:armhf (12.2.0-9) ... Setting up libhtscodecs2:armhf (1.3.0-4) ... Setting up libdisorder0:armhf (0.0.2+git20130809.8062ee1-4+b1) ... Setting up libzstd1:armhf (1.5.2+dfsg-1) ... Setting up libkeyutils1:armhf (1.6.3-1) ... Setting up liblzma5:armhf (5.2.9-0.0) ... Setting up libbrotli1:armhf (1.0.9-2+b5) ... Setting up libssl3:armhf (3.0.7-1) ... Setting up libsmithwaterman0:armhf (0.0+git20160702.2610e25-12+b1) ... Setting up libnghttp2-14:armhf (1.50.0-1+b1) ... Setting up libunistring2:armhf (1.0-2) ... Setting up libdeflate0:armhf (1.14-1) ... Setting up zlib1g:armhf (1:1.2.13.dfsg-1) ... Setting up libcrypt1:armhf (1:4.4.33-1) ... Setting up libidn2-0:armhf (2.3.3-1+b1) ... Setting up libcom-err2:armhf (1.46.6~rc1-1+b1) ... Setting up libgomp1:armhf (12.2.0-9) ... Setting up libfastahack0:armhf (1.0.0+dfsg-10) ... Setting up libasan6:armhf (11.3.0-8) ... Setting up libkrb5support0:armhf (1.20.1-1) ... Setting up libsasl2-modules-db:armhf (2.1.28+dfsg-10) ... Setting up libfastahack-dev:armhf (1.0.0+dfsg-10) ... Setting up libnettle8:armhf (3.8.1-2) ... Setting up libgmp10:armhf (2:6.2.1+dfsg1-1.1) ... Setting up libp11-kit0:armhf (0.24.1-1) ... Setting up libatomic1:armhf (12.2.0-9) ... Setting up libk5crypto3:armhf (1.20.1-1) ... Setting up libdisorder-dev:armhf (0.0.2+git20130809.8062ee1-4+b1) ... Setting up libsasl2-2:armhf (2.1.28+dfsg-10) ... Setting up liblzma-dev:armhf (5.2.9-0.0) ... Setting up libubsan1:armhf (12.2.0-9) ... Setting up libgcc-11-dev:armhf (11.3.0-8) ... Setting up libcrypt-dev:armhf (1:4.4.33-1) ... Setting up libssh2-1:armhf (1.10.0-3+b1) ... Setting up libkrb5-3:armhf (1.20.1-1) ... Setting up libdeflate-dev:armhf (1.14-1) ... Setting up libssw0:armhf (1.1-13) ... Setting up libpsl5:armhf (0.21.0-1.2) ... Setting up libhogweed6:armhf (3.8.1-2) ... Setting up libssw-dev:armhf (1.1-13) ... Setting up libgnutls30:armhf (3.7.8-4) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libgssapi-krb5-2:armhf (1.20.1-1) ... Setting up libsmithwaterman-dev:armhf (0.0+git20160702.2610e25-12+b1) ... Setting up libtirpc3:armhf (1.3.3+ds-1) ... Setting up libldap-2.5-0:armhf (2.5.13+dfsg-2+b1) ... Setting up libtirpc-dev:armhf (1.3.3+ds-1) ... Setting up libnsl2:armhf (1.3.0-2) ... Setting up libcurl3-gnutls:armhf (7.86.0-2) ... Setting up libcurl4-gnutls-dev:armhf (7.86.0-2) ... Setting up libnsl-dev:armhf (1.3.0-2) ... Setting up libc6-dev:armhf (2.36-6) ... Setting up libbz2-dev:armhf (1.0.8-5+b1) ... Setting up libhts3:armhf (1.16+ds-3) ... Setting up libstdc++-11-dev:armhf (11.3.0-8) ... Setting up zlib1g-dev:armhf (1:1.2.13.dfsg-1) ... Setting up libtabixpp0:armhf (1.1.1-1) ... Setting up libhts-dev:armhf (1.16+ds-3) ... Setting up libtabixpp-dev:armhf (1.1.1-1) ... Setting up sbuild-build-depends-main-dummy:armhf (0.invalid.0) ... Processing triggers for libc-bin (2.36-6) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (armhf included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.10.0-19-amd64 #1 SMP Debian 5.10.149-2 (2022-10-21) amd64 (x86_64) Toolchain package versions: binutils_2.39-8 dpkg-dev_1.21.11 g++-11_11.3.0-8 g++-12_12.2.0-9 gcc-11_11.3.0-8 gcc-12_12.2.0-9 libc6-dev_2.36-6 libstdc++-11-dev_11.3.0-8 libstdc++-12-dev_12.2.0-9 libstdc++-12-dev-armhf-cross_12.2.0-9cross2 libstdc++6_12.2.0-9 libstdc++6-armhf-cross_12.2.0-9cross2 linux-libc-dev_6.0.10-2 Package versions: adduser_3.129 apt_2.5.4 autoconf_2.71-2 automake_1:1.16.5-1.3 autopoint_0.21-10 autotools-dev_20220109.1 base-files_12.3 base-passwd_3.6.1 bash_5.2-2+b1 binutils_2.39-8 binutils-arm-linux-gnueabihf_2.39-8 binutils-common_2.39-8 binutils-x86-64-linux-gnu_2.39-8 bsdextrautils_2.38.1-4 bsdutils_1:2.38.1-4 build-essential_12.9 bzip2_1.0.8-5+b1 cmake_3.25.1-1 cmake-data_3.25.1-1 coreutils_9.1-1 cpp_4:12.2.0-1 cpp-11_11.3.0-8 cpp-12_12.2.0-9 cpp-12-arm-linux-gnueabihf_12.2.0-9cross2 cpp-arm-linux-gnueabihf_4:12.2.0-1 cross-config_2.6.19 crossbuild-essential-armhf_12.9 dash_0.5.11+git20210903+057cd650a4ed-9 debconf_1.5.80 debhelper_13.11.1 debian-archive-keyring_2021.1.1 debianutils_5.7-0.4 dh-autoreconf_20 dh-strip-nondeterminism_1.13.0-2 diffutils_1:3.8-1 dpkg_1.21.11 dpkg-cross_2.6.19 dpkg-dev_1.21.11 dwz_0.14+20220924-2 e2fsprogs_1.46.6~rc1-1+b1 fakeroot_1.30.1-1 file_1:5.41-4 findutils_4.9.0-3 g++_4:12.2.0-1 g++-11_11.3.0-8 g++-12_12.2.0-9 g++-12-arm-linux-gnueabihf_12.2.0-9cross2 g++-arm-linux-gnueabihf_4:12.2.0-1 gcc_4:12.2.0-1 gcc-11_11.3.0-8 gcc-11-base_11.3.0-8 gcc-12_12.2.0-9 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libconfig-auto-perl_0.44-2 libconfig-inifiles-perl_3.000003-1 libcrypt-dev_1:4.4.33-1 libcrypt1_1:4.4.33-1 libctf-nobfd0_2.39-8 libctf0_2.39-8 libcurl3-gnutls_7.86.0-2 libcurl4_7.86.0-2 libcurl4-gnutls-dev_7.86.0-2 libdb5.3_5.3.28+dfsg1-0.10 libdebconfclient0_0.265 libdebhelper-perl_13.11.1 libdebian-dpkgcross-perl_2.6.19 libdeflate-dev_1.14-1 libdeflate0_1.14-1 libdisorder-dev_0.0.2+git20130809.8062ee1-4+b1 libdisorder0_0.0.2+git20130809.8062ee1-4+b1 libdpkg-perl_1.21.11 libelf1_0.188-1 libexpat1_2.5.0-1 libext2fs2_1.46.6~rc1-1+b1 libfakeroot_1.30.1-1 libfastahack-dev_1.0.0+dfsg-10 libfastahack0_1.0.0+dfsg-10 libffi8_3.4.4-1 libfile-find-rule-perl_0.34-3 libfile-homedir-perl_1.006-2 libfile-stripnondeterminism-perl_1.13.0-2 libfile-which-perl_1.27-2 libgcc-11-dev_11.3.0-8 libgcc-12-dev_12.2.0-9 libgcc-12-dev-armhf-cross_12.2.0-9cross2 libgcc-s1_12.2.0-9 libgcc-s1-armhf-cross_12.2.0-9cross2 libgcrypt20_1.10.1-3 libgdbm-compat4_1.23-3 libgdbm6_1.23-3 libgmp10_2:6.2.1+dfsg1-1.1 libgnutls30_3.7.8-4 libgomp1_12.2.0-9 libgomp1-armhf-cross_12.2.0-9cross2 libgpg-error0_1.46-1 libgprofng0_2.39-8 libgssapi-krb5-2_1.20.1-1 libhogweed6_3.8.1-2 libhts-dev_1.16+ds-3 libhts3_1.16+ds-3 libhtscodecs2_1.3.0-4 libicu72_72.1-3 libidn2-0_2.3.3-1+b1 libio-string-perl_1.08-3.1 libisl23_0.25-1 libitm1_12.2.0-9 libjsoncpp25_1.9.5-4 libk5crypto3_1.20.1-1 libkeyutils1_1.6.3-1 libkrb5-3_1.20.1-1 libkrb5support0_1.20.1-1 libldap-2.5-0_2.5.13+dfsg-2+b1 liblocale-gettext-perl_1.07-4+b3 liblsan0_12.2.0-9 liblz4-1_1.9.4-1 liblzma-dev_5.2.9-0.0 liblzma5_5.2.9-0.0 libmagic-mgc_1:5.41-4 libmagic1_1:5.41-4 libmd0_1.0.4-2 libmount1_2.38.1-4 libmpc3_1.2.1-2 libmpfr6_4.1.0-3 libncurses6_6.3+20220423-2 libncursesw6_6.3+20220423-2 libnettle8_3.8.1-2 libnghttp2-14_1.50.0-1+b1 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libnumber-compare-perl_0.03-3 libp11-kit0_0.24.1-1 libpam-modules_1.5.2-5 libpam-modules-bin_1.5.2-5 libpam-runtime_1.5.2-5 libpam0g_1.5.2-5 libpcre2-8-0_10.40-3 libpcre3_2:8.39-14 libperl5.34_5.34.0-5 libperl5.36_5.36.0-4 libpipeline1_1.5.7-1 libpkgconf3_1.8.0-11 libprocps8_2:3.3.17-7.1 libpsl5_0.21.0-1.2 libquadmath0_12.2.0-9 librhash0_1.4.3-3 librtmp1_2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2_2.1.28+dfsg-10 libsasl2-modules-db_2.1.28+dfsg-10 libseccomp2_2.5.4-1+b2 libselinux1_3.4-1+b3 libsemanage-common_3.4-1 libsemanage2_3.4-1+b3 libsepol2_3.4-2 libsmartcols1_2.38.1-4 libsmithwaterman-dev_0.0+git20160702.2610e25-12+b1 libsmithwaterman0_0.0+git20160702.2610e25-12+b1 libss2_1.46.6~rc1-1+b1 libssh2-1_1.10.0-3+b1 libssl3_3.0.7-1 libssw-dev_1.1-13 libssw0_1.1-13 libstdc++-11-dev_11.3.0-8 libstdc++-12-dev_12.2.0-9 libstdc++-12-dev-armhf-cross_12.2.0-9cross2 libstdc++6_12.2.0-9 libstdc++6-armhf-cross_12.2.0-9cross2 libsub-override-perl_0.09-4 libsystemd0_252.2-1 libtabixpp-dev_1.1.1-1 libtabixpp0_1.1.1-1 libtasn1-6_4.19.0-2 libtext-glob-perl_0.11-3 libtinfo6_6.3+20220423-2 libtirpc-common_1.3.3+ds-1 libtirpc-dev_1.3.3+ds-1 libtirpc3_1.3.3+ds-1 libtool_2.4.7-5 libtsan0_11.3.0-8 libtsan2_12.2.0-9 libubsan1_12.2.0-9 libubsan1-armhf-cross_12.2.0-9cross2 libuchardet0_0.0.7-1 libudev1_252.2-1 libunistring2_1.0-2 libuuid1_2.38.1-4 libuv1_1.44.2-1 libxml-libxml-perl_2.0207+dfsg+really+2.0134-1+b1 libxml-namespacesupport-perl_1.12-2 libxml-sax-base-perl_1.09-3 libxml-sax-perl_1.02+dfsg-3 libxml-simple-perl_2.25-1 libxml2_2.9.14+dfsg-1.1+b2 libxxhash0_0.8.1-1 libyaml-perl_1.30-2 libzstd1_1.5.2+dfsg-1 linux-libc-dev_6.0.10-2 linux-libc-dev-armhf-cross_6.0.6-2cross1 login_1:4.13+dfsg1-1 logsave_1.46.6~rc1-1+b1 m4_1.4.19-1 make_4.3-4.1 man-db_2.11.1-1 markdown_1.0.1-12 mawk_1.3.4.20200120-3.1 mount_2.38.1-4 ncurses-base_6.3+20220423-2 ncurses-bin_6.3+20220423-2 passwd_1:4.13+dfsg1-1 patch_2.7.6-7 perl_5.36.0-4 perl-base_5.36.0-4 perl-modules-5.34_5.34.0-5 perl-modules-5.36_5.36.0-4 pkg-config_1.8.0-11 pkgconf_1.8.0-11 pkgconf-bin_1.8.0-11 po-debconf_1.0.21+nmu1 procps_2:3.3.17-7.1 rpcsvc-proto_1.4.3-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.8-1 sensible-utils_0.0.17 sysvinit-utils_3.05-7 tar_1.34+dfsg-1.1 tzdata_2022f-1 ucf_3.0043 usrmerge_33 util-linux_2.38.1-4 util-linux-extra_2.38.1-4 xz-utils_5.2.9-0.0 zlib1g_1:1.2.13.dfsg-1 zlib1g-dev_1:1.2.13.dfsg-1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: libvcflib Binary: libvcflib1, libvcflib-dev, libvcflib-tools Architecture: any Version: 1.0.3+dfsg-2 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/vcflib/vcflib Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/libvcflib Vcs-Git: https://salsa.debian.org/med-team/libvcflib.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), cmake, markdown , libtabixpp-dev, libbz2-dev, libdisorder-dev, libsmithwaterman-dev, libssw-dev, libfastahack-dev, pkg-config, libgtest-dev , debhelper Package-List: libvcflib-dev deb libdevel optional arch=any libvcflib-tools deb science optional arch=any libvcflib1 deb libs optional arch=any Checksums-Sha1: 0b31c8107f13c5110ef7b1570b76b18868f415f2 7556108 libvcflib_1.0.3+dfsg.orig.tar.xz 73978caba911d75a46e033f6832287b9dcc02a1d 8100 libvcflib_1.0.3+dfsg-2.debian.tar.xz Checksums-Sha256: 34f4692321cbbfc7fa5761f8d61ec50dd44bafa3dc23a6dad82772114e551ddc 7556108 libvcflib_1.0.3+dfsg.orig.tar.xz 90f2687a06bcba4f158d64dccb01d849a532707204f283f23ef9b3cad8d09bac 8100 libvcflib_1.0.3+dfsg-2.debian.tar.xz Files: 02ce10be7db0d791ed63b017cb67829a 7556108 libvcflib_1.0.3+dfsg.orig.tar.xz c18af0929035cae01b94e1da191d6622 8100 libvcflib_1.0.3+dfsg-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmNAOFsRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtFLGQ//WYi969YOz00ouxRdiX+HdHQFfbn9FI3q 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signature: No public key dpkg-source: warning: cannot verify inline signature for ./libvcflib_1.0.3+dfsg-2.dsc: no acceptable signature found dpkg-source: info: extracting libvcflib in /<> dpkg-source: info: unpacking libvcflib_1.0.3+dfsg.orig.tar.xz dpkg-source: info: unpacking libvcflib_1.0.3+dfsg-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying no_fsom dpkg-source: info: applying use_debian_packaged_smithwaterman.patch dpkg-source: info: applying use_debian_packaged_fastahack.patch dpkg-source: info: applying use_debian_packaged_libssw.patch dpkg-source: info: applying shared_lib.patch dpkg-source: info: applying pkg-config.patch dpkg-source: info: applying tabix_linking dpkg-source: info: applying tests 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=crossqa PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=unstable-amd64-sbuild SCHROOT_CHROOT_NAME=sid-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1000 SCHROOT_GROUP=crossqa SCHROOT_SESSION_ID=sid-amd64-sbuild-a255a6f1-b126-40fb-8aa9-6aae4a424b0b SCHROOT_UID=1000 SCHROOT_USER=crossqa SHELL=/bin/sh USER=crossqa dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -aarmhf -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package libvcflib dpkg-buildpackage: info: source version 1.0.3+dfsg-2 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 --buildsystem cmake debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' dh_auto_clean || true make[1]: Leaving directory '/<>' dh_autoreconf_clean -O--buildsystem=cmake debian/rules override_dh_clean make[1]: Entering directory '/<>' dh_clean find . -name "*.o" -delete rm -f README.html make[1]: Leaving directory '/<>' debian/rules binary-arch dh binary-arch --buildsystem cmake dh_update_autotools_config -a -O--buildsystem=cmake dh_autoreconf -a -O--buildsystem=cmake debian/rules override_dh_auto_configure make[1]: Entering directory '/<>' dh_auto_configure -- -DOPENMP=ON -DCMAKE_BUILD_RPATH_USE_ORIGIN=ON 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_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_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 -DOPENMP=ON -DCMAKE_BUILD_RPATH_USE_ORIGIN=ON .. -- The C compiler identification is GNU 12.2.0 -- The CXX compiler identification is GNU 12.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/arm-linux-gnueabihf-gcc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/arm-linux-gnueabihf-g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found PkgConfig: /usr/bin/arm-linux-gnueabihf-pkg-config (found version "1.8.0") -- Found BZip2: /usr/lib/arm-linux-gnueabihf/libbz2.so (found version "1.0.8") -- Looking for BZ2_bzCompressInit -- Looking for BZ2_bzCompressInit - found -- Looking for lzma_auto_decoder in /usr/lib/arm-linux-gnueabihf/liblzma.so -- Looking for lzma_auto_decoder in /usr/lib/arm-linux-gnueabihf/liblzma.so - found -- Looking for lzma_easy_encoder in /usr/lib/arm-linux-gnueabihf/liblzma.so -- Looking for lzma_easy_encoder in /usr/lib/arm-linux-gnueabihf/liblzma.so - found -- Looking for lzma_lzma_preset in /usr/lib/arm-linux-gnueabihf/liblzma.so -- Looking for lzma_lzma_preset in /usr/lib/arm-linux-gnueabihf/liblzma.so - found -- Found LibLZMA: /usr/lib/arm-linux-gnueabihf/liblzma.so (found version "5.2.9") -- Found ZLIB: /usr/lib/arm-linux-gnueabihf/libz.so (found version "1.2.13") -- -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Checking for module 'htslib' -- Found htslib, version 1.16 -- Checking for module 'tabixpp' -- Package 'tabixpp', required by 'virtual:world', not found -- Checking for module 'libsmithwaterman' -- Found libsmithwaterman, version 0.0 -- Checking for module 'libfastahack' -- Found libfastahack, version 0.0 -- Found OpenMP_C: -fopenmp (found version "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") Pandoc needs to be installed to generate the man pages -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED PKGCONFIG_EXECUTABLE QMAKE_EXECUTABLE -- Build files have been written to: /<>/obj-arm-linux-gnueabihf make[1]: Leaving directory '/<>' debian/rules override_dh_auto_build make[1]: Entering directory '/<>' dh_auto_build cd obj-arm-linux-gnueabihf && make -j1 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: 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[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcflib.dir/build.make CMakeFiles/vcflib.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcflib.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcflib.dir/build.make CMakeFiles/vcflib.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 0%] Building CXX object CMakeFiles/vcflib.dir/src/Variant.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -Dvcflib_EXPORTS -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -fPIC -MD -MT CMakeFiles/vcflib.dir/src/Variant.cpp.o -MF CMakeFiles/vcflib.dir/src/Variant.cpp.o.d -o CMakeFiles/vcflib.dir/src/Variant.cpp.o -c /<>/src/Variant.cpp In file included from /<>/src/Variant.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 1%] Building CXX object CMakeFiles/vcflib.dir/src/rnglib.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -Dvcflib_EXPORTS -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -fPIC -MD -MT CMakeFiles/vcflib.dir/src/rnglib.cpp.o -MF CMakeFiles/vcflib.dir/src/rnglib.cpp.o.d -o CMakeFiles/vcflib.dir/src/rnglib.cpp.o -c /<>/src/rnglib.cpp [ 2%] Building CXX object CMakeFiles/vcflib.dir/src/var.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -Dvcflib_EXPORTS -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -fPIC -MD -MT CMakeFiles/vcflib.dir/src/var.cpp.o -MF CMakeFiles/vcflib.dir/src/var.cpp.o.d -o CMakeFiles/vcflib.dir/src/var.cpp.o -c /<>/src/var.cpp In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70, from /<>/src/var.hpp:17, from /<>/src/var.cpp:20: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘virtual void genotype::loadPop(std::vector, std::vector > > >&, std::string, long int)’ at /<>/src/var.cpp:286:23: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘virtual void genotype::loadPop(std::vector, std::vector > > >&, std::string, long int)’ at /<>/src/var.cpp:287:23: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘virtual void genotype::loadPop(std::vector, std::vector > > >&, std::string, long int)’ at /<>/src/var.cpp:288:23: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘virtual void genotype::loadPop(std::vector, std::vector > > >&, std::string, long int)’ at /<>/src/var.cpp:293:26: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘virtual void genotype::loadPop(std::vector, std::vector > > >&, std::string, long int)’ at /<>/src/var.cpp:296:26: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘virtual void genotype::loadPop(std::vector, std::vector > > >&, std::string, long int)’ at /<>/src/var.cpp:300:26: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘virtual void genotype::loadPop(std::vector, std::vector > > >&, std::string, long int)’ at /<>/src/var.cpp:303:23: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘virtual void genotype::loadPop(std::vector, std::vector > > >&, std::string, long int)’ at /<>/src/var.cpp:304:23: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘virtual void genotype::loadPop(std::vector, std::vector > > >&, std::string, long int)’ at /<>/src/var.cpp:305:23: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘virtual void genotype::loadPop(std::vector, std::vector > > >&, std::string, long int)’ at /<>/src/var.cpp:306:26: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘virtual void genotype::loadPop(std::vector, std::vector > > >&, std::string, long int)’ at /<>/src/var.cpp:307:26: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘virtual void genotype::loadPop(std::vector, std::vector > > >&, std::string, long int)’ at /<>/src/var.cpp:308:26: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘virtual void pooled::loadPop(std::vector, std::vector > > >&, std::string, long int)’ at /<>/src/var.cpp:185:18: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘virtual void pooled::loadPop(std::vector, std::vector > > >&, std::string, long int)’ at /<>/src/var.cpp:187:20: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘virtual void pooled::loadPop(std::vector, std::vector > > >&, std::string, long int)’ at /<>/src/var.cpp:188:20: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 2%] Building CXX object CMakeFiles/vcflib.dir/src/pdflib.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -Dvcflib_EXPORTS -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -fPIC -MD -MT CMakeFiles/vcflib.dir/src/pdflib.cpp.o -MF CMakeFiles/vcflib.dir/src/pdflib.cpp.o.d -o CMakeFiles/vcflib.dir/src/pdflib.cpp.o -c /<>/src/pdflib.cpp [ 3%] Building CXX object CMakeFiles/vcflib.dir/src/cdflib.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -Dvcflib_EXPORTS -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -fPIC -MD -MT CMakeFiles/vcflib.dir/src/cdflib.cpp.o -MF CMakeFiles/vcflib.dir/src/cdflib.cpp.o.d -o CMakeFiles/vcflib.dir/src/cdflib.cpp.o -c /<>/src/cdflib.cpp [ 3%] Building CXX object CMakeFiles/vcflib.dir/src/split.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -Dvcflib_EXPORTS -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -fPIC -MD -MT CMakeFiles/vcflib.dir/src/split.cpp.o -MF CMakeFiles/vcflib.dir/src/split.cpp.o.d -o CMakeFiles/vcflib.dir/src/split.cpp.o -c /<>/src/split.cpp [ 4%] Building C object CMakeFiles/vcflib.dir/filevercmp/filevercmp.c.o /usr/bin/arm-linux-gnueabihf-gcc -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -Dvcflib_EXPORTS -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT CMakeFiles/vcflib.dir/filevercmp/filevercmp.c.o -MF CMakeFiles/vcflib.dir/filevercmp/filevercmp.c.o.d -o CMakeFiles/vcflib.dir/filevercmp/filevercmp.c.o -c /<>/filevercmp/filevercmp.c [ 5%] Linking CXX shared library libvcflib.so /usr/bin/cmake -E cmake_link_script CMakeFiles/vcflib.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libvcflib.so.1 -o libvcflib.so.1 CMakeFiles/vcflib.dir/src/Variant.cpp.o CMakeFiles/vcflib.dir/src/rnglib.cpp.o CMakeFiles/vcflib.dir/src/var.cpp.o CMakeFiles/vcflib.dir/src/pdflib.cpp.o CMakeFiles/vcflib.dir/src/cdflib.cpp.o CMakeFiles/vcflib.dir/src/split.cpp.o CMakeFiles/vcflib.dir/filevercmp/filevercmp.c.o -lssw -ltabixpp -lsmithwaterman -ldisorder -lfastahack /usr/bin/cmake -E cmake_symlink_library libvcflib.so.1 libvcflib.so.1 libvcflib.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 5%] Built target vcflib make -f CMakeFiles/vcfecho.dir/build.make CMakeFiles/vcfecho.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfecho.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfecho.dir/build.make CMakeFiles/vcfecho.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 6%] Building CXX object CMakeFiles/vcfecho.dir/src/vcfecho.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfecho.dir/src/vcfecho.cpp.o -MF CMakeFiles/vcfecho.dir/src/vcfecho.cpp.o.d -o CMakeFiles/vcfecho.dir/src/vcfecho.cpp.o -c /<>/src/vcfecho.cpp In file included from /<>/src/vcfecho.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 6%] Linking CXX executable vcfecho /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfecho.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfecho.dir/src/vcfecho.cpp.o -o vcfecho -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 6%] Built target vcfecho make -f CMakeFiles/dumpContigsFromHeader.dir/build.make CMakeFiles/dumpContigsFromHeader.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/dumpContigsFromHeader.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/dumpContigsFromHeader.dir/build.make CMakeFiles/dumpContigsFromHeader.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 6%] Building CXX object CMakeFiles/dumpContigsFromHeader.dir/src/dumpContigsFromHeader.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/dumpContigsFromHeader.dir/src/dumpContigsFromHeader.cpp.o -MF CMakeFiles/dumpContigsFromHeader.dir/src/dumpContigsFromHeader.cpp.o.d -o CMakeFiles/dumpContigsFromHeader.dir/src/dumpContigsFromHeader.cpp.o -c /<>/src/dumpContigsFromHeader.cpp In file included from /<>/src/dumpContigsFromHeader.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 7%] Linking CXX executable dumpContigsFromHeader /usr/bin/cmake -E cmake_link_script CMakeFiles/dumpContigsFromHeader.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/dumpContigsFromHeader.dir/src/dumpContigsFromHeader.cpp.o -o dumpContigsFromHeader -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 7%] Built target dumpContigsFromHeader make -f CMakeFiles/bFst.dir/build.make CMakeFiles/bFst.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/bFst.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/bFst.dir/build.make CMakeFiles/bFst.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 7%] Building CXX object CMakeFiles/bFst.dir/src/bFst.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/bFst.dir/src/bFst.cpp.o -MF CMakeFiles/bFst.dir/src/bFst.cpp.o.d -o CMakeFiles/bFst.dir/src/bFst.cpp.o -c /<>/src/bFst.cpp In file included from /<>/src/bFst.