sbuild (Debian sbuild) 0.78.1 (09 February 2019) on mjolnir.einval.org +==============================================================================+ | libvcflib 1.0.3+dfsg-2 (i386) Sun, 08 Jan 2023 08:19:02 +0000 | +==============================================================================+ Package: libvcflib Version: 1.0.3+dfsg-2 Source Version: 1.0.3+dfsg-2 Distribution: unstable Machine Architecture: arm64 Host Architecture: i386 Build Architecture: arm64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/crossqa-sid-64523e6f-7fcc-4e6b-b260-cc15d038fe45' with '<>' I: NOTICE: Log filtering will replace 'build/libvcflib-Vrb8GM/resolver-UZZCJy' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Hit:1 http://mirror.einval.org/debian sid InRelease Get:2 http://mirror.einval.org/debian sid/main i386 Packages [9275 kB] Fetched 9275 kB in 3s (3071 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: '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://mirror.einval.org/debian sid/main libvcflib 1.0.3+dfsg-2 (dsc) [2301 B] Get:2 http://mirror.einval.org/debian sid/main libvcflib 1.0.3+dfsg-2 (tar) [7556 kB] Get:3 http://mirror.einval.org/debian sid/main libvcflib 1.0.3+dfsg-2 (diff) [8100 B] Fetched 7567 kB in 0s (42.8 MB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/libvcflib-Vrb8GM/libvcflib-1.0.3+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/libvcflib-Vrb8GM' 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:arm64, fakeroot:arm64, crossbuild-essential-i386:arm64, libc-dev:i386, libstdc++-dev:i386 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:arm64, fakeroot:arm64, crossbuild-essential-i386:arm64, libc-dev:i386, libstdc++-dev:i386 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 [487 B] Get:5 copy:/<>/apt_archive ./ Packages [555 B] Fetched 1999 B in 0s (47.8 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev binutils-i686-linux-gnu bsdextrautils cmake cmake-data cpp-12-i686-linux-gnu cpp-i686-linux-gnu cross-config crossbuild-essential-i386 debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++-12-i686-linux-gnu g++-i686-linux-gnu gcc-12-base:i386 gcc-12-cross-base gcc-12-i686-linux-gnu gcc-12-i686-linux-gnu-base gcc-i686-linux-gnu gettext gettext-base groff-base intltool-debian libarchive-zip-perl libarchive13 libasan8:i386 libasan8-i386-cross libatomic1:i386 libatomic1-i386-cross libbrotli1 libbrotli1:i386 libbz2-1.0:i386 libbz2-dev:i386 libc6:i386 libc6-dev:i386 libc6-dev-i386-cross libc6-i386-cross libcom-err2:i386 libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev:i386 libcrypt1:i386 libcurl3-gnutls:i386 libcurl4 libcurl4-gnutls-dev:i386 libdb5.3:i386 libdebhelper-perl libdebian-dpkgcross-perl libdeflate-dev:i386 libdeflate0:i386 libdisorder-dev:i386 libdisorder0:i386 libelf1 libexpat1 libfastahack-dev:i386 libfastahack0:i386 libffi8:i386 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-12-dev:i386 libgcc-12-dev-i386-cross libgcc-s1:i386 libgcc-s1-i386-cross libgmp10:i386 libgnutls30:i386 libgomp1:i386 libgomp1-i386-cross libgssapi-krb5-2:i386 libhogweed6:i386 libhts-dev:i386 libhts3:i386 libhtscodecs2:i386 libicu72 libidn2-0:i386 libio-string-perl libitm1:i386 libitm1-i386-cross libjsoncpp25 libk5crypto3:i386 libkeyutils1:i386 libkrb5-3:i386 libkrb5support0:i386 libldap-2.5-0 libldap-2.5-0:i386 liblocale-gettext-perl liblzma-dev:i386 liblzma5:i386 libmagic-mgc libmagic1 libncursesw6 libnettle8:i386 libnghttp2-14 libnghttp2-14:i386 libnsl-dev:i386 libnsl2:i386 libp11-kit0:i386 libpipeline1 libpkgconf3 libproc2-0 libpsl5 libpsl5:i386 libquadmath0:i386 libquadmath0-i386-cross librhash0 librtmp1 librtmp1:i386 libsasl2-2 libsasl2-2:i386 libsasl2-modules-db libsasl2-modules-db:i386 libsmithwaterman-dev:i386 libsmithwaterman0:i386 libssh2-1 libssh2-1:i386 libssl3:i386 libssw-dev:i386 libssw0:i386 libstdc++-12-dev:i386 libstdc++-12-dev-i386-cross libstdc++6:i386 libstdc++6-i386-cross libsub-override-perl libtabixpp-dev:i386 libtabixpp0:i386 libtasn1-6:i386 libtirpc-dev:i386 libtirpc3:i386 libtool libubsan1:i386 libubsan1-i386-cross libuchardet0 libunistring2:i386 libuv1 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl libzstd1:i386 linux-libc-dev:i386 linux-libc-dev-i386-cross m4 man-db markdown pkg-config:i386 pkgconf:i386 pkgconf-bin po-debconf procps sensible-utils ucf zlib1g:i386 zlib1g-dev:i386 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 g++-12-multilib-i686-linux-gnu gcc-12-doc gcc-12-multilib-i686-linux-gnu manpages-dev flex bison gdb-i686-linux-gnu gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff lrzip glibc-doc:i386 libc-l10n:i386 locales:i386 libnss-nis:i386 libnss-nisplus:i386 manpages-dev:i386 libcurl4-doc:i386 libgnutls28-dev:i386 libidn11-dev:i386 libkrb5-dev:i386 libldap2-dev:i386 librtmp-dev:i386 libssh2-1-dev:i386 gnutls-bin:i386 krb5-doc:i386 krb5-user:i386 liblzma-doc:i386 libstdc++-12-doc:i386 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:i386 ca-certificates:i386 ca-certificates libarchive-cpio-perl krb5-locales:i386 libldap-common libldap-common:i386 libgpm2 publicsuffix publicsuffix:i386 libsasl2-modules libsasl2-modules:i386 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-i686-linux-gnu bsdextrautils cmake cmake-data cpp-12-i686-linux-gnu cpp-i686-linux-gnu cross-config crossbuild-essential-i386 debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++-12-i686-linux-gnu g++-i686-linux-gnu gcc-12-base:i386 gcc-12-cross-base gcc-12-i686-linux-gnu gcc-12-i686-linux-gnu-base gcc-i686-linux-gnu gettext gettext-base groff-base intltool-debian libarchive-zip-perl libarchive13 libasan8:i386 libasan8-i386-cross libatomic1:i386 libatomic1-i386-cross libbrotli1 libbrotli1:i386 libbz2-1.0:i386 libbz2-dev:i386 libc6:i386 libc6-dev:i386 libc6-dev-i386-cross libc6-i386-cross libcom-err2:i386 libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev:i386 libcrypt1:i386 libcurl3-gnutls:i386 libcurl4 libcurl4-gnutls-dev:i386 libdb5.3:i386 libdebhelper-perl libdebian-dpkgcross-perl libdeflate-dev:i386 libdeflate0:i386 libdisorder-dev:i386 libdisorder0:i386 libelf1 libexpat1 libfastahack-dev:i386 libfastahack0:i386 libffi8:i386 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-12-dev:i386 libgcc-12-dev-i386-cross libgcc-s1:i386 libgcc-s1-i386-cross libgmp10:i386 libgnutls30:i386 libgomp1:i386 libgomp1-i386-cross libgssapi-krb5-2:i386 libhogweed6:i386 libhts-dev:i386 libhts3:i386 libhtscodecs2:i386 libicu72 libidn2-0:i386 libio-string-perl libitm1:i386 libitm1-i386-cross libjsoncpp25 libk5crypto3:i386 libkeyutils1:i386 libkrb5-3:i386 libkrb5support0:i386 libldap-2.5-0 libldap-2.5-0:i386 liblocale-gettext-perl liblzma-dev:i386 liblzma5:i386 libmagic-mgc libmagic1 libncursesw6 libnettle8:i386 libnghttp2-14 libnghttp2-14:i386 libnsl-dev:i386 libnsl2:i386 libp11-kit0:i386 libpipeline1 libpkgconf3 libproc2-0 libpsl5 libpsl5:i386 libquadmath0:i386 libquadmath0-i386-cross librhash0 librtmp1 librtmp1:i386 libsasl2-2 libsasl2-2:i386 libsasl2-modules-db libsasl2-modules-db:i386 libsmithwaterman-dev:i386 libsmithwaterman0:i386 libssh2-1 libssh2-1:i386 libssl3:i386 libssw-dev:i386 libssw0:i386 libstdc++-12-dev:i386 libstdc++-12-dev-i386-cross libstdc++6:i386 libstdc++6-i386-cross libsub-override-perl libtabixpp-dev:i386 libtabixpp0:i386 libtasn1-6:i386 libtirpc-dev:i386 libtirpc3:i386 libtool libubsan1:i386 libubsan1-i386-cross libuchardet0 libunistring2:i386 libuv1 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl libzstd1:i386 linux-libc-dev:i386 linux-libc-dev-i386-cross m4 man-db markdown pkg-config:i386 pkgconf:i386 pkgconf-bin po-debconf procps sbuild-build-depends-main-dummy:i386 sensible-utils ucf zlib1g:i386 zlib1g-dev:i386 0 upgraded, 163 newly installed, 0 to remove and 0 not upgraded. Need to get 111 MB of archives. After this operation, 431 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://mirror.einval.org/debian sid/main arm64 liblocale-gettext-perl arm64 1.07-5 [15.1 kB] Get:3 http://mirror.einval.org/debian sid/main arm64 libncursesw6 arm64 6.4-1 [122 kB] Get:4 http://mirror.einval.org/debian sid/main arm64 libproc2-0 arm64 2:4.0.2-3 [60.1 kB] Get:5 http://mirror.einval.org/debian sid/main arm64 procps arm64 2:4.0.2-3 [698 kB] Get:6 http://mirror.einval.org/debian sid/main arm64 sensible-utils all 0.0.17 [21.5 kB] Get:7 http://mirror.einval.org/debian sid/main arm64 libmagic-mgc arm64 1:5.41-4 [295 kB] Get:8 http://mirror.einval.org/debian sid/main arm64 libmagic1 arm64 1:5.41-4 [124 kB] Get:9 http://mirror.einval.org/debian sid/main arm64 file arm64 1:5.41-4 [66.9 kB] Get:10 http://mirror.einval.org/debian sid/main arm64 gettext-base arm64 0.21-10 [158 kB] Get:11 http://mirror.einval.org/debian sid/main arm64 libuchardet0 arm64 0.0.7-1 [67.9 kB] Get:12 http://mirror.einval.org/debian sid/main arm64 groff-base arm64 1.22.4-9 [862 kB] Get:13 http://mirror.einval.org/debian sid/main arm64 bsdextrautils arm64 2.38.1-4 [86.5 kB] Get:14 http://mirror.einval.org/debian sid/main arm64 libpipeline1 arm64 1.5.7-1 [36.4 kB] Get:15 http://mirror.einval.org/debian sid/main arm64 man-db arm64 2.11.1-1 [1366 kB] Get:16 http://mirror.einval.org/debian sid/main arm64 ucf all 3.0043 [74.0 kB] Get:17 http://mirror.einval.org/debian sid/main arm64 m4 arm64 1.4.19-2 [276 kB] Get:18 http://mirror.einval.org/debian sid/main arm64 autoconf all 2.71-2 [343 kB] Get:19 http://mirror.einval.org/debian sid/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get:20 http://mirror.einval.org/debian sid/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get:21 http://mirror.einval.org/debian sid/main arm64 autopoint all 0.21-10 [495 kB] Get:22 http://mirror.einval.org/debian sid/main arm64 libicu72 arm64 72.1-3 [9204 kB] Get:23 http://mirror.einval.org/debian sid/main arm64 libxml2 arm64 2.9.14+dfsg-1.1+b2 [619 kB] Get:24 http://mirror.einval.org/debian sid/main arm64 libarchive13 arm64 3.6.2-1 [316 kB] Get:25 http://mirror.einval.org/debian sid/main arm64 libbrotli1 arm64 1.0.9-2+b5 [266 kB] Get:26 http://mirror.einval.org/debian sid/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg-10 [20.8 kB] Get:27 http://mirror.einval.org/debian sid/main arm64 libsasl2-2 arm64 2.1.28+dfsg-10 [58.0 kB] Get:28 http://mirror.einval.org/debian sid/main arm64 libldap-2.5-0 arm64 2.5.13+dfsg-2+b1 [171 kB] Get:29 http://mirror.einval.org/debian sid/main arm64 libnghttp2-14 arm64 1.51.0-1 [67.9 kB] Get:30 http://mirror.einval.org/debian sid/main arm64 libpsl5 arm64 0.21.0-1.2 [57.1 kB] Get:31 http://mirror.einval.org/debian sid/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b2 [59.4 kB] Get:32 http://mirror.einval.org/debian sid/main arm64 libssh2-1 arm64 1.10.0-3+b1 [172 kB] Get:33 http://mirror.einval.org/debian sid/main arm64 libcurl4 arm64 7.87.0-1 [350 kB] Get:34 http://mirror.einval.org/debian sid/main arm64 libexpat1 arm64 2.5.0-1 [84.8 kB] Get:35 http://mirror.einval.org/debian sid/main arm64 libjsoncpp25 arm64 1.9.5-4 [72.3 kB] Get:36 http://mirror.einval.org/debian sid/main arm64 librhash0 arm64 1.4.3-3 [131 kB] Get:37 http://mirror.einval.org/debian sid/main arm64 libuv1 arm64 1.44.2-1 [133 kB] Get:38 http://mirror.einval.org/debian sid/main arm64 cmake-data all 3.25.1-1 [2026 kB] Get:39 http://mirror.einval.org/debian sid/main arm64 cmake arm64 3.25.1-1 [6806 kB] Get:40 http://mirror.einval.org/debian sid/main arm64 gcc-12-i686-linux-gnu-base arm64 12.2.0-13cross1 [37.6 kB] Get:41 http://mirror.einval.org/debian sid/main arm64 cpp-12-i686-linux-gnu arm64 12.2.0-13cross1 [8760 kB] Get:42 http://mirror.einval.org/debian sid/main arm64 cpp-i686-linux-gnu arm64 4:12.2.0-2+b1 [4152 B] Get:43 http://mirror.einval.org/debian sid/main arm64 cross-config all 2.6.20 [16.3 kB] Get:44 http://mirror.einval.org/debian sid/main arm64 binutils-i686-linux-gnu arm64 2.39.90.20230104-1 [2368 kB] Get:45 http://mirror.einval.org/debian sid/main arm64 gcc-12-cross-base all 12.2.0-13cross1 [33.2 kB] Get:46 http://mirror.einval.org/debian sid/main arm64 libc6-i386-cross all 2.36-7cross1 [1339 kB] Get:47 http://mirror.einval.org/debian sid/main arm64 libgcc-s1-i386-cross all 12.2.0-13cross1 [59.6 kB] Get:48 http://mirror.einval.org/debian sid/main arm64 libgomp1-i386-cross all 12.2.0-13cross1 [118 kB] Get:49 http://mirror.einval.org/debian sid/main arm64 libitm1-i386-cross all 12.2.0-13cross1 [27.1 kB] Get:50 http://mirror.einval.org/debian sid/main arm64 libatomic1-i386-cross all 12.2.0-13cross1 [7472 B] Get:51 http://mirror.einval.org/debian sid/main arm64 libasan8-i386-cross all 12.2.0-13cross1 [2080 kB] Get:52 http://mirror.einval.org/debian sid/main arm64 libstdc++6-i386-cross all 12.2.0-13cross1 [618 kB] Get:53 http://mirror.einval.org/debian sid/main arm64 libubsan1-i386-cross all 12.2.0-13cross1 [869 kB] Get:54 http://mirror.einval.org/debian sid/main arm64 libquadmath0-i386-cross all 12.2.0-13cross1 [226 kB] Get:55 http://mirror.einval.org/debian sid/main arm64 libgcc-12-dev-i386-cross all 12.2.0-13cross1 [2428 kB] Get:56 http://mirror.einval.org/debian sid/main arm64 gcc-12-i686-linux-gnu arm64 12.2.0-13cross1 [17.4 MB] Get:57 http://mirror.einval.org/debian sid/main arm64 gcc-i686-linux-gnu arm64 4:12.2.0-2+b1 [1468 B] Get:58 http://mirror.einval.org/debian sid/main arm64 linux-libc-dev-i386-cross all 6.0.12-1cross1 [1825 kB] Get:59 http://mirror.einval.org/debian sid/main arm64 libc6-dev-i386-cross all 2.36-7cross1 [1715 kB] Get:60 http://mirror.einval.org/debian sid/main arm64 libstdc++-12-dev-i386-cross all 12.2.0-13cross1 [2083 kB] Get:61 http://mirror.einval.org/debian sid/main arm64 g++-12-i686-linux-gnu arm64 12.2.0-13cross1 [9594 kB] Get:62 http://mirror.einval.org/debian sid/main arm64 g++-i686-linux-gnu arm64 4:12.2.0-2+b1 [1176 B] Get:63 http://mirror.einval.org/debian sid/main arm64 libconfig-inifiles-perl all 3.000003-2 [45.9 kB] Get:64 http://mirror.einval.org/debian sid/main arm64 libio-string-perl all 1.08-3.1 [11.8 kB] Get:65 http://mirror.einval.org/debian sid/main arm64 libxml-namespacesupport-perl all 1.12-2 [15.1 kB] Get:66 http://mirror.einval.org/debian sid/main arm64 libxml-sax-base-perl all 1.09-3 [20.6 kB] Get:67 http://mirror.einval.org/debian sid/main arm64 libxml-sax-perl all 1.02+dfsg-3 [59.4 kB] Get:68 http://mirror.einval.org/debian sid/main arm64 libxml-libxml-perl arm64 2.0207+dfsg+really+2.0134-1+b1 [309 kB] Get:69 http://mirror.einval.org/debian sid/main arm64 libxml-simple-perl all 2.25-2 [69.8 kB] Get:70 http://mirror.einval.org/debian sid/main arm64 libyaml-perl all 1.30-2 [63.4 kB] Get:71 http://mirror.einval.org/debian sid/main arm64 libconfig-auto-perl all 0.44-2 [19.2 kB] Get:72 http://mirror.einval.org/debian sid/main arm64 libfile-which-perl all 1.27-2 [15.1 kB] Get:73 http://mirror.einval.org/debian sid/main arm64 libfile-homedir-perl all 1.006-2 [42.4 kB] Get:74 http://mirror.einval.org/debian sid/main arm64 libdebian-dpkgcross-perl all 2.6.20 [15.3 kB] Get:75 http://mirror.einval.org/debian sid/main arm64 dpkg-cross all 2.6.20 [25.8 kB] Get:76 http://mirror.einval.org/debian sid/main arm64 crossbuild-essential-i386 all 12.9 [6704 B] Get:77 http://mirror.einval.org/debian sid/main arm64 libdebhelper-perl all 13.11.4 [81.2 kB] Get:78 http://mirror.einval.org/debian sid/main arm64 libtool all 2.4.7-5 [517 kB] Get:79 http://mirror.einval.org/debian sid/main arm64 dh-autoreconf all 20 [17.1 kB] Get:80 http://mirror.einval.org/debian sid/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get:81 http://mirror.einval.org/debian