sbuild (Debian sbuild) 0.78.1 (09 February 2019) on mjolnir.einval.org +==============================================================================+ | vt 0.57721+ds-3 (amd64) Sat, 22 Oct 2022 12:22:12 +0000 | +==============================================================================+ Package: vt Version: 0.57721+ds-3 Source Version: 0.57721+ds-3 Distribution: unstable Machine Architecture: arm64 Host Architecture: amd64 Build Architecture: arm64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/crossqa-sid-771c882a-a994-4f11-8f1b-e0c355195b3c' with '<>' I: NOTICE: Log filtering will replace 'build/vt-BRj9d2/resolver-OXE7OS' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://mirror.einval.org/debian sid InRelease [161 kB] Ign:2 http://mirror.einval.org/debian sid/main Sources.diff/Index Ign:3 http://mirror.einval.org/debian sid/main arm64 Packages.diff/Index Get:2 http://mirror.einval.org/debian sid/main Sources.diff/Index [63.6 kB] Ign:2 http://mirror.einval.org/debian sid/main Sources.diff/Index Ign:3 http://mirror.einval.org/debian sid/main arm64 Packages.diff/Index Get:4 http://mirror.einval.org/debian sid/main amd64 Packages [9378 kB] Get:5 http://mirror.einval.org/debian sid/main Sources [9932 kB] Get:6 http://mirror.einval.org/debian sid/main arm64 Packages [9227 kB] Fetched 28.7 MB in 8s (3516 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: cpp-12 g++-12 gcc-12 gcc-12-base libasan8 libatomic1 libcc1-0 libgcc-12-dev libgcc-s1 libgomp1 libhwasan0 libitm1 liblsan0 libstdc++-12-dev libstdc++6 libtsan2 libubsan1 17 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 44.4 MB of archives. After this operation, 171 kB disk space will be freed. Get:1 http://mirror.einval.org/debian sid/main arm64 libcc1-0 arm64 12.2.0-7 [37.8 kB] Get:2 http://mirror.einval.org/debian sid/main arm64 libgomp1 arm64 12.2.0-7 [104 kB] Get:3 http://mirror.einval.org/debian sid/main arm64 libitm1 arm64 12.2.0-7 [23.9 kB] Get:4 http://mirror.einval.org/debian sid/main arm64 libatomic1 arm64 12.2.0-7 [9536 B] Get:5 http://mirror.einval.org/debian sid/main arm64 libasan8 arm64 12.2.0-7 [2094 kB] Get:6 http://mirror.einval.org/debian sid/main arm64 liblsan0 arm64 12.2.0-7 [926 kB] Get:7 http://mirror.einval.org/debian sid/main arm64 libtsan2 arm64 12.2.0-7 [2178 kB] Get:8 http://mirror.einval.org/debian sid/main arm64 libubsan1 arm64 12.2.0-7 [862 kB] Get:9 http://mirror.einval.org/debian sid/main arm64 libhwasan0 arm64 12.2.0-7 [998 kB] Get:10 http://mirror.einval.org/debian sid/main arm64 gcc-12-base arm64 12.2.0-7 [36.6 kB] Get:11 http://mirror.einval.org/debian sid/main arm64 libstdc++6 arm64 12.2.0-7 [556 kB] Get:12 http://mirror.einval.org/debian sid/main arm64 g++-12 arm64 12.2.0-7 [9069 kB] Get:13 http://mirror.einval.org/debian sid/main arm64 libstdc++-12-dev arm64 12.2.0-7 [2008 kB] Get:14 http://mirror.einval.org/debian sid/main arm64 libgcc-12-dev arm64 12.2.0-7 [959 kB] Get:15 http://mirror.einval.org/debian sid/main arm64 gcc-12 arm64 12.2.0-7 [16.3 MB] Get:16 http://mirror.einval.org/debian sid/main arm64 cpp-12 arm64 12.2.0-7 [8227 kB] Get:17 http://mirror.einval.org/debian sid/main arm64 libgcc-s1 arm64 12.2.0-7 [34.8 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 44.4 MB in 1s (61.4 MB/s) (Reading database ... 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Processing triggers for libc-bin (2.35-3) ... +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'vt' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/vt.git Please use: git clone https://salsa.debian.org/med-team/vt.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 18.6 MB of source archives. Get:1 http://mirror.einval.org/debian sid/main vt 0.57721+ds-3 (dsc) [2162 B] Get:2 http://mirror.einval.org/debian sid/main vt 0.57721+ds-3 (tar) [18.6 MB] Get:3 http://mirror.einval.org/debian sid/main vt 0.57721+ds-3 (diff) [8092 B] Fetched 18.6 MB in 0s (54.2 MB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/vt-BRj9d2/vt-0.57721+ds' with '<>' I: NOTICE: Log filtering will replace 'build/vt-BRj9d2' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), zlib1g-dev, libbz2-dev, liblzma-dev, libcurl4-gnutls-dev, libssl-dev, libdeflate-dev, libhts-dev, libpcre2-dev, libsvm-dev, libtclap-dev, r-mathlib, r-base-core, libc-dev, libstdc++-dev, build-essential:arm64, fakeroot:arm64, crossbuild-essential-amd64:arm64, libc-dev:amd64, libstdc++-dev:amd64 Filtered Build-Depends: debhelper-compat (= 13), zlib1g-dev, libbz2-dev, liblzma-dev, libcurl4-gnutls-dev, libssl-dev, libdeflate-dev, libhts-dev, libpcre2-dev, libsvm-dev, libtclap-dev, r-mathlib, r-base-core, libc-dev, libstdc++-dev, build-essential:arm64, fakeroot:arm64, crossbuild-essential-amd64:arm64, libc-dev:amd64, libstdc++-dev:amd64 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 [466 B] Get:5 copy:/<>/apt_archive ./ Packages [554 B] Fetched 1977 B in 0s (47.4 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev binutils-x86-64-linux-gnu bsdextrautils ca-certificates cpp-12-x86-64-linux-gnu cpp-x86-64-linux-gnu cross-config