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void phardy(std::vector&, double, double)’ at /<>/src/bFst.cpp:179:20: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void phardy(std::vector&, double, double)’ at /<>/src/bFst.cpp:180:20: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void phardy(std::vector&, double, double)’ at /<>/src/bFst.cpp:181:20: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘void loadPop(std::vector, std::vector > > >&, pop&)’ at /<>/src/bFst.cpp:73:21: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘void loadPop(std::vector, std::vector > > >&, pop&)’ at /<>/src/bFst.cpp:74:21: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘void loadPop(std::vector, std::vector > > >&, pop&)’ at /<>/src/bFst.cpp:75:21: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘int main(int, char**)’ at /<>/src/bFst.cpp:583:22: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 8%] Linking CXX executable bFst /usr/bin/cmake -E cmake_link_script CMakeFiles/bFst.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bFst.dir/src/bFst.cpp.o -o bFst -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 8%] Built target bFst make -f CMakeFiles/pVst.dir/build.make CMakeFiles/pVst.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/pVst.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/pVst.dir/build.make CMakeFiles/pVst.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 8%] Building CXX object CMakeFiles/pVst.dir/src/pVst.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/pVst.dir/src/pVst.cpp.o -MF CMakeFiles/pVst.dir/src/pVst.cpp.o.d -o CMakeFiles/pVst.dir/src/pVst.cpp.o -c /<>/src/pVst.cpp In file included from /<>/src/pVst.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void calc(copyNcounts*)’ at /<>/src/pVst.cpp:203:21: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void calc(copyNcounts*)’ at /<>/src/pVst.cpp:206:25: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘void loadDat(copyNcounts*, std::string&, std::vector, std::vector > > >&, std::vector, std::vector > > >&)’ at /<>/src/pVst.cpp:265:24: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘void loadDat(copyNcounts*, std::string&, std::vector, std::vector > > >&, std::vector, std::vector > > >&)’ at /<>/src/pVst.cpp:266:23: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘void loadDat(copyNcounts*, std::string&, std::vector, std::vector > > >&, std::vector, std::vector > > >&)’ at /<>/src/pVst.cpp:274:28: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘void loadDat(copyNcounts*, std::string&, std::vector, std::vector > > >&, std::vector, std::vector > > >&)’ at /<>/src/pVst.cpp:275:23: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 9%] Linking CXX executable pVst /usr/bin/cmake -E cmake_link_script CMakeFiles/pVst.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/pVst.dir/src/pVst.cpp.o -o pVst -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 9%] Built target pVst make -f CMakeFiles/hapLrt.dir/build.make CMakeFiles/hapLrt.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/hapLrt.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/hapLrt.dir/build.make CMakeFiles/hapLrt.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 10%] Building CXX object CMakeFiles/hapLrt.dir/src/hapLrt.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/hapLrt.dir/src/hapLrt.cpp.o -MF CMakeFiles/hapLrt.dir/src/hapLrt.cpp.o.d -o CMakeFiles/hapLrt.dir/src/hapLrt.cpp.o -c /<>/src/hapLrt.cpp In file included from /<>/src/hapLrt.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘int main(int, char**)’ at /<>/src/hapLrt.cpp:609:20: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 10%] Linking CXX executable hapLrt /usr/bin/cmake -E cmake_link_script CMakeFiles/hapLrt.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/hapLrt.dir/src/hapLrt.cpp.o -o hapLrt -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 10%] Built target hapLrt make -f CMakeFiles/popStats.dir/build.make CMakeFiles/popStats.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/popStats.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/popStats.dir/build.make CMakeFiles/popStats.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 11%] Building CXX object CMakeFiles/popStats.dir/src/popStats.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/popStats.dir/src/popStats.cpp.o -MF CMakeFiles/popStats.dir/src/popStats.cpp.o.d -o CMakeFiles/popStats.dir/src/popStats.cpp.o -c /<>/src/popStats.cpp In file included from /<>/src/popStats.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 12%] Linking CXX executable popStats /usr/bin/cmake -E cmake_link_script CMakeFiles/popStats.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/popStats.dir/src/popStats.cpp.o -o popStats -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 12%] Built target popStats make -f CMakeFiles/wcFst.dir/build.make CMakeFiles/wcFst.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/wcFst.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/wcFst.dir/build.make CMakeFiles/wcFst.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 13%] Building CXX object CMakeFiles/wcFst.dir/src/wcFst.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/wcFst.dir/src/wcFst.cpp.o -MF CMakeFiles/wcFst.dir/src/wcFst.cpp.o.d -o CMakeFiles/wcFst.dir/src/wcFst.cpp.o -c /<>/src/wcFst.cpp In file included from /<>/src/wcFst.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 14%] Linking CXX executable wcFst /usr/bin/cmake -E cmake_link_script CMakeFiles/wcFst.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/wcFst.dir/src/wcFst.cpp.o -o wcFst -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 14%] Built target wcFst make -f CMakeFiles/iHS.dir/build.make CMakeFiles/iHS.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/iHS.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/iHS.dir/build.make CMakeFiles/iHS.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 15%] Building CXX object CMakeFiles/iHS.dir/src/iHS.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/iHS.dir/src/iHS.cpp.o -MF CMakeFiles/iHS.dir/src/iHS.cpp.o.d -o CMakeFiles/iHS.dir/src/iHS.cpp.o -c /<>/src/iHS.cpp In file included from /<>/src/iHS.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/map:60, from /<>/src/Variant.h:15: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/map:61: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = int; _Tp = double; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘bool gDist(int, int, double*)’ at /<>/src/iHS.cpp:106:40: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:511:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 512 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 513 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = int; _Tp = double; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘bool gDist(int, int, double*)’ at /<>/src/iHS.cpp:106:69: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:511:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 512 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 513 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = int; _Tp = double; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void loadGeneticMap(int, int)’ at /<>/src/iHS.cpp:151:25: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:511:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 512 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 513 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘int main(int, char**)’ at /<>/src/iHS.cpp:648:20: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 15%] Linking CXX executable iHS /usr/bin/cmake -E cmake_link_script CMakeFiles/iHS.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/iHS.dir/src/iHS.cpp.o -o iHS -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 15%] Built target iHS make -f CMakeFiles/segmentFst.dir/build.make CMakeFiles/segmentFst.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/segmentFst.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/segmentFst.dir/build.make CMakeFiles/segmentFst.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 15%] Building CXX object CMakeFiles/segmentFst.dir/src/segmentFst.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/segmentFst.dir/src/segmentFst.cpp.o -MF CMakeFiles/segmentFst.dir/src/segmentFst.cpp.o.d -o CMakeFiles/segmentFst.dir/src/segmentFst.cpp.o -c /<>/src/segmentFst.cpp In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70, from /<>/src/split.h:15, from /<>/src/segmentFst.cpp:59: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘int main(int, char**)’ at /<>/src/segmentFst.cpp:294:21: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 16%] Linking CXX executable segmentFst /usr/bin/cmake -E cmake_link_script CMakeFiles/segmentFst.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/segmentFst.dir/src/segmentFst.cpp.o -o segmentFst -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 16%] Built target segmentFst make -f CMakeFiles/segmentIhs.dir/build.make CMakeFiles/segmentIhs.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/segmentIhs.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/segmentIhs.dir/build.make CMakeFiles/segmentIhs.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 16%] Building CXX object CMakeFiles/segmentIhs.dir/src/segmentIhs.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/segmentIhs.dir/src/segmentIhs.cpp.o -MF CMakeFiles/segmentIhs.dir/src/segmentIhs.cpp.o.d -o CMakeFiles/segmentIhs.dir/src/segmentIhs.cpp.o -c /<>/src/segmentIhs.cpp In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70, from /<>/src/split.h:15, from /<>/src/segmentIhs.cpp:59: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘int main(int, char**)’ at /<>/src/segmentIhs.cpp:291:21: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 17%] Linking CXX executable segmentIhs /usr/bin/cmake -E cmake_link_script CMakeFiles/segmentIhs.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/segmentIhs.dir/src/segmentIhs.cpp.o -o segmentIhs -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 17%] Built target segmentIhs make -f CMakeFiles/genotypeSummary.dir/build.make CMakeFiles/genotypeSummary.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/genotypeSummary.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/genotypeSummary.dir/build.make CMakeFiles/genotypeSummary.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 18%] Building CXX object CMakeFiles/genotypeSummary.dir/src/genotypeSummary.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/genotypeSummary.dir/src/genotypeSummary.cpp.o -MF CMakeFiles/genotypeSummary.dir/src/genotypeSummary.cpp.o.d -o CMakeFiles/genotypeSummary.dir/src/genotypeSummary.cpp.o -c /<>/src/genotypeSummary.cpp In file included from /<>/src/genotypeSummary.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 18%] Linking CXX executable genotypeSummary /usr/bin/cmake -E cmake_link_script CMakeFiles/genotypeSummary.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/genotypeSummary.dir/src/genotypeSummary.cpp.o -o genotypeSummary -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 18%] Built target genotypeSummary make -f CMakeFiles/sequenceDiversity.dir/build.make CMakeFiles/sequenceDiversity.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/sequenceDiversity.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/sequenceDiversity.dir/build.make CMakeFiles/sequenceDiversity.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 18%] Building CXX object CMakeFiles/sequenceDiversity.dir/src/sequenceDiversity.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/sequenceDiversity.dir/src/sequenceDiversity.cpp.o -MF CMakeFiles/sequenceDiversity.dir/src/sequenceDiversity.cpp.o.d -o CMakeFiles/sequenceDiversity.dir/src/sequenceDiversity.cpp.o -c /<>/src/sequenceDiversity.cpp In file included from /<>/src/sequenceDiversity.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 19%] Linking CXX executable sequenceDiversity /usr/bin/cmake -E cmake_link_script CMakeFiles/sequenceDiversity.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/sequenceDiversity.dir/src/sequenceDiversity.cpp.o -o sequenceDiversity -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 19%] Built target sequenceDiversity make -f CMakeFiles/pFst.dir/build.make CMakeFiles/pFst.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/pFst.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/pFst.dir/build.make CMakeFiles/pFst.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 19%] Building CXX object CMakeFiles/pFst.dir/src/pFst.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/pFst.dir/src/pFst.cpp.o -MF CMakeFiles/pFst.dir/src/pFst.cpp.o.d -o CMakeFiles/pFst.dir/src/pFst.cpp.o -c /<>/src/pFst.cpp In file included from /<>/src/pFst.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 20%] Linking CXX executable pFst /usr/bin/cmake -E cmake_link_script CMakeFiles/pFst.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/pFst.dir/src/pFst.cpp.o -o pFst -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 20%] Built target pFst make -f CMakeFiles/smoother.dir/build.make CMakeFiles/smoother.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/smoother.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/smoother.dir/build.make CMakeFiles/smoother.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 21%] Building CXX object CMakeFiles/smoother.dir/src/smoother.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/smoother.dir/src/smoother.cpp.o -MF CMakeFiles/smoother.dir/src/smoother.cpp.o.d -o CMakeFiles/smoother.dir/src/smoother.cpp.o -c /<>/src/smoother.cpp [ 21%] Linking CXX executable smoother /usr/bin/cmake -E cmake_link_script CMakeFiles/smoother.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/smoother.dir/src/smoother.cpp.o -o smoother -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 21%] Built target smoother make -f CMakeFiles/vcfld.dir/build.make CMakeFiles/vcfld.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfld.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfld.dir/build.make CMakeFiles/vcfld.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 22%] Building CXX object CMakeFiles/vcfld.dir/src/vcfld.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfld.dir/src/vcfld.cpp.o -MF CMakeFiles/vcfld.dir/src/vcfld.cpp.o.d -o CMakeFiles/vcfld.dir/src/vcfld.cpp.o -c /<>/src/vcfld.cpp In file included from /<>/src/vcfld.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 23%] Linking CXX executable vcfld /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfld.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfld.dir/src/vcfld.cpp.o -o vcfld -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 23%] Built target vcfld make -f CMakeFiles/plotHaps.dir/build.make CMakeFiles/plotHaps.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/plotHaps.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/plotHaps.dir/build.make CMakeFiles/plotHaps.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 24%] Building CXX object CMakeFiles/plotHaps.dir/src/plotHaps.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/plotHaps.dir/src/plotHaps.cpp.o -MF CMakeFiles/plotHaps.dir/src/plotHaps.cpp.o.d -o CMakeFiles/plotHaps.dir/src/plotHaps.cpp.o -c /<>/src/plotHaps.cpp In file included from /<>/src/plotHaps.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘int main(int, char**)’ at /<>/src/plotHaps.cpp:375:20: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 24%] Linking CXX executable plotHaps /usr/bin/cmake -E cmake_link_script CMakeFiles/plotHaps.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/plotHaps.dir/src/plotHaps.cpp.o -o plotHaps -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 24%] Built target plotHaps make -f CMakeFiles/abba-baba.dir/build.make CMakeFiles/abba-baba.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/abba-baba.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/abba-baba.dir/build.make CMakeFiles/abba-baba.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 24%] Building CXX object CMakeFiles/abba-baba.dir/src/abba-baba.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/abba-baba.dir/src/abba-baba.cpp.o -MF CMakeFiles/abba-baba.dir/src/abba-baba.cpp.o.d -o CMakeFiles/abba-baba.dir/src/abba-baba.cpp.o -c /<>/src/abba-baba.cpp In file included from /<>/src/abba-baba.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 25%] Linking CXX executable abba-baba /usr/bin/cmake -E cmake_link_script CMakeFiles/abba-baba.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic "CMakeFiles/abba-baba.dir/src/abba-baba.cpp.o" -o abba-baba -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 25%] Built target abba-baba make -f CMakeFiles/permuteGPAT++.dir/build.make CMakeFiles/permuteGPAT++.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/permuteGPAT++.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/permuteGPAT++.dir/build.make CMakeFiles/permuteGPAT++.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 26%] Building CXX object CMakeFiles/permuteGPAT++.dir/src/permuteGPAT++.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/permuteGPAT++.dir/src/permuteGPAT++.cpp.o -MF CMakeFiles/permuteGPAT++.dir/src/permuteGPAT++.cpp.o.d -o CMakeFiles/permuteGPAT++.dir/src/permuteGPAT++.cpp.o -c /<>/src/permuteGPAT++.cpp In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70, from /<>/src/split.h:15, from /<>/src/permuteGPAT++.cpp:49: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘int main(int, char**)’ at /<>/src/permuteGPAT++.cpp:184:20: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 26%] Linking CXX executable permuteGPAT++ /usr/bin/cmake -E cmake_link_script CMakeFiles/permuteGPAT++.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/permuteGPAT++.dir/src/permuteGPAT++.cpp.o -o permuteGPAT++ -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 26%] Built target permuteGPAT++ make -f CMakeFiles/permuteSmooth.dir/build.make CMakeFiles/permuteSmooth.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/permuteSmooth.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/permuteSmooth.dir/build.make CMakeFiles/permuteSmooth.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 27%] Building CXX object CMakeFiles/permuteSmooth.dir/src/permuteSmooth.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/permuteSmooth.dir/src/permuteSmooth.cpp.o -MF CMakeFiles/permuteSmooth.dir/src/permuteSmooth.cpp.o.d -o CMakeFiles/permuteSmooth.dir/src/permuteSmooth.cpp.o -c /<>/src/permuteSmooth.cpp In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70, from /<>/src/split.h:15, from /<>/src/permuteSmooth.cpp:49: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘bool getContiguousWindow(std::vector&, std::vector&, int, int*)’ at /<>/src/permuteSmooth.cpp:249:19: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 27%] Linking CXX executable permuteSmooth /usr/bin/cmake -E cmake_link_script CMakeFiles/permuteSmooth.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/permuteSmooth.dir/src/permuteSmooth.cpp.o -o permuteSmooth -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 27%] Built target permuteSmooth make -f CMakeFiles/normalize-iHS.dir/build.make CMakeFiles/normalize-iHS.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/normalize-iHS.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/normalize-iHS.dir/build.make CMakeFiles/normalize-iHS.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 27%] Building CXX object CMakeFiles/normalize-iHS.dir/src/normalize-iHS.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/normalize-iHS.dir/src/normalize-iHS.cpp.o -MF CMakeFiles/normalize-iHS.dir/src/normalize-iHS.cpp.o.d -o CMakeFiles/normalize-iHS.dir/src/normalize-iHS.cpp.o -c /<>/src/normalize-iHS.cpp In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70, from /<>/src/split.h:15, from /<>/src/normalize-iHS.cpp:59: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void normalize(std::vector&, int*)’ at /<>/src/normalize-iHS.cpp:229:21: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 28%] Linking CXX executable normalize-iHS /usr/bin/cmake -E cmake_link_script CMakeFiles/normalize-iHS.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic "CMakeFiles/normalize-iHS.dir/src/normalize-iHS.cpp.o" -o normalize-iHS -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 28%] Built target normalize-iHS make -f CMakeFiles/meltEHH.dir/build.make CMakeFiles/meltEHH.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/meltEHH.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/meltEHH.dir/build.make CMakeFiles/meltEHH.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 29%] Building CXX object CMakeFiles/meltEHH.dir/src/meltEHH.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/meltEHH.dir/src/meltEHH.cpp.o -MF CMakeFiles/meltEHH.dir/src/meltEHH.cpp.o.d -o CMakeFiles/meltEHH.dir/src/meltEHH.cpp.o -c /<>/src/meltEHH.cpp In file included from /<>/src/meltEHH.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/map:60, from /<>/src/Variant.h:15: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/map:61: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = int; _Tp = double; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘bool gDist(int, int, double*)’ at /<>/src/meltEHH.cpp:105:40: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:511:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 512 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 513 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = int; _Tp = double; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘bool gDist(int, int, double*)’ at /<>/src/meltEHH.cpp:105:69: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:511:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 512 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 513 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = int; _Tp = double; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void loadGeneticMap(int, int)’ at /<>/src/meltEHH.cpp:150:25: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:511:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 512 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 513 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘int main(int, char**)’ at /<>/src/meltEHH.cpp:636:20: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 30%] Linking CXX executable meltEHH /usr/bin/cmake -E cmake_link_script CMakeFiles/meltEHH.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/meltEHH.dir/src/meltEHH.cpp.o -o meltEHH -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 30%] Built target meltEHH make -f CMakeFiles/vcfaltcount.dir/build.make CMakeFiles/vcfaltcount.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfaltcount.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfaltcount.dir/build.make CMakeFiles/vcfaltcount.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 31%] Building CXX object CMakeFiles/vcfaltcount.dir/src/vcfaltcount.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfaltcount.dir/src/vcfaltcount.cpp.o -MF CMakeFiles/vcfaltcount.dir/src/vcfaltcount.cpp.o.d -o CMakeFiles/vcfaltcount.dir/src/vcfaltcount.cpp.o -c /<>/src/vcfaltcount.cpp In file included from /<>/src/vcfaltcount.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 31%] Linking CXX executable vcfaltcount /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfaltcount.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfaltcount.dir/src/vcfaltcount.cpp.o -o vcfaltcount -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 31%] Built target vcfaltcount make -f CMakeFiles/vcfhetcount.dir/build.make CMakeFiles/vcfhetcount.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfhetcount.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfhetcount.dir/build.make CMakeFiles/vcfhetcount.