sid/main arm64 libsub-override-perl all 0.09-4 [9304 B] Get:82 http://mirror.einval.org/debian sid/main arm64 libfile-stripnondeterminism-perl all 1.13.0-2 [19.4 kB] Get:83 http://mirror.einval.org/debian sid/main arm64 dh-strip-nondeterminism all 1.13.0-2 [8556 B] Get:84 http://mirror.einval.org/debian sid/main arm64 libelf1 arm64 0.188-2 [173 kB] Get:85 http://mirror.einval.org/debian sid/main arm64 dwz arm64 0.15-1 [101 kB] Get:86 http://mirror.einval.org/debian sid/main arm64 gettext arm64 0.21-10 [1248 kB] Get:87 http://mirror.einval.org/debian sid/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:88 http://mirror.einval.org/debian sid/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get:89 http://mirror.einval.org/debian sid/main arm64 debhelper all 13.11.4 [942 kB] Get:90 http://mirror.einval.org/debian sid/main i386 gcc-12-base i386 12.2.0-13 [37.4 kB] Get:91 http://mirror.einval.org/debian sid/main i386 libgcc-s1 i386 12.2.0-13 [59.6 kB] Get:92 http://mirror.einval.org/debian sid/main i386 libc6 i386 2.36-8 [2619 kB] Get:93 http://mirror.einval.org/debian sid/main i386 libasan8 i386 12.2.0-13 [2080 kB] Get:94 http://mirror.einval.org/debian sid/main i386 libatomic1 i386 12.2.0-13 [7700 B] Get:95 http://mirror.einval.org/debian sid/main i386 libbrotli1 i386 1.0.9-2+b5 [281 kB] Get:96 http://mirror.einval.org/debian sid/main i386 libbz2-1.0 i386 1.0.8-5+b1 [47.1 kB] Get:97 http://mirror.einval.org/debian sid/main i386 linux-libc-dev i386 6.0.12-1 [1695 kB] Get:98 http://mirror.einval.org/debian sid/main i386 libcrypt1 i386 1:4.4.33-2 [95.6 kB] Get:99 http://mirror.einval.org/debian sid/main i386 libcrypt-dev i386 1:4.4.33-2 [126 kB] Get:100 http://mirror.einval.org/debian sid/main i386 libcom-err2 i386 1.46.6~rc1-1+b1 [15.2 kB] Get:101 http://mirror.einval.org/debian sid/main i386 libkrb5support0 i386 1.20.1-1 [34.9 kB] Get:102 http://mirror.einval.org/debian sid/main i386 libk5crypto3 i386 1.20.1-1 [82.2 kB] Get:103 http://mirror.einval.org/debian sid/main i386 libkeyutils1 i386 1.6.3-2 [9284 B] Get:104 http://mirror.einval.org/debian sid/main i386 libssl3 i386 3.0.7-1 [2011 kB] Get:105 http://mirror.einval.org/debian sid/main i386 libkrb5-3 i386 1.20.1-1 [359 kB] Get:106 http://mirror.einval.org/debian sid/main i386 libgssapi-krb5-2 i386 1.20.1-1 [144 kB] Get:107 http://mirror.einval.org/debian sid/main i386 libtirpc3 i386 1.3.3+ds-1 [92.6 kB] Get:108 http://mirror.einval.org/debian sid/main i386 libnsl2 i386 1.3.0-2 [42.2 kB] Get:109 http://mirror.einval.org/debian sid/main i386 libtirpc-dev i386 1.3.3+ds-1 [202 kB] Get:110 http://mirror.einval.org/debian sid/main i386 libnsl-dev i386 1.3.0-2 [70.6 kB] Get:111 http://mirror.einval.org/debian sid/main i386 libc6-dev i386 2.36-8 [1717 kB] Get:112 http://mirror.einval.org/debian sid/main i386 libbz2-dev i386 1.0.8-5+b1 [31.5 kB] Get:113 http://mirror.einval.org/debian sid/main i386 libgmp10 i386 2:6.2.1+dfsg1-1.1 [574 kB] Get:114 http://mirror.einval.org/debian sid/main i386 libnettle8 i386 3.8.1-2 [301 kB] Get:115 http://mirror.einval.org/debian sid/main i386 libhogweed6 i386 3.8.1-2 [331 kB] Get:116 http://mirror.einval.org/debian sid/main i386 libunistring2 i386 1.0-2 [435 kB] Get:117 http://mirror.einval.org/debian sid/main i386 libidn2-0 i386 2.3.3-1+b1 [126 kB] Get:118 http://mirror.einval.org/debian sid/main i386 libffi8 i386 3.4.4-1 [21.1 kB] Get:119 http://mirror.einval.org/debian sid/main i386 libp11-kit0 i386 0.24.1-2 [335 kB] Get:120 http://mirror.einval.org/debian sid/main i386 libtasn1-6 i386 4.19.0-2 [58.4 kB] Get:121 http://mirror.einval.org/debian sid/main i386 libgnutls30 i386 3.7.8-4 [1389 kB] Get:122 http://mirror.einval.org/debian sid/main i386 libdb5.3 i386 5.3.28+dfsg1-0.10 [751 kB] Get:123 http://mirror.einval.org/debian sid/main i386 libsasl2-modules-db i386 2.1.28+dfsg-10 [21.4 kB] Get:124 http://mirror.einval.org/debian sid/main i386 libsasl2-2 i386 2.1.28+dfsg-10 [62.7 kB] Get:125 http://mirror.einval.org/debian sid/main i386 libldap-2.5-0 i386 2.5.13+dfsg-2+b1 [196 kB] Get:126 http://mirror.einval.org/debian sid/main i386 libnghttp2-14 i386 1.51.0-1 [79.7 kB] Get:127 http://mirror.einval.org/debian sid/main i386 libpsl5 i386 0.21.0-1.2 [57.9 kB] Get:128 http://mirror.einval.org/debian sid/main i386 zlib1g i386 1:1.2.13.dfsg-1 [82.6 kB] Get:129 http://mirror.einval.org/debian sid/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2+b2 [64.3 kB] Get:130 http://mirror.einval.org/debian sid/main i386 libssh2-1 i386 1.10.0-3+b1 [187 kB] Get:131 http://mirror.einval.org/debian sid/main i386 libzstd1 i386 1.5.2+dfsg2-3 [270 kB] Get:132 http://mirror.einval.org/debian sid/main i386 libcurl3-gnutls i386 7.87.0-1 [398 kB] Get:133 http://mirror.einval.org/debian sid/main i386 libcurl4-gnutls-dev i386 7.87.0-1 [510 kB] Get:134 http://mirror.einval.org/debian sid/main i386 libdeflate0 i386 1.14-1 [57.5 kB] Get:135 http://mirror.einval.org/debian sid/main i386 libdeflate-dev i386 1.14-1 [53.5 kB] Get:136 http://mirror.einval.org/debian sid/main i386 libdisorder0 i386 0.0.2+git20130809.8062ee1-4+b1 [4880 B] Get:137 http://mirror.einval.org/debian sid/main i386 libdisorder-dev i386 0.0.2+git20130809.8062ee1-4+b1 [4900 B] Get:138 http://mirror.einval.org/debian sid/main i386 libstdc++6 i386 12.2.0-13 [662 kB] Get:139 http://mirror.einval.org/debian sid/main i386 libfastahack0 i386 1.0.0+dfsg-10 [28.4 kB] Get:140 http://mirror.einval.org/debian sid/main i386 libfastahack-dev i386 1.0.0+dfsg-10 [30.0 kB] Get:141 http://mirror.einval.org/debian sid/main i386 libgomp1 i386 12.2.0-13 [120 kB] Get:142 http://mirror.einval.org/debian sid/main i386 libitm1 i386 12.2.0-13 [27.6 kB] Get:143 http://mirror.einval.org/debian sid/main i386 libubsan1 i386 12.2.0-13 [870 kB] Get:144 http://mirror.einval.org/debian sid/main i386 libquadmath0 i386 12.2.0-13 [227 kB] Get:145 http://mirror.einval.org/debian sid/main i386 libgcc-12-dev i386 12.2.0-13 [2431 kB] Get:146 http://mirror.einval.org/debian sid/main i386 libhtscodecs2 i386 1.3.0-4 [67.4 kB] Get:147 http://mirror.einval.org/debian sid/main i386 liblzma5 i386 5.4.0-0.1 [207 kB] Get:148 http://mirror.einval.org/debian sid/main i386 libhts3 i386 1.16+ds-3 [469 kB] Get:149 http://mirror.einval.org/debian sid/main i386 liblzma-dev i386 5.4.0-0.1 [266 kB] Get:150 http://mirror.einval.org/debian sid/main i386 zlib1g-dev i386 1:1.2.13.dfsg-1 [913 kB] Get:151 http://mirror.einval.org/debian sid/main i386 libhts-dev i386 1.16+ds-3 [1585 kB] Get:152 http://mirror.einval.org/debian sid/main arm64 libpkgconf3 arm64 1.8.0-12 [35.1 kB] Get:153 http://mirror.einval.org/debian sid/main i386 libsmithwaterman0 i386 0.0+git20160702.2610e25-12+b1 [38.7 kB] Get:154 http://mirror.einval.org/debian sid/main i386 libsmithwaterman-dev i386 0.0+git20160702.2610e25-12+b1 [43.4 kB] Get:155 http://mirror.einval.org/debian sid/main i386 libssw0 i386 1.1-13 [27.1 kB] Get:156 http://mirror.einval.org/debian sid/main i386 libssw-dev i386 1.1-13 [30.2 kB] Get:157 http://mirror.einval.org/debian sid/main i386 libstdc++-12-dev i386 12.2.0-13 [2101 kB] Get:158 http://mirror.einval.org/debian sid/main i386 libtabixpp0 i386 1.1.1-1 [10.3 kB] Get:159 http://mirror.einval.org/debian sid/main i386 libtabixpp-dev i386 1.1.1-1 [9464 B] Get:160 http://mirror.einval.org/debian sid/main arm64 markdown all 1.0.1-12 [17.7 kB] Get:161 http://mirror.einval.org/debian sid/main arm64 pkgconf-bin arm64 1.8.0-12 [28.7 kB] Get:162 http://mirror.einval.org/debian sid/main i386 pkgconf i386 1.8.0-12 [25.7 kB] Get:163 http://mirror.einval.org/debian sid/main i386 pkg-config i386 1.8.0-12 [13.5 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 111 MB in 2s (49.3 MB/s) Selecting previously unselected package liblocale-gettext-perl. (Reading database ... 12081 files and directories currently installed.) Preparing to unpack .../000-liblocale-gettext-perl_1.07-5_arm64.deb ... Unpacking liblocale-gettext-perl (1.07-5) ... Selecting previously unselected package libncursesw6:arm64. Preparing to unpack .../001-libncursesw6_6.4-1_arm64.deb ... Unpacking libncursesw6:arm64 (6.4-1) ... Selecting previously unselected package libproc2-0:arm64. Preparing to unpack .../002-libproc2-0_2%3a4.0.2-3_arm64.deb ... Unpacking libproc2-0:arm64 (2:4.0.2-3) ... Selecting previously unselected package procps. Preparing to unpack .../003-procps_2%3a4.0.2-3_arm64.deb ... Unpacking procps (2:4.0.2-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../004-sensible-utils_0.0.17_all.deb ... Unpacking sensible-utils (0.0.17) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../005-libmagic-mgc_1%3a5.41-4_arm64.deb ... Unpacking libmagic-mgc (1:5.41-4) ... 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Preparing to unpack .../012-libpipeline1_1.5.7-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../013-man-db_2.11.1-1_arm64.deb ... Unpacking man-db (2.11.1-1) ... Selecting previously unselected package ucf. Preparing to unpack .../014-ucf_3.0043_all.deb ... Moving old data out of the way Unpacking ucf (3.0043) ... Selecting previously unselected package m4. Preparing to unpack .../015-m4_1.4.19-2_arm64.deb ... Unpacking m4 (1.4.19-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../016-autoconf_2.71-2_all.deb ... Unpacking autoconf (2.71-2) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../017-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../018-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 .../019-autopoint_0.21-10_all.deb ... Unpacking autopoint (0.21-10) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../020-libicu72_72.1-3_arm64.deb ... Unpacking libicu72:arm64 (72.1-3) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../021-libxml2_2.9.14+dfsg-1.1+b2_arm64.deb ... Unpacking libxml2:arm64 (2.9.14+dfsg-1.1+b2) ... Selecting previously unselected package libarchive13:arm64. Preparing to unpack .../022-libarchive13_3.6.2-1_arm64.deb ... Unpacking libarchive13:arm64 (3.6.2-1) ... Selecting previously unselected package libbrotli1:arm64. Preparing to unpack .../023-libbrotli1_1.0.9-2+b5_arm64.deb ... Unpacking libbrotli1:arm64 (1.0.9-2+b5) ... Selecting previously unselected package libsasl2-modules-db:arm64. Preparing to unpack .../024-libsasl2-modules-db_2.1.28+dfsg-10_arm64.deb ... Unpacking libsasl2-modules-db:arm64 (2.1.28+dfsg-10) ... Selecting previously unselected package libsasl2-2:arm64. Preparing to unpack .../025-libsasl2-2_2.1.28+dfsg-10_arm64.deb ... Unpacking libsasl2-2:arm64 (2.1.28+dfsg-10) ... Selecting previously unselected package libldap-2.5-0:arm64. Preparing to unpack .../026-libldap-2.5-0_2.5.13+dfsg-2+b1_arm64.deb ... Unpacking libldap-2.5-0:arm64 (2.5.13+dfsg-2+b1) ... Selecting previously unselected package libnghttp2-14:arm64. Preparing to unpack .../027-libnghttp2-14_1.51.0-1_arm64.deb ... Unpacking libnghttp2-14:arm64 (1.51.0-1) ... Selecting previously unselected package libpsl5:arm64. Preparing to unpack .../028-libpsl5_0.21.0-1.2_arm64.deb ... Unpacking libpsl5:arm64 (0.21.0-1.2) ... Selecting previously unselected package librtmp1:arm64. Preparing to unpack .../029-librtmp1_2.4+20151223.gitfa8646d.1-2+b2_arm64.deb ... Unpacking librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libssh2-1:arm64. Preparing to unpack .../030-libssh2-1_1.10.0-3+b1_arm64.deb ... Unpacking libssh2-1:arm64 (1.10.0-3+b1) ... Selecting previously unselected package libcurl4:arm64. Preparing to unpack .../031-libcurl4_7.87.0-1_arm64.deb ... Unpacking libcurl4:arm64 (7.87.0-1) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../032-libexpat1_2.5.0-1_arm64.deb ... Unpacking libexpat1:arm64 (2.5.0-1) ... Selecting previously unselected package libjsoncpp25:arm64. Preparing to unpack .../033-libjsoncpp25_1.9.5-4_arm64.deb ... Unpacking libjsoncpp25:arm64 (1.9.5-4) ... Selecting previously unselected package librhash0:arm64. Preparing to unpack .../034-librhash0_1.4.3-3_arm64.deb ... Unpacking librhash0:arm64 (1.4.3-3) ... Selecting previously unselected package libuv1:arm64. Preparing to unpack .../035-libuv1_1.44.2-1_arm64.deb ... Unpacking libuv1:arm64 (1.44.2-1) ... Selecting previously unselected package cmake-data. Preparing to unpack .../036-cmake-data_3.25.1-1_all.deb ... Unpacking cmake-data (3.25.1-1) ... Selecting previously unselected package cmake. Preparing to unpack .../037-cmake_3.25.1-1_arm64.deb ... Unpacking cmake (3.25.1-1) ... Selecting previously unselected package gcc-12-i686-linux-gnu-base:arm64. Preparing to unpack .../038-gcc-12-i686-linux-gnu-base_12.2.0-13cross1_arm64.deb ... Unpacking gcc-12-i686-linux-gnu-base:arm64 (12.2.0-13cross1) ... Selecting previously unselected package cpp-12-i686-linux-gnu. Preparing to unpack .../039-cpp-12-i686-linux-gnu_12.2.0-13cross1_arm64.deb ... Unpacking cpp-12-i686-linux-gnu (12.2.0-13cross1) ... Selecting previously unselected package cpp-i686-linux-gnu. Preparing to unpack .../040-cpp-i686-linux-gnu_4%3a12.2.0-2+b1_arm64.deb ... Unpacking cpp-i686-linux-gnu (4:12.2.0-2+b1) ... Selecting previously unselected package cross-config. Preparing to unpack .../041-cross-config_2.6.20_all.deb ... Unpacking cross-config (2.6.20) ... Selecting previously unselected package binutils-i686-linux-gnu. Preparing to unpack .../042-binutils-i686-linux-gnu_2.39.90.20230104-1_arm64.deb ... Unpacking binutils-i686-linux-gnu (2.39.90.20230104-1) ... Selecting previously unselected package gcc-12-cross-base. Preparing to unpack .../043-gcc-12-cross-base_12.2.0-13cross1_all.deb ... Unpacking gcc-12-cross-base (12.2.0-13cross1) ... Selecting previously unselected package libc6-i386-cross. Preparing to unpack .../044-libc6-i386-cross_2.36-7cross1_all.deb ... Unpacking libc6-i386-cross (2.36-7cross1) ... Selecting previously unselected package libgcc-s1-i386-cross. Preparing to unpack .../045-libgcc-s1-i386-cross_12.2.0-13cross1_all.deb ... Unpacking libgcc-s1-i386-cross (12.2.0-13cross1) ... Selecting previously unselected package libgomp1-i386-cross. Preparing to unpack .../046-libgomp1-i386-cross_12.2.0-13cross1_all.deb ... Unpacking libgomp1-i386-cross (12.2.0-13cross1) ... Selecting previously unselected package libitm1-i386-cross. Preparing to unpack .../047-libitm1-i386-cross_12.2.0-13cross1_all.deb ... Unpacking libitm1-i386-cross (12.2.0-13cross1) ... Selecting previously unselected package libatomic1-i386-cross. Preparing to unpack .../048-libatomic1-i386-cross_12.2.0-13cross1_all.deb ... Unpacking libatomic1-i386-cross (12.2.0-13cross1) ... Selecting previously unselected package libasan8-i386-cross. Preparing to unpack .../049-libasan8-i386-cross_12.2.0-13cross1_all.deb ... Unpacking libasan8-i386-cross (12.2.0-13cross1) ... Selecting previously unselected package libstdc++6-i386-cross. Preparing to unpack .../050-libstdc++6-i386-cross_12.2.0-13cross1_all.deb ... Unpacking libstdc++6-i386-cross (12.2.0-13cross1) ... Selecting previously unselected package libubsan1-i386-cross. Preparing to unpack .../051-libubsan1-i386-cross_12.2.0-13cross1_all.deb ... Unpacking libubsan1-i386-cross (12.2.0-13cross1) ... Selecting previously unselected package libquadmath0-i386-cross. Preparing to unpack .../052-libquadmath0-i386-cross_12.2.0-13cross1_all.deb ... Unpacking libquadmath0-i386-cross (12.2.0-13cross1) ... Selecting previously unselected package libgcc-12-dev-i386-cross. Preparing to unpack .../053-libgcc-12-dev-i386-cross_12.2.0-13cross1_all.deb ... Unpacking libgcc-12-dev-i386-cross (12.2.0-13cross1) ... Selecting