crossbuild-essential-amd64 debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file fontconfig fontconfig-config fonts-dejavu-core g++-12-x86-64-linux-gnu g++-x86-64-linux-gnu gcc-12-base:amd64 gcc-12-cross-base gcc-12-x86-64-linux-gnu gcc-12-x86-64-linux-gnu-base gcc-x86-64-linux-gnu gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasan8:amd64 libasan8-amd64-cross libatomic1:amd64 libatomic1-amd64-cross libblas3:amd64 libblkid1:amd64 libbrotli1 libbrotli1:amd64 libbsd0:amd64 libbz2-1.0:amd64 libbz2-dev:amd64 libc6:amd64 libc6-amd64-cross libc6-dev:amd64 libc6-dev-amd64-cross libcairo2:amd64 libcom-err2:amd64 libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev:amd64 libcrypt1:amd64 libcurl3-gnutls:amd64 libcurl4:amd64 libcurl4-gnutls-dev:amd64 libdatrie1:amd64 libdb5.3:amd64 libdebhelper-perl libdebian-dpkgcross-perl libdeflate-dev:amd64 libdeflate0:amd64 libelf1 libexpat1 libexpat1:amd64 libffi8:amd64 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libfontconfig1 libfontconfig1:amd64 libfreetype6 libfreetype6:amd64 libfribidi0:amd64 libgcc-12-dev:amd64 libgcc-12-dev-amd64-cross libgcc-s1:amd64 libgcc-s1-amd64-cross libgfortran5:amd64 libglib2.0-0:amd64 libgmp10:amd64 libgnutls30:amd64 libgomp1:amd64 libgomp1-amd64-cross libgraphite2-3:amd64 libgssapi-krb5-2:amd64 libharfbuzz0b:amd64 libhogweed6:amd64 libhts-dev:amd64 libhts3:amd64 libhtscodecs2:amd64 libice6:amd64 libicu71 libicu71:amd64 libidn2-0:amd64 libio-string-perl libitm1:amd64 libitm1-amd64-cross libjbig0:amd64 libjpeg62-turbo:amd64 libk5crypto3:amd64 libkeyutils1:amd64 libkrb5-3:amd64 libkrb5support0:amd64 liblapack3:amd64 libldap-2.5-0:amd64 liblerc4:amd64 liblocale-gettext-perl liblsan0:amd64 liblsan0-amd64-cross liblzma-dev:amd64 liblzma5:amd64 libmagic-mgc libmagic1 libmd0:amd64 libmount1:amd64 libnettle8:amd64 libnghttp2-14:amd64 libnsl-dev:amd64 libnsl2:amd64 libp11-kit0:amd64 libpango-1.0-0:amd64 libpangocairo-1.0-0:amd64 libpangoft2-1.0-0:amd64 libpaper-utils libpaper1 libpcre2-16-0:amd64 libpcre2-32-0:amd64 libpcre2-8-0:amd64 libpcre2-dev:amd64 libpcre2-posix3:amd64 libpipeline1 libpixman-1-0:amd64 libpng16-16 libpng16-16:amd64 libpsl5:amd64 libquadmath0:amd64 libquadmath0-amd64-cross libreadline8:amd64 librtmp1:amd64 libsasl2-2:amd64 libsasl2-modules-db:amd64 libselinux1:amd64 libsm6:amd64 libssh2-1:amd64 libssl-dev:amd64 libssl3:amd64 libstdc++-12-dev:amd64 libstdc++-12-dev-amd64-cross libstdc++6:amd64 libstdc++6-amd64-cross libsub-override-perl libsvm-dev:amd64 libsvm3:amd64 libtasn1-6:amd64 libtcl8.6:amd64 libtclap-dev:amd64 libthai-data libthai0:amd64 libtiff5:amd64 libtinfo6:amd64 libtirpc-dev:amd64 libtirpc3:amd64 libtk8.6:amd64 libtool libtsan2:amd64 libtsan2-amd64-cross libubsan1:amd64 libubsan1-amd64-cross libuchardet0 libunistring2:amd64 libuuid1:amd64 libwebp7:amd64 libx11-6:amd64 libx11-data libxau6:amd64 libxcb-render0:amd64 libxcb-shm0:amd64 libxcb1:amd64 libxdmcp6:amd64 libxext6:amd64 libxft2:amd64 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libxrender1:amd64 libxss1:amd64 libxt6:amd64 libyaml-perl libzstd1:amd64 linux-libc-dev:amd64 linux-libc-dev-amd64-cross m4 man-db openssl po-debconf r-base-core:amd64 r-mathlib:amd64 readline-common sensible-utils ucf unzip x11-common xdg-utils zip zlib1g:amd64 zlib1g-dev:amd64 Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc gcc-12-locales cpp-12-doc cpp-doc dh-make binutils-multiarch g++-12-multilib-x86-64-linux-gnu gcc-12-doc gcc-12-multilib-x86-64-linux-gnu manpages-dev flex bison gdb-x86-64-linux-gnu gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff glibc-doc:amd64 libc-l10n:amd64 locales:amd64 libnss-nis:amd64 libnss-nisplus:amd64 manpages-dev:amd64 libcurl4-doc:amd64 libgnutls28-dev:amd64 libidn11-dev:amd64 libkrb5-dev:amd64 libldap2-dev:amd64 librtmp-dev:amd64 libssh2-1-dev:amd64 pkg-config:amd64 gnutls-bin:amd64 krb5-doc:amd64 krb5-user:amd64 liblzma-doc:amd64 cryptsetup-bin:amd64 libssl-doc:amd64 libstdc++-12-doc:amd64 tcl8.6:amd64 tk8.6:amd64 libtool-doc gfortran | fortran95-compiler gcj-jdk libyaml-shell-perl m4-doc apparmor less www-browser libmail-box-perl elpa-ess:amd64 r-doc-info:amd64 | r-doc-pdf:amd64 r-base-html:amd64 readline-doc Recommended packages: curl | wget | lynx bzip2-doc:amd64 libarchive-cpio-perl libglib2.0-data:amd64 shared-mime-info:amd64 xdg-user-dirs:amd64 krb5-locales:amd64 libldap-common:amd64 publicsuffix:amd64 libsasl2-modules:amd64 libltdl-dev uuid-runtime:amd64 libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl | libyaml-syck-perl libmail-sendmail-perl r-recommended:amd64 r-base-dev:amd64 r-doc-html:amd64 libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-x86-64-linux-gnu bsdextrautils ca-certificates cpp-12-x86-64-linux-gnu cpp-x86-64-linux-gnu cross-config crossbuild-essential-amd64 debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file fontconfig fontconfig-config fonts-dejavu-core g++-12-x86-64-linux-gnu g++-x86-64-linux-gnu gcc-12-base:amd64 gcc-12-cross-base gcc-12-x86-64-linux-gnu gcc-12-x86-64-linux-gnu-base gcc-x86-64-linux-gnu gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasan8:amd64 libasan8-amd64-cross libatomic1:amd64 libatomic1-amd64-cross libblas3:amd64 libblkid1:amd64 libbrotli1 libbrotli1:amd64 libbsd0:amd64 libbz2-1.0:amd64 libbz2-dev:amd64 libc6:amd64 libc6-amd64-cross libc6-dev:amd64 libc6-dev-amd64-cross libcairo2:amd64 libcom-err2:amd64 libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev:amd64 libcrypt1:amd64 libcurl3-gnutls:amd64 libcurl4:amd64 libcurl4-gnutls-dev:amd64 libdatrie1:amd64 libdb5.3:amd64 libdebhelper-perl libdebian-dpkgcross-perl libdeflate-dev:amd64 libdeflate0:amd64 libelf1 libexpat1 libexpat1:amd64 libffi8:amd64 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libfontconfig1 libfontconfig1:amd64 libfreetype6 libfreetype6:amd64 libfribidi0:amd64 libgcc-12-dev:amd64 libgcc-12-dev-amd64-cross libgcc-s1:amd64 libgcc-s1-amd64-cross libgfortran5:amd64 libglib2.0-0:amd64 libgmp10:amd64 libgnutls30:amd64 libgomp1:amd64 libgomp1-amd64-cross libgraphite2-3:amd64 libgssapi-krb5-2:amd64 libharfbuzz0b:amd64 libhogweed6:amd64 libhts-dev:amd64 libhts3:amd64 libhtscodecs2:amd64 libice6:amd64 libicu71 libicu71:amd64 libidn2-0:amd64 libio-string-perl libitm1:amd64 libitm1-amd64-cross libjbig0:amd64 libjpeg62-turbo:amd64 libk5crypto3:amd64 libkeyutils1:amd64 libkrb5-3:amd64 libkrb5support0:amd64 liblapack3:amd64 libldap-2.5-0:amd64 liblerc4:amd64 liblocale-gettext-perl liblsan0:amd64 liblsan0-amd64-cross liblzma-dev:amd64 liblzma5:amd64 libmagic-mgc libmagic1 libmd0:amd64 libmount1:amd64 libnettle8:amd64 libnghttp2-14:amd64 libnsl-dev:amd64 libnsl2:amd64 libp11-kit0:amd64 libpango-1.0-0:amd64 libpangocairo-1.0-0:amd64 libpangoft2-1.0-0:amd64 libpaper-utils libpaper1 libpcre2-16-0:amd64 libpcre2-32-0:amd64 libpcre2-8-0:amd64 libpcre2-dev:amd64 libpcre2-posix3:amd64 libpipeline1 libpixman-1-0:amd64 libpng16-16 libpng16-16:amd64 libpsl5:amd64 libquadmath0:amd64 libquadmath0-amd64-cross libreadline8:amd64 librtmp1:amd64 libsasl2-2:amd64 libsasl2-modules-db:amd64 libselinux1:amd64 libsm6:amd64 libssh2-1:amd64 libssl-dev:amd64 libssl3:amd64 libstdc++-12-dev:amd64 libstdc++-12-dev-amd64-cross libstdc++6:amd64 libstdc++6-amd64-cross libsub-override-perl libsvm-dev:amd64 libsvm3:amd64 libtasn1-6:amd64 libtcl8.6:amd64 libtclap-dev:amd64 libthai-data libthai0:amd64 libtiff5:amd64 libtinfo6:amd64 libtirpc-dev:amd64 libtirpc3:amd64 libtk8.6:amd64 libtool libtsan2:amd64 libtsan2-amd64-cross libubsan1:amd64 libubsan1-amd64-cross libuchardet0 libunistring2:amd64 libuuid1:amd64 libwebp7:amd64 libx11-6:amd64 libx11-data libxau6:amd64 libxcb-render0:amd64 libxcb-shm0:amd64 libxcb1:amd64 libxdmcp6:amd64 libxext6:amd64 libxft2:amd64 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libxrender1:amd64 libxss1:amd64 libxt6:amd64 libyaml-perl libzstd1:amd64 linux-libc-dev:amd64 linux-libc-dev-amd64-cross m4 man-db openssl po-debconf r-base-core:amd64 r-mathlib:amd64 readline-common sbuild-build-depends-main-dummy:amd64 sensible-utils ucf unzip x11-common xdg-utils zip zlib1g:amd64 zlib1g-dev:amd64 0 upgraded, 211 newly installed, 0 to remove and 0 not upgraded. Need to get 174 MB of archives. After this operation, 592 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [988 B] Get:2 http://mirror.einval.org/debian sid/main arm64 liblocale-gettext-perl arm64 1.07-4+b3 [14.8 kB] Get:3 http://mirror.einval.org/debian sid/main arm64 readline-common all 8.2-1 [76.0 kB] Get:4 http://mirror.einval.org/debian sid/main arm64 sensible-utils all 0.0.17 [21.5 kB] Get:5 http://mirror.einval.org/debian sid/main arm64 openssl arm64 3.0.5-4 [1391 kB] Get:6 http://mirror.einval.org/debian sid/main arm64 ca-certificates all 20211016 [156 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 0.21-9 [173 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 1.22.4-8 [882 kB] Get:13 http://mirror.einval.org/debian sid/main arm64 bsdextrautils arm64 2.38.1-1.1+b1 [86.3 kB] Get:14 http://mirror.einval.org/debian sid/main arm64 libpipeline1 arm64 1.5.6-3 [37.4 kB] Get:15 http://mirror.einval.org/debian sid/main arm64 man-db arm64 2.11.0-1+b1 [1324 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 1.4.19-1 [280 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 0.21-9 [510 kB] Get:22 http://mirror.einval.org/debian sid/main arm64 gcc-12-x86-64-linux-gnu-base arm64 12.2.0-3cross2 [208 kB] Get:23 http://mirror.einval.org/debian sid/main arm64 cpp-12-x86-64-linux-gnu arm64 12.2.0-3cross2 [8765 kB] Get:24 http://mirror.einval.org/debian sid/main arm64 cpp-x86-64-linux-gnu arm64 4:12.2.0-1 [17.1 kB] Get:25 http://mirror.einval.org/debian sid/main arm64 cross-config all 2.6.18+nmu2 [31.7 kB] Get:26 http://mirror.einval.org/debian sid/main arm64 binutils-x86-64-linux-gnu arm64 2.39-8 [2339 kB] Get:27 http://mirror.einval.org/debian sid/main arm64 gcc-12-cross-base all 12.2.0-3cross2 [204 kB] Get:28 http://mirror.einval.org/debian sid/main arm64 libgcc-s1-amd64-cross all 12.2.0-3cross2 [50.3 kB] Get:29 http://mirror.einval.org/debian sid/main arm64 libgomp1-amd64-cross all 12.2.0-3cross2 [114 kB] Get:30 http://mirror.einval.org/debian sid/main