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Building CXX object CMakeFiles/vcfhetcount.dir/src/vcfhetcount.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfhetcount.dir/src/vcfhetcount.cpp.o -MF CMakeFiles/vcfhetcount.dir/src/vcfhetcount.cpp.o.d -o CMakeFiles/vcfhetcount.dir/src/vcfhetcount.cpp.o -c /<>/src/vcfhetcount.cpp In file included from /<>/src/vcfhetcount.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 32%] Linking CXX executable vcfhetcount /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfhetcount.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfhetcount.dir/src/vcfhetcount.cpp.o -o vcfhetcount -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Built target vcfhetcount make -f CMakeFiles/vcfhethomratio.dir/build.make CMakeFiles/vcfhethomratio.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfhethomratio.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfhethomratio.dir/build.make CMakeFiles/vcfhethomratio.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 33%] Building CXX object CMakeFiles/vcfhethomratio.dir/src/vcfhethomratio.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfhethomratio.dir/src/vcfhethomratio.cpp.o -MF CMakeFiles/vcfhethomratio.dir/src/vcfhethomratio.cpp.o.d -o CMakeFiles/vcfhethomratio.dir/src/vcfhethomratio.cpp.o -c /<>/src/vcfhethomratio.cpp In file included from /<>/src/vcfhethomratio.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 33%] Linking CXX executable vcfhethomratio /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfhethomratio.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfhethomratio.dir/src/vcfhethomratio.cpp.o -o vcfhethomratio -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 33%] Built target vcfhethomratio make -f CMakeFiles/vcffilter.dir/build.make CMakeFiles/vcffilter.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcffilter.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcffilter.dir/build.make CMakeFiles/vcffilter.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 34%] Building CXX object CMakeFiles/vcffilter.dir/src/vcffilter.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcffilter.dir/src/vcffilter.cpp.o -MF CMakeFiles/vcffilter.dir/src/vcffilter.cpp.o.d -o CMakeFiles/vcffilter.dir/src/vcffilter.cpp.o -c /<>/src/vcffilter.cpp In file included from /<>/src/vcffilter.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 35%] Linking CXX executable vcffilter /usr/bin/cmake -E cmake_link_script CMakeFiles/vcffilter.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcffilter.dir/src/vcffilter.cpp.o -o vcffilter -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 35%] Built target vcffilter make -f CMakeFiles/vcf2tsv.dir/build.make CMakeFiles/vcf2tsv.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcf2tsv.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcf2tsv.dir/build.make CMakeFiles/vcf2tsv.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 36%] Building CXX object CMakeFiles/vcf2tsv.dir/src/vcf2tsv.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcf2tsv.dir/src/vcf2tsv.cpp.o -MF CMakeFiles/vcf2tsv.dir/src/vcf2tsv.cpp.o.d -o CMakeFiles/vcf2tsv.dir/src/vcf2tsv.cpp.o -c /<>/src/vcf2tsv.cpp In file included from /<>/src/vcf2tsv.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 37%] Linking CXX executable vcf2tsv /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2tsv.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcf2tsv.dir/src/vcf2tsv.cpp.o -o vcf2tsv -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 37%] Built target vcf2tsv make -f CMakeFiles/vcfgenotypes.dir/build.make CMakeFiles/vcfgenotypes.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfgenotypes.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfgenotypes.dir/build.make CMakeFiles/vcfgenotypes.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 37%] Building CXX object CMakeFiles/vcfgenotypes.dir/src/vcfgenotypes.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfgenotypes.dir/src/vcfgenotypes.cpp.o -MF CMakeFiles/vcfgenotypes.dir/src/vcfgenotypes.cpp.o.d -o CMakeFiles/vcfgenotypes.dir/src/vcfgenotypes.cpp.o -c /<>/src/vcfgenotypes.cpp In file included from /<>/src/vcfgenotypes.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 38%] Linking CXX executable vcfgenotypes /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgenotypes.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfgenotypes.dir/src/vcfgenotypes.cpp.o -o vcfgenotypes -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 38%] Built target vcfgenotypes make -f CMakeFiles/vcfannotategenotypes.dir/build.make CMakeFiles/vcfannotategenotypes.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfannotategenotypes.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfannotategenotypes.dir/build.make CMakeFiles/vcfannotategenotypes.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 39%] Building CXX object CMakeFiles/vcfannotategenotypes.dir/src/vcfannotategenotypes.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfannotategenotypes.dir/src/vcfannotategenotypes.cpp.o -MF CMakeFiles/vcfannotategenotypes.dir/src/vcfannotategenotypes.cpp.o.d -o CMakeFiles/vcfannotategenotypes.dir/src/vcfannotategenotypes.cpp.o -c /<>/src/vcfannotategenotypes.cpp In file included from /<>/src/vcfannotategenotypes.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/map:60, from /<>/src/Variant.h:15: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::allocator >, std::__cxx11::basic_string, std::allocator > >&&>, std::tuple<>}; _Key = std::pair, std::__cxx11::basic_string >; _Val = std::pair, std::__cxx11::basic_string >, vcflib::Variant>; _KeyOfValue = std::_Select1st, std::__cxx11::basic_string >, vcflib::Variant> >; _Compare = std::less, std::__cxx11::basic_string > >; _Alloc = std::allocator, std::__cxx11::basic_string >, vcflib::Variant> >]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::__cxx11::basic_string >, std::pair, std::__cxx11::basic_string >, vcflib::Variant>, std::_Select1st, std::__cxx11::basic_string >, vcflib::Variant> >, std::less, std::__cxx11::basic_string > >, std::allocator, std::__cxx11::basic_string >, vcflib::Variant> > >::const_iterator’ changed in GCC 7.1 2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/map:61: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = std::pair, std::__cxx11::basic_string >; _Tp = vcflib::Variant; _Compare = std::less, std::__cxx11::basic_string > >; _Alloc = std::allocator, std::__cxx11::basic_string >, vcflib::Variant> >]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:530:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::__cxx11::basic_string >, std::pair, std::__cxx11::basic_string >, vcflib::Variant>, std::_Select1st, std::__cxx11::basic_string >, vcflib::Variant> >, std::less, std::__cxx11::basic_string > >, std::allocator, std::__cxx11::basic_string >, vcflib::Variant> > >::const_iterator’ changed in GCC 7.1 530 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 531 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 532 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const vcflib::Variant&}; _Tp = vcflib::Variant; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = vcflib::Variant; _Alloc = std::allocator]’, inlined from ‘int main(int, char**)’ at /<>/src/vcfannotategenotypes.cpp:202:28: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = vcflib::Variant; _Alloc = std::allocator]’, inlined from ‘int main(int, char**)’ at /<>/src/vcfannotategenotypes.cpp:201:28: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = std::pair, std::__cxx11::basic_string >; _Tp = vcflib::Variant; _Compare = std::less, std::__cxx11::basic_string > >; _Alloc = std::allocator, std::__cxx11::basic_string >, vcflib::Variant> >]’, inlined from ‘int main(int, char**)’ at /<>/src/vcfannotategenotypes.cpp:215:62: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:530:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::__cxx11::basic_string >, std::pair, std::__cxx11::basic_string >, vcflib::Variant>, std::_Select1st, std::__cxx11::basic_string >, vcflib::Variant> >, std::less, std::__cxx11::basic_string > >, std::allocator, std::__cxx11::basic_string >, vcflib::Variant> > >::const_iterator’ changed in GCC 7.1 530 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 531 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 532 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = std::pair, std::__cxx11::basic_string >; _Tp = vcflib::Variant; _Compare = std::less, std::__cxx11::basic_string > >; _Alloc = std::allocator, std::__cxx11::basic_string >, vcflib::Variant> >]’, inlined from ‘int main(int, char**)’ at /<>/src/vcfannotategenotypes.cpp:218:62: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:530:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::__cxx11::basic_string >, std::pair, std::__cxx11::basic_string >, vcflib::Variant>, std::_Select1st, std::__cxx11::basic_string >, vcflib::Variant> >, std::less, std::__cxx11::basic_string > >, std::allocator, std::__cxx11::basic_string >, vcflib::Variant> > >::const_iterator’ changed in GCC 7.1 530 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 531 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 532 | std::tuple<>()); | ~~~~~~~~~~~~~~~ [ 40%] Linking CXX executable vcfannotategenotypes /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfannotategenotypes.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfannotategenotypes.dir/src/vcfannotategenotypes.cpp.o -o vcfannotategenotypes -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 40%] Built target vcfannotategenotypes make -f CMakeFiles/vcfcommonsamples.dir/build.make CMakeFiles/vcfcommonsamples.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfcommonsamples.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfcommonsamples.dir/build.make CMakeFiles/vcfcommonsamples.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 41%] Building CXX object CMakeFiles/vcfcommonsamples.dir/src/vcfcommonsamples.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfcommonsamples.dir/src/vcfcommonsamples.cpp.o -MF CMakeFiles/vcfcommonsamples.dir/src/vcfcommonsamples.cpp.o.d -o CMakeFiles/vcfcommonsamples.dir/src/vcfcommonsamples.cpp.o -c /<>/src/vcfcommonsamples.cpp In file included from /<>/src/vcfcommonsamples.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 42%] Linking CXX executable vcfcommonsamples /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcommonsamples.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfcommonsamples.dir/src/vcfcommonsamples.cpp.o -o vcfcommonsamples -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 42%] Built target vcfcommonsamples make -f CMakeFiles/vcfremovesamples.dir/build.make CMakeFiles/vcfremovesamples.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfremovesamples.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfremovesamples.dir/build.make CMakeFiles/vcfremovesamples.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 42%] Building CXX object CMakeFiles/vcfremovesamples.dir/src/vcfremovesamples.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfremovesamples.dir/src/vcfremovesamples.cpp.o -MF CMakeFiles/vcfremovesamples.dir/src/vcfremovesamples.cpp.o.d -o CMakeFiles/vcfremovesamples.dir/src/vcfremovesamples.cpp.o -c /<>/src/vcfremovesamples.cpp In file included from /<>/src/vcfremovesamples.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 43%] Linking CXX executable vcfremovesamples /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfremovesamples.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfremovesamples.dir/src/vcfremovesamples.cpp.o -o vcfremovesamples -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 43%] Built target vcfremovesamples make -f CMakeFiles/vcfkeepsamples.dir/build.make CMakeFiles/vcfkeepsamples.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfkeepsamples.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfkeepsamples.dir/build.make CMakeFiles/vcfkeepsamples.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 44%] Building CXX object CMakeFiles/vcfkeepsamples.dir/src/vcfkeepsamples.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfkeepsamples.dir/src/vcfkeepsamples.cpp.o -MF CMakeFiles/vcfkeepsamples.dir/src/vcfkeepsamples.cpp.o.d -o CMakeFiles/vcfkeepsamples.dir/src/vcfkeepsamples.cpp.o -c /<>/src/vcfkeepsamples.cpp In file included from /<>/src/vcfkeepsamples.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 44%] Linking CXX executable vcfkeepsamples /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfkeepsamples.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfkeepsamples.dir/src/vcfkeepsamples.cpp.o -o vcfkeepsamples -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 44%] Built target vcfkeepsamples make -f CMakeFiles/vcfsamplenames.dir/build.make CMakeFiles/vcfsamplenames.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfsamplenames.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfsamplenames.dir/build.make CMakeFiles/vcfsamplenames.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 45%] Building CXX object CMakeFiles/vcfsamplenames.dir/src/vcfsamplenames.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfsamplenames.dir/src/vcfsamplenames.cpp.o -MF CMakeFiles/vcfsamplenames.dir/src/vcfsamplenames.cpp.o.d -o CMakeFiles/vcfsamplenames.dir/src/vcfsamplenames.cpp.o -c /<>/src/vcfsamplenames.cpp In file included from /<>/src/vcfsamplenames.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 46%] Linking CXX executable vcfsamplenames /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfsamplenames.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfsamplenames.dir/src/vcfsamplenames.cpp.o -o vcfsamplenames -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 46%] Built target vcfsamplenames make -f CMakeFiles/vcfgenotypecompare.dir/build.make CMakeFiles/vcfgenotypecompare.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfgenotypecompare.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfgenotypecompare.dir/build.make CMakeFiles/vcfgenotypecompare.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 46%] Building CXX object CMakeFiles/vcfgenotypecompare.dir/src/vcfgenotypecompare.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfgenotypecompare.dir/src/vcfgenotypecompare.cpp.o -MF CMakeFiles/vcfgenotypecompare.dir/src/vcfgenotypecompare.cpp.o.d -o CMakeFiles/vcfgenotypecompare.dir/src/vcfgenotypecompare.cpp.o -c /<>/src/vcfgenotypecompare.cpp In file included from /<>/src/vcfgenotypecompare.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 47%] Linking CXX executable vcfgenotypecompare /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgenotypecompare.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfgenotypecompare.dir/src/vcfgenotypecompare.cpp.o -o vcfgenotypecompare -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 47%] Built target vcfgenotypecompare make -f CMakeFiles/vcffixup.dir/build.make CMakeFiles/vcffixup.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcffixup.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcffixup.dir/build.make CMakeFiles/vcffixup.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 47%] Building CXX object CMakeFiles/vcffixup.dir/src/vcffixup.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcffixup.dir/src/vcffixup.cpp.o -MF CMakeFiles/vcffixup.dir/src/vcffixup.cpp.o.d -o CMakeFiles/vcffixup.dir/src/vcffixup.cpp.o -c /<>/src/vcffixup.cpp In file included from /<>/src/vcffixup.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 48%] Linking CXX executable vcffixup /usr/bin/cmake -E cmake_link_script CMakeFiles/vcffixup.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcffixup.dir/src/vcffixup.cpp.o -o vcffixup -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 48%] Built target vcffixup make -f CMakeFiles/vcfclassify.dir/build.make CMakeFiles/vcfclassify.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfclassify.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfclassify.dir/build.make CMakeFiles/vcfclassify.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 49%] Building CXX object CMakeFiles/vcfclassify.dir/src/vcfclassify.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfclassify.dir/src/vcfclassify.cpp.o -MF CMakeFiles/vcfclassify.dir/src/vcfclassify.cpp.o.d -o CMakeFiles/vcfclassify.dir/src/vcfclassify.cpp.o -c /<>/src/vcfclassify.cpp In file included from /<>/src/vcfclassify.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 49%] Linking CXX executable vcfclassify /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfclassify.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfclassify.dir/src/vcfclassify.cpp.o -o vcfclassify -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 49%] Built target vcfclassify make -f CMakeFiles/vcfsamplediff.dir/build.make CMakeFiles/vcfsamplediff.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfsamplediff.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfsamplediff.dir/build.make CMakeFiles/vcfsamplediff.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 50%] Building CXX object CMakeFiles/vcfsamplediff.dir/src/vcfsamplediff.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfsamplediff.dir/src/vcfsamplediff.cpp.o -MF CMakeFiles/vcfsamplediff.dir/src/vcfsamplediff.cpp.o.d -o CMakeFiles/vcfsamplediff.dir/src/vcfsamplediff.cpp.o -c /<>/src/vcfsamplediff.cpp In file included from /<>/src/vcfsamplediff.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 50%] Linking CXX executable vcfsamplediff /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfsamplediff.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfsamplediff.dir/src/vcfsamplediff.cpp.o -o vcfsamplediff -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 50%] Built target vcfsamplediff make -f CMakeFiles/vcfremoveaberrantgenotypes.dir/build.make CMakeFiles/vcfremoveaberrantgenotypes.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfremoveaberrantgenotypes.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfremoveaberrantgenotypes.dir/build.make CMakeFiles/vcfremoveaberrantgenotypes.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 50%] Building CXX object CMakeFiles/vcfremoveaberrantgenotypes.dir/src/vcfremoveaberrantgenotypes.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfremoveaberrantgenotypes.dir/src/vcfremoveaberrantgenotypes.cpp.o -MF CMakeFiles/vcfremoveaberrantgenotypes.dir/src/vcfremoveaberrantgenotypes.cpp.o.d -o CMakeFiles/vcfremoveaberrantgenotypes.dir/src/vcfremoveaberrantgenotypes.cpp.o -c /<>/src/vcfremoveaberrantgenotypes.cpp In file included from /<>/src/vcfremoveaberrantgenotypes.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 51%] Linking CXX executable vcfremoveaberrantgenotypes /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfremoveaberrantgenotypes.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfremoveaberrantgenotypes.dir/src/vcfremoveaberrantgenotypes.cpp.o -o vcfremoveaberrantgenotypes -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 51%] Built target vcfremoveaberrantgenotypes make -f CMakeFiles/vcfrandom.dir/build.make CMakeFiles/vcfrandom.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfrandom.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfrandom.dir/build.make CMakeFiles/vcfrandom.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 52%] Building CXX object CMakeFiles/vcfrandom.dir/src/vcfrandom.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfrandom.dir/src/vcfrandom.cpp.o -MF CMakeFiles/vcfrandom.dir/src/vcfrandom.cpp.o.d -o CMakeFiles/vcfrandom.dir/src/vcfrandom.cpp.o -c /<>/src/vcfrandom.cpp In file included from /<>/src/vcfrandom.cpp:13: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/string:48, from /usr/arm-linux-gnueabihf/include/c++/12/bits/locale_classes.h:40, from /usr/arm-linux-gnueabihf/include/c++/12/bits/ios_base.h:41, from /usr/arm-linux-gnueabihf/include/c++/12/ios:42, from /usr/arm-linux-gnueabihf/include/c++/12/istream:38, from /usr/arm-linux-gnueabihf/include/c++/12/sstream:38, from /<>/src/vcfrandom.cpp:10: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 52%] Linking CXX executable vcfrandom /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfrandom.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfrandom.dir/src/vcfrandom.cpp.o -o vcfrandom -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 52%] Built target vcfrandom make -f CMakeFiles/vcfparsealts.dir/build.make CMakeFiles/vcfparsealts.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfparsealts.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfparsealts.dir/build.make CMakeFiles/vcfparsealts.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 52%] Building CXX object CMakeFiles/vcfparsealts.dir/src/vcfparsealts.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfparsealts.dir/src/vcfparsealts.cpp.o -MF CMakeFiles/vcfparsealts.dir/src/vcfparsealts.cpp.o.d -o CMakeFiles/vcfparsealts.dir/src/vcfparsealts.cpp.o -c /<>/src/vcfparsealts.cpp In file included from /<>/src/vcfparsealts.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 53%] Linking CXX executable vcfparsealts /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfparsealts.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfparsealts.dir/src/vcfparsealts.cpp.o -o vcfparsealts -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 53%] Built target vcfparsealts make -f CMakeFiles/vcfstats.dir/build.make CMakeFiles/vcfstats.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfstats.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfstats.dir/build.make CMakeFiles/vcfstats.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 53%] Building CXX object CMakeFiles/vcfstats.dir/src/vcfstats.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfstats.dir/src/vcfstats.cpp.o -MF CMakeFiles/vcfstats.dir/src/vcfstats.cpp.o.d -o CMakeFiles/vcfstats.dir/src/vcfstats.cpp.o -c /<>/src/vcfstats.cpp In file included from /<>/src/vcfstats.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 54%] Linking CXX executable vcfstats /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfstats.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfstats.dir/src/vcfstats.cpp.o -o vcfstats -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 54%] Built target vcfstats make -f CMakeFiles/vcfflatten.dir/build.make CMakeFiles/vcfflatten.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfflatten.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfflatten.dir/build.make CMakeFiles/vcfflatten.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 54%] Building CXX object CMakeFiles/vcfflatten.dir/src/vcfflatten.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfflatten.dir/src/vcfflatten.cpp.o -MF CMakeFiles/vcfflatten.dir/src/vcfflatten.cpp.o.d -o CMakeFiles/vcfflatten.dir/src/vcfflatten.cpp.o -c /<>/src/vcfflatten.cpp In file included from /<>/src/vcfflatten.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 55%] Linking CXX executable vcfflatten /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfflatten.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfflatten.dir/src/vcfflatten.cpp.o -o vcfflatten -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 55%] Built target vcfflatten make -f CMakeFiles/vcfprimers.dir/build.make CMakeFiles/vcfprimers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfprimers.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfprimers.dir/build.make CMakeFiles/vcfprimers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 56%] Building CXX object CMakeFiles/vcfprimers.dir/src/vcfprimers.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfprimers.dir/src/vcfprimers.cpp.o -MF CMakeFiles/vcfprimers.dir/src/vcfprimers.cpp.o.d -o CMakeFiles/vcfprimers.dir/src/vcfprimers.cpp.o -c /<>/src/vcfprimers.cpp In file included from /<>/src/vcfprimers.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 56%] Linking CXX executable vcfprimers /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfprimers.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfprimers.dir/src/vcfprimers.cpp.o -o vcfprimers -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 56%] Built target vcfprimers make -f CMakeFiles/vcfnumalt.dir/build.make CMakeFiles/vcfnumalt.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfnumalt.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfnumalt.dir/build.make CMakeFiles/vcfnumalt.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 56%] Building CXX object CMakeFiles/vcfnumalt.dir/src/vcfnumalt.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfnumalt.dir/src/vcfnumalt.cpp.o -MF CMakeFiles/vcfnumalt.dir/src/vcfnumalt.cpp.o.d -o CMakeFiles/vcfnumalt.dir/src/vcfnumalt.cpp.o -c /<>/src/vcfnumalt.cpp In file included from /<>/src/vcfnumalt.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 57%] Linking CXX executable vcfnumalt /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfnumalt.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfnumalt.dir/src/vcfnumalt.cpp.o -o vcfnumalt -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 57%] Built target vcfnumalt make -f CMakeFiles/vcfcleancomplex.dir/build.make CMakeFiles/vcfcleancomplex.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfcleancomplex.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfcleancomplex.dir/build.make CMakeFiles/vcfcleancomplex.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Building CXX object CMakeFiles/vcfcleancomplex.dir/src/vcfcleancomplex.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfcleancomplex.dir/src/vcfcleancomplex.cpp.o -MF CMakeFiles/vcfcleancomplex.dir/src/vcfcleancomplex.cpp.o.d -o CMakeFiles/vcfcleancomplex.dir/src/vcfcleancomplex.cpp.o -c /<>/src/vcfcleancomplex.cpp In file included from /<>/src/vcfcleancomplex.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 58%] Linking CXX executable vcfcleancomplex /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcleancomplex.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfcleancomplex.dir/src/vcfcleancomplex.cpp.o -o vcfcleancomplex -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Built target vcfcleancomplex make -f CMakeFiles/vcfintersect.dir/build.make CMakeFiles/vcfintersect.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfintersect.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfintersect.dir/build.make CMakeFiles/vcfintersect.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Building CXX object CMakeFiles/vcfintersect.dir/src/vcfintersect.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfintersect.dir/src/vcfintersect.cpp.o -MF CMakeFiles/vcfintersect.dir/src/vcfintersect.cpp.o.d -o CMakeFiles/vcfintersect.dir/src/vcfintersect.cpp.o -c /<>/src/vcfintersect.cpp In file included from /<>/src/vcfintersect.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 59%] Linking CXX executable vcfintersect /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfintersect.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfintersect.dir/src/vcfintersect.cpp.o -o vcfintersect -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 59%] Built target vcfintersect make -f CMakeFiles/vcfannotate.dir/build.make CMakeFiles/vcfannotate.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfannotate.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfannotate.dir/build.make CMakeFiles/vcfannotate.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 60%] Building CXX object CMakeFiles/vcfannotate.dir/src/vcfannotate.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfannotate.dir/src/vcfannotate.cpp.o -MF CMakeFiles/vcfannotate.dir/src/vcfannotate.cpp.o.d -o CMakeFiles/vcfannotate.dir/src/vcfannotate.cpp.o -c /<>/src/vcfannotate.cpp In file included from /<>/src/vcfannotate.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 60%] Linking CXX executable vcfannotate /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfannotate.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfannotate.dir/src/vcfannotate.cpp.o -o vcfannotate -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 60%] Built target vcfannotate make -f CMakeFiles/vcfallelicprimitives.dir/build.make CMakeFiles/vcfallelicprimitives.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfallelicprimitives.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfallelicprimitives.dir/build.make CMakeFiles/vcfallelicprimitives.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 61%] Building CXX object CMakeFiles/vcfallelicprimitives.dir/src/vcfallelicprimitives.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfallelicprimitives.dir/src/vcfallelicprimitives.cpp.o -MF CMakeFiles/vcfallelicprimitives.dir/src/vcfallelicprimitives.cpp.o.d -o CMakeFiles/vcfallelicprimitives.dir/src/vcfallelicprimitives.cpp.o -c /<>/src/vcfallelicprimitives.cpp In file included from /<>/src/vcfallelicprimitives.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/map:60, from /<>/src/Variant.h:15: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = vcflib::VariantAllele; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/map:61: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = vcflib::VariantAllele; _Tp = double; _Compare = std::less; _Alloc = std::allocator >]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:511:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 512 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 513 | std::tuple<>()); | ~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_tree.h: In member function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = long unsigned int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = long unsigned int; _Tp = vcflib::Variant; _Compare = std::less; _Alloc = std::allocator >]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:530:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 530 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 531 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 532 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = vcflib::VariantAllele; _Tp = double; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘int main(int, char**)’ at /<>/src/vcfallelicprimitives.cpp:207:46: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:511:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 512 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 513 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = long unsigned int; _Tp = vcflib::Variant; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘int main(int, char**)’ at /<>/src/vcfallelicprimitives.cpp:306:46: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:530:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 530 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 531 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 532 | std::tuple<>()); | ~~~~~~~~~~~~~~~ [ 61%] Linking CXX executable vcfallelicprimitives /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfallelicprimitives.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfallelicprimitives.dir/src/vcfallelicprimitives.cpp.o -o vcfallelicprimitives -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 61%] Built target vcfallelicprimitives make -f CMakeFiles/vcfoverlay.dir/build.make CMakeFiles/vcfoverlay.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfoverlay.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfoverlay.dir/build.make CMakeFiles/vcfoverlay.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 61%] Building CXX object CMakeFiles/vcfoverlay.dir/src/vcfoverlay.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfoverlay.dir/src/vcfoverlay.cpp.o -MF CMakeFiles/vcfoverlay.dir/src/vcfoverlay.cpp.o.d -o CMakeFiles/vcfoverlay.dir/src/vcfoverlay.cpp.o -c /<>/src/vcfoverlay.cpp In file included from /<>/src/vcfoverlay.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 62%] Linking CXX executable vcfoverlay /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfoverlay.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfoverlay.dir/src/vcfoverlay.cpp.o -o vcfoverlay -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 62%] Built target vcfoverlay make -f CMakeFiles/vcfaddinfo.dir/build.make CMakeFiles/vcfaddinfo.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfaddinfo.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfaddinfo.dir/build.make CMakeFiles/vcfaddinfo.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 62%] Building CXX object CMakeFiles/vcfaddinfo.dir/src/vcfaddinfo.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfaddinfo.dir/src/vcfaddinfo.cpp.o -MF CMakeFiles/vcfaddinfo.dir/src/vcfaddinfo.cpp.o.d -o CMakeFiles/vcfaddinfo.dir/src/vcfaddinfo.cpp.o -c /<>/src/vcfaddinfo.cpp In file included from /<>/src/vcfaddinfo.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 63%] Linking CXX executable vcfaddinfo /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfaddinfo.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfaddinfo.dir/src/vcfaddinfo.cpp.o -o vcfaddinfo -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 63%] Built target vcfaddinfo make -f CMakeFiles/vcfkeepinfo.dir/build.make CMakeFiles/vcfkeepinfo.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfkeepinfo.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfkeepinfo.dir/build.make CMakeFiles/vcfkeepinfo.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 64%] Building CXX object CMakeFiles/vcfkeepinfo.dir/src/vcfkeepinfo.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfkeepinfo.dir/src/vcfkeepinfo.cpp.o -MF CMakeFiles/vcfkeepinfo.dir/src/vcfkeepinfo.cpp.o.d -o CMakeFiles/vcfkeepinfo.dir/src/vcfkeepinfo.cpp.o -c /<>/src/vcfkeepinfo.cpp In file included from /<>/src/vcfkeepinfo.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 64%] Linking CXX executable vcfkeepinfo /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfkeepinfo.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfkeepinfo.dir/src/vcfkeepinfo.cpp.o -o vcfkeepinfo -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 64%] Built target vcfkeepinfo make -f CMakeFiles/vcfkeepgeno.dir/build.make CMakeFiles/vcfkeepgeno.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfkeepgeno.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfkeepgeno.dir/build.make CMakeFiles/vcfkeepgeno.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object CMakeFiles/vcfkeepgeno.dir/src/vcfkeepgeno.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfkeepgeno.dir/src/vcfkeepgeno.cpp.o -MF CMakeFiles/vcfkeepgeno.dir/src/vcfkeepgeno.cpp.o.d -o CMakeFiles/vcfkeepgeno.dir/src/vcfkeepgeno.cpp.o -c /<>/src/vcfkeepgeno.cpp In file included from /<>/src/vcfkeepgeno.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 65%] Linking CXX executable vcfkeepgeno /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfkeepgeno.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfkeepgeno.dir/src/vcfkeepgeno.cpp.o -o vcfkeepgeno -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target vcfkeepgeno make -f CMakeFiles/vcfafpath.dir/build.make CMakeFiles/vcfafpath.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfafpath.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfafpath.dir/build.make CMakeFiles/vcfafpath.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object CMakeFiles/vcfafpath.dir/src/vcfafpath.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfafpath.dir/src/vcfafpath.cpp.o -MF CMakeFiles/vcfafpath.dir/src/vcfafpath.cpp.o.d -o CMakeFiles/vcfafpath.dir/src/vcfafpath.cpp.o -c /<>/src/vcfafpath.cpp In file included from /<>/src/vcfafpath.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘int main(int, char**)’ at /<>/src/vcfafpath.cpp:78:26: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 66%] Linking CXX executable vcfafpath /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfafpath.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfafpath.dir/src/vcfafpath.cpp.o -o vcfafpath -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 66%] Built target vcfafpath make -f CMakeFiles/vcfcountalleles.dir/build.make CMakeFiles/vcfcountalleles.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfcountalleles.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfcountalleles.dir/build.make CMakeFiles/vcfcountalleles.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 66%] Building CXX object CMakeFiles/vcfcountalleles.dir/src/vcfcountalleles.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfcountalleles.dir/src/vcfcountalleles.cpp.o -MF CMakeFiles/vcfcountalleles.dir/src/vcfcountalleles.cpp.o.d -o CMakeFiles/vcfcountalleles.dir/src/vcfcountalleles.cpp.o -c /<>/src/vcfcountalleles.cpp In file included from /<>/src/vcfcountalleles.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 67%] Linking CXX executable vcfcountalleles /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcountalleles.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfcountalleles.dir/src/vcfcountalleles.cpp.o -o vcfcountalleles -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Built target vcfcountalleles make -f CMakeFiles/vcflength.dir/build.make CMakeFiles/vcflength.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcflength.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcflength.dir/build.make CMakeFiles/vcflength.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Building CXX object CMakeFiles/vcflength.dir/src/vcflength.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcflength.dir/src/vcflength.cpp.o -MF CMakeFiles/vcflength.dir/src/vcflength.cpp.o.d -o CMakeFiles/vcflength.dir/src/vcflength.cpp.o -c /<>/src/vcflength.cpp In file included from /<>/src/vcflength.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 68%] Linking CXX executable vcflength /usr/bin/cmake -E cmake_link_script CMakeFiles/vcflength.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcflength.dir/src/vcflength.cpp.o -o vcflength -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Built target vcflength make -f CMakeFiles/vcfdistance.dir/build.make CMakeFiles/vcfdistance.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfdistance.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfdistance.dir/build.make CMakeFiles/vcfdistance.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Building CXX object CMakeFiles/vcfdistance.dir/src/vcfdistance.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfdistance.dir/src/vcfdistance.cpp.o -MF CMakeFiles/vcfdistance.dir/src/vcfdistance.cpp.o.d -o CMakeFiles/vcfdistance.dir/src/vcfdistance.cpp.o -c /<>/src/vcfdistance.cpp In file included from /<>/src/vcfdistance.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 69%] Linking CXX executable vcfdistance /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfdistance.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfdistance.dir/src/vcfdistance.cpp.o -o vcfdistance -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 69%] Built target vcfdistance make -f CMakeFiles/vcfrandomsample.dir/build.make CMakeFiles/vcfrandomsample.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfrandomsample.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfrandomsample.dir/build.make CMakeFiles/vcfrandomsample.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Building CXX object CMakeFiles/vcfrandomsample.dir/src/vcfrandomsample.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfrandomsample.dir/src/vcfrandomsample.cpp.o -MF CMakeFiles/vcfrandomsample.dir/src/vcfrandomsample.cpp.o.d -o CMakeFiles/vcfrandomsample.dir/src/vcfrandomsample.cpp.o -c /<>/src/vcfrandomsample.cpp In file included from /<>/src/vcfrandomsample.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 71%] Linking CXX executable vcfrandomsample /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfrandomsample.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfrandomsample.dir/src/vcfrandomsample.cpp.o -o vcfrandomsample -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 71%] Built target vcfrandomsample make -f CMakeFiles/vcfentropy.dir/build.make CMakeFiles/vcfentropy.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfentropy.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfentropy.dir/build.make CMakeFiles/vcfentropy.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 72%] Building CXX object CMakeFiles/vcfentropy.dir/src/vcfentropy.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfentropy.dir/src/vcfentropy.cpp.o -MF CMakeFiles/vcfentropy.dir/src/vcfentropy.cpp.o.d -o CMakeFiles/vcfentropy.dir/src/vcfentropy.cpp.o -c /<>/src/vcfentropy.cpp In file included from /<>/src/vcfentropy.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 72%] Linking CXX executable vcfentropy /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfentropy.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfentropy.dir/src/vcfentropy.cpp.o -o vcfentropy -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 72%] Built target vcfentropy make -f CMakeFiles/vcfglxgt.dir/build.make CMakeFiles/vcfglxgt.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfglxgt.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfglxgt.dir/build.make CMakeFiles/vcfglxgt.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 73%] Building CXX object CMakeFiles/vcfglxgt.dir/src/vcfglxgt.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfglxgt.dir/src/vcfglxgt.cpp.o -MF CMakeFiles/vcfglxgt.dir/src/vcfglxgt.cpp.o.d -o CMakeFiles/vcfglxgt.dir/src/vcfglxgt.cpp.o -c /<>/src/vcfglxgt.cpp In file included from /<>/src/vcfglxgt.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 73%] Linking CXX executable vcfglxgt /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfglxgt.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfglxgt.dir/src/vcfglxgt.cpp.o -o vcfglxgt -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 73%] Built target vcfglxgt make -f CMakeFiles/vcfroc.dir/build.make CMakeFiles/vcfroc.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfroc.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfroc.dir/build.make CMakeFiles/vcfroc.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 74%] Building CXX object CMakeFiles/vcfroc.dir/src/vcfroc.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfroc.dir/src/vcfroc.cpp.o -MF CMakeFiles/vcfroc.dir/src/vcfroc.cpp.o.d -o CMakeFiles/vcfroc.dir/src/vcfroc.cpp.o -c /<>/src/vcfroc.cpp In file included from /<>/src/vcfroc.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/map:60, from /<>/src/Variant.h:15: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_tree.h: In member function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = long double; _Val = std::pair >; _KeyOfValue = std::_Select1st > >; _Compare = std::less; _Alloc = std::allocator > >]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type ‘std::_Rb_tree >, std::_Select1st > >, std::less, std::allocator > > >::const_iterator’ changed in GCC 7.1 2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_tree.h: In member function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = long double; _Val = std::pair >; _KeyOfValue = std::_Select1st > >; _Compare = std::less; _Alloc = std::allocator > >]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type ‘std::_Rb_tree >, std::_Select1st > >, std::less, std::allocator > > >::const_iterator’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_tree.h: In member function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = long double; _Val = std::pair >; _KeyOfValue = std::_Select1st > >; _Compare = std::less; _Alloc = std::allocator > >]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type ‘std::_Rb_tree >, std::_Select1st > >, std::less, std::allocator > > >::const_iterator’ changed in GCC 7.1 In file included from /usr/arm-linux-gnueabihf/include/c++/12/map:61: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = long double; _Tp = std::vector; _Compare = std::less; _Alloc = std::allocator > >]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:511:44: note: parameter passing for argument of type ‘std::_Rb_tree >, std::_Select1st > >, std::less, std::allocator > > >::const_iterator’ changed in GCC 7.1 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 512 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 513 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = long double; _Tp = std::vector; _Compare = std::less; _Alloc = std::allocator > >]’, inlined from ‘int main(int, char**)’ at /<>/src/vcfroc.cpp:257:33: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:530:44: note: parameter passing for argument of type ‘std::_Rb_tree >, std::_Select1st > >, std::less, std::allocator > > >::const_iterator’ changed in GCC 7.1 530 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 531 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 532 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = long double; _Tp = std::vector; _Compare = std::less; _Alloc = std::allocator > >]’, inlined from ‘int main(int, char**)’ at /<>/src/vcfroc.cpp:278:52: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:530:44: note: parameter passing for argument of type ‘std::_Rb_tree >, std::_Select1st > >, std::less, std::allocator > > >::const_iterator’ changed in GCC 7.1 530 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 531 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 532 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = long double; _Tp = std::vector; _Compare = std::less; _Alloc = std::allocator > >]’, inlined from ‘int main(int, char**)’ at /<>/src/vcfroc.cpp:305:50: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:511:44: note: parameter passing for argument of type ‘std::_Rb_tree >, std::_Select1st > >, std::less, std::allocator > > >::const_iterator’ changed in GCC 7.1 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 512 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 513 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = long double; _Tp = std::vector; _Compare = std::less; _Alloc = std::allocator > >]’, inlined from ‘int main(int, char**)’ at /<>/src/vcfroc.cpp:306:63: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:511:44: note: parameter passing for argument of type ‘std::_Rb_tree >, std::_Select1st > >, std::less, std::allocator > > >::const_iterator’ changed in GCC 7.1 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 512 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 513 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = long double; _Tp = std::vector; _Compare = std::less; _Alloc = std::allocator > >]’, inlined from ‘int main(int, char**)’ at /<>/src/vcfroc.cpp:314:50: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:511:44: note: parameter passing for argument of type ‘std::_Rb_tree >, std::_Select1st > >, std::less, std::allocator > > >::const_iterator’ changed in GCC 7.1 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 512 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 513 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = long double; _Tp = std::vector; _Compare = std::less; _Alloc = std::allocator > >]’, inlined from ‘int main(int, char**)’ at /<>/src/vcfroc.cpp:316:63: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:511:44: note: parameter passing for argument of type ‘std::_Rb_tree >, std::_Select1st > >, std::less, std::allocator > > >::const_iterator’ changed in GCC 7.1 511 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 512 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 513 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = long double; _Tp = std::vector; _Compare = std::less; _Alloc = std::allocator > >]’, inlined from ‘int main(int, char**)’ at /<>/src/vcfroc.cpp:384:88: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_map.h:530:44: note: parameter passing for argument of type ‘std::_Rb_tree >, std::_Select1st > >, std::less, std::allocator > > >::const_iterator’ changed in GCC 7.1 530 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 531 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 532 | std::tuple<>()); | ~~~~~~~~~~~~~~~ [ 74%] Linking CXX executable vcfroc /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfroc.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfroc.dir/src/vcfroc.cpp.o -o vcfroc -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 74%] Built target vcfroc make -f CMakeFiles/vcfcheck.dir/build.make CMakeFiles/vcfcheck.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfcheck.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfcheck.dir/build.make CMakeFiles/vcfcheck.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 74%] Building CXX object CMakeFiles/vcfcheck.dir/src/vcfcheck.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfcheck.dir/src/vcfcheck.cpp.o -MF CMakeFiles/vcfcheck.dir/src/vcfcheck.cpp.o.d -o CMakeFiles/vcfcheck.dir/src/vcfcheck.cpp.o -c /<>/src/vcfcheck.cpp In file included from /<>/src/vcfcheck.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 75%] Linking CXX executable vcfcheck /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcheck.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfcheck.dir/src/vcfcheck.cpp.o -o vcfcheck -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 75%] Built target vcfcheck make -f CMakeFiles/vcfstreamsort.dir/build.make CMakeFiles/vcfstreamsort.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfstreamsort.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfstreamsort.dir/build.make CMakeFiles/vcfstreamsort.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 75%] Building CXX object CMakeFiles/vcfstreamsort.dir/src/vcfstreamsort.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfstreamsort.dir/src/vcfstreamsort.cpp.o -MF CMakeFiles/vcfstreamsort.dir/src/vcfstreamsort.cpp.o.d -o CMakeFiles/vcfstreamsort.dir/src/vcfstreamsort.cpp.o -c /<>/src/vcfstreamsort.cpp In file included from /<>/src/vcfstreamsort.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const vcflib::Variant&}; _Tp = vcflib::Variant; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = vcflib::Variant; _Alloc = std::allocator]’, inlined from ‘int main(int, char**)’ at /<>/src/vcfstreamsort.cpp:117:71: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 76%] Linking CXX executable vcfstreamsort /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfstreamsort.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfstreamsort.dir/src/vcfstreamsort.cpp.o -o vcfstreamsort -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 76%] Built target vcfstreamsort make -f CMakeFiles/vcfuniq.dir/build.make CMakeFiles/vcfuniq.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfuniq.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfuniq.dir/build.make CMakeFiles/vcfuniq.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 77%] Building CXX object CMakeFiles/vcfuniq.dir/src/vcfuniq.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfuniq.dir/src/vcfuniq.cpp.o -MF CMakeFiles/vcfuniq.dir/src/vcfuniq.cpp.o.d -o CMakeFiles/vcfuniq.dir/src/vcfuniq.cpp.o -c /<>/src/vcfuniq.cpp In file included from /<>/src/vcfuniq.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 77%] Linking CXX executable vcfuniq /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfuniq.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfuniq.dir/src/vcfuniq.cpp.o -o vcfuniq -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 77%] Built target vcfuniq make -f CMakeFiles/vcfuniqalleles.dir/build.make CMakeFiles/vcfuniqalleles.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfuniqalleles.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfuniqalleles.dir/build.make CMakeFiles/vcfuniqalleles.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 78%] Building CXX object CMakeFiles/vcfuniqalleles.dir/src/vcfuniqalleles.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfuniqalleles.dir/src/vcfuniqalleles.cpp.o -MF CMakeFiles/vcfuniqalleles.dir/src/vcfuniqalleles.cpp.o.d -o CMakeFiles/vcfuniqalleles.dir/src/vcfuniqalleles.cpp.o -c /<>/src/vcfuniqalleles.cpp In file included from /<>/src/vcfuniqalleles.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 78%] Linking CXX executable vcfuniqalleles /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfuniqalleles.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfuniqalleles.dir/src/vcfuniqalleles.cpp.o -o vcfuniqalleles -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 78%] Built target vcfuniqalleles make -f CMakeFiles/vcfremap.dir/build.make CMakeFiles/vcfremap.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfremap.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfremap.dir/build.make CMakeFiles/vcfremap.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 78%] Building CXX object CMakeFiles/vcfremap.dir/src/vcfremap.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfremap.dir/src/vcfremap.cpp.o -MF CMakeFiles/vcfremap.dir/src/vcfremap.cpp.o.d -o CMakeFiles/vcfremap.dir/src/vcfremap.cpp.o -c /<>/src/vcfremap.cpp In file included from /<>/src/vcfremap.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 79%] Linking CXX executable vcfremap /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfremap.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfremap.dir/src/vcfremap.cpp.o -o vcfremap -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 79%] Built target vcfremap make -f CMakeFiles/vcf2fasta.dir/build.make CMakeFiles/vcf2fasta.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcf2fasta.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcf2fasta.dir/build.make CMakeFiles/vcf2fasta.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 80%] Building CXX object CMakeFiles/vcf2fasta.dir/src/vcf2fasta.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcf2fasta.dir/src/vcf2fasta.cpp.o -MF CMakeFiles/vcf2fasta.dir/src/vcf2fasta.cpp.o.d -o CMakeFiles/vcf2fasta.dir/src/vcf2fasta.cpp.o -c /<>/src/vcf2fasta.cpp In file included from /<>/src/vcf2fasta.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 80%] Linking CXX executable vcf2fasta /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2fasta.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcf2fasta.dir/src/vcf2fasta.cpp.o -o vcf2fasta -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 80%] Built target vcf2fasta make -f CMakeFiles/vcfsitesummarize.dir/build.make CMakeFiles/vcfsitesummarize.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfsitesummarize.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfsitesummarize.dir/build.make CMakeFiles/vcfsitesummarize.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 80%] Building CXX object CMakeFiles/vcfsitesummarize.dir/src/vcfsitesummarize.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfsitesummarize.dir/src/vcfsitesummarize.cpp.o -MF CMakeFiles/vcfsitesummarize.dir/src/vcfsitesummarize.cpp.o.d -o CMakeFiles/vcfsitesummarize.dir/src/vcfsitesummarize.cpp.o -c /<>/src/vcfsitesummarize.cpp In file included from /<>/src/vcfsitesummarize.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 81%] Linking CXX executable vcfsitesummarize /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfsitesummarize.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfsitesummarize.dir/src/vcfsitesummarize.cpp.o -o vcfsitesummarize -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 81%] Built target vcfsitesummarize make -f CMakeFiles/vcfbreakmulti.dir/build.make CMakeFiles/vcfbreakmulti.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfbreakmulti.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfbreakmulti.dir/build.make CMakeFiles/vcfbreakmulti.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 81%] Building CXX object CMakeFiles/vcfbreakmulti.dir/src/vcfbreakmulti.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfbreakmulti.dir/src/vcfbreakmulti.cpp.o -MF CMakeFiles/vcfbreakmulti.dir/src/vcfbreakmulti.cpp.o.d -o CMakeFiles/vcfbreakmulti.dir/src/vcfbreakmulti.cpp.o -c /<>/src/vcfbreakmulti.cpp In file included from /<>/src/vcfbreakmulti.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const vcflib::Variant&}; _Tp = vcflib::Variant; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = vcflib::Variant; _Alloc = std::allocator]’, inlined from ‘int main(int, char**)’ at /<>/src/vcfbreakmulti.cpp:100:31: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 82%] Linking CXX executable vcfbreakmulti /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfbreakmulti.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfbreakmulti.dir/src/vcfbreakmulti.cpp.o -o vcfbreakmulti -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 82%] Built target vcfbreakmulti make -f CMakeFiles/vcfcreatemulti.dir/build.make CMakeFiles/vcfcreatemulti.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfcreatemulti.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfcreatemulti.dir/build.make CMakeFiles/vcfcreatemulti.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 82%] Building CXX object CMakeFiles/vcfcreatemulti.dir/src/vcfcreatemulti.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfcreatemulti.dir/src/vcfcreatemulti.cpp.o -MF CMakeFiles/vcfcreatemulti.dir/src/vcfcreatemulti.cpp.o.d -o CMakeFiles/vcfcreatemulti.dir/src/vcfcreatemulti.cpp.o -c /<>/src/vcfcreatemulti.cpp In file included from /<>/src/vcfcreatemulti.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const vcflib::Variant&}; _Tp = vcflib::Variant; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = vcflib::Variant; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 83%] Linking CXX executable vcfcreatemulti /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcreatemulti.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfcreatemulti.dir/src/vcfcreatemulti.cpp.o -o vcfcreatemulti -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 83%] Built target vcfcreatemulti make -f CMakeFiles/vcfevenregions.dir/build.make CMakeFiles/vcfevenregions.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfevenregions.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfevenregions.dir/build.make CMakeFiles/vcfevenregions.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 84%] Building CXX object CMakeFiles/vcfevenregions.dir/src/vcfevenregions.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfevenregions.dir/src/vcfevenregions.cpp.o -MF CMakeFiles/vcfevenregions.dir/src/vcfevenregions.cpp.o.d -o CMakeFiles/vcfevenregions.dir/src/vcfevenregions.cpp.o -c /<>/src/vcfevenregions.cpp In file included from /<>/src/vcfevenregions.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 84%] Linking CXX executable vcfevenregions /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfevenregions.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfevenregions.dir/src/vcfevenregions.cpp.o -o vcfevenregions -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 84%] Built target vcfevenregions make -f CMakeFiles/vcfcat.dir/build.make CMakeFiles/vcfcat.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfcat.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfcat.dir/build.make CMakeFiles/vcfcat.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 84%] Building CXX object CMakeFiles/vcfcat.dir/src/vcfcat.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfcat.dir/src/vcfcat.cpp.o -MF CMakeFiles/vcfcat.dir/src/vcfcat.cpp.o.d -o CMakeFiles/vcfcat.dir/src/vcfcat.cpp.o -c /<>/src/vcfcat.cpp In file included from /<>/src/vcfcat.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 85%] Linking CXX executable vcfcat /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcat.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfcat.dir/src/vcfcat.cpp.o -o vcfcat -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 85%] Built target vcfcat make -f CMakeFiles/vcfgenosummarize.dir/build.make CMakeFiles/vcfgenosummarize.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfgenosummarize.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfgenosummarize.dir/build.make CMakeFiles/vcfgenosummarize.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Building CXX object CMakeFiles/vcfgenosummarize.dir/src/vcfgenosummarize.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfgenosummarize.dir/src/vcfgenosummarize.cpp.o -MF CMakeFiles/vcfgenosummarize.dir/src/vcfgenosummarize.cpp.o.d -o CMakeFiles/vcfgenosummarize.dir/src/vcfgenosummarize.cpp.o -c /<>/src/vcfgenosummarize.cpp In file included from /<>/src/vcfgenosummarize.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 87%] Linking CXX executable vcfgenosummarize /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgenosummarize.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfgenosummarize.dir/src/vcfgenosummarize.cpp.o -o vcfgenosummarize -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 87%] Built target vcfgenosummarize make -f CMakeFiles/vcfgenosamplenames.dir/build.make CMakeFiles/vcfgenosamplenames.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfgenosamplenames.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfgenosamplenames.dir/build.make CMakeFiles/vcfgenosamplenames.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 88%] Building CXX object CMakeFiles/vcfgenosamplenames.dir/src/vcfgenosamplenames.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfgenosamplenames.dir/src/vcfgenosamplenames.cpp.o -MF CMakeFiles/vcfgenosamplenames.dir/src/vcfgenosamplenames.cpp.o.d -o CMakeFiles/vcfgenosamplenames.dir/src/vcfgenosamplenames.cpp.o -c /<>/src/vcfgenosamplenames.cpp In file included from /<>/src/vcfgenosamplenames.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 88%] Linking CXX executable vcfgenosamplenames /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgenosamplenames.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfgenosamplenames.dir/src/vcfgenosamplenames.cpp.o -o vcfgenosamplenames -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 88%] Built target vcfgenosamplenames make -f CMakeFiles/vcfgeno2haplo.dir/build.make CMakeFiles/vcfgeno2haplo.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfgeno2haplo.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfgeno2haplo.dir/build.make CMakeFiles/vcfgeno2haplo.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 89%] Building CXX object CMakeFiles/vcfgeno2haplo.dir/src/vcfgeno2haplo.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfgeno2haplo.dir/src/vcfgeno2haplo.cpp.o -MF CMakeFiles/vcfgeno2haplo.dir/src/vcfgeno2haplo.cpp.o.d -o CMakeFiles/vcfgeno2haplo.dir/src/vcfgeno2haplo.cpp.o -c /<>/src/vcfgeno2haplo.cpp In file included from /<>/src/vcfgeno2haplo.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const vcflib::Variant&}; _Tp = vcflib::Variant; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = vcflib::Variant; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 89%] Linking CXX executable vcfgeno2haplo /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgeno2haplo.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfgeno2haplo.dir/src/vcfgeno2haplo.cpp.o -o vcfgeno2haplo -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 89%] Built target vcfgeno2haplo make -f CMakeFiles/vcfleftalign.dir/build.make CMakeFiles/vcfleftalign.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfleftalign.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfleftalign.dir/build.make CMakeFiles/vcfleftalign.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 89%] Building CXX object CMakeFiles/vcfleftalign.dir/src/vcfleftalign.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfleftalign.dir/src/vcfleftalign.cpp.o -MF CMakeFiles/vcfleftalign.dir/src/vcfleftalign.cpp.o.d -o CMakeFiles/vcfleftalign.dir/src/vcfleftalign.cpp.o -c /<>/src/vcfleftalign.cpp In file included from /<>/src/vcfleftalign.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘double entropy(const std::string&)’ at /<>/src/vcfleftalign.cpp:140:24: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 90%] Linking CXX executable vcfleftalign /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfleftalign.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfleftalign.dir/src/vcfleftalign.cpp.o -o vcfleftalign -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 90%] Built target vcfleftalign make -f CMakeFiles/vcfcombine.dir/build.make CMakeFiles/vcfcombine.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfcombine.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfcombine.dir/build.make CMakeFiles/vcfcombine.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 91%] Building CXX object CMakeFiles/vcfcombine.dir/src/vcfcombine.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfcombine.dir/src/vcfcombine.cpp.o -MF CMakeFiles/vcfcombine.dir/src/vcfcombine.cpp.o.d -o CMakeFiles/vcfcombine.dir/src/vcfcombine.cpp.o -c /<>/src/vcfcombine.cpp In file included from /<>/src/vcfcombine.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 91%] Linking CXX executable vcfcombine /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcombine.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfcombine.dir/src/vcfcombine.cpp.o -o vcfcombine -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 91%] Built target vcfcombine make -f CMakeFiles/vcfgeno2alleles.dir/build.make CMakeFiles/vcfgeno2alleles.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfgeno2alleles.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfgeno2alleles.dir/build.make CMakeFiles/vcfgeno2alleles.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 92%] Building CXX object CMakeFiles/vcfgeno2alleles.dir/src/vcfgeno2alleles.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfgeno2alleles.dir/src/vcfgeno2alleles.cpp.o -MF CMakeFiles/vcfgeno2alleles.dir/src/vcfgeno2alleles.cpp.o.d -o CMakeFiles/vcfgeno2alleles.dir/src/vcfgeno2alleles.cpp.o -c /<>/src/vcfgeno2alleles.cpp In file included from /<>/src/vcfgeno2alleles.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 92%] Linking CXX executable vcfgeno2alleles /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgeno2alleles.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfgeno2alleles.dir/src/vcfgeno2alleles.cpp.o -o vcfgeno2alleles -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 92%] Built target vcfgeno2alleles make -f CMakeFiles/vcfindex.dir/build.make CMakeFiles/vcfindex.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfindex.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfindex.dir/build.make CMakeFiles/vcfindex.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 93%] Building CXX object CMakeFiles/vcfindex.dir/src/vcfindex.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfindex.dir/src/vcfindex.cpp.o -MF CMakeFiles/vcfindex.dir/src/vcfindex.cpp.o.d -o CMakeFiles/vcfindex.dir/src/vcfindex.cpp.o -c /<>/src/vcfindex.cpp In file included from /<>/src/vcfindex.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 94%] Linking CXX executable vcfindex /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfindex.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfindex.dir/src/vcfindex.cpp.o -o vcfindex -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 94%] Built target vcfindex make -f CMakeFiles/vcf2dag.dir/build.make CMakeFiles/vcf2dag.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcf2dag.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcf2dag.dir/build.make CMakeFiles/vcf2dag.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 95%] Building CXX object CMakeFiles/vcf2dag.dir/src/vcf2dag.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcf2dag.dir/src/vcf2dag.cpp.o -MF CMakeFiles/vcf2dag.dir/src/vcf2dag.cpp.o.d -o CMakeFiles/vcf2dag.dir/src/vcf2dag.cpp.o -c /<>/src/vcf2dag.cpp In file included from /<>/src/vcf2dag.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 95%] Linking CXX executable vcf2dag /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2dag.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcf2dag.dir/src/vcf2dag.cpp.o -o vcf2dag -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 95%] Built target vcf2dag make -f CMakeFiles/vcfsample2info.dir/build.make CMakeFiles/vcfsample2info.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfsample2info.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfsample2info.dir/build.make CMakeFiles/vcfsample2info.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 96%] Building CXX object CMakeFiles/vcfsample2info.dir/src/vcfsample2info.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfsample2info.dir/src/vcfsample2info.cpp.o -MF CMakeFiles/vcfsample2info.dir/src/vcfsample2info.cpp.o.d -o CMakeFiles/vcfsample2info.dir/src/vcfsample2info.cpp.o -c /<>/src/vcfsample2info.cpp In file included from /<>/src/vcfsample2info.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/queue:62, from /<>/src/Variant.h:23: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘int main(int, char**)’ at /<>/src/vcfsample2info.cpp:194:31: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 96%] Linking CXX executable vcfsample2info /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfsample2info.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfsample2info.dir/src/vcfsample2info.cpp.o -o vcfsample2info -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 96%] Built target vcfsample2info make -f CMakeFiles/vcfqual2info.dir/build.make CMakeFiles/vcfqual2info.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfqual2info.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfqual2info.dir/build.make CMakeFiles/vcfqual2info.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Building CXX object CMakeFiles/vcfqual2info.dir/src/vcfqual2info.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfqual2info.dir/src/vcfqual2info.cpp.o -MF CMakeFiles/vcfqual2info.dir/src/vcfqual2info.cpp.o.d -o CMakeFiles/vcfqual2info.dir/src/vcfqual2info.cpp.o -c /<>/src/vcfqual2info.cpp In file included from /<>/src/vcfqual2info.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 97%] Linking CXX executable vcfqual2info /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfqual2info.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfqual2info.dir/src/vcfqual2info.cpp.o -o vcfqual2info -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Built target vcfqual2info make -f CMakeFiles/vcfinfo2qual.dir/build.make CMakeFiles/vcfinfo2qual.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfinfo2qual.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfinfo2qual.dir/build.make CMakeFiles/vcfinfo2qual.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Building CXX object CMakeFiles/vcfinfo2qual.dir/src/vcfinfo2qual.