previously unselected package gcc-12-i686-linux-gnu. Preparing to unpack .../054-gcc-12-i686-linux-gnu_12.2.0-13cross1_arm64.deb ... Unpacking gcc-12-i686-linux-gnu (12.2.0-13cross1) ... Selecting previously unselected package gcc-i686-linux-gnu. Preparing to unpack .../055-gcc-i686-linux-gnu_4%3a12.2.0-2+b1_arm64.deb ... Unpacking gcc-i686-linux-gnu (4:12.2.0-2+b1) ... Selecting previously unselected package linux-libc-dev-i386-cross. Preparing to unpack .../056-linux-libc-dev-i386-cross_6.0.12-1cross1_all.deb ... Unpacking linux-libc-dev-i386-cross (6.0.12-1cross1) ... Selecting previously unselected package libc6-dev-i386-cross. Preparing to unpack .../057-libc6-dev-i386-cross_2.36-7cross1_all.deb ... Unpacking libc6-dev-i386-cross (2.36-7cross1) ... Selecting previously unselected package libstdc++-12-dev-i386-cross. Preparing to unpack .../058-libstdc++-12-dev-i386-cross_12.2.0-13cross1_all.deb ... Unpacking libstdc++-12-dev-i386-cross (12.2.0-13cross1) ... Selecting previously unselected package g++-12-i686-linux-gnu. Preparing to unpack .../059-g++-12-i686-linux-gnu_12.2.0-13cross1_arm64.deb ... Unpacking g++-12-i686-linux-gnu (12.2.0-13cross1) ... Selecting previously unselected package g++-i686-linux-gnu. Preparing to unpack .../060-g++-i686-linux-gnu_4%3a12.2.0-2+b1_arm64.deb ... Unpacking g++-i686-linux-gnu (4:12.2.0-2+b1) ... Selecting previously unselected package libconfig-inifiles-perl. Preparing to unpack .../061-libconfig-inifiles-perl_3.000003-2_all.deb ... Unpacking libconfig-inifiles-perl (3.000003-2) ... Selecting previously unselected package libio-string-perl. Preparing to unpack .../062-libio-string-perl_1.08-3.1_all.deb ... Unpacking libio-string-perl (1.08-3.1) ... Selecting previously unselected package libxml-namespacesupport-perl. Preparing to unpack .../063-libxml-namespacesupport-perl_1.12-2_all.deb ... Unpacking libxml-namespacesupport-perl (1.12-2) ... Selecting previously unselected package libxml-sax-base-perl. Preparing to unpack .../064-libxml-sax-base-perl_1.09-3_all.deb ... Unpacking libxml-sax-base-perl (1.09-3) ... Selecting previously unselected package libxml-sax-perl. Preparing to unpack .../065-libxml-sax-perl_1.02+dfsg-3_all.deb ... Unpacking libxml-sax-perl (1.02+dfsg-3) ... Selecting previously unselected package libxml-libxml-perl. Preparing to unpack .../066-libxml-libxml-perl_2.0207+dfsg+really+2.0134-1+b1_arm64.deb ... Unpacking libxml-libxml-perl (2.0207+dfsg+really+2.0134-1+b1) ... 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Setting up libmagic1:arm64 (1:5.41-4) ... Setting up linux-libc-dev:i386 (6.0.12-1) ... Setting up libxml-namespacesupport-perl (1.12-2) ... Setting up gettext-base (0.21-10) ... Setting up m4 (1.4.19-2) ... Setting up file (1:5.41-4) ... Setting up libyaml-perl (1.30-2) ... Setting up gcc-12-base:i386 (12.2.0-13) ... Setting up libsasl2-modules-db:arm64 (2.1.28+dfsg-10) ... Setting up gcc-12-i686-linux-gnu-base:arm64 (12.2.0-13cross1) ... Setting up libxml-sax-base-perl (1.09-3) ... Setting up libio-string-perl (1.08-3.1) ... Setting up linux-libc-dev-i386-cross (6.0.12-1cross1) ... Setting up autotools-dev (20220109.1) ... Setting up cross-config (2.6.20) ... Setting up libpkgconf3:arm64 (1.8.0-12) ... Setting up libuv1:arm64 (1.44.2-1) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libproc2-0:arm64 (2:4.0.2-3) ... Setting up autopoint (0.21-10) ... Setting up libjsoncpp25:arm64 (1.9.5-4) ... Setting up pkgconf-bin (1.8.0-12) ... Setting up libncursesw6:arm64 (6.4-1) ... Setting up libsasl2-2:arm64 (2.1.28+dfsg-10) ... Setting up autoconf (2.71-2) ... Setting up sensible-utils (0.0.17) ... Setting up librhash0:arm64 (1.4.3-3) ... Setting up libuchardet0:arm64 (0.0.7-1) ... Setting up procps (2:4.0.2-3) ... Setting up libc6-i386-cross (2.36-7cross1) ... Setting up libsub-override-perl (0.09-4) ... Setting up libssh2-1:arm64 (1.10.0-3+b1) ... Setting up cmake-data (3.25.1-1) ... Setting up libfile-homedir-perl (1.006-2) ... Setting up libquadmath0-i386-cross (12.2.0-13cross1) ... Setting up libelf1:arm64 (0.188-2) ... Setting up libxml2:arm64 (2.9.14+dfsg-1.1+b2) ... Setting up liblocale-gettext-perl (1.07-5) ... Setting up markdown (1.0.1-12) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.0-2) ... Setting up gettext (0.21-10) ... Setting up cpp-12-i686-linux-gnu (12.2.0-13cross1) ... Setting up libtool (2.4.7-5) ... Setting up libatomic1-i386-cross (12.2.0-13cross1) ... Setting up libarchive13:arm64 (3.6.2-1) ... Setting up libgomp1-i386-cross (12.2.0-13cross1) ... Setting up libc6-dev-i386-cross (2.36-7cross1) ... Setting up libldap-2.5-0:arm64 (2.5.13+dfsg-2+b1) ... Setting up pkgconf:i386 (1.8.0-12) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libgcc-s1-i386-cross (12.2.0-13cross1) ... Setting up dh-autoreconf (20) ... Setting up libitm1-i386-cross (12.2.0-13cross1) ... Setting up pkg-config:i386 (1.8.0-12) ... Setting up ucf (3.0043) ... Setting up dh-strip-nondeterminism (1.13.0-2) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.22.4-9) ... Setting up libcurl4:arm64 (7.87.0-1) ... Setting up cpp-i686-linux-gnu (4:12.2.0-2+b1) ... 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 libasan8-i386-cross (12.2.0-13cross1) ... Setting up libstdc++6-i386-cross (12.2.0-13cross1) ... 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 debhelper (13.11.4) ... Setting up libubsan1-i386-cross (12.2.0-13cross1) ... Setting up libxml-simple-perl (2.25-2) ... Setting up libgcc-12-dev-i386-cross (12.2.0-13cross1) ... Setting up libconfig-auto-perl (0.44-2) ... Setting up libstdc++-12-dev-i386-cross (12.2.0-13cross1) ... Setting up libdebian-dpkgcross-perl (2.6.20) ... Setting up gcc-12-i686-linux-gnu (12.2.0-13cross1) ... Setting up g++-12-i686-linux-gnu (12.2.0-13cross1) ... Setting up gcc-i686-linux-gnu (4:12.2.0-2+b1) ... Setting up dpkg-cross (2.6.20) ... Setting up g++-i686-linux-gnu (4:12.2.0-2+b1) ... Setting up crossbuild-essential-i386 (12.9) ... Setting up libgcc-s1:i386 (12.2.0-13) ... Setting up libc6:i386 (2.36-8) ... Setting up libffi8:i386 (3.4.4-1) ... Setting up libasan8:i386 (12.2.0-13) ... Setting up libtasn1-6:i386 (4.19.0-2) ... Setting up libbz2-1.0:i386 (1.0.8-5+b1) ... Setting up libdb5.3:i386 (5.3.28+dfsg1-0.10) ... Setting up libstdc++6:i386 (12.2.0-13) ... Setting up libitm1:i386 (12.2.0-13) ... Setting up libhtscodecs2:i386 (1.3.0-4) ... Setting up libdisorder0:i386 (0.0.2+git20130809.8062ee1-4+b1) ... Setting up libzstd1:i386 (1.5.2+dfsg2-3) ... Setting up libkeyutils1:i386 (1.6.3-2) ... Setting up liblzma5:i386 (5.4.0-0.1) ... Setting up libbrotli1:i386 (1.0.9-2+b5) ... Setting up libssl3:i386 (3.0.7-1) ... Setting up libsmithwaterman0:i386 (0.0+git20160702.2610e25-12+b1) ... Setting up libnghttp2-14:i386 (1.51.0-1) ... Setting up libunistring2:i386 (1.0-2) ... Setting up libdeflate0:i386 (1.14-1) ... Setting up zlib1g:i386 (1:1.2.13.dfsg-1) ... Setting up libcrypt1:i386 (1:4.4.33-2) ... Setting up libidn2-0:i386 (2.3.3-1+b1) ... Setting up libcom-err2:i386 (1.46.6~rc1-1+b1) ... Setting up libgomp1:i386 (12.2.0-13) ... Setting up libfastahack0:i386 (1.0.0+dfsg-10) ... Setting up libkrb5support0:i386 (1.20.1-1) ... Setting up libsasl2-modules-db:i386 (2.1.28+dfsg-10) ... Setting up libfastahack-dev:i386 (1.0.0+dfsg-10) ... Setting up libnettle8:i386 (3.8.1-2) ... Setting up libgmp10:i386 (2:6.2.1+dfsg1-1.1) ... Setting up libquadmath0:i386 (12.2.0-13) ... Setting up libp11-kit0:i386 (0.24.1-2) ... Setting up libatomic1:i386 (12.2.0-13) ... Setting up libk5crypto3:i386 (1.20.1-1) ... Setting up libdisorder-dev:i386 (0.0.2+git20130809.8062ee1-4+b1) ... Setting up libsasl2-2:i386 (2.1.28+dfsg-10) ... Setting up liblzma-dev:i386 (5.4.0-0.1) ... Setting up libubsan1:i386 (12.2.0-13) ... Setting up libcrypt-dev:i386 (1:4.4.33-2) ... Setting up libssh2-1:i386 (1.10.0-3+b1) ... Setting up libkrb5-3:i386 (1.20.1-1) ... Setting up libdeflate-dev:i386 (1.14-1) ... Setting up libssw0:i386 (1.1-13) ... Setting up libpsl5:i386 (0.21.0-1.2) ... Setting up libhogweed6:i386 (3.8.1-2) ... Setting up libssw-dev:i386 (1.1-13) ... Setting up libgnutls30:i386 (3.7.8-4) ... Setting up librtmp1:i386 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libgcc-12-dev:i386 (12.2.0-13) ... Setting up libgssapi-krb5-2:i386 (1.20.1-1) ... Setting up libsmithwaterman-dev:i386 (0.0+git20160702.2610e25-12+b1) ... Setting up libtirpc3:i386 (1.3.3+ds-1) ... Setting up libldap-2.5-0:i386 (2.5.13+dfsg-2+b1) ... Setting up libtirpc-dev:i386 (1.3.3+ds-1) ... Setting up libnsl2:i386 (1.3.0-2) ... Setting up libcurl3-gnutls:i386 (7.87.0-1) ... Setting up libcurl4-gnutls-dev:i386 (7.87.0-1) ... Setting up libnsl-dev:i386 (1.3.0-2) ... Setting up libc6-dev:i386 (2.36-8) ... Setting up libbz2-dev:i386 (1.0.8-5+b1) ... Setting up libhts3:i386 (1.16+ds-3) ... Setting up libstdc++-12-dev:i386 (12.2.0-13) ... Setting up zlib1g-dev:i386 (1:1.2.13.dfsg-1) ... Setting up libtabixpp0:i386 (1.1.1-1) ... Setting up libhts-dev:i386 (1.16+ds-3) ... Setting up libtabixpp-dev:i386 (1.1.1-1) ... Setting up sbuild-build-depends-main-dummy:i386 (0.invalid.0) ... Processing triggers for libc-bin (2.36-8) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (i386 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.10.0-0.bpo.15-arm64 #1 SMP Debian 5.10.120-1~bpo10+1 (2022-06-13) arm64 (aarch64) Toolchain package versions: binutils_2.39.90.20230104-1 dpkg-dev_1.21.17 g++-12_12.2.0-13 gcc-12_12.2.0-13 libc6-dev_2.36-8 libstdc++-12-dev_12.2.0-13 libstdc++-12-dev-i386-cross_12.2.0-13cross1 libstdc++6_12.2.0-13 libstdc++6-i386-cross_12.2.0-13cross1 linux-libc-dev_6.0.12-1 Package versions: adduser_3.130 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_5.2.15-2 binutils_2.39.90.20230104-1 binutils-aarch64-linux-gnu_2.39.90.20230104-1 binutils-common_2.39.90.20230104-1 binutils-i686-linux-gnu_2.39.90.20230104-1 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_4:12.2.0-2+b1 cpp-12_12.2.0-13 cpp-12-i686-linux-gnu_12.2.0-13cross1 cpp-i686-linux-gnu_4:12.2.0-2+b1 cross-config_2.6.20 crossbuild-essential-i386_12.9 dash_0.5.12-2 debconf_1.5.81 debhelper_13.11.4 debian-archive-keyring_2021.1.1 debianutils_5.7-0.4 dh-autoreconf_20 dh-strip-nondeterminism_1.13.0-2 diffutils_1:3.8-3 dpkg_1.21.17 dpkg-cross_2.6.20 dpkg-dev_1.21.17 dwz_0.15-1 fakeroot_1.30.1-1 file_1:5.41-4 findutils_4.9.0-3 g++_4:12.2.0-2+b1 g++-12_12.2.0-13 g++-12-i686-linux-gnu_12.2.0-13cross1 g++-i686-linux-gnu_4:12.2.0-2+b1 gcc_4:12.2.0-2+b1 gcc-12_12.2.0-13 gcc-12-base_12.2.0-13 gcc-12-cross-base_12.2.0-13cross1 gcc-12-i686-linux-gnu_12.2.0-13cross1 gcc-12-i686-linux-gnu-base_12.2.0-13cross1 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| +------------------------------------------------------------------------------+ 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 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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 +------------------------------------------------------------------------------+ | Starting Timed Build Commands | +------------------------------------------------------------------------------+ ulimit -c --------- 0 I: Finished running 'ulimit -c'. Finished processing commands. -------------------------------------------------------------------------------- User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf CONFIG_SITE=/etc/dpkg-cross/cross-config.i386 DEB_BUILD_OPTIONS=nocheck HOME=/sbuild-nonexistent LANG=en_GB.UTF-8 LC_ALL=C.UTF-8 LOGNAME=helmutg PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=crossqa-sid SCHROOT_CHROOT_NAME=crossqa-sid SCHROOT_COMMAND=env SCHROOT_GID=1002 SCHROOT_GROUP=helmutg SCHROOT_SESSION_ID=crossqa-sid-64523e6f-7fcc-4e6b-b260-cc15d038fe45 SCHROOT_UID=1002 SCHROOT_USER=helmutg SHELL=/bin/sh USER=helmutg dpkg-buildpackage ----------------- Command: dpkg-buildpackage -ai386 -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 i686-linux-gnu does not match CC system type aarch64-linux-gnu, try setting a correct CC environment variable dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 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-i686-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_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=i686 -DCMAKE_C_COMPILER=i686-linux-gnu-gcc -DCMAKE_CXX_COMPILER=i686-linux-gnu-g\+\+ -DPKG_CONFIG_EXECUTABLE=/usr/bin/i686-linux-gnu-pkg-config -DPKGCONFIG_EXECUTABLE=/usr/bin/i686-linux-gnu-pkg-config -DQMAKE_EXECUTABLE=/usr/bin/i686-linux-gnu-qmake -DCMAKE_INSTALL_LIBDIR=lib/i386-linux-gnu -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/i686-linux-gnu-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/i686-linux-gnu-g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found PkgConfig: /usr/bin/i686-linux-gnu-pkg-config (found version "1.8.0") -- Found BZip2: /usr/lib/i386-linux-gnu/libbz2.so (found version "1.0.8") -- Looking for BZ2_bzCompressInit -- Looking for BZ2_bzCompressInit - found -- Looking for lzma_auto_decoder in /usr/lib/i386-linux-gnu/liblzma.so -- Looking for lzma_auto_decoder in /usr/lib/i386-linux-gnu/liblzma.so - found -- Looking for lzma_easy_encoder in /usr/lib/i386-linux-gnu/liblzma.so -- Looking for lzma_easy_encoder in /usr/lib/i386-linux-gnu/liblzma.so - found -- Looking for lzma_lzma_preset in /usr/lib/i386-linux-gnu/liblzma.so -- Looking for lzma_lzma_preset in /usr/lib/i386-linux-gnu/liblzma.so - found -- Found LibLZMA: /usr/lib/i386-linux-gnu/liblzma.so (found version "5.4.0") -- Found ZLIB: /usr/lib/i386-linux-gnu/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-i686-linux-gnu make[1]: Leaving directory '/<>' debian/rules override_dh_auto_build make[1]: Entering directory '/<>' dh_auto_build cd obj-i686-linux-gnu && make -j1 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/<>/obj-i686-linux-gnu' /usr/bin/cmake -S/<> -B/<>/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/obj-i686-linux-gnu/CMakeFiles /<>/obj-i686-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcflib.dir/build.make CMakeFiles/vcflib.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcflib.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcflib.dir/build.make CMakeFiles/vcflib.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 0%] Building CXX object CMakeFiles/vcflib.dir/src/Variant.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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/i686-linux-gnu-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 [ 2%] Building CXX object CMakeFiles/vcflib.dir/src/pdflib.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu-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/i686-linux-gnu-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/i686-linux-gnu-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/i686-linux-gnu-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-i686-linux-gnu' [ 5%] Built target vcflib make -f CMakeFiles/vcfecho.dir/build.make CMakeFiles/vcfecho.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfecho.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfecho.dir/build.make CMakeFiles/vcfecho.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 6%] Building CXX object CMakeFiles/vcfecho.dir/src/vcfecho.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 6%] Built target vcfecho make -f CMakeFiles/dumpContigsFromHeader.dir/build.make CMakeFiles/dumpContigsFromHeader.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/dumpContigsFromHeader.