arm64 libitm1-amd64-cross all 12.2.0-3cross2 [25.5 kB] Get:31 http://mirror.einval.org/debian sid/main arm64 libatomic1-amd64-cross all 12.2.0-3cross2 [9064 B] Get:32 http://mirror.einval.org/debian sid/main arm64 libasan8-amd64-cross all 12.2.0-3cross2 [2193 kB] Get:33 http://mirror.einval.org/debian sid/main arm64 liblsan0-amd64-cross all 12.2.0-3cross2 [969 kB] Get:34 http://mirror.einval.org/debian sid/main arm64 libtsan2-amd64-cross all 12.2.0-3cross2 [2197 kB] Get:35 http://mirror.einval.org/debian sid/main arm64 libc6-amd64-cross all 2.35-1cross1 [1681 kB] Get:36 http://mirror.einval.org/debian sid/main arm64 libstdc++6-amd64-cross all 12.2.0-3cross2 [571 kB] Get:37 http://mirror.einval.org/debian sid/main arm64 libubsan1-amd64-cross all 12.2.0-3cross2 [882 kB] Get:38 http://mirror.einval.org/debian sid/main arm64 libquadmath0-amd64-cross all 12.2.0-3cross2 [144 kB] Get:39 http://mirror.einval.org/debian sid/main arm64 libgcc-12-dev-amd64-cross all 12.2.0-3cross2 [2437 kB] Get:40 http://mirror.einval.org/debian sid/main arm64 gcc-12-x86-64-linux-gnu arm64 12.2.0-3cross2 [17.4 MB] Get:41 http://mirror.einval.org/debian sid/main arm64 gcc-x86-64-linux-gnu arm64 4:12.2.0-1 [1452 B] Get:42 http://mirror.einval.org/debian sid/main arm64 linux-libc-dev-amd64-cross all 5.19.6-1cross1 [1756 kB] Get:43 http://mirror.einval.org/debian sid/main arm64 libc6-dev-amd64-cross all 2.35-1cross1 [2093 kB] Get:44 http://mirror.einval.org/debian sid/main arm64 libstdc++-12-dev-amd64-cross all 12.2.0-3cross2 [2027 kB] Get:45 http://mirror.einval.org/debian sid/main arm64 g++-12-x86-64-linux-gnu arm64 12.2.0-3cross2 [9594 kB] Get:46 http://mirror.einval.org/debian sid/main arm64 g++-x86-64-linux-gnu arm64 4:12.2.0-1 [1176 B] Get:47 http://mirror.einval.org/debian sid/main arm64 libconfig-inifiles-perl all 3.000003-1 [52.1 kB] Get:48 http://mirror.einval.org/debian sid/main arm64 libio-string-perl all 1.08-3.1 [11.8 kB] Get:49 http://mirror.einval.org/debian sid/main arm64 libicu71 arm64 71.1-3 [9046 kB] Get:50 http://mirror.einval.org/debian sid/main arm64 libxml2 arm64 2.9.14+dfsg-1+b1 [640 kB] Get:51 http://mirror.einval.org/debian sid/main arm64 libxml-namespacesupport-perl all 1.12-2 [15.1 kB] Get:52 http://mirror.einval.org/debian sid/main arm64 libxml-sax-base-perl all 1.09-3 [20.6 kB] Get:53 http://mirror.einval.org/debian sid/main arm64 libxml-sax-perl all 1.02+dfsg-3 [59.4 kB] Get:54 http://mirror.einval.org/debian sid/main arm64 libxml-libxml-perl arm64 2.0207+dfsg+really+2.0134-1+b1 [309 kB] Get:55 http://mirror.einval.org/debian sid/main arm64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:56 http://mirror.einval.org/debian sid/main arm64 libyaml-perl all 1.30-2 [63.4 kB] Get:57 http://mirror.einval.org/debian sid/main arm64 libconfig-auto-perl all 0.44-2 [19.2 kB] Get:58 http://mirror.einval.org/debian sid/main arm64 libfile-which-perl all 1.27-2 [15.1 kB] Get:59 http://mirror.einval.org/debian sid/main arm64 libfile-homedir-perl all 1.006-1 [43.8 kB] Get:60 http://mirror.einval.org/debian sid/main arm64 libdebian-dpkgcross-perl all 2.6.18+nmu2 [30.6 kB] Get:61 http://mirror.einval.org/debian sid/main arm64 dpkg-cross all 2.6.18+nmu2 [40.9 kB] Get:62 http://mirror.einval.org/debian sid/main arm64 crossbuild-essential-amd64 all 12.9 [6708 B] Get:63 http://mirror.einval.org/debian sid/main arm64 libdebhelper-perl all 13.10 [79.8 kB] Get:64 http://mirror.einval.org/debian sid/main arm64 libtool all 2.4.7-4 [526 kB] Get:65 http://mirror.einval.org/debian sid/main arm64 dh-autoreconf all 20 [17.1 kB] Get:66 http://mirror.einval.org/debian sid/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get:67 http://mirror.einval.org/debian sid/main arm64 libsub-override-perl all 0.09-4 [9304 B] Get:68 http://mirror.einval.org/debian sid/main arm64 libfile-stripnondeterminism-perl all 1.13.0-1 [26.6 kB] Get:69 http://mirror.einval.org/debian sid/main arm64 dh-strip-nondeterminism all 1.13.0-1 [15.8 kB] Get:70 http://mirror.einval.org/debian sid/main arm64 libelf1 arm64 0.187-4 [179 kB] Get:71 http://mirror.einval.org/debian sid/main arm64 dwz arm64 0.14+20220924-2 [101 kB] Get:72 http://mirror.einval.org/debian sid/main arm64 gettext arm64 0.21-9 [1262 kB] Get:73 http://mirror.einval.org/debian sid/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:74 http://mirror.einval.org/debian sid/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get:75 http://mirror.einval.org/debian sid/main arm64 debhelper all 13.10 [940 kB] Get:76 http://mirror.einval.org/debian sid/main arm64 libexpat1 arm64 2.4.9-1 [90.8 kB] Get:77 http://mirror.einval.org/debian sid/main arm64 libbrotli1 arm64 1.0.9-2+b4 [270 kB] Get:78 http://mirror.einval.org/debian sid/main arm64 libpng16-16 arm64 1.6.38-2 [284 kB] Get:79 http://mirror.einval.org/debian sid/main arm64 libfreetype6 arm64 2.12.1+dfsg-3 [393 kB] Get:80 http://mirror.einval.org/debian sid/main arm64 fonts-dejavu-core all 2.37-2 [1069 kB] Get:81 http://mirror.einval.org/debian sid/main arm64 fontconfig-config arm64 2.13.1-4.5 [281 kB] Get:82 