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfinfo2qual.dir/src/vcfinfo2qual.cpp.o -MF CMakeFiles/vcfinfo2qual.dir/src/vcfinfo2qual.cpp.o.d -o CMakeFiles/vcfinfo2qual.dir/src/vcfinfo2qual.cpp.o -c /<>/src/vcfinfo2qual.cpp In file included from /<>/src/vcfinfo2qual.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 98%] Linking CXX executable vcfinfo2qual /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfinfo2qual.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfinfo2qual.dir/src/vcfinfo2qual.cpp.o -o vcfinfo2qual -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target vcfinfo2qual make -f CMakeFiles/vcfglbound.dir/build.make CMakeFiles/vcfglbound.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfglbound.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfglbound.dir/build.make CMakeFiles/vcfglbound.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Building CXX object CMakeFiles/vcfglbound.dir/src/vcfglbound.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfglbound.dir/src/vcfglbound.cpp.o -MF CMakeFiles/vcfglbound.dir/src/vcfglbound.cpp.o.d -o CMakeFiles/vcfglbound.dir/src/vcfglbound.cpp.o -c /<>/src/vcfglbound.cpp In file included from /<>/src/vcfglbound.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘int main(int, char**)’ at /<>/src/vcfglbound.cpp:137:34: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 99%] Linking CXX executable vcfglbound /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfglbound.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfglbound.dir/src/vcfglbound.cpp.o -o vcfglbound -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 99%] Built target vcfglbound make -f CMakeFiles/vcfinfosummarize.dir/build.make CMakeFiles/vcfinfosummarize.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/vcfinfosummarize.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/vcfinfosummarize.dir/build.make CMakeFiles/vcfinfosummarize.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 99%] Building CXX object CMakeFiles/vcfinfosummarize.dir/src/vcfinfosummarize.cpp.o /usr/bin/arm-linux-gnueabihf-g++ -DVCFLIB_VERSION=\"1.0.3\" -DVERSION=\"1.0.3\" -I/<>/include -I/<>/intervaltree -I/<>/multichoose -I/<>/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -MD -MT CMakeFiles/vcfinfosummarize.dir/src/vcfinfosummarize.cpp.o -MF CMakeFiles/vcfinfosummarize.dir/src/vcfinfosummarize.cpp.o.d -o CMakeFiles/vcfinfosummarize.dir/src/vcfinfosummarize.cpp.o -c /<>/src/vcfinfosummarize.cpp In file included from /<>/src/vcfinfosummarize.cpp:10: /<>/src/Variant.h:651:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 651 | struct stringcasecmp : binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/bits/refwrap.h:39, from /usr/arm-linux-gnueabihf/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/Variant.h:652:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 652 | struct charcasecmp : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/queue:62, from /<>/src/Variant.h:23: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:70: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/12/vector:64: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘int main(int, char**)’ at /<>/src/vcfinfosummarize.cpp:204:31: /usr/arm-linux-gnueabihf/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [100%] Linking CXX executable vcfinfosummarize /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfinfosummarize.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfinfosummarize.dir/src/vcfinfosummarize.cpp.o -o vcfinfosummarize -Wl,-rpath,"\$ORIGIN:" libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target vcfinfosummarize make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /<>/obj-arm-linux-gnueabihf/CMakeFiles 0 make[2]: Leaving directory '/<>/obj-arm-linux-gnueabihf' markdown README.md > README.html make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp dh_testroot -a -O--buildsystem=cmake dh_prep -a -O--buildsystem=cmake dh_auto_install -a -O--buildsystem=cmake cd obj-arm-linux-gnueabihf && make -j1 install DESTDIR=/<>/libvcflib-1.0.3\+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/bin/vcfecho -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfecho" to "" -- Installing: /<>/debian/tmp/usr/bin/dumpContigsFromHeader -- Set runtime path of "/<>/debian/tmp/usr/bin/dumpContigsFromHeader" to "" -- Installing: /<>/debian/tmp/usr/bin/bFst -- Set runtime path of "/<>/debian/tmp/usr/bin/bFst" to "" -- Installing: /<>/debian/tmp/usr/bin/pVst -- Set runtime path of "/<>/debian/tmp/usr/bin/pVst" to "" -- Installing: /<>/debian/tmp/usr/bin/hapLrt -- Set runtime path of "/<>/debian/tmp/usr/bin/hapLrt" to "" -- Installing: /<>/debian/tmp/usr/bin/popStats -- Set runtime path of "/<>/debian/tmp/usr/bin/popStats" to "" -- Installing: /<>/debian/tmp/usr/bin/wcFst -- Set runtime path of "/<>/debian/tmp/usr/bin/wcFst" to "" -- Installing: /<>/debian/tmp/usr/bin/iHS -- Set runtime path of "/<>/debian/tmp/usr/bin/iHS" to "" -- Installing: /<>/debian/tmp/usr/bin/segmentFst -- Set runtime path of "/<>/debian/tmp/usr/bin/segmentFst" to "" -- Installing: /<>/debian/tmp/usr/bin/segmentIhs -- Set runtime path of "/<>/debian/tmp/usr/bin/segmentIhs" to "" -- Installing: /<>/debian/tmp/usr/bin/genotypeSummary -- Set runtime path of "/<>/debian/tmp/usr/bin/genotypeSummary" to "" -- Installing: /<>/debian/tmp/usr/bin/sequenceDiversity -- Set runtime path of "/<>/debian/tmp/usr/bin/sequenceDiversity" to "" -- Installing: /<>/debian/tmp/usr/bin/pFst -- Set runtime path of "/<>/debian/tmp/usr/bin/pFst" to "" -- Installing: /<>/debian/tmp/usr/bin/smoother -- Set runtime path of "/<>/debian/tmp/usr/bin/smoother" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfld -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfld" to "" -- Installing: /<>/debian/tmp/usr/bin/plotHaps -- Set runtime path of "/<>/debian/tmp/usr/bin/plotHaps" to "" -- Installing: /<>/debian/tmp/usr/bin/abba-baba -- Set runtime path of "/<>/debian/tmp/usr/bin/abba-baba" to "" -- Installing: /<>/debian/tmp/usr/bin/permuteGPAT++ -- Set runtime path of "/<>/debian/tmp/usr/bin/permuteGPAT++" to "" -- Installing: /<>/debian/tmp/usr/bin/permuteSmooth -- Set runtime path of "/<>/debian/tmp/usr/bin/permuteSmooth" to "" -- Installing: /<>/debian/tmp/usr/bin/normalize-iHS -- Set runtime path of "/<>/debian/tmp/usr/bin/normalize-iHS" to "" -- Installing: /<>/debian/tmp/usr/bin/meltEHH -- Set runtime path of "/<>/debian/tmp/usr/bin/meltEHH" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfaltcount -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfaltcount" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfhetcount -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfhetcount" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfhethomratio -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfhethomratio" to "" -- Installing: /<>/debian/tmp/usr/bin/vcffilter -- Set runtime path of "/<>/debian/tmp/usr/bin/vcffilter" to "" -- Installing: /<>/debian/tmp/usr/bin/vcf2tsv -- Set runtime path of "/<>/debian/tmp/usr/bin/vcf2tsv" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfgenotypes -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfgenotypes" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfannotategenotypes -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfannotategenotypes" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfcommonsamples -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfcommonsamples" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfremovesamples -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfremovesamples" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfkeepsamples -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfkeepsamples" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfsamplenames -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfsamplenames" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfgenotypecompare -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfgenotypecompare" to "" -- Installing: /<>/debian/tmp/usr/bin/vcffixup -- Set runtime path of "/<>/debian/tmp/usr/bin/vcffixup" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfclassify -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfclassify" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfsamplediff -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfsamplediff" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfremoveaberrantgenotypes -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfremoveaberrantgenotypes" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfrandom -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfrandom" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfparsealts -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfparsealts" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfstats -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfstats" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfflatten -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfflatten" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfprimers -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfprimers" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfnumalt -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfnumalt" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfcleancomplex -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfcleancomplex" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfintersect -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfintersect" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfannotate -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfannotate" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfallelicprimitives -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfallelicprimitives" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfoverlay -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfoverlay" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfaddinfo -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfaddinfo" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfkeepinfo -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfkeepinfo" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfkeepgeno -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfkeepgeno" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfafpath -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfafpath" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfcountalleles -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfcountalleles" to "" -- Installing: /<>/debian/tmp/usr/bin/vcflength -- Set runtime path of "/<>/debian/tmp/usr/bin/vcflength" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfdistance -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfdistance" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfrandomsample -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfrandomsample" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfentropy -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfentropy" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfglxgt -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfglxgt" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfroc -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfroc" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfcheck -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfcheck" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfstreamsort -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfstreamsort" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfuniq -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfuniq" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfuniqalleles -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfuniqalleles" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfremap -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfremap" to "" -- Installing: /<>/debian/tmp/usr/bin/vcf2fasta -- Set runtime path of "/<>/debian/tmp/usr/bin/vcf2fasta" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfsitesummarize -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfsitesummarize" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfbreakmulti -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfbreakmulti" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfcreatemulti -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfcreatemulti" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfevenregions -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfevenregions" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfcat -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfcat" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfgenosummarize -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfgenosummarize" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfgenosamplenames -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfgenosamplenames" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfgeno2haplo -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfgeno2haplo" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfleftalign -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfleftalign" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfcombine -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfcombine" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfgeno2alleles -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfgeno2alleles" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfindex -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfindex" to "" -- Installing: /<>/debian/tmp/usr/bin/vcf2dag -- Set runtime path of "/<>/debian/tmp/usr/bin/vcf2dag" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfsample2info -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfsample2info" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfqual2info -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfqual2info" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfinfo2qual -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfinfo2qual" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfglbound -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfglbound" to "" -- Installing: /<>/debian/tmp/usr/bin/vcfinfosummarize -- Set runtime path of "/<>/debian/tmp/usr/bin/vcfinfosummarize" to "" -- Installing: /<>/debian/tmp/usr/bin/bed2region -- Installing: /<>/debian/tmp/usr/bin/bgziptabix -- Installing: /<>/debian/tmp/usr/bin/vcf2bed.py -- Installing: /<>/debian/tmp/usr/bin/vcf2sqlite.py -- Installing: /<>/debian/tmp/usr/bin/vcfbiallelic -- Installing: /<>/debian/tmp/usr/bin/vcfclearid -- Installing: /<>/debian/tmp/usr/bin/vcfclearinfo -- Installing: /<>/debian/tmp/usr/bin/vcfcomplex -- Installing: /<>/debian/tmp/usr/bin/vcffirstheader -- Installing: /<>/debian/tmp/usr/bin/vcfgtcompare.sh -- Installing: /<>/debian/tmp/usr/bin/vcfindelproximity -- Installing: /<>/debian/tmp/usr/bin/vcfindels -- Installing: /<>/debian/tmp/usr/bin/vcfjoincalls -- Installing: /<>/debian/tmp/usr/bin/vcfmultiallelic -- Installing: /<>/debian/tmp/usr/bin/vcfmultiway -- Installing: /<>/debian/tmp/usr/bin/vcfmultiwayscripts -- Installing: /<>/debian/tmp/usr/bin/vcfnobiallelicsnps -- Installing: /<>/debian/tmp/usr/bin/vcfnoindels -- Installing: /<>/debian/tmp/usr/bin/vcfnosnps -- Installing: /<>/debian/tmp/usr/bin/vcfnulldotslashdot -- Installing: /<>/debian/tmp/usr/bin/vcfplotaltdiscrepancy.r -- Installing: /<>/debian/tmp/usr/bin/vcfplotaltdiscrepancy.sh -- Installing: /<>/debian/tmp/usr/bin/vcfplotsitediscrepancy.r -- Installing: /<>/debian/tmp/usr/bin/vcfplottstv.sh -- Installing: /<>/debian/tmp/usr/bin/vcfprintaltdiscrepancy.r -- Installing: /<>/debian/tmp/usr/bin/vcfprintaltdiscrepancy.sh -- Installing: /<>/debian/tmp/usr/bin/vcfqualfilter -- Installing: /<>/debian/tmp/usr/bin/vcfregionreduce -- Installing: /<>/debian/tmp/usr/bin/vcfregionreduce_and_cut -- Installing: /<>/debian/tmp/usr/bin/vcfregionreduce_pipe -- Installing: /<>/debian/tmp/usr/bin/vcfregionreduce_uncompressed -- Installing: /<>/debian/tmp/usr/bin/vcfremovenonATGC -- Installing: /<>/debian/tmp/usr/bin/vcfsnps -- Installing: /<>/debian/tmp/usr/bin/vcfsort -- Installing: /<>/debian/tmp/usr/bin/vcf_strip_extra_headers -- Installing: /<>/debian/tmp/usr/bin/vcfvarstats -- Installing: /<>/debian/tmp/usr/lib/arm-linux-gnueabihf/libvcflib.so.1 -- Installing: /<>/debian/tmp/usr/lib/arm-linux-gnueabihf/libvcflib.so -- Installing: /<>/debian/tmp/usr/include/filevercmp.h -- Installing: /<>/debian/tmp/usr/include/IntervalTree.h -- Installing: /<>/debian/tmp/usr/include/catch.hpp -- Installing: /<>/debian/tmp/usr/include/multichoose.h -- Installing: /<>/debian/tmp/usr/include/multipermute.h -- Installing: /<>/debian/tmp/usr/include/BedReader.h -- Installing: /<>/debian/tmp/usr/include/Variant.h -- Installing: /<>/debian/tmp/usr/include/cdflib.hpp -- Installing: /<>/debian/tmp/usr/include/convert.h -- Installing: /<>/debian/tmp/usr/include/gpatInfo.hpp -- Installing: /<>/debian/tmp/usr/include/join.h -- Installing: /<>/debian/tmp/usr/include/makeUnique.h -- Installing: /<>/debian/tmp/usr/include/mt19937ar.h -- Installing: /<>/debian/tmp/usr/include/pdflib.hpp -- Installing: /<>/debian/tmp/usr/include/rnglib.hpp -- Installing: /<>/debian/tmp/usr/include/split.h -- Installing: /<>/debian/tmp/usr/include/var.hpp -- Installing: /<>/debian/tmp/usr/include/vec128int.h -- Installing: /<>/debian/tmp/usr/include/veclib_types.h -- Installing: /<>/debian/tmp/usr/man/man1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfhethomratio.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfgenosummarize.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfkeepinfo.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfcommonsamples.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfleftalign.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfsample2info.1 -- Installing: /<>/debian/tmp/usr/man/man1/meltEHH.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfprimers.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfafpath.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcf2dag.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfkeepgeno.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfcountalleles.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfinfo2qual.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfdistance.1 -- Installing: /<>/debian/tmp/usr/man/man1/normalize-iHS.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfhetcount.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcffixup.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfannotate.1 -- Installing: /<>/debian/tmp/usr/man/man1/wcFst.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfgenotypecompare.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfbreakmulti.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcflength.1 -- Installing: /<>/debian/tmp/usr/man/man1/permuteGPAT++.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfsitesummarize.1 -- Installing: /<>/debian/tmp/usr/man/man1/plotHaps.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfremoveaberrantgenotypes.1 -- Installing: /<>/debian/tmp/usr/man/man1/bFst.1 -- Installing: /<>/debian/tmp/usr/man/man1/hapLrt.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfstreamsort.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfsamplediff.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfaltcount.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfrandom.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfoverlay.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfnumalt.1 -- Installing: /<>/debian/tmp/usr/man/man1/genotypeSummary.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfflatten.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfcleancomplex.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfstats.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfannotategenotypes.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfremap.1 -- Installing: /<>/debian/tmp/usr/man/man1/pVst.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfcheck.1 -- Installing: /<>/debian/tmp/usr/man/man1/popStats.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfroc.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfglxgt.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfcat.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfqual2info.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfaddinfo.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfindex.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfsamplenames.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfallelicprimitives.1 -- Installing: /<>/debian/tmp/usr/man/man1/smoother.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfuniq.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfintersect.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfgenotypes.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfgeno2alleles.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfentropy.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfld.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfglbound.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcf2tsv.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfecho.1 -- Installing: /<>/debian/tmp/usr/man/man1/permuteSmooth.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfnulldotslashdot.1 -- Installing: /<>/debian/tmp/usr/man/man1/segmentIhs.1 -- Installing: /<>/debian/tmp/usr/man/man1/dumpContigsFromHeader.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcflib.1 -- Installing: /<>/debian/tmp/usr/man/man1/segmentFst.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfevenregions.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfcombine.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfclassify.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfremovesamples.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcffilter.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfgeno2haplo.1 -- Installing: /<>/debian/tmp/usr/man/man1/pFst.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfuniqalleles.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfcreatemulti.1 -- Installing: /<>/debian/tmp/usr/man/man1/iHS.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfgenosamplenames.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcf2fasta.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfparsealts.1 -- Installing: /<>/debian/tmp/usr/man/man1/abba-baba.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfkeepsamples.1 -- Installing: /<>/debian/tmp/usr/man/man1/sequenceDiversity.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfinfosummarize.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfrandomsample.1 make[1]: Leaving directory '/<>/obj-arm-linux-gnueabihf' debian/rules override_dh_install make[1]: Entering directory '/<>' dh_install find debian -name filevercmp.h -delete cp -a filevercmp/filevercmp.h debian/libvcflib-dev/usr/include/vcflib/ mkdir -p debian/libvcflib-dev/usr/include/intervaltree mv debian/libvcflib-dev/usr/include/vcflib/IntervalTree.h debian/libvcflib-dev/usr/include/intervaltree # install pkg-config file mkdir -p /<>/debian/libvcflib-dev/usr/lib/arm-linux-gnueabihf/pkgconfig mv libvcflib.pc /<>/debian/libvcflib-dev/usr/lib/arm-linux-gnueabihf/pkgconfig rm -rf debian/*/usr/lib/vcflib/bin/*.R for pl in `grep -Rl '#!/usr/bin/env' debian/*/usr/*` ; do \ sed -i '1s?^#!