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/dumpContigsFromHeader.dir/build.make CMakeFiles/dumpContigsFromHeader.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 6%] Building CXX object CMakeFiles/dumpContigsFromHeader.dir/src/dumpContigsFromHeader.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 7%] Built target dumpContigsFromHeader make -f CMakeFiles/bFst.dir/build.make CMakeFiles/bFst.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/bFst.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/bFst.dir/build.make CMakeFiles/bFst.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 7%] Building CXX object CMakeFiles/bFst.dir/src/bFst.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 8%] Linking CXX executable bFst /usr/bin/cmake -E cmake_link_script CMakeFiles/bFst.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 8%] Built target bFst make -f CMakeFiles/pVst.dir/build.make CMakeFiles/pVst.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/pVst.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/pVst.dir/build.make CMakeFiles/pVst.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 8%] Building CXX object CMakeFiles/pVst.dir/src/pVst.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 9%] Linking CXX executable pVst /usr/bin/cmake -E cmake_link_script CMakeFiles/pVst.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 9%] Built target pVst make -f CMakeFiles/hapLrt.dir/build.make CMakeFiles/hapLrt.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/hapLrt.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/hapLrt.dir/build.make CMakeFiles/hapLrt.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 10%] Building CXX object CMakeFiles/hapLrt.dir/src/hapLrt.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 10%] Linking CXX executable hapLrt /usr/bin/cmake -E cmake_link_script CMakeFiles/hapLrt.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 10%] Built target hapLrt make -f CMakeFiles/popStats.dir/build.make CMakeFiles/popStats.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/popStats.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/popStats.dir/build.make CMakeFiles/popStats.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 11%] Building CXX object CMakeFiles/popStats.dir/src/popStats.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 12%] Built target popStats make -f CMakeFiles/wcFst.dir/build.make CMakeFiles/wcFst.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/wcFst.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/wcFst.dir/build.make CMakeFiles/wcFst.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 13%] Building CXX object CMakeFiles/wcFst.dir/src/wcFst.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 14%] Built target wcFst make -f CMakeFiles/iHS.dir/build.make CMakeFiles/iHS.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/iHS.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/iHS.dir/build.make CMakeFiles/iHS.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 15%] Building CXX object CMakeFiles/iHS.dir/src/iHS.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 15%] Linking CXX executable iHS /usr/bin/cmake -E cmake_link_script CMakeFiles/iHS.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 15%] Built target iHS make -f CMakeFiles/segmentFst.dir/build.make CMakeFiles/segmentFst.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/segmentFst.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/segmentFst.dir/build.make CMakeFiles/segmentFst.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 15%] Building CXX object CMakeFiles/segmentFst.dir/src/segmentFst.cpp.o /usr/bin/i686-linux-gnu-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 [ 16%] Linking CXX executable segmentFst /usr/bin/cmake -E cmake_link_script CMakeFiles/segmentFst.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 16%] Built target segmentFst make -f CMakeFiles/segmentIhs.dir/build.make CMakeFiles/segmentIhs.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/segmentIhs.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/segmentIhs.dir/build.make CMakeFiles/segmentIhs.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 16%] Building CXX object CMakeFiles/segmentIhs.dir/src/segmentIhs.cpp.o /usr/bin/i686-linux-gnu-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 [ 17%] Linking CXX executable segmentIhs /usr/bin/cmake -E cmake_link_script CMakeFiles/segmentIhs.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 17%] Built target segmentIhs make -f CMakeFiles/genotypeSummary.dir/build.make CMakeFiles/genotypeSummary.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/genotypeSummary.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/genotypeSummary.dir/build.make CMakeFiles/genotypeSummary.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 18%] Building CXX object CMakeFiles/genotypeSummary.dir/src/genotypeSummary.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 18%] Built target genotypeSummary make -f CMakeFiles/sequenceDiversity.dir/build.make CMakeFiles/sequenceDiversity.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/sequenceDiversity.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/sequenceDiversity.dir/build.make CMakeFiles/sequenceDiversity.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 18%] Building CXX object CMakeFiles/sequenceDiversity.dir/src/sequenceDiversity.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 19%] Linking CXX executable sequenceDiversity /usr/bin/cmake -E cmake_link_script CMakeFiles/sequenceDiversity.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 19%] Built target sequenceDiversity make -f CMakeFiles/pFst.dir/build.make CMakeFiles/pFst.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/pFst.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/pFst.dir/build.make CMakeFiles/pFst.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 19%] Building CXX object CMakeFiles/pFst.dir/src/pFst.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 20%] Built target pFst make -f CMakeFiles/smoother.dir/build.make CMakeFiles/smoother.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/smoother.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/smoother.dir/build.make CMakeFiles/smoother.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 21%] Building CXX object CMakeFiles/smoother.dir/src/smoother.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu-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-i686-linux-gnu' [ 21%] Built target smoother make -f CMakeFiles/vcfld.dir/build.make CMakeFiles/vcfld.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfld.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfld.dir/build.make CMakeFiles/vcfld.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 22%] Building CXX object CMakeFiles/vcfld.dir/src/vcfld.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 23%] Linking CXX executable vcfld /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfld.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 23%] Built target vcfld make -f CMakeFiles/plotHaps.dir/build.make CMakeFiles/plotHaps.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/plotHaps.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/plotHaps.dir/build.make CMakeFiles/plotHaps.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 24%] Building CXX object CMakeFiles/plotHaps.dir/src/plotHaps.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 24%] Linking CXX executable plotHaps /usr/bin/cmake -E cmake_link_script CMakeFiles/plotHaps.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 24%] Built target plotHaps make -f CMakeFiles/abba-baba.dir/build.make CMakeFiles/abba-baba.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/abba-baba.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/abba-baba.dir/build.make CMakeFiles/abba-baba.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 24%] Building CXX object CMakeFiles/abba-baba.dir/src/abba-baba.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 25%] Built target abba-baba make -f CMakeFiles/permuteGPAT++.dir/build.make CMakeFiles/permuteGPAT++.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/permuteGPAT++.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/permuteGPAT++.dir/build.make CMakeFiles/permuteGPAT++.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 26%] Building CXX object CMakeFiles/permuteGPAT++.dir/src/permuteGPAT++.cpp.o /usr/bin/i686-linux-gnu-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 [ 26%] Linking CXX executable permuteGPAT++ /usr/bin/cmake -E cmake_link_script CMakeFiles/permuteGPAT++.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 26%] Built target permuteGPAT++ make -f CMakeFiles/permuteSmooth.dir/build.make CMakeFiles/permuteSmooth.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/permuteSmooth.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/permuteSmooth.dir/build.make CMakeFiles/permuteSmooth.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 27%] Building CXX object CMakeFiles/permuteSmooth.dir/src/permuteSmooth.cpp.o /usr/bin/i686-linux-gnu-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 [ 27%] Linking CXX executable permuteSmooth /usr/bin/cmake -E cmake_link_script CMakeFiles/permuteSmooth.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 27%] Built target permuteSmooth make -f CMakeFiles/normalize-iHS.dir/build.make CMakeFiles/normalize-iHS.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/normalize-iHS.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/normalize-iHS.dir/build.make CMakeFiles/normalize-iHS.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 27%] Building CXX object CMakeFiles/normalize-iHS.dir/src/normalize-iHS.cpp.o /usr/bin/i686-linux-gnu-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 [ 28%] Linking CXX executable normalize-iHS /usr/bin/cmake -E cmake_link_script CMakeFiles/normalize-iHS.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 28%] Built target normalize-iHS make -f CMakeFiles/meltEHH.dir/build.make CMakeFiles/meltEHH.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/meltEHH.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/meltEHH.dir/build.make CMakeFiles/meltEHH.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 29%] Building CXX object CMakeFiles/meltEHH.dir/src/meltEHH.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 30%] Linking CXX executable meltEHH /usr/bin/cmake -E cmake_link_script CMakeFiles/meltEHH.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 30%] Built target meltEHH make -f CMakeFiles/vcfaltcount.dir/build.make CMakeFiles/vcfaltcount.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfaltcount.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfaltcount.dir/build.make CMakeFiles/vcfaltcount.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 31%] Building CXX object CMakeFiles/vcfaltcount.dir/src/vcfaltcount.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 31%] Built target vcfaltcount make -f CMakeFiles/vcfhetcount.dir/build.make CMakeFiles/vcfhetcount.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfhetcount.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfhetcount.dir/build.make CMakeFiles/vcfhetcount.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 32%] Building CXX object CMakeFiles/vcfhetcount.dir/src/vcfhetcount.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 32%] Built target vcfhetcount make -f CMakeFiles/vcfhethomratio.dir/build.make CMakeFiles/vcfhethomratio.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfhethomratio.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfhethomratio.dir/build.make CMakeFiles/vcfhethomratio.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 33%] Building CXX object CMakeFiles/vcfhethomratio.dir/src/vcfhethomratio.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 33%] Built target vcfhethomratio make -f CMakeFiles/vcffilter.dir/build.make CMakeFiles/vcffilter.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcffilter.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcffilter.dir/build.make CMakeFiles/vcffilter.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 34%] Building CXX object CMakeFiles/vcffilter.dir/src/vcffilter.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 35%] Built target vcffilter make -f CMakeFiles/vcf2tsv.dir/build.make CMakeFiles/vcf2tsv.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcf2tsv.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcf2tsv.dir/build.make CMakeFiles/vcf2tsv.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 36%] Building CXX object CMakeFiles/vcf2tsv.dir/src/vcf2tsv.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 37%] Built target vcf2tsv make -f CMakeFiles/vcfgenotypes.dir/build.make CMakeFiles/vcfgenotypes.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfgenotypes.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfgenotypes.dir/build.make CMakeFiles/vcfgenotypes.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 37%] Building CXX object CMakeFiles/vcfgenotypes.dir/src/vcfgenotypes.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 38%] Built target vcfgenotypes make -f CMakeFiles/vcfannotategenotypes.dir/build.make CMakeFiles/vcfannotategenotypes.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfannotategenotypes.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfannotategenotypes.dir/build.make CMakeFiles/vcfannotategenotypes.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 39%] Building CXX object CMakeFiles/vcfannotategenotypes.dir/src/vcfannotategenotypes.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 40%] Linking CXX executable vcfannotategenotypes /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfannotategenotypes.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 40%] Built target vcfannotategenotypes make -f CMakeFiles/vcfcommonsamples.dir/build.make CMakeFiles/vcfcommonsamples.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfcommonsamples.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfcommonsamples.dir/build.make CMakeFiles/vcfcommonsamples.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 41%] Building CXX object CMakeFiles/vcfcommonsamples.dir/src/vcfcommonsamples.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 42%] Built target vcfcommonsamples make -f CMakeFiles/vcfremovesamples.dir/build.make CMakeFiles/vcfremovesamples.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfremovesamples.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfremovesamples.dir/build.make CMakeFiles/vcfremovesamples.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 42%] Building CXX object CMakeFiles/vcfremovesamples.dir/src/vcfremovesamples.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 43%] Built target vcfremovesamples make -f CMakeFiles/vcfkeepsamples.dir/build.make CMakeFiles/vcfkeepsamples.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfkeepsamples.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfkeepsamples.dir/build.make CMakeFiles/vcfkeepsamples.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 44%] Building CXX object CMakeFiles/vcfkeepsamples.dir/src/vcfkeepsamples.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 44%] Built target vcfkeepsamples make -f CMakeFiles/vcfsamplenames.dir/build.make CMakeFiles/vcfsamplenames.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfsamplenames.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfsamplenames.dir/build.make CMakeFiles/vcfsamplenames.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 45%] Building CXX object CMakeFiles/vcfsamplenames.dir/src/vcfsamplenames.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 46%] Built target vcfsamplenames make -f CMakeFiles/vcfgenotypecompare.dir/build.make CMakeFiles/vcfgenotypecompare.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfgenotypecompare.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfgenotypecompare.dir/build.make CMakeFiles/vcfgenotypecompare.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 46%] Building CXX object CMakeFiles/vcfgenotypecompare.dir/src/vcfgenotypecompare.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 47%] Built target vcfgenotypecompare make -f CMakeFiles/vcffixup.dir/build.make CMakeFiles/vcffixup.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcffixup.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcffixup.dir/build.make CMakeFiles/vcffixup.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 47%] Building CXX object CMakeFiles/vcffixup.dir/src/vcffixup.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 48%] Built target vcffixup make -f CMakeFiles/vcfclassify.dir/build.make CMakeFiles/vcfclassify.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfclassify.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfclassify.dir/build.make CMakeFiles/vcfclassify.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 49%] Building CXX object CMakeFiles/vcfclassify.dir/src/vcfclassify.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 49%] Built target vcfclassify make -f CMakeFiles/vcfsamplediff.dir/build.make CMakeFiles/vcfsamplediff.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfsamplediff.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfsamplediff.dir/build.make CMakeFiles/vcfsamplediff.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 50%] Building CXX object CMakeFiles/vcfsamplediff.dir/src/vcfsamplediff.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 50%] Built target vcfsamplediff make -f CMakeFiles/vcfremoveaberrantgenotypes.dir/build.make CMakeFiles/vcfremoveaberrantgenotypes.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfremoveaberrantgenotypes.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfremoveaberrantgenotypes.dir/build.make CMakeFiles/vcfremoveaberrantgenotypes.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 50%] Building CXX object CMakeFiles/vcfremoveaberrantgenotypes.dir/src/vcfremoveaberrantgenotypes.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 51%] Built target vcfremoveaberrantgenotypes make -f CMakeFiles/vcfrandom.dir/build.make CMakeFiles/vcfrandom.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfrandom.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfrandom.dir/build.make CMakeFiles/vcfrandom.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 52%] Building CXX object CMakeFiles/vcfrandom.dir/src/vcfrandom.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/string:48, from /usr/i686-linux-gnu/include/c++/12/bits/locale_classes.h:40, from /usr/i686-linux-gnu/include/c++/12/bits/ios_base.h:41, from /usr/i686-linux-gnu/include/c++/12/ios:42, from /usr/i686-linux-gnu/include/c++/12/istream:38, from /usr/i686-linux-gnu/include/c++/12/sstream:38, from /<>/src/vcfrandom.cpp:10: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 52%] Built target vcfrandom make -f CMakeFiles/vcfparsealts.dir/build.make CMakeFiles/vcfparsealts.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfparsealts.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfparsealts.dir/build.make CMakeFiles/vcfparsealts.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 52%] Building CXX object CMakeFiles/vcfparsealts.dir/src/vcfparsealts.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 53%] Built target vcfparsealts make -f CMakeFiles/vcfstats.dir/build.make CMakeFiles/vcfstats.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfstats.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfstats.dir/build.make CMakeFiles/vcfstats.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 53%] Building CXX object CMakeFiles/vcfstats.dir/src/vcfstats.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 54%] Built target vcfstats make -f CMakeFiles/vcfflatten.dir/build.make CMakeFiles/vcfflatten.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfflatten.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfflatten.dir/build.make CMakeFiles/vcfflatten.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 54%] Building CXX object CMakeFiles/vcfflatten.dir/src/vcfflatten.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 55%] Built target vcfflatten make -f CMakeFiles/vcfprimers.dir/build.make CMakeFiles/vcfprimers.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfprimers.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfprimers.dir/build.make CMakeFiles/vcfprimers.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 56%] Building CXX object CMakeFiles/vcfprimers.dir/src/vcfprimers.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 56%] Built target vcfprimers make -f CMakeFiles/vcfnumalt.dir/build.make CMakeFiles/vcfnumalt.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfnumalt.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfnumalt.dir/build.make CMakeFiles/vcfnumalt.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 56%] Building CXX object CMakeFiles/vcfnumalt.dir/src/vcfnumalt.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 57%] Built target vcfnumalt make -f CMakeFiles/vcfcleancomplex.dir/build.make CMakeFiles/vcfcleancomplex.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfcleancomplex.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfcleancomplex.dir/build.make CMakeFiles/vcfcleancomplex.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 58%] Building CXX object CMakeFiles/vcfcleancomplex.dir/src/vcfcleancomplex.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 58%] Built target vcfcleancomplex make -f CMakeFiles/vcfintersect.dir/build.make CMakeFiles/vcfintersect.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfintersect.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfintersect.dir/build.make CMakeFiles/vcfintersect.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 58%] Building CXX object CMakeFiles/vcfintersect.dir/src/vcfintersect.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 59%] Built target vcfintersect make -f CMakeFiles/vcfannotate.dir/build.make CMakeFiles/vcfannotate.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfannotate.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfannotate.dir/build.make CMakeFiles/vcfannotate.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 60%] Building CXX object CMakeFiles/vcfannotate.dir/src/vcfannotate.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 60%] Built target vcfannotate make -f CMakeFiles/vcfallelicprimitives.dir/build.make CMakeFiles/vcfallelicprimitives.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfallelicprimitives.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfallelicprimitives.dir/build.make CMakeFiles/vcfallelicprimitives.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 61%] Building CXX object CMakeFiles/vcfallelicprimitives.dir/src/vcfallelicprimitives.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 61%] Linking CXX executable vcfallelicprimitives /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfallelicprimitives.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 61%] Built target vcfallelicprimitives make -f CMakeFiles/vcfoverlay.dir/build.make CMakeFiles/vcfoverlay.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfoverlay.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfoverlay.dir/build.make CMakeFiles/vcfoverlay.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 61%] Building CXX object CMakeFiles/vcfoverlay.dir/src/vcfoverlay.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 62%] Built target vcfoverlay make -f CMakeFiles/vcfaddinfo.dir/build.make CMakeFiles/vcfaddinfo.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfaddinfo.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfaddinfo.dir/build.make CMakeFiles/vcfaddinfo.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 62%] Building CXX object CMakeFiles/vcfaddinfo.dir/src/vcfaddinfo.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 63%] Built target vcfaddinfo make -f CMakeFiles/vcfkeepinfo.dir/build.make CMakeFiles/vcfkeepinfo.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfkeepinfo.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfkeepinfo.dir/build.make CMakeFiles/vcfkeepinfo.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 64%] Building CXX object CMakeFiles/vcfkeepinfo.dir/src/vcfkeepinfo.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 64%] Built target vcfkeepinfo make -f CMakeFiles/vcfkeepgeno.dir/build.make CMakeFiles/vcfkeepgeno.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfkeepgeno.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfkeepgeno.dir/build.make CMakeFiles/vcfkeepgeno.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 65%] Building CXX object CMakeFiles/vcfkeepgeno.dir/src/vcfkeepgeno.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 65%] Built target vcfkeepgeno make -f CMakeFiles/vcfafpath.dir/build.make CMakeFiles/vcfafpath.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfafpath.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfafpath.dir/build.make CMakeFiles/vcfafpath.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 65%] Building CXX object CMakeFiles/vcfafpath.dir/src/vcfafpath.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 66%] Linking CXX executable vcfafpath /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfafpath.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 66%] Built target vcfafpath make -f CMakeFiles/vcfcountalleles.dir/build.make CMakeFiles/vcfcountalleles.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfcountalleles.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfcountalleles.dir/build.make CMakeFiles/vcfcountalleles.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 66%] Building CXX object CMakeFiles/vcfcountalleles.dir/src/vcfcountalleles.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 67%] Built target vcfcountalleles make -f CMakeFiles/vcflength.dir/build.make CMakeFiles/vcflength.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcflength.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcflength.dir/build.make CMakeFiles/vcflength.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 67%] Building CXX object CMakeFiles/vcflength.dir/src/vcflength.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 68%] Built target vcflength make -f CMakeFiles/vcfdistance.dir/build.make CMakeFiles/vcfdistance.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfdistance.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfdistance.dir/build.make CMakeFiles/vcfdistance.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 68%] Building CXX object CMakeFiles/vcfdistance.dir/src/vcfdistance.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 69%] Built target vcfdistance make -f CMakeFiles/vcfrandomsample.dir/build.make CMakeFiles/vcfrandomsample.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfrandomsample.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfrandomsample.dir/build.make CMakeFiles/vcfrandomsample.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 70%] Building CXX object CMakeFiles/vcfrandomsample.dir/src/vcfrandomsample.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 71%] Built target vcfrandomsample make -f CMakeFiles/vcfentropy.dir/build.make CMakeFiles/vcfentropy.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfentropy.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfentropy.dir/build.make CMakeFiles/vcfentropy.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 72%] Building CXX object CMakeFiles/vcfentropy.dir/src/vcfentropy.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 72%] Built target vcfentropy make -f CMakeFiles/vcfglxgt.dir/build.make CMakeFiles/vcfglxgt.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfglxgt.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfglxgt.dir/build.make CMakeFiles/vcfglxgt.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 73%] Building CXX object CMakeFiles/vcfglxgt.dir/src/vcfglxgt.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 73%] Built target vcfglxgt make -f CMakeFiles/vcfroc.dir/build.make CMakeFiles/vcfroc.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfroc.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfroc.dir/build.make CMakeFiles/vcfroc.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 74%] Building CXX object CMakeFiles/vcfroc.dir/src/vcfroc.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 74%] Linking CXX executable vcfroc /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfroc.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 74%] Built target vcfroc make -f CMakeFiles/vcfcheck.dir/build.make CMakeFiles/vcfcheck.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfcheck.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfcheck.dir/build.make CMakeFiles/vcfcheck.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 74%] Building CXX object CMakeFiles/vcfcheck.dir/src/vcfcheck.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 75%] Built target vcfcheck make -f CMakeFiles/vcfstreamsort.dir/build.make CMakeFiles/vcfstreamsort.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfstreamsort.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfstreamsort.dir/build.make CMakeFiles/vcfstreamsort.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 75%] Building CXX object CMakeFiles/vcfstreamsort.dir/src/vcfstreamsort.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 76%] Linking CXX executable vcfstreamsort /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfstreamsort.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 76%] Built target vcfstreamsort make -f CMakeFiles/vcfuniq.dir/build.make CMakeFiles/vcfuniq.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfuniq.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfuniq.dir/build.make CMakeFiles/vcfuniq.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 77%] Building CXX object CMakeFiles/vcfuniq.dir/src/vcfuniq.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 77%] Built target vcfuniq make -f CMakeFiles/vcfuniqalleles.dir/build.make CMakeFiles/vcfuniqalleles.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfuniqalleles.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfuniqalleles.dir/build.make CMakeFiles/vcfuniqalleles.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 78%] Building CXX object CMakeFiles/vcfuniqalleles.dir/src/vcfuniqalleles.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 78%] Built target vcfuniqalleles make -f CMakeFiles/vcfremap.dir/build.make CMakeFiles/vcfremap.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfremap.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfremap.dir/build.make CMakeFiles/vcfremap.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 78%] Building CXX object CMakeFiles/vcfremap.dir/src/vcfremap.