http://mirror.einval.org/debian sid/main arm64 libfontconfig1 arm64 2.13.1-4.5 [347 kB] Get:83 http://mirror.einval.org/debian sid/main arm64 fontconfig arm64 2.13.1-4.5 [417 kB] Get:84 http://mirror.einval.org/debian sid/main amd64 gcc-12-base amd64 12.2.0-7 [36.6 kB] Get:85 http://mirror.einval.org/debian sid/main amd64 libgcc-s1 amd64 12.2.0-7 [49.8 kB] Get:86 http://mirror.einval.org/debian sid/main amd64 libc6 amd64 2.35-3 [2737 kB] Get:87 http://mirror.einval.org/debian sid/main amd64 libasan8 amd64 12.2.0-7 [2194 kB] Get:88 http://mirror.einval.org/debian sid/main amd64 libatomic1 amd64 12.2.0-7 [9328 B] Get:89 http://mirror.einval.org/debian sid/main amd64 libblas3 amd64 3.10.1-2 [156 kB] Get:90 http://mirror.einval.org/debian sid/main amd64 libblkid1 amd64 2.38.1-1.1+b1 [147 kB] Get:91 http://mirror.einval.org/debian sid/main amd64 libbrotli1 amd64 1.0.9-2+b4 [275 kB] Get:92 http://mirror.einval.org/debian sid/main amd64 libmd0 amd64 1.0.4-2 [29.5 kB] Get:93 http://mirror.einval.org/debian sid/main amd64 libbsd0 amd64 0.11.7-1 [117 kB] Get:94 http://mirror.einval.org/debian sid/main amd64 libbz2-1.0 amd64 1.0.8-5+b1 [47.3 kB] Get:95 http://mirror.einval.org/debian sid/main amd64 linux-libc-dev amd64 6.0.2-1+b1 [1652 kB] Get:96 http://mirror.einval.org/debian sid/main amd64 libcrypt1 amd64 1:4.4.28-2 [89.3 kB] Get:97 http://mirror.einval.org/debian sid/main amd64 libcrypt-dev amd64 1:4.4.28-2 [118 kB] Get:98 http://mirror.einval.org/debian sid/main amd64 libcom-err2 amd64 1.46.6~rc1-1+b1 [14.8 kB] Get:99 http://mirror.einval.org/debian sid/main amd64 libkrb5support0 amd64 1.20-1+b1 [32.2 kB] Get:100 http://mirror.einval.org/debian sid/main amd64 libk5crypto3 amd64 1.20-1+b1 [78.6 kB] Get:101 http://mirror.einval.org/debian sid/main amd64 libkeyutils1 amd64 1.6.3-1 [15.7 kB] Get:102 http://mirror.einval.org/debian sid/main amd64 libssl3 amd64 3.0.5-4 [2031 kB] Get:103 http://mirror.einval.org/debian sid/main amd64 libkrb5-3 amd64 1.20-1+b1 [331 kB] Get:104 http://mirror.einval.org/debian sid/main amd64 libgssapi-krb5-2 amd64 1.20-1+b1 [133 kB] Get:105 http://mirror.einval.org/debian sid/main amd64 libtirpc3 amd64 1.3.3+ds-1 [85.2 kB] Get:106 http://mirror.einval.org/debian sid/main amd64 libnsl2 amd64 1.3.0-2 [39.5 kB] Get:107 http://mirror.einval.org/debian sid/main amd64 libtirpc-dev amd64 1.3.3+ds-1 [191 kB] Get:108 http://mirror.einval.org/debian sid/main amd64 libnsl-dev amd64 1.3.0-2 [66.4 kB] Get:109 http://mirror.einval.org/debian sid/main amd64 libc6-dev amd64 2.35-3 [1892 kB] Get:110 http://mirror.einval.org/debian sid/main amd64 libbz2-dev amd64 1.0.8-5+b1 [30.9 kB] Get:111 http://mirror.einval.org/debian sid/main amd64 libexpat1 amd64 2.4.9-1 [105 kB] Get:112 http://mirror.einval.org/debian sid/main amd64 zlib1g amd64 1:1.2.11.dfsg-4.1 [92.7 kB] Get:113 http://mirror.einval.org/debian sid/main amd64 libpng16-16 amd64 1.6.38-2 [290 kB] Get:114 http://mirror.einval.org/debian sid/main amd64 libfreetype6 amd64 2.12.1+dfsg-3 [420 kB] Get:115 http://mirror.einval.org/debian sid/main amd64 libuuid1 amd64 2.38.1-1.1+b1 [27.6 kB] Get:116 http://mirror.einval.org/debian sid/main amd64 libfontconfig1 amd64 2.13.1-4.5 [351 kB] Get:117 http://mirror.einval.org/debian sid/main amd64 libpixman-1-0 amd64 0.40.0-1 [543 kB] Get:118 http://mirror.einval.org/debian sid/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get:119 http://mirror.einval.org/debian sid/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:120 http://mirror.einval.org/debian sid/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get:121 http://mirror.einval.org/debian sid/main arm64 libx11-data all 2:1.8.1-2 [308 kB] Get:122 http://mirror.einval.org/debian sid/main amd64 libx11-6 amd64 2:1.8.1-2 [772 kB] Get:123 http://mirror.einval.org/debian sid/main amd64 libxcb-render0 amd64 1.15-1 [115 kB] Get:124 http://mirror.einval.org/debian sid/main amd64 libxcb-shm0 amd64 1.15-1 [105 kB] Get:125 http://mirror.einval.org/debian sid/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get:126 http://mirror.einval.org/debian sid/main amd64 libxrender1 amd64 1:0.9.10-1.1 [33.2 kB] Get:127 http://mirror.einval.org/debian sid/main amd64 libcairo2 amd64 1.16.0-6 [587 kB] Get:128 http://mirror.einval.org/debian sid/main amd64 libgmp10 amd64 2:6.2.1+dfsg1-1.1 [563 kB] Get:129 http://mirror.einval.org/debian sid/main amd64 libnettle8 amd64 3.8.1-2 [288 kB] Get:130 http://mirror.einval.org/debian sid/main amd64 libhogweed6 amd64 3.8.1-2 [328 kB] Get:131 http://mirror.einval.org/debian sid/main amd64 libunistring2 amd64 1.0-2 [437 kB] Get:132 http://mirror.einval.org/debian sid/main amd64 libidn2-0 amd64 2.3.3-1+b1 [124 kB] Get:133 http://mirror.einval.org/debian sid/main amd64 libffi8 amd64 3.4.3-3 [22.8 kB] Get:134 http://mirror.einval.org/debian sid/main amd64 libp11-kit0 amd64 0.24.1-1 [352 kB] Get:135 http://mirror.einval.org/debian sid/main amd64 libtasn1-6 amd64 4.19.0-2 [56.6 kB] Get:136 http://mirror.einval.org/debian sid/main amd64 libgnutls30 amd64 3.7.8-2 [1417 kB] Get:137 http://mirror.einval.org/debian sid/main amd64 