/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' ${pl} ; \ done grep: debian/libvcflib-dev/usr/lib/arm-linux-gnueabihf/libvcflib.so: No such file or directory make[1]: Leaving directory '/<>' dh_installdocs -a -O--buildsystem=cmake dh_installchangelogs -a -O--buildsystem=cmake dh_installman -a -O--buildsystem=cmake dh_installsystemduser -a -O--buildsystem=cmake dh_lintian -a -O--buildsystem=cmake dh_perl -a -O--buildsystem=cmake debian/rules override_dh_link make[1]: Entering directory '/<>' dh_link for rscript in debian/libvcflib-tools/usr/lib/vcflib/scripts/*.R ; do \ scriptname=$(basename $rscript) ; \ dh_link -p libvcflib-tools usr/lib/vcflib/scripts/$scriptname usr/lib/R/site-library/vcflib/$scriptname ; \ done make[1]: Leaving directory '/<>' dh_strip_nondeterminism -a -O--buildsystem=cmake dh_compress -a -O--buildsystem=cmake debian/rules override_dh_fixperms make[1]: Entering directory '/<>' dh_fixperms chmod -x debian/*/usr/lib/vcflib/scripts/*.R make[1]: Leaving directory '/<>' dh_missing -a -O--buildsystem=cmake dh_dwz -a -O--buildsystem=cmake dh_strip -a -O--buildsystem=cmake dh_makeshlibs -a -O--buildsystem=cmake dh_shlibdeps -a -O--buildsystem=cmake dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libvcflib1/usr/lib/arm-linux-gnueabihf/libvcflib.so.1 found in none of the libraries dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/libvcflib1/usr/lib/arm-linux-gnueabihf/libvcflib.so.1 was not linked against libdisorder.so.0 (it uses none of the library's symbols) dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfkeepsamples contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/segmentIhs contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfgenosamplenames contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfhetcount contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcombine contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfinfo2qual contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfafpath contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcf2dag contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfannotate contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfannotategenotypes contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/bin/vcffilter contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfinfosummarize contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/meltEHH contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfqual2info contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/bFst contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfsample2info contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/permuteSmooth contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfkeepinfo contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfgenotypecompare contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcleancomplex contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/normalize-iHS contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfecho contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/abba-baba contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfremovesamples contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfleftalign contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcommonsamples contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfhethomratio contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/pVst contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/plotHaps contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfglbound contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfsamplediff contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcf2tsv contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfstats contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfuniq contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcreatemulti contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/bin/vcffixup contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcffixup contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfremap contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfaddinfo contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/permuteGPAT++ contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfallelicprimitives contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfld contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfgenotypes contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfsitesummarize contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfbreakmulti contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfprimers contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/bin/vcf2tsv contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/bin/vcfuniqalleles contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfentropy contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/segmentFst contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/iHS contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfflatten contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfglxgt contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfroc contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfparsealts contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfaltcount contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/sequenceDiversity contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfoverlay contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/genotypeSummary contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/popStats contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcf2fasta contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcountalleles contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfstreamsort contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/pFst contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/bin/vcfallelicprimitives contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfgeno2alleles contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfindex contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/hapLrt contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcffilter contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/dumpContigsFromHeader contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcat contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/smoother contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfintersect contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfevenregions contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcflength contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfrandomsample contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfdistance contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfremoveaberrantgenotypes contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/bin/vcfkeepinfo contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfuniqalleles contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/wcFst contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfkeepgeno contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfnumalt contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfclassify contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfsamplenames contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfgenosummarize contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfgeno2haplo contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfrandom contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcheck contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dh_installdeb -a -O--buildsystem=cmake dh_gencontrol -a -O--buildsystem=cmake dpkg-gencontrol: warning: package libvcflib-tools: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: package libvcflib-tools: substitution variable ${perl:Depends} unused, but is defined dh_md5sums -a -O--buildsystem=cmake dh_builddeb -a -O--buildsystem=cmake dpkg-deb: building package 'libvcflib1' in '../libvcflib1_1.0.3+dfsg-2_armhf.deb'. dpkg-deb: building package 'libvcflib1-dbgsym' in '../libvcflib1-dbgsym_1.0.3+dfsg-2_armhf.deb'. dpkg-deb: building package 'libvcflib-dev' in '../libvcflib-dev_1.0.3+dfsg-2_armhf.deb'. dpkg-deb: building package 'libvcflib-tools' in '../libvcflib-tools_1.0.3+dfsg-2_armhf.deb'. dpkg-deb: building package 'libvcflib-tools-dbgsym' in '../libvcflib-tools-dbgsym_1.0.3+dfsg-2_armhf.deb'. dpkg-genbuildinfo --build=any -O../libvcflib_1.0.3+dfsg-2_armhf.buildinfo dpkg-genchanges --build=any -O../libvcflib_1.0.3+dfsg-2_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 2022-12-03T10:23:19Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ libvcflib_1.0.3+dfsg-2_armhf.changes: ------------------------------------- Format: 1.8 Date: Fri, 07 Oct 2022 16:26:06 +0200 Source: libvcflib Binary: libvcflib-dev libvcflib-tools libvcflib-tools-dbgsym libvcflib1 libvcflib1-dbgsym Built-For-Profiles: cross nocheck Architecture: armhf Version: 1.0.3+dfsg-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: libvcflib-dev - C++ library for parsing and manipulating VCF files (development) libvcflib-tools - C++ library for parsing and manipulating VCF files (tools) libvcflib1 - C++ library for parsing and manipulating VCF files Changes: libvcflib (1.0.3+dfsg-2) unstable; urgency=medium . * Fix watch file * Standards-Version: 4.6.1 (routine-update) Checksums-Sha1: 367b96bc4137f24e04060532fb18a0fadc30121d 84580 libvcflib-dev_1.0.3+dfsg-2_armhf.deb 3334b9a21bc0b51f4369d589aef3e1b204e66856 16841796 libvcflib-tools-dbgsym_1.0.3+dfsg-2_armhf.deb b0ef9de78a9da4e1bfd4c3cdeb35bbc9845fd0a4 656540 libvcflib-tools_1.0.3+dfsg-2_armhf.deb ca44158ef8ae0097403bdb223b926e11357c56db 1444892 libvcflib1-dbgsym_1.0.3+dfsg-2_armhf.deb 6793784c48706052365cd3f674aa16c576da6823 127768 libvcflib1_1.0.3+dfsg-2_armhf.deb f1db633c7ecb5069d7af1921c07db78ebc86b283 7777 libvcflib_1.0.3+dfsg-2_armhf.buildinfo Checksums-Sha256: 36d31b3d90e51cf6d3c27b49f1adee29a150c50e5ada6da491c12f9592a86c0a 84580 libvcflib-dev_1.0.3+dfsg-2_armhf.deb b57b88c06db2243d758083e7b47f8354a7da93d5eefe11e9c97f189977825e9a 16841796 libvcflib-tools-dbgsym_1.0.3+dfsg-2_armhf.deb 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libvcflib_1.0.3+dfsg-2_armhf.buildinfo /<>/libvcflib_1.0.3+dfsg-2_armhf.changes.new could not be renamed to /<>/libvcflib_1.0.3+dfsg-2_armhf.changes: Illegal seek Distribution field may be wrong!!! +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: libvcflib Binary: libvcflib-dev libvcflib-tools libvcflib-tools-dbgsym libvcflib1 libvcflib1-dbgsym Architecture: armhf Version: 1.0.3+dfsg-2 Checksums-Md5: e85c9597e7a75fee908639a38a09193b 84580 libvcflib-dev_1.0.3+dfsg-2_armhf.deb eb8c043fbfe631e8e097367bcd8ad85c 16841796 libvcflib-tools-dbgsym_1.0.3+dfsg-2_armhf.deb 19633f97e20cc79487d22755e8110e5f 656540 libvcflib-tools_1.0.3+dfsg-2_armhf.deb 54a06decbc377c05b9b4178b2024e8e4 1444892 libvcflib1-dbgsym_1.0.3+dfsg-2_armhf.deb 0a9761a2e19d818e0cd7d73e84bb8308 127768 libvcflib1_1.0.3+dfsg-2_armhf.deb Checksums-Sha1: 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libvcflib1_1.0.3+dfsg-2_armhf.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Sat, 03 Dec 2022 10:23:19 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs Installed-Build-Depends: autoconf (= 2.71-2), automake (= 1:1.16.5-1.3), autopoint (= 0.21-10), autotools-dev (= 20220109.1), base-files (= 12.3), base-passwd (= 3.6.1), bash (= 5.2-2+b1), binutils (= 2.39-8), binutils-common (= 2.39-8), binutils-x86-64-linux-gnu (= 2.39-8), bsdextrautils (= 2.38.1-4), bsdutils (= 1:2.38.1-4), build-essential (= 12.9), bzip2 (= 1.0.8-5+b1), cmake (= 3.25.1-1), cmake-data (= 3.25.1-1), coreutils (= 9.1-1), cpp (= 4:12.2.0-1), cpp-11 (= 11.3.0-8), cpp-12 (= 12.2.0-9), dash (= 0.5.11+git20210903+057cd650a4ed-9), debconf (= 1.5.80), debhelper (= 13.11.1), debianutils (= 5.7-0.4), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.13.0-2), diffutils (= 1:3.8-1), dpkg (= 1.21.11), dpkg-dev (= 1.21.11), dwz (= 0.14+20220924-2), file (= 1:5.41-4), findutils (= 4.9.0-3), g++ (= 4:12.2.0-1), g++-12 (= 12.2.0-9), gcc (= 4:12.2.0-1), gcc-11 (= 11.3.0-8), gcc-11-base (= 11.3.0-8), gcc-12 (= 12.2.0-9), gcc-12-base (= 12.2.0-9), gettext (= 0.21-10), gettext-base (= 0.21-10), grep (= 3.8-3), groff-base (= 1.22.4-9), gzip (= 1.12-1), hostname (= 3.23), init-system-helpers (= 1.65.2), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.1-1), libarchive-zip-perl (= 1.68-1), libarchive13 (= 3.6.0-1), libasan6 (= 11.3.0-8), libasan8 (= 12.2.0-9), libatomic1 (= 12.2.0-9), libattr1 (= 1:2.5.1-1), libaudit-common (= 1:3.0.7-1.1), libaudit1 (= 1:3.0.7-1.1+b2), libbinutils (= 2.39-8), libblkid1 (= 2.38.1-4), libbrotli1 (= 1.0.9-2+b5), libbz2-1.0 (= 1.0.8-5+b1), libbz2-dev (= 1.0.8-5+b1), libc-bin (= 2.36-6), libc-dev-bin (= 2.36-6), libc6 (= 2.36-6), libc6-dev (= 2.36-6), libcap-ng0 (= 0.8.3-1+b2), libcap2 (= 1:2.44-1), libcc1-0 (= 12.2.0-9), libcom-err2 (= 1.46.6~rc1-1+b1), libcrypt-dev (= 1:4.4.33-1), libcrypt1 (= 1:4.4.33-1), libctf-nobfd0 (= 2.39-8), libctf0 (= 2.39-8), libcurl3-gnutls (= 7.86.0-2), libcurl4 (= 7.86.0-2), libcurl4-gnutls-dev (= 7.86.0-2), libdb5.3 (= 5.3.28+dfsg1-0.10), libdebconfclient0 (= 0.265), libdebhelper-perl (= 13.11.1), libdeflate-dev (= 1.14-1), libdeflate0 (= 1.14-1), libdisorder-dev (= 0.0.2+git20130809.8062ee1-4+b1), libdisorder0 (= 0.0.2+git20130809.8062ee1-4+b1), libdpkg-perl (= 1.21.11), libelf1 (= 0.188-1), libexpat1 (= 2.5.0-1), libfastahack-dev (= 1.0.0+dfsg-10), libfastahack0 (= 1.0.0+dfsg-10), libffi8 (= 3.4.4-1), libfile-find-rule-perl (= 0.34-3), libfile-stripnondeterminism-perl (= 1.13.0-2), libgcc-11-dev (= 11.3.0-8), libgcc-12-dev (= 12.2.0-9), libgcc-s1 (= 12.2.0-9), libgcrypt20 (= 1.10.1-3), libgdbm-compat4 (= 1.23-3), libgdbm6 (= 1.23-3), libgmp10 (= 2:6.2.1+dfsg1-1.1), libgnutls30 (= 3.7.8-4), libgomp1 (= 12.2.0-9), libgpg-error0 (= 1.46-1), libgprofng0 (= 2.39-8), libgssapi-krb5-2 (= 1.20.1-1), libhogweed6 (= 3.8.1-2), libhts-dev (= 1.16+ds-3), libhts3 (= 1.16+ds-3), libhtscodecs2 (= 1.3.0-4), libicu72 (= 72.1-3), libidn2-0 (= 2.3.3-1+b1), libisl23 (= 0.25-1), libitm1 (= 12.2.0-9), libjsoncpp25 (= 1.9.5-4), libk5crypto3 (= 1.20.1-1), libkeyutils1 (= 1.6.3-1), libkrb5-3 (= 1.20.1-1), libkrb5support0 (= 1.20.1-1), libldap-2.5-0 (= 2.5.13+dfsg-2+b1), liblsan0 (= 12.2.0-9), liblz4-1 (= 1.9.4-1), liblzma-dev (= 5.2.9-0.0), liblzma5 (= 5.2.9-0.0), libmagic-mgc (= 1:5.41-4), libmagic1 (= 1:5.41-4), libmd0 (= 1.0.4-2), libmount1 (= 2.38.1-4), libmpc3 (= 1.2.1-2), libmpfr6 (= 4.1.0-3), libncurses6 (= 6.3+20220423-2), libncursesw6 (= 6.3+20220423-2), libnettle8 (= 3.8.1-2), libnghttp2-14 (= 1.50.0-1+b1), libnsl-dev (= 1.3.0-2), libnsl2 (= 1.3.0-2), libnumber-compare-perl (= 0.03-3), libp11-kit0 (= 0.24.1-1), libpam-modules (= 1.5.2-5), libpam-modules-bin (= 1.5.2-5), libpam-runtime (= 1.5.2-5), libpam0g (= 1.5.2-5), libpcre2-8-0 (= 10.40-3), libperl5.36 (= 5.36.0-4), libpipeline1 (= 1.5.7-1), libpkgconf3 (= 1.8.0-11), libprocps8 (= 2:3.3.17-7.1), libpsl5 (= 0.21.0-1.2), libquadmath0 (= 12.2.0-9), librhash0 (= 1.4.3-3), librtmp1 (= 2.4+20151223.gitfa8646d.1-2+b2), libsasl2-2 (= 2.1.28+dfsg-10), libsasl2-modules-db (= 2.1.28+dfsg-10), libseccomp2 (= 2.5.4-1+b2), libselinux1 (= 3.4-1+b3), libsmartcols1 (= 2.38.1-4), libsmithwaterman-dev (= 0.0+git20160702.2610e25-12+b1), libsmithwaterman0 (= 0.0+git20160702.2610e25-12+b1), libssh2-1 (= 1.10.0-3+b1), libssl3 (= 3.0.7-1), libssw-dev (= 1.1-13), libssw0 (= 1.1-13), libstdc++-12-dev (= 12.2.0-9), libstdc++6 (= 12.2.0-9), libsub-override-perl (= 0.09-4), libsystemd0 (= 252.2-1), libtabixpp-dev (= 1.1.1-1), libtabixpp0 (= 1.1.1-1), libtasn1-6 (= 4.19.0-2), libtext-glob-perl (= 0.11-3), libtinfo6 (= 6.3+20220423-2), libtirpc-common (= 1.3.3+ds-1), libtirpc-dev (= 1.3.3+ds-1), libtirpc3 (= 1.3.3+ds-1), libtool (= 2.4.7-5), libtsan0 (= 11.3.0-8), libtsan2 (= 12.2.0-9), libubsan1 (= 12.2.0-9), libuchardet0 (= 0.0.7-1), libudev1 (= 252.2-1), libunistring2 (= 1.0-2), libuuid1 (= 2.38.1-4), libuv1 (= 1.44.2-1), libxml2 (= 2.9.14+dfsg-1.1+b2), libzstd1 (= 1.5.2+dfsg-1), linux-libc-dev (= 6.0.10-2), login (= 1:4.13+dfsg1-1), m4 (= 1.4.19-1), make (= 4.3-4.1), man-db (= 2.11.1-1), markdown (= 1.0.1-12), mawk (= 1.3.4.20200120-3.1), ncurses-base (= 6.3+20220423-2), ncurses-bin (= 6.3+20220423-2), patch (= 2.7.6-7), perl (= 5.36.0-4), perl-base (= 5.36.0-4), perl-modules-5.36 (= 5.36.0-4), pkg-config (= 1.8.0-11), pkgconf (= 1.8.0-11), pkgconf-bin (= 1.8.0-11), po-debconf (= 1.0.21+nmu1), procps (= 2:3.3.17-7.1), rpcsvc-proto (= 1.4.3-1), sed (= 4.8-1), sensible-utils (= 0.0.17), sysvinit-utils (= 3.05-7), tar (= 1.34+dfsg-1.1), usrmerge (= 33), util-linux (= 2.38.1-4), util-linux-extra (= 2.38.1-4), xz-utils (= 5.2.9-0.0), zlib1g (= 1:1.2.13.dfsg-1), zlib1g-dev (= 1:1.2.13.dfsg-1) Environment: DEB_BUILD_OPTIONS="nocheck parallel=1" DEB_BUILD_PROFILES="cross nocheck" LANG="en_US.UTF-8" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1665152766" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ libvcflib-dev_1.0.3+dfsg-2_armhf.deb ------------------------------------ new Debian package, version 2.0. size 84580 bytes: control archive=1668 bytes. 1268 bytes, 27 lines control 1548 bytes, 23 lines md5sums Package: libvcflib-dev Source: libvcflib Version: 1.0.3+dfsg-2 Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 550 Depends: libvcflib1 (= 1.0.3+dfsg-2), libdisorder-dev, libfastahack-dev, libtabixpp-dev, libsmithwaterman-dev, libssw-dev Section: libdevel Priority: optional Multi-Arch: same Homepage: https://github.com/vcflib/vcflib Description: C++ library for parsing and manipulating VCF files (development) The Variant Call Format (VCF) is a flat-file, tab-delimited textual format intended to concisely describe reference-indexed variations between individuals. VCF provides a common interchange format for the description of variation in individuals and populations of samples, and has become the defacto standard reporting format for a wide array of genomic variant detectors. . vcflib provides methods to manipulate and interpret sequence variation as it can be described by VCF. It is both: . * an API for parsing and operating on records of genomic variation as it can be described by the VCF format, * and a collection of command-line utilities for executing complex manipulations on VCF files. . This package contains the static library and the header files. drwxr-xr-x root/root 0 2022-10-07 14:26 ./ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/include/ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/include/intervaltree/ -rw-r--r-- root/root 11829 2022-02-16 17:07 ./usr/include/intervaltree/IntervalTree.h drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/include/vcflib/ -rw-r--r-- root/root 5828 2022-02-16 17:06 ./usr/include/vcflib/BedReader.h -rw-r--r-- root/root 22863 2022-10-07 14:26 ./usr/include/vcflib/Variant.h -rw-r--r-- root/root 368608 2022-02-16 17:07 ./usr/include/vcflib/catch.hpp -rw-r--r-- root/root 6628 2022-02-16 17:06 ./usr/include/vcflib/cdflib.hpp -rw-r--r-- root/root 697 2022-02-16 17:06 ./usr/include/vcflib/convert.h -rw-r--r-- root/root 1777 2022-02-16 17:07 ./usr/include/vcflib/filevercmp.h -rw-r--r-- root/root 2053 2022-02-16 17:06 ./usr/include/vcflib/gpatInfo.hpp -rw-r--r-- root/root 1238 2022-02-16 17:06 ./usr/include/vcflib/join.h -rw-r--r-- root/root 194 2022-02-16 17:06 ./usr/include/vcflib/makeUnique.h -rw-r--r-- root/root 6580 2022-02-16 17:06 ./usr/include/vcflib/mt19937ar.h -rw-r--r-- root/root 2155 2022-02-16 17:07 ./usr/include/vcflib/multichoose.h -rw-r--r-- root/root 3446 2022-02-16 17:07 ./usr/include/vcflib/multipermute.h -rw-r--r-- root/root 2507 2022-02-16 17:06 ./usr/include/vcflib/pdflib.hpp -rw-r--r-- root/root 1295 2022-02-16 17:06 ./usr/include/vcflib/rnglib.hpp -rw-r--r-- root/root 1825 2022-02-16 17:06 ./usr/include/vcflib/split.h -rw-r--r-- root/root 2311 2022-02-16 17:06 ./usr/include/vcflib/var.hpp -rw-r--r-- root/root 75596 2022-02-16 17:06 ./usr/include/vcflib/vec128int.h -rw-r--r-- root/root 14148 2022-02-16 17:06 ./usr/include/vcflib/veclib_types.h drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/lib/ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/lib/arm-linux-gnueabihf/ lrwxrwxrwx root/root 0 2022-10-07 14:26 ./usr/lib/arm-linux-gnueabihf/libvcflib.so -> libvcflib.so.1 drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/lib/arm-linux-gnueabihf/pkgconfig/ -rw-r--r-- root/root 283 2022-10-07 14:26 ./usr/lib/arm-linux-gnueabihf/pkgconfig/libvcflib.pc drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/share/ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/share/doc/ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/share/doc/libvcflib-dev/ -rw-r--r-- root/root 1652 2022-10-07 14:26 ./usr/share/doc/libvcflib-dev/changelog.Debian.gz -rw-r--r-- root/root 2044 2022-10-07 14:26 ./usr/share/doc/libvcflib-dev/copyright drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/share/lintian/ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 91 2022-10-07 14:26 ./usr/share/lintian/overrides/libvcflib-dev libvcflib-tools-dbgsym_1.0.3+dfsg-2_armhf.deb --------------------------------------------- new Debian package, version 2.0. size 16841796 bytes: control archive=4280 bytes. 3770 bytes, 12 lines control 8893 bytes, 84 lines md5sums 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./usr/share/doc/ lrwxrwxrwx root/root 0 2022-10-07 14:26 ./usr/share/doc/libvcflib-tools-dbgsym -> libvcflib-tools libvcflib-tools_1.0.3+dfsg-2_armhf.deb -------------------------------------- new Debian package, version 2.0. size 656540 bytes: control archive=6648 bytes. 1518 bytes, 29 lines control 17697 bytes, 258 lines md5sums Package: libvcflib-tools Source: libvcflib Version: 1.0.3+dfsg-2 Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 6218 Depends: libc6 (>= 2.34), libdisorder0 (>= 0.0.2), libfastahack0 (>= 1.0.0+dfsg), libgcc-s1 (>= 3.5), libsmithwaterman0 (>= 0.0+git20160702.2610e25), libstdc++6 (>= 11), libtabixpp0 (>= 1.0.0), libvcflib1 (>= 1.0.3+dfsg), python3:any, r-base-core, r-cran-plyr, r-cran-ggplot2, r-cran-gridbase Suggests: r-cran-pracma Breaks: libvcflib1 (<= 1.0.0~rc2+dfsg-3) Replaces: libvcflib1 (<= 1.0.0~rc2+dfsg-3) Section: science Priority: optional Homepage: https://github.com/vcflib/vcflib Description: C++ library for parsing and manipulating VCF files (tools) The Variant Call Format (VCF) is a flat-file, tab-delimited textual format intended to concisely describe reference-indexed variations between individuals. VCF provides a common interchange format for the description of variation in individuals and populations of samples, and has become the defacto standard reporting format for a wide array of genomic variant detectors. . vcflib provides methods to manipulate and interpret sequence variation as it can be described by VCF. It is both: . * an API for parsing and operating on records of genomic variation as it can be described by the VCF format, * and a collection of command-line utilities for executing complex manipulations on VCF files. . This package contains several tools using the library. drwxr-xr-x root/root 0 2022-10-07 14:26 ./ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/bin/ -rwxr-xr-x root/root 67236 2022-10-07 14:26 ./usr/bin/vcf2tsv -rwxr-xr-x root/root 67284 2022-10-07 14:26 ./usr/bin/vcfallelicprimitives -rwxr-xr-x root/root 67380 2022-10-07 14:26 ./usr/bin/vcffilter -rwxr-xr-x root/root 67172 2022-10-07 14:26 ./usr/bin/vcffixup -rwxr-xr-x root/root 67172 2022-10-07 14:26 ./usr/bin/vcfkeepinfo -rwxr-xr-x root/root 404 2022-10-07 14:26 ./usr/bin/vcflib lrwxrwxrwx root/root 0 2022-10-07 14:26 ./usr/bin/vcfstreamsort -> ../lib/vcflib/bin/vcfstreamsort lrwxrwxrwx root/root 0 2022-10-07 14:26 ./usr/bin/vcfuniq -> ../lib/vcflib/bin/vcfuniq -rwxr-xr-x root/root 67172 2022-10-07 14:26 ./usr/bin/vcfuniqalleles drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/lib/ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/lib/R/ drwxr-xr-x root/root 0 2022-10-07 14:26 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585 2022-10-07 14:26 ./usr/share/man/man1/vcfroc.1.gz -rw-r--r-- root/root 545 2022-10-07 14:26 ./usr/share/man/man1/vcfsample2info.1.gz -rw-r--r-- root/root 589 2022-10-07 14:26 ./usr/share/man/man1/vcfsamplediff.1.gz -rw-r--r-- root/root 349 2022-10-07 14:26 ./usr/share/man/man1/vcfsamplenames.1.gz -rw-r--r-- root/root 622 2022-10-07 14:26 ./usr/share/man/man1/vcfsitesummarize.1.gz -rw-r--r-- root/root 708 2022-10-07 14:26 ./usr/share/man/man1/vcfstats.1.gz -rw-r--r-- root/root 558 2022-10-07 14:26 ./usr/share/man/man1/vcfstreamsort.1.gz -rw-r--r-- root/root 410 2022-10-07 14:26 ./usr/share/man/man1/vcfuniq.1.gz -rw-r--r-- root/root 416 2022-10-07 14:26 ./usr/share/man/man1/vcfuniqalleles.1.gz -rw-r--r-- root/root 879 2022-10-07 14:26 ./usr/share/man/man1/wcFst.1.gz libvcflib1-dbgsym_1.0.3+dfsg-2_armhf.deb ---------------------------------------- new Debian package, version 2.0. size 1444892 bytes: control archive=556 bytes. 