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 79%] Built target vcfremap make -f CMakeFiles/vcf2fasta.dir/build.make CMakeFiles/vcf2fasta.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcf2fasta.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcf2fasta.dir/build.make CMakeFiles/vcf2fasta.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 80%] Building CXX object CMakeFiles/vcf2fasta.dir/src/vcf2fasta.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 80%] Built target vcf2fasta make -f CMakeFiles/vcfsitesummarize.dir/build.make CMakeFiles/vcfsitesummarize.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfsitesummarize.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfsitesummarize.dir/build.make CMakeFiles/vcfsitesummarize.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 80%] Building CXX object CMakeFiles/vcfsitesummarize.dir/src/vcfsitesummarize.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 81%] Built target vcfsitesummarize make -f CMakeFiles/vcfbreakmulti.dir/build.make CMakeFiles/vcfbreakmulti.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfbreakmulti.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfbreakmulti.dir/build.make CMakeFiles/vcfbreakmulti.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 81%] Building CXX object CMakeFiles/vcfbreakmulti.dir/src/vcfbreakmulti.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 82%] Linking CXX executable vcfbreakmulti /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfbreakmulti.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 82%] Built target vcfbreakmulti make -f CMakeFiles/vcfcreatemulti.dir/build.make CMakeFiles/vcfcreatemulti.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfcreatemulti.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfcreatemulti.dir/build.make CMakeFiles/vcfcreatemulti.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 82%] Building CXX object CMakeFiles/vcfcreatemulti.dir/src/vcfcreatemulti.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 83%] Linking CXX executable vcfcreatemulti /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcreatemulti.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 83%] Built target vcfcreatemulti make -f CMakeFiles/vcfevenregions.dir/build.make CMakeFiles/vcfevenregions.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfevenregions.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfevenregions.dir/build.make CMakeFiles/vcfevenregions.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 84%] Building CXX object CMakeFiles/vcfevenregions.dir/src/vcfevenregions.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 84%] Built target vcfevenregions make -f CMakeFiles/vcfcat.dir/build.make CMakeFiles/vcfcat.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfcat.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfcat.dir/build.make CMakeFiles/vcfcat.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 84%] Building CXX object CMakeFiles/vcfcat.dir/src/vcfcat.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 85%] Built target vcfcat make -f CMakeFiles/vcfgenosummarize.dir/build.make CMakeFiles/vcfgenosummarize.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfgenosummarize.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfgenosummarize.dir/build.make CMakeFiles/vcfgenosummarize.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 86%] Building CXX object CMakeFiles/vcfgenosummarize.dir/src/vcfgenosummarize.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 87%] Built target vcfgenosummarize make -f CMakeFiles/vcfgenosamplenames.dir/build.make CMakeFiles/vcfgenosamplenames.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfgenosamplenames.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfgenosamplenames.dir/build.make CMakeFiles/vcfgenosamplenames.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 88%] Building CXX object CMakeFiles/vcfgenosamplenames.dir/src/vcfgenosamplenames.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 88%] Built target vcfgenosamplenames make -f CMakeFiles/vcfgeno2haplo.dir/build.make CMakeFiles/vcfgeno2haplo.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfgeno2haplo.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfgeno2haplo.dir/build.make CMakeFiles/vcfgeno2haplo.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 89%] Building CXX object CMakeFiles/vcfgeno2haplo.dir/src/vcfgeno2haplo.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 89%] Linking CXX executable vcfgeno2haplo /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgeno2haplo.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 89%] Built target vcfgeno2haplo make -f CMakeFiles/vcfleftalign.dir/build.make CMakeFiles/vcfleftalign.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfleftalign.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfleftalign.dir/build.make CMakeFiles/vcfleftalign.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 89%] Building CXX object CMakeFiles/vcfleftalign.dir/src/vcfleftalign.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 90%] Linking CXX executable vcfleftalign /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfleftalign.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 90%] Built target vcfleftalign make -f CMakeFiles/vcfcombine.dir/build.make CMakeFiles/vcfcombine.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfcombine.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfcombine.dir/build.make CMakeFiles/vcfcombine.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 91%] Building CXX object CMakeFiles/vcfcombine.dir/src/vcfcombine.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 91%] Built target vcfcombine make -f CMakeFiles/vcfgeno2alleles.dir/build.make CMakeFiles/vcfgeno2alleles.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfgeno2alleles.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfgeno2alleles.dir/build.make CMakeFiles/vcfgeno2alleles.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 92%] Building CXX object CMakeFiles/vcfgeno2alleles.dir/src/vcfgeno2alleles.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 92%] Built target vcfgeno2alleles make -f CMakeFiles/vcfindex.dir/build.make CMakeFiles/vcfindex.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfindex.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfindex.dir/build.make CMakeFiles/vcfindex.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 93%] Building CXX object CMakeFiles/vcfindex.dir/src/vcfindex.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 94%] Built target vcfindex make -f CMakeFiles/vcf2dag.dir/build.make CMakeFiles/vcf2dag.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcf2dag.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcf2dag.dir/build.make CMakeFiles/vcf2dag.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 95%] Building CXX object CMakeFiles/vcf2dag.dir/src/vcf2dag.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 95%] Built target vcf2dag make -f CMakeFiles/vcfsample2info.dir/build.make CMakeFiles/vcfsample2info.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfsample2info.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfsample2info.dir/build.make CMakeFiles/vcfsample2info.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 96%] Building CXX object CMakeFiles/vcfsample2info.dir/src/vcfsample2info.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 96%] Linking CXX executable vcfsample2info /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfsample2info.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 96%] Built target vcfsample2info make -f CMakeFiles/vcfqual2info.dir/build.make CMakeFiles/vcfqual2info.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfqual2info.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfqual2info.dir/build.make CMakeFiles/vcfqual2info.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 97%] Building CXX object CMakeFiles/vcfqual2info.dir/src/vcfqual2info.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 97%] Built target vcfqual2info make -f CMakeFiles/vcfinfo2qual.dir/build.make CMakeFiles/vcfinfo2qual.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfinfo2qual.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfinfo2qual.dir/build.make CMakeFiles/vcfinfo2qual.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 97%] Building CXX object CMakeFiles/vcfinfo2qual.dir/src/vcfinfo2qual.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/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/i686-linux-gnu-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-i686-linux-gnu' [ 98%] Built target vcfinfo2qual make -f CMakeFiles/vcfglbound.dir/build.make CMakeFiles/vcfglbound.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfglbound.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfglbound.dir/build.make CMakeFiles/vcfglbound.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 98%] Building CXX object CMakeFiles/vcfglbound.dir/src/vcfglbound.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 99%] Linking CXX executable vcfglbound /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfglbound.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [ 99%] Built target vcfglbound make -f CMakeFiles/vcfinfosummarize.dir/build.make CMakeFiles/vcfinfosummarize.dir/depend make[4]: Entering directory '/<>/obj-i686-linux-gnu' cd /<>/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu /<>/obj-i686-linux-gnu/CMakeFiles/vcfinfosummarize.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-i686-linux-gnu' make -f CMakeFiles/vcfinfosummarize.dir/build.make CMakeFiles/vcfinfosummarize.dir/build make[4]: Entering directory '/<>/obj-i686-linux-gnu' [ 99%] Building CXX object CMakeFiles/vcfinfosummarize.dir/src/vcfinfosummarize.cpp.o /usr/bin/i686-linux-gnu-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/i686-linux-gnu/include/c++/12/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/12/vector:66, from /<>/src/Variant.h:13: /usr/i686-linux-gnu/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/i686-linux-gnu/include/c++/12/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [100%] Linking CXX executable vcfinfosummarize /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfinfosummarize.dir/link.txt --verbose=1 /usr/bin/i686-linux-gnu-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-i686-linux-gnu' [100%] Built target vcfinfosummarize make[3]: Leaving directory '/<>/obj-i686-linux-gnu' /usr/bin/cmake -E cmake_progress_start /<>/obj-i686-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/<>/obj-i686-linux-gnu' 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-i686-linux-gnu && 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-i686-linux-gnu' /usr/bin/cmake -S/<> -B/<>/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/<>/obj-i686-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/<>/obj-i686-linux-gnu' 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/i386-linux-gnu/libvcflib.so.1 -- Installing: /<>/debian/tmp/usr/lib/i386-linux-gnu/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/vcfhetcount.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfkeepgeno.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfuniq.1 -- Installing: /<>/debian/tmp/usr/man/man1/permuteSmooth.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfld.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfgenosummarize.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfafpath.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfsamplenames.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfgenosamplenames.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfallelicprimitives.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcf2fasta.1 -- Installing: /<>/debian/tmp/usr/man/man1/sequenceDiversity.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfclassify.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfevenregions.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfgenotypes.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfcheck.1 -- Installing: /<>/debian/tmp/usr/man/man1/plotHaps.1 -- Installing: /<>/debian/tmp/usr/man/man1/hapLrt.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfuniqalleles.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfentropy.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfinfosummarize.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfindex.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfsamplediff.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfkeepinfo.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfsitesummarize.1 -- Installing: /<>/debian/tmp/usr/man/man1/smoother.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfgeno2haplo.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfcat.1 -- Installing: /<>/debian/tmp/usr/man/man1/popStats.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfcombine.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfstats.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfcountalleles.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfremoveaberrantgenotypes.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfaddinfo.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfinfo2qual.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfannotategenotypes.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfgeno2alleles.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcffixup.1 -- Installing: /<>/debian/tmp/usr/man/man1/permuteGPAT++.1 -- Installing: /<>/debian/tmp/usr/man/man1/pFst.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfprimers.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfflatten.1 -- Installing: /<>/debian/tmp/usr/man/man1/meltEHH.1 -- Installing: /<>/debian/tmp/usr/man/man1/dumpContigsFromHeader.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfdistance.1 -- Installing: /<>/debian/tmp/usr/man/man1/abba-baba.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfglbound.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfparsealts.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfsample2info.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcflength.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfnumalt.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfleftalign.1 -- Installing: /<>/debian/tmp/usr/man/man1/iHS.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfgenotypecompare.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfoverlay.1 -- Installing: /<>/debian/tmp/usr/man/man1/pVst.1 -- Installing: /<>/debian/tmp/usr/man/man1/genotypeSummary.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfroc.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfcommonsamples.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfecho.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfcreatemulti.1 -- Installing: /<>/debian/tmp/usr/man/man1/segmentFst.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfkeepsamples.1 -- Installing: /<>/debian/tmp/usr/man/man1/wcFst.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfintersect.1 -- Installing: /<>/debian/tmp/usr/man/man1/normalize-iHS.1 -- Installing: /<>/debian/tmp/usr/man/man1/segmentIhs.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfqual2info.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcf2tsv.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfannotate.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfremovesamples.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfrandom.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfhethomratio.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfcleancomplex.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcffilter.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcf2dag.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcflib.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfrandomsample.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfnulldotslashdot.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfbreakmulti.1 -- Installing: /<>/debian/tmp/usr/man/man1/bFst.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfstreamsort.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfremap.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfaltcount.1 -- Installing: /<>/debian/tmp/usr/man/man1/vcfglxgt.1 make[1]: Leaving directory '/<>/obj-i686-linux-gnu' 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/i386-linux-gnu/pkgconfig mv libvcflib.pc /<>/debian/libvcflib-dev/usr/lib/i386-linux-gnu/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?' ${pl} ; \ done grep: debian/libvcflib-dev/usr/lib/i386-linux-gnu/libvcflib.so: No such file or directory make[1]: Leaving directory '/<>' dh_installdocs -a -O--buildsystem=cmake dh_installchangelogs -a -O--buildsystem=cmake dh_installman -a -O--buildsystem=cmake dh_installsystemduser -a -O--buildsystem=cmake dh_lintian -a -O--buildsystem=cmake dh_perl -a -O--buildsystem=cmake debian/rules override_dh_link make[1]: Entering directory '/<>' dh_link for rscript in debian/libvcflib-tools/usr/lib/vcflib/scripts/*.R ; do \ scriptname=$(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: package could avoid a useless dependency if debian/libvcflib1/usr/lib/i386-linux-gnu/libvcflib.so.1 was not linked against libdisorder.so.0 (it uses none of the library's symbols) 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_i386.deb'. dpkg-deb: building package 'libvcflib1-dbgsym' in '../libvcflib1-dbgsym_1.0.3+dfsg-2_i386.deb'. dpkg-deb: building package 'libvcflib-dev' in '../libvcflib-dev_1.0.3+dfsg-2_i386.deb'. dpkg-deb: building package 'libvcflib-tools' in '../libvcflib-tools_1.0.3+dfsg-2_i386.deb'. dpkg-deb: building package 'libvcflib-tools-dbgsym' in '../libvcflib-tools-dbgsym_1.0.3+dfsg-2_i386.deb'. dpkg-genbuildinfo --build=any -O../libvcflib_1.0.3+dfsg-2_i386.buildinfo dpkg-genchanges --build=any -O../libvcflib_1.0.3+dfsg-2_i386.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 2023-01-08T08:40:38Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ libvcflib_1.0.3+dfsg-2_i386.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: i386 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: 062dbed66f5241319c83fe2601207e651036ea0b 84580 libvcflib-dev_1.0.3+dfsg-2_i386.deb c5a48ea1a57a308b480372097028f07d2ff4bcf9 17373256 libvcflib-tools-dbgsym_1.0.3+dfsg-2_i386.deb 0974808503f760bee034fd16768cce17373dc124 777028 libvcflib-tools_1.0.3+dfsg-2_i386.deb 53b69efda5e40c7d0a53dbb44ecd8cc91a8d309b 1459180 libvcflib1-dbgsym_1.0.3+dfsg-2_i386.deb 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optional libvcflib-tools-dbgsym_1.0.3+dfsg-2_i386.deb b62e73cf20cac5e178617c11411c7736 777028 science optional libvcflib-tools_1.0.3+dfsg-2_i386.deb 107107628ec88b826eced44a3875b6e7 1459180 debug optional libvcflib1-dbgsym_1.0.3+dfsg-2_i386.deb f97e26f5317a1b464717f02e58e26347 155992 libs optional libvcflib1_1.0.3+dfsg-2_i386.deb fbbb42e674b306eefa2296a5aade5e06 7619 science optional libvcflib_1.0.3+dfsg-2_i386.buildinfo +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: libvcflib Binary: libvcflib-dev libvcflib-tools libvcflib-tools-dbgsym libvcflib1 libvcflib1-dbgsym Architecture: i386 Version: 1.0.3+dfsg-2 Checksums-Md5: 1010e6fb2fd42908f40c33a7be21f53c 84580 libvcflib-dev_1.0.3+dfsg-2_i386.deb 0317f0f5d68ac3bb150007339c44af2e 17373256 libvcflib-tools-dbgsym_1.0.3+dfsg-2_i386.deb b62e73cf20cac5e178617c11411c7736 777028 libvcflib-tools_1.0.3+dfsg-2_i386.deb 107107628ec88b826eced44a3875b6e7 1459180 libvcflib1-dbgsym_1.0.3+dfsg-2_i386.deb f97e26f5317a1b464717f02e58e26347 155992 libvcflib1_1.0.3+dfsg-2_i386.deb Checksums-Sha1: 062dbed66f5241319c83fe2601207e651036ea0b 84580 libvcflib-dev_1.0.3+dfsg-2_i386.deb c5a48ea1a57a308b480372097028f07d2ff4bcf9 17373256 libvcflib-tools-dbgsym_1.0.3+dfsg-2_i386.deb 0974808503f760bee034fd16768cce17373dc124 777028 libvcflib-tools_1.0.3+dfsg-2_i386.deb 53b69efda5e40c7d0a53dbb44ecd8cc91a8d309b 1459180 libvcflib1-dbgsym_1.0.3+dfsg-2_i386.deb 82ba19a14147bd88f49518ecb3ae56efc7680338 155992 libvcflib1_1.0.3+dfsg-2_i386.deb Checksums-Sha256: 0cd8f9f825d8f925675407e617d6f80250619f020dbf436738d04b42ce95c929 84580 libvcflib-dev_1.0.3+dfsg-2_i386.deb 191e42009a2d9f5e14ee82b89e380edf02594117ba4b20db53cbff8c6c6bfb6c 17373256 libvcflib-tools-dbgsym_1.0.3+dfsg-2_i386.deb aabbc1dcf824a33091591df6821dcdda835598d466c54d32d6a29d5e54402bf1 777028 libvcflib-tools_1.0.3+dfsg-2_i386.deb 8b51675a3b6fb74200a719c47ce4b09a6584f0bd6b27f2cd49a864c47dbe8460 1459180 libvcflib1-dbgsym_1.0.3+dfsg-2_i386.deb 2b70c13b15a823439433e6cfd616b1a5c327eac40a0a19922659ca584b6fb3f0 155992 libvcflib1_1.0.3+dfsg-2_i386.deb Build-Origin: Debian Build-Architecture: arm64 Build-Date: Sun, 08 Jan 2023 08:40:37 +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 (= 5.2.15-2), binutils (= 2.39.90.20230104-1), binutils-aarch64-linux-gnu (= 2.39.90.20230104-1), binutils-common (= 2.39.90.20230104-1), 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 (= 4:12.2.0-2+b1), cpp-12 (= 12.2.0-13), dash (= 0.5.12-2), debconf (= 1.5.81), debhelper (= 13.11.4), debianutils (= 5.7-0.4), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.13.0-2), diffutils (= 1:3.8-3), dpkg (= 1.21.17), dpkg-dev (= 1.21.17), dwz (= 0.15-1), file (= 1:5.41-4), findutils (= 4.9.0-3), g++ (= 4:12.2.0-2+b1), g++-12 (= 12.2.0-13), gcc (= 4:12.2.0-2+b1), gcc-12 (= 12.2.0-13), gcc-12-base (= 12.2.0-13), 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+nmu1), init-system-helpers (= 1.65.2), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.1-2), libarchive-zip-perl (= 1.68-1), libarchive13 (= 3.6.2-1), libasan8 (= 12.2.0-13), libatomic1 (= 12.2.0-13), libattr1 (= 1:2.5.1-3), libaudit-common (= 1:3.0.7-1.1), libaudit1 (= 1:3.0.7-1.1+b2), libbinutils (= 2.39.90.20230104-1), 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 (= 2.36-8), libc-dev-bin (= 2.36-8), libc6 (= 2.36-8), libc6-dev (= 2.36-8), libcap-ng0 (= 0.8.3-1+b2), libcap2 (= 1:2.66-3), libcc1-0 (= 12.2.0-13), libcom-err2 (= 1.46.6~rc1-1+b1), libcrypt-dev (= 1:4.4.33-2), libcrypt1 (= 1:4.4.33-2), libctf-nobfd0 (= 2.39.90.20230104-1), libctf0 (= 2.39.90.20230104-1), libcurl3-gnutls (= 7.87.0-1), libcurl4 (= 7.87.0-1), libcurl4-gnutls-dev (= 7.87.0-1), libdb5.3 (= 5.3.28+dfsg1-0.10), libdebconfclient0 (= 0.266), libdebhelper-perl (= 13.11.4), 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 (= 1.21.17), libelf1 (= 0.188-2), 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-12-dev (= 12.2.0-13), libgcc-s1 (= 12.2.0-13), 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 (= 12.2.0-13), libgpg-error0 (= 1.46-1), libgprofng0 (= 2.39.90.20230104-1), 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), libhwasan0 (= 12.2.0-13), libicu72 (= 72.1-3), libidn2-0 (= 2.3.3-1+b1), libisl23 (= 0.25-1), libitm1 (= 12.2.0-13), libjansson4 (= 2.14-2), libjsoncpp25 (= 1.9.5-4), libk5crypto3 (= 1.20.1-1), libkeyutils1 (= 1.6.3-2), libkrb5-3 (= 1.20.1-1), libkrb5support0 (= 1.20.1-1), libldap-2.5-0 (= 2.5.13+dfsg-2+b1), liblsan0 (= 12.2.0-13), liblz4-1 (= 1.9.4-1), liblzma-dev (= 5.4.0-0.1), liblzma5 (= 5.4.0-0.1), libmagic-mgc (= 1:5.41-4), libmagic1 (= 1:5.41-4), libmd0 (= 1.0.4-2), libmount1 (= 2.38.1-4), libmpc3 (= 1.3.1-1), libmpfr6 (= 4.1.1-3), libncursesw6 (= 6.4-1), libnettle8 (= 3.8.1-2), libnghttp2-14 (= 1.51.0-1), libnsl-dev (= 1.3.0-2), libnsl2 (= 1.3.0-2), libnumber-compare-perl (= 0.03-3), libp11-kit0 (= 0.24.1-2), libpam-modules (= 1.5.2-6), libpam-modules-bin (= 1.5.2-6), libpam-runtime (= 1.5.2-6), libpam0g (= 1.5.2-6), libpcre2-8-0 (= 10.42-1), libperl5.36 (= 5.36.0-6), libpipeline1 (= 1.5.7-1), libpkgconf3 (= 1.8.0-12), libproc2-0 (= 2:4.0.2-3), libpsl5 (= 0.21.0-1.2), 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+b4), 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 (= 12.2.0-13), libstdc++6 (= 12.2.0-13), libsub-override-perl (= 0.09-4), libsystemd0 (= 252.4-1), libtabixpp-dev (= 1.1.1-1), libtabixpp0 (= 1.1.1-1), libtasn1-6 (= 4.19.0-2), libtext-glob-perl (= 0.11-3), libtinfo6 (= 6.4-1), 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), libtsan2 (= 12.2.0-13), libubsan1 (= 12.2.0-13), libuchardet0 (= 0.0.7-1), libudev1 (= 252.4-1), 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+dfsg2-3), linux-libc-dev (= 6.0.12-1), login (= 1:4.13+dfsg1-1), m4 (= 1.4.19-2), 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 (= 6.4-1), ncurses-bin (= 6.4-1), patch (= 2.7.6-7), perl (= 5.36.0-6), perl-base (= 5.36.0-6), perl-modules-5.36 (= 5.36.0-6), pkg-config (= 1.8.0-12), pkgconf (= 1.8.0-12), pkgconf-bin (= 1.8.0-12), po-debconf (= 1.0.21+nmu1), procps (= 2:4.0.2-3), rpcsvc-proto (= 1.4.3-1), sed (= 4.9-1), sensible-utils (= 0.0.17), sysvinit-utils (= 3.06-2), tar (= 1.34+dfsg-1.1), usrmerge (= 35), util-linux (= 2.38.1-4), util-linux-extra (= 2.38.1-4), xz-utils (= 5.4.0-0.1), 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_GB.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1665152766" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ libvcflib-dev_1.0.3+dfsg-2_i386.deb ----------------------------------- new Debian package, version 2.0. size 84580 bytes: control archive=1668 bytes. 1267 bytes, 27 lines control 1543 bytes, 23 lines md5sums Package: libvcflib-dev Source: libvcflib Version: 1.0.3+dfsg-2 Architecture: i386 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/i386-linux-gnu/ lrwxrwxrwx root/root 0 2022-10-07 14:26 ./usr/lib/i386-linux-gnu/libvcflib.so -> libvcflib.so.1 drwxr-xr-x root/root 0 2022-10-07 14:26 ./usr/lib/i386-linux-gnu/pkgconfig/ -rw-r--r-- root/root 283 2022-10-07 14:26 ./usr/lib/i386-linux-gnu/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_i386.deb -------------------------------------------- new Debian package, version 2.0. size 17373256 bytes: control archive=4276 bytes. 3769 bytes, 12 lines control 8888 bytes, 84 lines md5sums Package: libvcflib-tools-dbgsym Source: libvcflib Version: 1.0.3+dfsg-2 Auto-Built-Package: debug-symbols Architecture: i386 Maintainer: Debian Med Packaging Team Installed-Size: 18253 Depends: libvcflib-tools (= 1.0.3+dfsg-2) Section: debug Priority: optional Description: debug symbols for libvcflib-tools Build-Ids: 00ed476ef4a69743703dac0c549d7b0908d88ec2 025ab8f20cbc137812f4d61c0c6bfb0794762b20 040a43786877e18d827481fc44ae1471bb7fde6c 0429cd9020c2c46810743ac23e2444c17628f0f3 07721e7404aec0bcc75434e8e33299587199a0e7 0a28413020fc37d2816df841d065655f037802a9 0d26fabe4121b002e57d5fa545f5a7339715f417 0ddf1153473ebde70cf5013ca4a0cf68e26185ba 10ca284aac21b902455edf040b10c9d9729b99dd 1103d17df6dbe51414ba4d782bd985ca0dba2213 146f1c6323a2a87c58000f90234ca8477a62406e 17727a282933f89a7960cc644130007cfbfe2061 196d2830d9a573a312eba760b46255572b4188e7 1e90cab5a7d2a0764afc3eef0771cd994428ee2e 1ef503eac107123ce16609a80be7f9c52fd8e632 206f7a8a09341656a9fc2a82f598fd5b544eb32e 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lrwxrwxrwx root/root 0 2022-10-07 14:26 ./usr/share/doc/libvcflib-tools-dbgsym -> libvcflib-tools libvcflib-tools_1.0.3+dfsg-2_i386.deb ------------------------------------- new Debian package, version 2.0. size 777028 bytes: control archive=6640 bytes. 1517 bytes, 29 lines control 17697 bytes, 258 lines md5sums Package: libvcflib-tools Source: libvcflib Version: 1.0.3+dfsg-2 Architecture: i386 Maintainer: Debian Med Packaging Team Installed-Size: 4914 Depends: libc6 (>= 2.34), libdisorder0 (>= 0.0.2), libfastahack0 (>= 1.0.0+dfsg), libgcc-s1 (>= 3.0), 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 50824 2022-10-07 14:26 ./usr/bin/vcf2tsv -rwxr-xr-x root/root 120504 2022-10-07 14:26 ./usr/bin/vcfallelicprimitives -rwxr-xr-x root/root 75544 2022-10-07 14:26 ./usr/bin/vcffilter -rwxr-xr-x root/root 46640 2022-10-07 14:26 ./usr/bin/vcffixup -rwxr-xr-x root/root 34352 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 34352 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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-rw-r--r-- root/root 883 2022-10-07 14:26 ./usr/share/man/man1/vcflib.1.gz -rw-r--r-- root/root 878 2022-10-07 14:26 ./usr/share/man/man1/vcfnulldotslashdot.1.gz -rw-r--r-- root/root 359 2022-10-07 14:26 ./usr/share/man/man1/vcfnumalt.1.gz -rw-r--r-- root/root 422 2022-10-07 14:26 ./usr/share/man/man1/vcfoverlay.1.gz -rw-r--r-- root/root 1083 2022-10-07 14:26 ./usr/share/man/man1/vcfparsealts.1.gz -rw-r--r-- root/root 744 2022-10-07 14:26 ./usr/share/man/man1/vcfprimers.1.gz -rw-r--r-- root/root 377 2022-10-07 14:26 ./usr/share/man/man1/vcfqual2info.1.gz -rw-r--r-- root/root 887 2022-10-07 14:26 ./usr/share/man/man1/vcfrandom.1.gz -rw-r--r-- root/root 600 2022-10-07 14:26 ./usr/share/man/man1/vcfrandomsample.1.gz -rw-r--r-- root/root 805 2022-10-07 14:26 ./usr/share/man/man1/vcfremap.1.gz -rw-r--r-- root/root 457 2022-10-07 14:26 ./usr/share/man/man1/vcfremoveaberrantgenotypes.1.gz -rw-r--r-- root/root 379 2022-10-07 14:26 ./usr/share/man/man1/vcfremovesamples.1.gz -rw-r--r-- root/root 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_i386.deb --------------------------------------- new Debian package, version 2.0. size 1459180 bytes: control archive=556 bytes. 408 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: i386 Maintainer: Debian Med Packaging Team Installed-Size: 1511 Depends: libvcflib1 (= 1.0.3+dfsg-2) Section: debug Priority: optional Multi-Arch: same Description: debug symbols for libvcflib1 Build-Ids: 27312dd814ef0ea0d453b0ae332be1bd8f61c1e9 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/27/ -rw-r--r-- root/root 1536304 2022-10-07 14:26 ./usr/lib/debug/.build-id/27/312dd814ef0ea0d453b0ae332be1bd8f61c1e9.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_i386.deb -------------------------------- new Debian package, version 2.0. size 155992 bytes: control archive=1212 bytes. 1250 bytes, 25 lines control 293 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: i386 Maintainer: Debian Med Packaging Team Installed-Size: 416 Depends: libc6 (>= 2.29), libdisorder0 (>= 0.0.2), libfastahack0 (>= 1.0.0+dfsg), libgcc-s1 (>= 3.0), 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/i386-linux-gnu/ -rw-r--r-- root/root 407832 2022-10-07 14:26 ./usr/lib/i386-linux-gnu/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:arm64 Filtered Build-Depends: lintian:arm64 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 [690 B] Fetched 2274 B in 0s (55.9 kB/s) Reading package lists... Reading package lists... Install lintian build dependencies (apt-based resolver) ------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: 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:i386 t1utils unzip 0 upgraded, 127 newly installed, 0 to remove and 0 not upgraded. Need to get 13.8 MB of archives. After this operation, 53.2 MB of additional disk space will be used. 