libdb5.3 amd64 5.3.28+dfsg1-0.10 [687 kB] Get:138 http://mirror.einval.org/debian sid/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-8 [38.7 kB] Get:139 http://mirror.einval.org/debian sid/main amd64 libsasl2-2 amd64 2.1.28+dfsg-8 [78.2 kB] Get:140 http://mirror.einval.org/debian sid/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-2+b1 [183 kB] Get:141 http://mirror.einval.org/debian sid/main amd64 libnghttp2-14 amd64 1.50.0-1+b1 [73.1 kB] Get:142 http://mirror.einval.org/debian sid/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get:143 http://mirror.einval.org/debian sid/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:144 http://mirror.einval.org/debian sid/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get:145 http://mirror.einval.org/debian sid/main amd64 libzstd1 amd64 1.5.2+dfsg-1 [275 kB] Get:146 http://mirror.einval.org/debian sid/main amd64 libcurl3-gnutls amd64 7.85.0-1 [361 kB] Get:147 http://mirror.einval.org/debian sid/main amd64 libcurl4 amd64 7.85.0-1 [367 kB] Get:148 http://mirror.einval.org/debian sid/main amd64 libcurl4-gnutls-dev amd64 7.85.0-1 [457 kB] Get:149 http://mirror.einval.org/debian sid/main amd64 libdatrie1 amd64 0.2.13-2+b1 [43.3 kB] Get:150 http://mirror.einval.org/debian sid/main amd64 libdeflate0 amd64 1.14-1 [61.4 kB] Get:151 http://mirror.einval.org/debian sid/main amd64 libdeflate-dev amd64 1.14-1 [53.3 kB] Get:152 http://mirror.einval.org/debian sid/main amd64 libfribidi0 amd64 1.0.8-2.1 [65.0 kB] Get:153 http://mirror.einval.org/debian sid/main amd64 libgomp1 amd64 12.2.0-7 [116 kB] Get:154 http://mirror.einval.org/debian sid/main amd64 libitm1 amd64 12.2.0-7 [26.1 kB] Get:155 http://mirror.einval.org/debian sid/main amd64 liblsan0 amd64 12.2.0-7 [969 kB] Get:156 http://mirror.einval.org/debian sid/main amd64 libtsan2 amd64 12.2.0-7 [2197 kB] Get:157 http://mirror.einval.org/debian sid/main amd64 libstdc++6 amd64 12.2.0-7 [613 kB] Get:158 http://mirror.einval.org/debian sid/main amd64 libubsan1 amd64 12.2.0-7 [883 kB] Get:159 http://mirror.einval.org/debian sid/main amd64 libquadmath0 amd64 12.2.0-7 [145 kB] Get:160 http://mirror.einval.org/debian sid/main amd64 libgcc-12-dev amd64 12.2.0-7 [2437 kB] Get:161 http://mirror.einval.org/debian sid/main amd64 libgfortran5 amd64 12.2.0-7 [792 kB] Get:162 http://mirror.einval.org/debian sid/main amd64 libpcre2-8-0 amd64 10.40-1 [259 kB] Get:163 http://mirror.einval.org/debian sid/main amd64 libselinux1 amd64 3.4-1+b2 [92.7 kB] Get:164 http://mirror.einval.org/debian sid/main amd64 libmount1 amd64 2.38.1-1.1+b1 [165 kB] Get:165 http://mirror.einval.org/debian sid/main amd64 libglib2.0-0 amd64 2.74.0-3 [1408 kB] Get:166 http://mirror.einval.org/debian sid/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get:167 http://mirror.einval.org/debian sid/main amd64 libharfbuzz0b amd64 5.2.0-2 [1890 kB] Get:168 http://mirror.einval.org/debian sid/main amd64 libhtscodecs2 amd64 1.3.0-4 [87.5 kB] Get:169 http://mirror.einval.org/debian sid/main amd64 liblzma5 amd64 5.2.7-0.0 [181 kB] Get:170 http://mirror.einval.org/debian sid/main amd64 libhts3 amd64 1.16+ds-3 [430 kB] Get:171 http://mirror.einval.org/debian sid/main amd64 liblzma-dev amd64 5.2.7-0.0 [239 kB] Get:172 http://mirror.einval.org/debian sid/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-4.1 [193 kB] Get:173 http://mirror.einval.org/debian sid/main amd64 libhts-dev amd64 1.16+ds-3 [1601 kB] Get:174 http://mirror.einval.org/debian sid/main arm64 x11-common all 1:7.7+23 [252 kB] Get:175 http://mirror.einval.org/debian sid/main amd64 libice6 amd64 2:1.0.10-1 [58.5 kB] Get:176 http://mirror.einval.org/debian sid/main amd64 libicu71 amd64 71.1-3 [9218 kB] Get:177 http://mirror.einval.org/debian sid/main amd64 libjbig0 amd64 2.1-6 [31.6 kB] Get:178 http://mirror.einval.org/debian sid/main amd64 libjpeg62-turbo amd64 1:2.1.2-1+b1 [169 kB] Get:179 http://mirror.einval.org/debian sid/main amd64 liblapack3 amd64 3.10.1-2 [2202 kB] Get:180 http://mirror.einval.org/debian sid/main amd64 liblerc4 amd64 4.0.0+ds-2 [170 kB] Get:181 http://mirror.einval.org/debian sid/main arm64 libthai-data all 0.1.29-1 [176 kB] Get:182 http://mirror.einval.org/debian sid/main amd64 libthai0 amd64 0.1.29-1 [57.5 kB] Get:183 http://mirror.einval.org/debian sid/main amd64 libpango-1.0-0 amd64 1.50.10+ds-1 [239 kB] Get:184 http://mirror.einval.org/debian sid/main amd64 libpangoft2-1.0-0 amd64 1.50.10+ds-1 [75.4 kB] Get:185 http://mirror.einval.org/debian sid/main amd64 libpangocairo-1.0-0 amd64 1.50.10+ds-1 [62.4 kB] Get:186 http://mirror.einval.org/debian sid/main arm64 libpaper1 arm64 1.1.28+b1 [21.4 kB] Get:187 http://mirror.einval.org/debian sid/main arm64 libpaper-utils arm64 1.1.28+b1 [18.3 kB] Get:188 http://mirror.einval.org/debian sid/main amd64 libpcre2-16-0 amd64 10.40-1 [243 kB] Get:189 http://mirror.einval.org/debian sid/main amd64 libpcre2-32-0 amd64 10.40-1 [232 kB] Get:190 http://mirror.einval.org/debian sid/main amd64 libpcre2-posix3 amd64 10.40-1 [53.8 kB] Get:191 http://mirror.einval.org/debian sid/main amd64 libpcre2-dev