409 bytes, 13 lines control 106 bytes, 1 lines md5sums Package: libvcflib1-dbgsym Source: libvcflib Version: 1.0.3+dfsg-2 Auto-Built-Package: debug-symbols Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 1500 Depends: libvcflib1 (= 1.0.3+dfsg-2) Section: debug Priority: optional Multi-Arch: same Description: debug symbols for libvcflib1 Build-Ids: 2daefe055fd28a5ffa387014ae16a3be16d8c65f drwxr-xr-x root/root 0 2022-10-07 14:26 ./ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/lib/ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/lib/debug/ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/lib/debug/.build-id/2d/ -rw-r--r-- root/root 1524960 2022-10-07 14:26 ./usr/lib/debug/.build-id/2d/aefe055fd28a5ffa387014ae16a3be16d8c65f.debug drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/share/ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/share/doc/ lrwxrwxrwx root/root 0 2022-10-07 14:26 ./usr/share/doc/libvcflib1-dbgsym -> libvcflib1 libvcflib1_1.0.3+dfsg-2_armhf.deb --------------------------------- new Debian package, version 2.0. size 127768 bytes: control archive=1216 bytes. 1251 bytes, 25 lines control 298 bytes, 4 lines md5sums 39 bytes, 1 lines shlibs 68 bytes, 2 lines triggers Package: libvcflib1 Source: libvcflib Version: 1.0.3+dfsg-2 Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 276 Depends: libc6 (>= 2.29), libdisorder0 (>= 0.0.2), libfastahack0 (>= 1.0.0+dfsg), libgcc-s1 (>= 3.5), libsmithwaterman0 (>= 0.0+git20160702.2610e25), libstdc++6 (>= 11), libtabixpp0 (>= 1.0.0) Section: libs Priority: optional Multi-Arch: same Homepage: https://github.com/vcflib/vcflib Description: C++ library for parsing and manipulating VCF files The Variant Call Format (VCF) is a flat-file, tab-delimited textual format intended to concisely describe reference-indexed variations between individuals. VCF provides a common interchange format for the description of variation in individuals and populations of samples, and has become the defacto standard reporting format for a wide array of genomic variant detectors. . vcflib provides methods to manipulate and interpret sequence variation as it can be described by VCF. It is both: . * an API for parsing and operating on records of genomic variation as it can be described by the VCF format, * and a collection of command-line utilities for executing complex manipulations on VCF files. drwxr-xr-x root/root 0 2022-10-07 14:26 ./ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/lib/ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/lib/arm-linux-gnueabihf/ -rw-r--r-- root/root 264392 2022-10-07 14:26 ./usr/lib/arm-linux-gnueabihf/libvcflib.so.1 drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/share/ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/share/doc/ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/share/doc/libvcflib1/ -rw-r--r-- root/root 1651 2022-10-07 14:26 ./usr/share/doc/libvcflib1/changelog.Debian.gz -rw-r--r-- root/root 2044 2022-10-07 14:26 ./usr/share/doc/libvcflib1/copyright drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/share/lintian/ drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 88 2022-10-07 14:26 ./usr/share/lintian/overrides/libvcflib1 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 [621 B] Get:5 copy:/<>/apt_archive ./ Packages [691 B] Fetched 2275 B in 0s (0 B/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: ca-certificates diffstat gpg gpgconf iso-codes libaliased-perl libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libberkeleydb-perl libcapture-tiny-perl libcgi-pm-perl libclass-data-inheritable-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libconst-fast-perl libcpanel-json-xs-perl libdata-dpath-perl libdata-messagepack-perl libdata-optlist-perl libdata-validate-domain-perl libdata-validate-ip-perl libdata-validate-uri-perl libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libencode-locale-perl libexception-class-perl libfile-basedir-perl libfile-listing-perl libfont-ttf-perl libhtml-form-perl libhtml-html5-entities-perl libhtml-parser-perl libhtml-tagset-perl libhtml-tokeparser-simple-perl libhtml-tree-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libimport-into-perl libio-html-perl libio-interactive-perl libio-socket-ssl-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl liblist-compare-perl liblist-someutils-perl liblist-utilsby-perl liblwp-mediatypes-perl liblwp-protocol-https-perl liblz1 liblzo2-2 libmarkdown2 libmldbm-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnet-http-perl libnet-ipv6addr-perl libnet-netmask-perl libnet-ssleay-perl libnetaddr-ip-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libperlio-utf8-strict-perl libproc-processtable-perl libreadline8 libregexp-ipv6-perl libregexp-wildcards-perl librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsort-versions-perl libsqlite3-0 libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libsyntax-keyword-try-perl libterm-readkey-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libwww-mechanize-perl libwww-perl libwww-robotrules-perl libxs-parse-keyword-perl libyaml-0-2 libyaml-libyaml-perl lintian lzop netbase openssl patchutils perl-openssl-defaults plzip readline-common t1utils unzip Suggested packages: isoquery libxml-parser-perl libdata-dump-perl libcrypt-ssleay-perl libscalar-number-perl libbareword-filehandles-perl libindirect-perl libmultidimensional-perl libbusiness-isbn-perl libauthen-ntlm-perl binutils-multiarch libtext-template-perl readline-doc zip Recommended packages: gnupg libcgi-fast-perl libhtml-format-perl liblist-someutils-xs-perl libfreezethaw-perl libmath-base85-perl libsocket6-perl libpackage-stash-xs-perl libdata-dump-perl libhttp-daemon-perl libmailtools-perl The following NEW packages will be installed: ca-certificates diffstat gpg gpgconf iso-codes libaliased-perl libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libberkeleydb-perl libcapture-tiny-perl libcgi-pm-perl libclass-data-inheritable-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libconst-fast-perl libcpanel-json-xs-perl libdata-dpath-perl libdata-messagepack-perl libdata-optlist-perl libdata-validate-domain-perl libdata-validate-ip-perl libdata-validate-uri-perl libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libencode-locale-perl libexception-class-perl libfile-basedir-perl libfile-listing-perl libfont-ttf-perl libhtml-form-perl libhtml-html5-entities-perl libhtml-parser-perl libhtml-tagset-perl libhtml-tokeparser-simple-perl libhtml-tree-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libimport-into-perl libio-html-perl libio-interactive-perl libio-socket-ssl-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl liblist-compare-perl liblist-someutils-perl liblist-utilsby-perl liblwp-mediatypes-perl liblwp-protocol-https-perl liblz1 liblzo2-2 libmarkdown2 libmldbm-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnet-http-perl libnet-ipv6addr-perl libnet-netmask-perl libnet-ssleay-perl libnetaddr-ip-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libperlio-utf8-strict-perl libproc-processtable-perl libreadline8 libregexp-ipv6-perl libregexp-wildcards-perl librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsort-versions-perl libsqlite3-0 libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libsyntax-keyword-try-perl libterm-readkey-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libwww-mechanize-perl libwww-perl libwww-robotrules-perl libxs-parse-keyword-perl libyaml-0-2 libyaml-libyaml-perl lintian lzop netbase openssl patchutils perl-openssl-defaults plzip readline-common sbuild-build-depends-lintian-dummy:armhf t1utils unzip 0 upgraded, 127 newly installed, 0 to remove and 0 not upgraded. Need to get 14.0 MB of archives. After this operation, 51.5 MB of additional disk space will be used. 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Get:44 http://localhost:3142/debian sid/main amd64 libexception-class-perl all 1.45-1 [34.6 kB] Get:45 http://localhost:3142/debian sid/main amd64 libiterator-perl all 0.03+ds1-2 [18.8 kB] Get:46 http://localhost:3142/debian sid/main amd64 libiterator-util-perl all 0.02+ds1-2 [14.0 kB] Get:47 http://localhost:3142/debian sid/main amd64 libdata-dpath-perl all 0.58-2 [43.6 kB] Get:48 http://localhost:3142/debian sid/main amd64 libdata-messagepack-perl amd64 1.02-1+b1 [35.2 kB] Get:49 http://localhost:3142/debian sid/main amd64 libnet-domain-tld-perl all 1.75-3 [31.9 kB] Get:50 http://localhost:3142/debian sid/main amd64 libdata-validate-domain-perl all 0.10-1.1 [11.1 kB] Get:51 http://localhost:3142/debian sid/main amd64 libnet-ipv6addr-perl all 1.02-1 [21.7 kB] Get:52 http://localhost:3142/debian sid/main amd64 libnet-netmask-perl all 2.0002-2 [28.6 kB] Get:53 http://localhost:3142/debian sid/main amd64 libnetaddr-ip-perl amd64 4.079+dfsg-2+b1 [99.5 kB] Get:54 http://localhost:3142/debian sid/main amd64 libdata-validate-ip-perl all 0.30-1 [21.0 kB] Get:55 http://localhost:3142/debian sid/main amd64 libdata-validate-uri-perl all 0.07-2 [11.2 kB] Get:56 http://localhost:3142/debian sid/main amd64 libdevel-size-perl amd64 0.83-2+b1 [24.3 kB] Get:57 http://localhost:3142/debian sid/main amd64 libemail-address-xs-perl amd64 1.05-1+b1 [29.4 kB] Get:58 http://localhost:3142/debian sid/main amd64 libencode-locale-perl all 1.05-3 [12.9 kB] Get:59 http://localhost:3142/debian sid/main amd64 libipc-system-simple-perl all 1.30-2 [26.8 kB] Get:60 http://localhost:3142/debian sid/main amd64 libfile-basedir-perl all 0.09-2 [15.1 kB] Get:61 http://localhost:3142/debian sid/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get:62 http://localhost:3142/debian sid/main amd64 libhttp-date-perl all 6.05-2 [10.5 kB] Get:63 http://localhost:3142/debian sid/main amd64 libfile-listing-perl all 6.15-1 [12.6 kB] Get:64 http://localhost:3142/debian sid/main amd64 libfont-ttf-perl all 1.06-2 [318 kB] Get:65 http://localhost:3142/debian sid/main amd64 libio-html-perl all 1.004-3 [16.2 kB] Get:66 http://localhost:3142/debian sid/main amd64 liblwp-mediatypes-perl all 6.04-1 [19.9 kB] Get:67 http://localhost:3142/debian sid/main amd64 libhttp-message-perl all 6.44-1 [81.7 kB] Get:68 http://localhost:3142/debian sid/main amd64 libhtml-form-perl all 6.10-1 [24.0 kB] Get:69 http://localhost:3142/debian sid/main amd64 libhtml-html5-entities-perl all 0.004-3 [21.0 kB] Get:70 http://localhost:3142/debian sid/main amd64 libhtml-tree-perl all 5.07-2 [213 kB] Get:71 http://localhost:3142/debian sid/main amd64 libhttp-cookies-perl all 6.10-1 [19.6 kB] Get:72 http://localhost:3142/debian sid/main amd64 libhttp-negotiate-perl all 6.01-1 [12.8 kB] Get:73 http://localhost:3142/debian sid/main amd64 perl-openssl-defaults amd64 7+b1 [7924 B] Get:74 http://localhost:3142/debian sid/main amd64 libnet-ssleay-perl amd64 1.92-2+b1 [317 kB] Get:75 http://localhost:3142/debian sid/main amd64 libio-socket-ssl-perl all 2.077-1 [217 kB] Get:76 http://localhost:3142/debian sid/main amd64 libnet-http-perl all 6.22-1 [25.3 kB] Get:77 http://localhost:3142/debian sid/main amd64 liblwp-protocol-https-perl all 6.10-1 [12.2 kB] Get:78 http://localhost:3142/debian sid/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get:79 http://localhost:3142/debian sid/main amd64 libwww-perl all 6.67-1 [194 kB] Get:80 http://localhost:3142/debian sid/main amd64 libhtml-tokeparser-simple-perl all 3.16-4 [39.1 kB] Get:81 http://localhost:3142/debian sid/main amd64 libimport-into-perl all 1.002005-2 [11.3 kB] Get:82 http://localhost:3142/debian sid/main amd64 libio-interactive-perl all 1.023-2 [11.0 kB] Get:83 http://localhost:3142/debian sid/main amd64 libipc-run3-perl all 0.048-2 [34.2 kB] Get:84 http://localhost:3142/debian sid/main amd64 libjson-maybexs-perl all 1.004004-1 [13.3 kB] Get:85 http://localhost:3142/debian sid/main amd64 liblist-compare-perl all 0.55-2 [65.7 kB] Get:86 http://localhost:3142/debian sid/main amd64 liblist-someutils-perl all 0.58-3 [36.5 kB] Get:87 http://localhost:3142/debian sid/main amd64 liblist-utilsby-perl all 0.12-2 [15.5 kB] Get:88 http://localhost:3142/debian sid/main amd64 liblz1 amd64 1.13-4 [42.0 kB] Get:89 http://localhost:3142/debian sid/main amd64 liblzo2-2 amd64 2.10-2 [56.9 kB] Get:90 http://localhost:3142/debian sid/main amd64 libmarkdown2 amd64 2.2.7-2 [37.0 kB] Get:91 http://localhost:3142/debian sid/main amd64 libmldbm-perl all 2.05-4 [16.8 kB] Get:92 http://localhost:3142/debian sid/main amd64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get:93 http://localhost:3142/debian sid/main amd64 libsub-quote-perl all 2.006006-1 [21.0 kB] Get:94 http://localhost:3142/debian sid/main amd64 libmoo-perl all 2.005004-3 [60.5 kB] Get:95 http://localhost:3142/debian sid/main amd64 libstrictures-perl all 2.000006-1 [18.6 kB] Get:96 http://localhost:3142/debian sid/main amd64 libmoox-aliases-perl all 0.001006-2 [7156 B] Get:97 http://localhost:3142/debian sid/main amd64 libmouse-perl amd64 2.5.10-1+b3 [170 kB] Get:98 http://localhost:3142/debian sid/main amd64 libpackage-stash-perl all 0.40-1 [22.0 kB] Get:99 http://localhost:3142/debian sid/main amd64 libsub-identify-perl amd64 0.14-3 [10.9 kB] Get:100 http://localhost:3142/debian sid/main amd64 libsub-name-perl amd64 0.26-2+b1 [12.6 kB] Get:101 http://localhost:3142/debian sid/main amd64 libnamespace-clean-perl all 0.27-2 [17.8 kB] Get:102 http://localhost:3142/debian sid/main amd64 libpath-tiny-perl all 0.124-1 [56.1 kB] Get:103 http://localhost:3142/debian sid/main amd64 libperlio-gzip-perl amd64 0.20-1+b1 [17.3 kB] Get:104 http://localhost:3142/debian sid/main amd64 libperlio-utf8-strict-perl amd64 0.010-1 [11.4 kB] Get:105 http://localhost:3142/debian sid/main amd64 libproc-processtable-perl amd64 0.634-1+b2 [43.1 kB] Get:106 http://localhost:3142/debian sid/main amd64 libregexp-wildcards-perl all 1.05-3 [14.1 kB] Get:107 http://localhost:3142/debian sid/main amd64 libsereal-decoder-perl amd64 5.001+ds-1+b1 [102 kB] Get:108 http://localhost:3142/debian sid/main amd64 libsereal-encoder-perl amd64 5.001+ds-2 [105 kB] Get:109 http://localhost:3142/debian sid/main amd64 libsort-versions-perl all 1.62-3 [8928 B] Get:110 http://localhost:3142/debian sid/main amd64 libxs-parse-keyword-perl amd64 0.27-1 [54.8 kB] Get:111 http://localhost:3142/debian sid/main amd64 libsyntax-keyword-try-perl amd64 0.27-1+b1 [28.8 kB] Get:112 http://localhost:3142/debian sid/main amd64 libterm-readkey-perl amd64 2.38-2+b1 [24.5 kB] Get:113 http://localhost:3142/debian sid/main amd64 libtext-levenshteinxs-perl amd64 0.03-5+b1 [8404 B] Get:114 http://localhost:3142/debian sid/main amd64 libtext-markdown-discount-perl amd64 0.13-2 [12.4 kB] Get:115 http://localhost:3142/debian sid/main amd64 libtext-xslate-perl amd64 3.5.9-1+b2 [198 kB] Get:116 http://localhost:3142/debian sid/main amd64 libtime-duration-perl all 1.21-1 [13.7 kB] Get:117 http://localhost:3142/debian sid/main amd64 libtime-moment-perl amd64 0.44-2+b1 [73.0 kB] Get:118 http://localhost:3142/debian sid/main amd64 libunicode-utf8-perl amd64 0.62-1+b4 [20.0 kB] Get:119 http://localhost:3142/debian sid/main amd64 libwww-mechanize-perl all 2.15-1 [120 kB] Get:120 http://localhost:3142/debian sid/main amd64 libyaml-0-2 amd64 0.2.5-1 [53.6 kB] Get:121 http://localhost:3142/debian sid/main amd64 libyaml-libyaml-perl amd64 0.84+ds-1+b1 [34.7 kB] Get:122 http://localhost:3142/debian sid/main amd64 plzip amd64 1.10-4 [64.0 kB] Get:123 http://localhost:3142/debian sid/main amd64 lzop amd64 1.04-2 [84.2 kB] Get:124 http://localhost:3142/debian sid/main amd64 patchutils amd64 0.4.2-1 [77.5 kB] Get:125 http://localhost:3142/debian sid/main amd64 t1utils amd64 1.41-4 [62.1 kB] Get:126 http://localhost:3142/debian sid/main amd64 unzip amd64 6.0-27 [172 kB] Get:127 http://localhost:3142/debian sid/main amd64 lintian all 2.115.3 [1417 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 14.0 MB in 0s (154 MB/s) Selecting previously unselected package netbase. 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Setting up liblz1:amd64 (1.13-4) ... Setting up libberkeleydb-perl:amd64 (0.64-2+b1) ... Setting up plzip (1.10-4) ... update-alternatives: using /usr/bin/lzip.plzip to provide /usr/bin/lzip (lzip) in auto mode update-alternatives: using /usr/bin/lzip.plzip to provide /usr/bin/lzip-compressor (lzip-compressor) in auto mode update-alternatives: using /usr/bin/lzip.plzip to provide /usr/bin/lzip-decompressor (lzip-decompressor) in auto mode Setting up libunicode-utf8-perl (0.62-1+b4) ... Setting up libmouse-perl (2.5.10-1+b3) ... Setting up libdata-messagepack-perl (1.02-1+b1) ... Setting up libdynaloader-functions-perl (0.003-3) ... Setting up libclass-method-modifiers-perl (2.13-2) ... Setting up liblist-compare-perl (0.55-2) ... Setting up libclone-perl:amd64 (0.46-1) ... Setting up libyaml-0-2:amd64 (0.2.5-1) ... Setting up libsub-identify-perl (0.14-3) ... Setting up libcpanel-json-xs-perl:amd64 (4.32-1+b1) ... Setting up libhtml-tagset-perl (3.20-6) ... Setting up libdevel-size-perl (0.83-2+b1) ... Setting up unzip (6.0-27) ... Setting up libsqlite3-0:amd64 (3.40.0-1) ... Setting up liblwp-mediatypes-perl (6.04-1) ... Setting up libyaml-libyaml-perl (0.84+ds-1+b1) ... Setting up libio-interactive-perl (1.023-2) ... Setting up libtry-tiny-perl (0.31-2) ... Setting up perl-openssl-defaults:amd64 (7+b1) ... Setting up libmldbm-perl (2.05-4) ... Setting up liblzo2-2:amd64 (2.10-2) ... Setting up libtime-moment-perl (0.44-2+b1) ... Setting up libencode-locale-perl (1.05-3) ... Setting up libassuan0:amd64 (2.5.5-5) ... Setting up libconfig-tiny-perl (2.28-2) ... Setting up libsereal-encoder-perl (5.001+ds-2) ... Setting up liblist-utilsby-perl (0.12-2) ... Setting up libnet-netmask-perl (2.0002-2) ... Setting up libsub-install-perl (0.928-3) ... Setting up patchutils (0.4.2-1) ... Setting up libjson-maybexs-perl (1.004004-1) ... Setting up libnetaddr-ip-perl (4.079+dfsg-2+b1) ... Setting up libclass-data-inheritable-perl (0.08-3) ... 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Setting up libpath-tiny-perl (0.124-1) ... Setting up lzop (1.04-2) ... Setting up librole-tiny-perl (2.002004-1) ... Setting up libipc-run3-perl (0.048-2) ... Setting up libregexp-wildcards-perl (1.05-3) ... Setting up libaliased-perl (0.34-3) ... Setting up netbase (6.4) ... Setting up libstrictures-perl (2.000006-1) ... Setting up libsub-quote-perl (2.006006-1) ... Setting up libdevel-stacktrace-perl (2.0400-2) ... Setting up libclass-xsaccessor-perl (1.19-4+b1) ... Setting up libsort-versions-perl (1.62-3) ... Setting up libterm-readkey-perl (2.38-2+b1) ... Setting up libfont-ttf-perl (1.06-2) ... Setting up openssl (3.0.7-1) ... Setting up libtext-levenshteinxs-perl (0.03-5+b1) ... Setting up libperlio-gzip-perl (0.20-1+b1) ... Setting up readline-common (8.2-1.2) ... Setting up libhtml-html5-entities-perl (0.004-3) ... Setting up libsereal-decoder-perl (5.001+ds-1+b1) ... Setting up libmarkdown2:amd64 (2.2.7-2) ... Setting up liburi-perl (5.17-1) ... Setting up iso-codes (4.12.0-1) ... Setting up libnet-ipv6addr-perl (1.02-1) ... Setting up libdata-validate-ip-perl (0.30-1) ... Setting up libemail-address-xs-perl (1.05-1+b1) ... Setting up libnet-ssleay-perl:amd64 (1.92-2+b1) ... Setting up libhttp-date-perl (6.05-2) ... Setting up libfile-basedir-perl (0.09-2) ... Setting up libfile-listing-perl (6.15-1) ... Setting up libreadline8:amd64 (8.2-1.2) ... Setting up libnet-http-perl (6.22-1) ... Setting up libtext-markdown-discount-perl (0.13-2) ... Setting up libexception-class-perl (1.45-1) ... Setting up libdevel-callchecker-perl:amd64 (0.008-2) ... Setting up ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... 127 added, 0 removed; done. Setting up libdata-validate-uri-perl (0.07-2) ... Setting up libdata-optlist-perl (0.112-1) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libhtml-parser-perl:amd64 (3.80-1) ... Setting up gpgconf (2.2.40-1) ... Setting up libio-socket-ssl-perl (2.077-1) ... Setting up gpg (2.2.40-1) ... Setting up libsub-exporter-perl (0.988-1) ... Setting up libhttp-message-perl (6.44-1) ... Setting up libhtml-form-perl (6.10-1) ... Setting up libiterator-perl (0.03+ds1-2) ... Setting up libhttp-negotiate-perl (6.01-1) ... Setting up libiterator-util-perl (0.02+ds1-2) ... Setting up libhttp-cookies-perl (6.10-1) ... Setting up libhtml-tree-perl (5.07-2) ... Setting up libparams-classify-perl:amd64 (0.015-2+b1) ... Setting up libcgi-pm-perl (4.54-1) ... Setting up libmodule-runtime-perl (0.016-2) ... Setting up libconst-fast-perl (0.014-2) ... Setting up libdata-dpath-perl (0.58-2) ... Setting up libmodule-implementation-perl (0.09-2) ... Setting up libpackage-stash-perl (0.40-1) ... Setting up libimport-into-perl (1.002005-2) ... Setting up libmoo-perl (2.005004-3) ... Setting up liblist-someutils-perl (0.58-3) ... Setting up libmoox-aliases-perl (0.001006-2) ... Setting up libb-hooks-endofscope-perl (0.26-1) ... Setting up libnamespace-clean-perl (0.27-2) ... Setting up libwww-perl (6.67-1) ... Setting up libhtml-tokeparser-simple-perl (3.16-4) ... Setting up libwww-mechanize-perl (2.15-1) ... Setting up liblwp-protocol-https-perl (6.10-1) ... Setting up lintian (2.115.3) ... Setting up sbuild-build-depends-lintian-dummy:armhf (0.invalid.0) ... Processing triggers for libc-bin (2.36-6) ... Processing triggers for man-db (2.11.1-1) ... Not building database; man-db/auto-update is not 'true'. Processing triggers for ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Running lintian... 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: 404296 Build-Time: 253 Distribution: unstable Foreign Architectures: armhf Host Architecture: armhf Install-Time: 13 Job: libvcflib_1.0.3+dfsg-2 Lintian: pass Machine Architecture: amd64 Package: libvcflib Package-Time: 280 Source-Version: 1.0.3+dfsg-2 Space: 404296 Status: successful Version: 1.0.3+dfsg-2 -------------------------------------------------------------------------------- Finished at 2022-12-03T10:23:19Z Build needed 00:04:40, 404296k disk space