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libnet-netmask-perl all 2.0002-2 [28.6 kB] Get:53 http://mirror.einval.org/debian sid/main arm64 libnetaddr-ip-perl arm64 4.079+dfsg-2+b1 [98.8 kB] Get:54 http://mirror.einval.org/debian sid/main arm64 libdata-validate-ip-perl all 0.31-1 [20.6 kB] Get:55 http://mirror.einval.org/debian sid/main arm64 libdata-validate-uri-perl all 0.07-2 [11.2 kB] Get:56 http://mirror.einval.org/debian sid/main arm64 libdevel-size-perl arm64 0.83-2+b1 [24.2 kB] Get:57 http://mirror.einval.org/debian sid/main arm64 libemail-address-xs-perl arm64 1.05-1+b1 [28.3 kB] Get:58 http://mirror.einval.org/debian sid/main arm64 libencode-locale-perl all 1.05-3 [12.9 kB] Get:59 http://mirror.einval.org/debian sid/main arm64 libipc-system-simple-perl all 1.30-2 [26.8 kB] Get:60 http://mirror.einval.org/debian sid/main arm64 libfile-basedir-perl all 0.09-2 [15.1 kB] Get:61 http://mirror.einval.org/debian sid/main arm64 libtimedate-perl all 2.3300-2 [39.3 kB] Get:62 http://mirror.einval.org/debian sid/main arm64 libhttp-date-perl all 6.05-2 [10.5 kB] Get:63 http://mirror.einval.org/debian sid/main arm64 libfile-listing-perl all 6.15-1 [12.6 kB] Get:64 http://mirror.einval.org/debian sid/main arm64 libfont-ttf-perl all 1.06-2 [318 kB] Get:65 http://mirror.einval.org/debian sid/main arm64 libio-html-perl all 1.004-3 [16.2 kB] Get:66 http://mirror.einval.org/debian sid/main arm64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get:67 http://mirror.einval.org/debian sid/main arm64 libhttp-message-perl all 6.44-1 [81.7 kB] Get:68 http://mirror.einval.org/debian sid/main arm64 libhtml-form-perl all 6.10-1 [24.0 kB] Get:69 http://mirror.einval.org/debian sid/main arm64 libhtml-html5-entities-perl all 0.004-3 [21.0 kB] Get:70 http://mirror.einval.org/debian sid/main arm64 libhtml-tree-perl all 5.07-3 [211 kB] Get:71 http://mirror.einval.org/debian sid/main arm64 libhttp-cookies-perl all 6.10-1 [19.6 kB] Get:72 http://mirror.einval.org/debian sid/main arm64 libhttp-negotiate-perl all 6.01-2 [13.1 kB] Get:73 http://mirror.einval.org/debian sid/main arm64 perl-openssl-defaults arm64 7+b1 [7924 B] Get:74 http://mirror.einval.org/debian sid/main arm64 libnet-ssleay-perl arm64 1.92-2+b1 [308 kB] Get:75 http://mirror.einval.org/debian sid/main arm64 libio-socket-ssl-perl all 2.078-1 [217 kB] Get:76 http://mirror.einval.org/debian sid/main arm64 libnet-http-perl all 6.22-1 [25.3 kB] Get:77 http://mirror.einval.org/debian sid/main arm64 liblwp-protocol-https-perl all 6.10-1 [12.2 kB] Get:78 http://mirror.einval.org/debian sid/main arm64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get:79 http://mirror.einval.org/debian sid/main arm64 libwww-perl all 6.67-1 [194 kB] Get:80 http://mirror.einval.org/debian sid/main arm64 libhtml-tokeparser-simple-perl all 3.16-4 [39.1 kB] Get:81 http://mirror.einval.org/debian sid/main arm64 libimport-into-perl all 1.002005-2 [11.3 kB] Get:82 http://mirror.einval.org/debian sid/main arm64 libio-interactive-perl all 1.023-2 [11.0 kB] Get:83 http://mirror.einval.org/debian sid/main arm64 libipc-run3-perl all 0.048-3 [33.2 kB] Get:84 http://mirror.einval.org/debian sid/main arm64 libjson-maybexs-perl all 1.004004-1 [13.3 kB] Get:85 http://mirror.einval.org/debian sid/main arm64 liblist-compare-perl all 0.55-2 [65.7 kB] Get:86 http://mirror.einval.org/debian sid/main arm64 liblist-someutils-perl all 0.59-1 [37.1 kB] Get:87 http://mirror.einval.org/debian sid/main arm64 liblist-utilsby-perl all 0.12-2 [15.5 kB] Get:88 http://mirror.einval.org/debian sid/main arm64 liblz1 arm64 1.13-4 [40.8 kB] Get:89 http://mirror.einval.org/debian sid/main arm64 liblzo2-2 arm64 2.10-2 [51.8 kB] Get:90 http://mirror.einval.org/debian sid/main arm64 libmarkdown2 arm64 2.2.7-2 [34.1 kB] Get:91 http://mirror.einval.org/debian sid/main arm64 libmldbm-perl all 2.05-4 [16.8 kB] Get:92 http://mirror.einval.org/debian sid/main arm64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get:93 http://mirror.einval.org/debian sid/main arm64 libsub-quote-perl all 2.006006-3 [21.0 kB] Get:94 http://mirror.einval.org/debian sid/main arm64 libmoo-perl all 2.005005-1 [58.0 kB] Get:95 http://mirror.einval.org/debian sid/main arm64 libstrictures-perl all 2.000006-1 [18.6 kB] Get:96 http://mirror.einval.org/debian sid/main arm64 libmoox-aliases-perl all 0.001006-2 [7156 B] Get:97 http://mirror.einval.org/debian sid/main arm64 libmouse-perl arm64 2.5.10-1+b3 [167 kB] Get:98 http://mirror.einval.org/debian sid/main arm64 libpackage-stash-perl all 0.40-1 [22.0 kB] Get:99 http://mirror.einval.org/debian sid/main arm64 libsub-identify-perl arm64 0.14-3 [10.9 kB] Get:100 http://mirror.einval.org/debian sid/main arm64 libsub-name-perl arm64 0.26-2+b1 [12.4 kB] Get:101 http://mirror.einval.org/debian sid/main arm64 libnamespace-clean-perl all 0.27-2 [17.8 kB] Get:102 http://mirror.einval.org/debian sid/main arm64 libpath-tiny-perl all 0.144-1 [56.4 kB] Get:103 http://mirror.einval.org/debian sid/main arm64 libperlio-gzip-perl arm64 0.20-1+b1 [17.1 kB] Get:104 http://mirror.einval.org/debian sid/main arm64 libperlio-utf8-strict-perl arm64 0.010-1 [11.2 kB] Get:105 http://mirror.einval.org/debian sid/main arm64 libproc-processtable-perl arm64 0.634-1+b2 [42.4 kB] Get:106 http://mirror.einval.org/debian sid/main arm64 libregexp-wildcards-perl all 1.05-3 [14.1 kB] Get:107 http://mirror.einval.org/debian sid/main arm64 libsereal-decoder-perl arm64 5.001+ds-1+b1 [97.5 kB] Get:108 http://mirror.einval.org/debian sid/main arm64 libsereal-encoder-perl arm64 5.001+ds-2 [98.8 kB] Get:109 http://mirror.einval.org/debian sid/main arm64 libsort-versions-perl all 1.62-3 [8928 B] Get:110 http://mirror.einval.org/debian sid/main arm64 libxs-parse-keyword-perl arm64 0.31-1 [56.1 kB] Get:111 http://mirror.einval.org/debian sid/main arm64 libsyntax-keyword-try-perl arm64 0.28-1 [28.2 kB] Get:112 http://mirror.einval.org/debian sid/main arm64 libterm-readkey-perl arm64 2.38-2+b1 [24.1 kB] Get:113 http://mirror.einval.org/debian sid/main arm64 libtext-levenshteinxs-perl arm64 0.03-5+b1 [8396 B] Get:114 http://mirror.einval.org/debian sid/main arm64 libtext-markdown-discount-perl arm64 0.16-1 [13.0 kB] Get:115 http://mirror.einval.org/debian sid/main arm64 libtext-xslate-perl arm64 3.5.9-1+b2 [196 kB] Get:116 http://mirror.einval.org/debian sid/main arm64 libtime-duration-perl all 1.21-2 [13.1 kB] Get:117 http://mirror.einval.org/debian sid/main arm64 libtime-moment-perl arm64 0.44-2+b1 [72.2 kB] Get:118 http://mirror.einval.org/debian sid/main arm64 libunicode-utf8-perl arm64 0.62-2 [19.9 kB] Get:119 http://mirror.einval.org/debian sid/main arm64 libwww-mechanize-perl all 2.15-1 [120 kB] Get:120 http://mirror.einval.org/debian sid/main arm64 libyaml-0-2 arm64 0.2.5-1 [50.4 kB] Get:121 http://mirror.einval.org/debian sid/main arm64 libyaml-libyaml-perl arm64 0.84+ds-1+b1 [33.1 kB] Get:122 http://mirror.einval.org/debian sid/main arm64 plzip arm64 1.10-4 [60.7 kB] Get:123 http://mirror.einval.org/debian sid/main arm64 lzop arm64 1.04-2 [82.8 kB] Get:124 http://mirror.einval.org/debian sid/main arm64 patchutils arm64 0.4.2-1 [73.5 kB] Get:125 http://mirror.einval.org/debian sid/main arm64 t1utils arm64 1.41-4 [59.8 kB] Get:126 http://mirror.einval.org/debian sid/main arm64 unzip arm64 6.0-27 [163 kB] Get:127 http://mirror.einval.org/debian sid/main arm64 lintian all 2.115.3 [1417 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 13.8 MB in 0s (37.1 MB/s) Selecting previously unselected package netbase. (Reading database ... 22198 files and directories currently installed.) Preparing to unpack .../000-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package readline-common. Preparing to unpack .../001-readline-common_8.2-1.2_all.deb ... Unpacking readline-common (8.2-1.2) ... Selecting previously unselected package openssl. Preparing to unpack .../002-openssl_3.0.7-1_arm64.deb ... Unpacking openssl (3.0.7-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../003-ca-certificates_20211016_all.deb ... Unpacking ca-certificates (20211016) ... Selecting previously unselected package diffstat. Preparing to unpack .../004-diffstat_1.65-1_arm64.deb ... Unpacking diffstat (1.65-1) ... Selecting previously unselected package libassuan0:arm64. Preparing to unpack .../005-libassuan0_2.5.5-5_arm64.deb ... Unpacking libassuan0:arm64 (2.5.5-5) ... Selecting previously unselected package libreadline8:arm64. 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Unpacking libapt-pkg-perl (0.1.40+b2) ... Selecting previously unselected package libb-hooks-op-check-perl:arm64. Preparing to unpack .../013-libb-hooks-op-check-perl_0.22-2+b1_arm64.deb ... Unpacking libb-hooks-op-check-perl:arm64 (0.22-2+b1) ... Selecting previously unselected package libdynaloader-functions-perl. Preparing to unpack .../014-libdynaloader-functions-perl_0.003-3_all.deb ... Unpacking libdynaloader-functions-perl (0.003-3) ... Selecting previously unselected package libdevel-callchecker-perl:arm64. Preparing to unpack .../015-libdevel-callchecker-perl_0.008-2_arm64.deb ... Unpacking libdevel-callchecker-perl:arm64 (0.008-2) ... Selecting previously unselected package libparams-classify-perl:arm64. Preparing to unpack .../016-libparams-classify-perl_0.015-2+b1_arm64.deb ... Unpacking libparams-classify-perl:arm64 (0.015-2+b1) ... Selecting previously unselected package libmodule-runtime-perl. Preparing to unpack .../017-libmodule-runtime-perl_0.016-2_all.deb ... 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Unpacking libiterator-util-perl (0.02+ds1-2) ... Selecting previously unselected package libdata-dpath-perl. Preparing to unpack .../045-libdata-dpath-perl_0.58-2_all.deb ... Unpacking libdata-dpath-perl (0.58-2) ... Selecting previously unselected package libdata-messagepack-perl. Preparing to unpack .../046-libdata-messagepack-perl_1.02-1+b1_arm64.deb ... Unpacking libdata-messagepack-perl (1.02-1+b1) ... Selecting previously unselected package libnet-domain-tld-perl. Preparing to unpack .../047-libnet-domain-tld-perl_1.75-3_all.deb ... Unpacking libnet-domain-tld-perl (1.75-3) ... Selecting previously unselected package libdata-validate-domain-perl. Preparing to unpack .../048-libdata-validate-domain-perl_0.10-1.1_all.deb ... Unpacking libdata-validate-domain-perl (0.10-1.1) ... Selecting previously unselected package libnet-ipv6addr-perl. Preparing to unpack .../049-libnet-ipv6addr-perl_1.02-1_all.deb ... Unpacking libnet-ipv6addr-perl (1.02-1) ... 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Unpacking libhtml-form-perl (6.10-1) ... Selecting previously unselected package libhtml-html5-entities-perl. Preparing to unpack .../067-libhtml-html5-entities-perl_0.004-3_all.deb ... Unpacking libhtml-html5-entities-perl (0.004-3) ... Selecting previously unselected package libhtml-tree-perl. Preparing to unpack .../068-libhtml-tree-perl_5.07-3_all.deb ... Unpacking libhtml-tree-perl (5.07-3) ... Selecting previously unselected package libhttp-cookies-perl. Preparing to unpack .../069-libhttp-cookies-perl_6.10-1_all.deb ... Unpacking libhttp-cookies-perl (6.10-1) ... Selecting previously unselected package libhttp-negotiate-perl. Preparing to unpack .../070-libhttp-negotiate-perl_6.01-2_all.deb ... Unpacking libhttp-negotiate-perl (6.01-2) ... Selecting previously unselected package perl-openssl-defaults:arm64. Preparing to unpack .../071-perl-openssl-defaults_7+b1_arm64.deb ... Unpacking perl-openssl-defaults:arm64 (7+b1) ... Selecting previously unselected package libnet-ssleay-perl:arm64. Preparing to unpack .../072-libnet-ssleay-perl_1.92-2+b1_arm64.deb ... Unpacking libnet-ssleay-perl:arm64 (1.92-2+b1) ... Selecting previously unselected package libio-socket-ssl-perl. Preparing to unpack .../073-libio-socket-ssl-perl_2.078-1_all.deb ... Unpacking libio-socket-ssl-perl (2.078-1) ... Selecting previously unselected package libnet-http-perl. Preparing to unpack .../074-libnet-http-perl_6.22-1_all.deb ... Unpacking libnet-http-perl (6.22-1) ... Selecting previously unselected package liblwp-protocol-https-perl. Preparing to unpack .../075-liblwp-protocol-https-perl_6.10-1_all.deb ... Unpacking liblwp-protocol-https-perl (6.10-1) ... Selecting previously unselected package libwww-robotrules-perl. Preparing to unpack .../076-libwww-robotrules-perl_6.02-1_all.deb ... Unpacking libwww-robotrules-perl (6.02-1) ... Selecting previously unselected package libwww-perl. 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Setting up liblz1:arm64 (1.13-4) ... Setting up libberkeleydb-perl:arm64 (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 (0.62-2) ... 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:arm64 (0.46-1) ... Setting up libyaml-0-2:arm64 (0.2.5-1) ... Setting up libsub-identify-perl (0.14-3) ... Setting up libcpanel-json-xs-perl:arm64 (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:arm64 (3.40.1-1) ... Setting up liblwp-mediatypes-perl (6.04-2) ... 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:arm64 (7+b1) ... Setting up libmldbm-perl (2.05-4) ... Setting up liblzo2-2:arm64 (2.10-2) ... Setting up libtime-moment-perl (0.44-2+b1) ... Setting up libencode-locale-perl (1.05-3) ... Setting up libassuan0:arm64 (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 (0.929-1) ... 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 (0.144-1) ... Setting up lzop (1.04-2) ... Setting up librole-tiny-perl (2.002004-1) ... Setting up libipc-run3-perl (0.048-3) ... 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 (2.006006-3) ... 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:arm64 (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 (0.31-1) ... Setting up libemail-address-xs-perl (1.05-1+b1) ... Setting up libnet-ssleay-perl:arm64 (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:arm64 (8.2-1.2) ... Setting up libnet-http-perl (6.22-1) ... Setting up libtext-markdown-discount-perl (0.16-1) ... Setting up libexception-class-perl (1.45-1) ... Setting up libdevel-callchecker-perl:arm64 (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 (0.113-1) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libhtml-parser-perl:arm64 (3.80-1) ... Setting up gpgconf (2.2.40-1) ... Setting up libio-socket-ssl-perl (2.078-1) ... Setting up gpg (2.2.40-1) ... Setting up libsub-exporter-perl (0.989-1) ... 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 (6.01-2) ... Setting up libiterator-util-perl (0.02+ds1-2) ... Setting up libhttp-cookies-perl (6.10-1) ... Setting up libhtml-tree-perl (5.07-3) ... Setting up libparams-classify-perl:arm64 (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 (2.005005-1) ... Setting up liblist-someutils-perl (0.59-1) ... 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:i386 (0.invalid.0) ... Processing triggers for libc-bin (2.36-8) ... 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. I: Lintian run was successful. +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: arm64 Build Profiles: cross nocheck Build Type: any Build-Space: 406880 Build-Time: 1172 Distribution: unstable Foreign Architectures: i386 Host Architecture: i386 Install-Time: 92 Job: libvcflib_1.0.3+dfsg-2 Lintian: pass Machine Architecture: arm64 Package: libvcflib Package-Time: 1296 Source-Version: 1.0.3+dfsg-2 Space: 406880 Status: successful Version: 1.0.3+dfsg-2 -------------------------------------------------------------------------------- Finished at 2023-01-08T08:40:38Z Build needed 00:21:36, 406880k disk space