amd64 10.40-1 [746 kB] Get:192 http://mirror.einval.org/debian sid/main amd64 libtinfo6 amd64 6.3+20220423-2 [351 kB] Get:193 http://mirror.einval.org/debian sid/main amd64 libreadline8 amd64 8.2-1 [173 kB] Get:194 http://mirror.einval.org/debian sid/main amd64 libsm6 amd64 2:1.2.3-1 [35.1 kB] Get:195 http://mirror.einval.org/debian sid/main amd64 libssl-dev amd64 3.0.5-4 [2443 kB] Get:196 http://mirror.einval.org/debian sid/main amd64 libstdc++-12-dev amd64 12.2.0-7 [2045 kB] Get:197 http://mirror.einval.org/debian sid/main amd64 libsvm3 amd64 3.24+ds-6 [43.6 kB] Get:198 http://mirror.einval.org/debian sid/main amd64 libsvm-dev amd64 3.24+ds-6 [64.2 kB] Get:199 http://mirror.einval.org/debian sid/main amd64 libtcl8.6 amd64 8.6.12+dfsg-1+b1 [1034 kB] Get:200 http://mirror.einval.org/debian sid/main amd64 libtclap-dev amd64 1.2.5-1+b1 [3360 kB] Get:201 http://mirror.einval.org/debian sid/main amd64 libwebp7 amd64 1.2.2-2+b1 [277 kB] Get:202 http://mirror.einval.org/debian sid/main amd64 libtiff5 amd64 4.4.0-4 [314 kB] Get:203 http://mirror.einval.org/debian sid/main amd64 libxft2 amd64 2.3.6-1 [61.8 kB] Get:204 http://mirror.einval.org/debian sid/main amd64 libxss1 amd64 1:1.2.3-1 [17.8 kB] Get:205 http://mirror.einval.org/debian sid/main amd64 libtk8.6 amd64 8.6.12-1+b1 [781 kB] Get:206 http://mirror.einval.org/debian sid/main amd64 libxt6 amd64 1:1.2.1-1 [189 kB] Get:207 http://mirror.einval.org/debian sid/main arm64 zip arm64 3.0-12 [228 kB] Get:208 http://mirror.einval.org/debian sid/main arm64 unzip arm64 6.0-27 [163 kB] Get:209 http://mirror.einval.org/debian sid/main arm64 xdg-utils all 1.1.3-4.1 [75.5 kB] Get:210 http://mirror.einval.org/debian sid/main amd64 r-base-core amd64 4.2.1-3 [28.0 MB] Get:211 http://mirror.einval.org/debian sid/main amd64 r-mathlib amd64 4.2.1-3 [2268 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 174 MB in 3s (57.4 MB/s) Selecting previously unselected package liblocale-gettext-perl. (Reading database ... 12607 files and directories currently installed.) Preparing to unpack .../000-liblocale-gettext-perl_1.07-4+b3_arm64.deb ... Unpacking liblocale-gettext-perl (1.07-4+b3) ... Selecting previously unselected package readline-common. Preparing to unpack .../001-readline-common_8.2-1_all.deb ... Unpacking readline-common (8.2-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../002-sensible-utils_0.0.17_all.deb ... Unpacking sensible-utils (0.0.17) ... Selecting previously unselected package openssl. Preparing to unpack .../003-openssl_3.0.5-4_arm64.deb ... Unpacking openssl (3.0.5-4) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../004-ca-certificates_20211016_all.deb ... Unpacking ca-certificates (20211016) ... 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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Unpacking r-base-core:amd64 (4.2.1-3) ... Selecting previously unselected package r-mathlib:amd64. Preparing to unpack .../209-r-mathlib_4.2.1-3_amd64.deb ... Unpacking r-mathlib:amd64 (4.2.1-3) ... Selecting previously unselected package sbuild-build-depends-main-dummy:amd64. Preparing to unpack .../210-sbuild-build-depends-main-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-main-dummy:amd64 (0.invalid.0) ... Setting up libconfig-inifiles-perl (3.000003-1) ... Setting up libexpat1:arm64 (2.4.9-1) ... Setting up libpipeline1:arm64 (1.5.6-3) ... Setting up libicu71:arm64 (71.1-3) ... Setting up libfile-which-perl (1.27-2) ... Setting up gcc-12-cross-base (12.2.0-3cross2) ... Setting up linux-libc-dev-amd64-cross (5.19.6-1cross1) ... Setting up bsdextrautils (2.38.1-1.1+b1) ... Setting up libmagic-mgc (1:5.41-4) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up unzip (6.0-27) ... Setting up libdebhelper-perl (13.10) ... Setting up libbrotli1:arm64 (1.0.9-2+b4) ... Setting up x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel All runlevel operations denied by policy invoke-rc.d: policy-rc.d denied execution of restart. Setting up libmagic1:arm64 (1:5.41-4) ... Setting up linux-libc-dev:amd64 (6.0.2-1+b1) ... Setting up libxml-namespacesupport-perl (1.12-2) ... Setting up gettext-base (0.21-9) ... Setting up m4 (1.4.19-1) ... Setting up file (1:5.41-4) ... Setting up libyaml-perl (1.30-2) ... Setting up libgomp1-amd64-cross (12.2.0-3cross2) ... Setting up gcc-12-base:amd64 (12.2.0-7) ... Setting up libitm1-amd64-cross (12.2.0-3cross2) ... Setting up libxml-sax-base-perl (1.09-3) ... Setting up libio-string-perl (1.08-3.1) ... Setting up zip (3.0-12) ... Setting up autotools-dev (20220109.1) ... Setting up cross-config (2.6.18+nmu2) ... Setting up libatomic1-amd64-cross (12.2.0-3cross2) ... Setting up libx11-data (2:1.8.1-2) ... Setting up libpng16-16:arm64 (1.6.38-2) ... Setting up libquadmath0-amd64-cross (12.2.0-3cross2) ... Setting up autopoint (0.21-9) ... Setting up fonts-dejavu-core (2.37-2) ... Setting up libc6-amd64-cross (2.35-1cross1) ... Setting up autoconf (2.71-2) ... Setting up libtclap-dev:amd64 (1.2.5-1+b1) ... Setting up sensible-utils (0.0.17) ... Setting up libuchardet0:arm64 (0.0.7-1) ... Setting up libsub-override-perl (0.09-4) ... Setting up libthai-data (0.1.29-1) ... Setting up libgcc-s1-amd64-cross (12.2.0-3cross2) ... Setting up libfile-homedir-perl (1.006-1) ... Setting up openssl (3.0.5-4) ... Setting up libelf1:arm64 (0.187-4) ... Setting up readline-common (8.2-1) ... Setting up libxml2:arm64 (2.9.14+dfsg-1+b1) ... Setting up xdg-utils (1.1.3-4.1) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up liblocale-gettext-perl (1.07-4+b3) ... Setting up gcc-12-x86-64-linux-gnu-base:arm64 (12.2.0-3cross2) ... Setting up binutils-x86-64-linux-gnu (2.39-8) ... Setting up cpp-12-x86-64-linux-gnu (12.2.0-3cross2) ... Setting up libstdc++6-amd64-cross (12.2.0-3cross2) ... Setting up cpp-x86-64-linux-gnu (4:12.2.0-1) ... 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 (1.13.0-1) ... Setting up gettext (0.21-9) ... Setting up libtool (2.4.7-4) ... Setting up libasan8-amd64-cross (12.2.0-3cross2) ... Setting up liblsan0-amd64-cross (12.2.0-3cross2) ... Setting up libc6-dev-amd64-cross (2.35-1cross1) ... Setting up libtsan2-amd64-cross (12.2.0-3cross2) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... 127 added, 0 removed; done. Setting up libfreetype6:arm64 (2.12.1+dfsg-3) ... Setting up libubsan1-amd64-cross (12.2.0-3cross2) ... Setting up ucf (3.0043) ... Setting up dh-strip-nondeterminism (1.13.0-1) ... Setting up dwz (0.14+20220924-2) ... Setting up groff-base (1.22.4-8) ... Setting up libpaper1:arm64 (1.1.28+b1) ... grep: warning: stray \ before / grep: warning: stray \ before / Creating config file /etc/papersize with new version grep: warning: stray \ before / grep: warning: stray \ before / Setting up libgcc-12-dev-amd64-cross (12.2.0-3cross2) ... Setting up fontconfig-config (2.13.1-4.5) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpaper-utils (1.1.28+b1) ... Setting up libstdc++-12-dev-amd64-cross (12.2.0-3cross2) ... Setting up man-db (2.11.0-1+b1) ... 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... grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / 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... grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / Setting up libfontconfig1:arm64 (2.13.1-4.5) ... Setting up gcc-12-x86-64-linux-gnu (12.2.0-3cross2) ... Setting up fontconfig (2.13.1-4.5) ... Regenerating fonts cache... done. Setting up gcc-x86-64-linux-gnu (4:12.2.0-1) ... Setting up debhelper (13.10) ... Setting up libxml-simple-perl (2.25-1) ... Setting up g++-12-x86-64-linux-gnu (12.2.0-3cross2) ... Setting up libconfig-auto-perl (0.44-2) ... Setting up g++-x86-64-linux-gnu (4:12.2.0-1) ... Setting up libdebian-dpkgcross-perl (2.6.18+nmu2) ... Setting up dpkg-cross (2.6.18+nmu2) ... Setting up crossbuild-essential-amd64 (12.9) ... Setting up libgcc-s1:amd64 (12.2.0-7) ... Setting up libc6:amd64 (2.35-3) ... Setting up libwebp7:amd64 (1.2.2-2+b1) ... Setting up libffi8:amd64 (3.4.3-3) ... Setting up libmd0:amd64 (1.0.4-2) ... Setting up libasan8:amd64 (12.2.0-7) ... Setting up libtasn1-6:amd64 (4.19.0-2) ... Setting up r-mathlib:amd64 (4.2.1-3) ... Setting up libtsan2:amd64 (12.2.0-7) ... Setting up libbz2-1.0:amd64 (1.0.8-5+b1) ... Setting up libbsd0:amd64 (0.11.7-1) ... Setting up libdb5.3:amd64 (5.3.28+dfsg1-0.10) ... Setting up libblkid1:amd64 (2.38.1-1.1+b1) ... Setting up libstdc++6:amd64 (12.2.0-7) ... Setting up liblsan0:amd64 (12.2.0-7) ... Setting up libitm1:amd64 (12.2.0-7) ... Setting up libsvm3:amd64 (3.24+ds-6) ... Setting up libtinfo6:amd64 (6.3+20220423-2) ... Setting up libhtscodecs2:amd64 (1.3.0-4) ... Setting up libexpat1:amd64 (2.4.9-1) ... Setting up libgraphite2-3:amd64 (1.3.14-1) ... Setting up libpixman-1-0:amd64 (0.40.0-1) ... Setting up libicu71:amd64 (71.1-3) ... Setting up libzstd1:amd64 (1.5.2+dfsg-1) ... Setting up libice6:amd64 (2:1.0.10-1) ... Setting up libxau6:amd64 (1:1.0.9-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libkeyutils1:amd64 (1.6.3-1) ... Setting up libxcb1:amd64 (1.15-1) ... Setting up liblerc4:amd64 (4.0.0+ds-2) ... Setting up liblzma5:amd64 (5.2.7-0.0) ... Setting up libdatrie1:amd64 (0.2.13-2+b1) ... Setting up libxcb-render0:amd64 (1.15-1) ... Setting up libbrotli1:amd64 (1.0.9-2+b4) ... Setting up libreadline8:amd64 (8.2-1) ... Setting up libssl3:amd64 (3.0.5-4) ... Setting up libnghttp2-14:amd64 (1.50.0-1+b1) ... Setting up libunistring2:amd64 (1.0-2) ... Setting up libdeflate0:amd64 (1.14-1) ... Setting up zlib1g:amd64 (1:1.2.11.dfsg-4.1) ... Setting up libcrypt1:amd64 (1:4.4.28-2) ... Setting up libidn2-0:amd64 (2.3.3-1+b1) ... Setting up libxcb-shm0:amd64 (1.15-1) ... Setting up libcom-err2:amd64 (1.46.6~rc1-1+b1) ... Setting up libgomp1:amd64 (12.2.0-7) ... Setting up libjbig0:amd64 (2.1-6) ... Setting up libpcre2-16-0:amd64 (10.40-1) ... Setting up libkrb5support0:amd64 (1.20-1+b1) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg-8) ... Setting up libthai0:amd64 (0.1.29-1) ... Setting up libpcre2-32-0:amd64 (10.40-1) ... Setting up libblas3:amd64 (3.10.1-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libjpeg62-turbo:amd64 (1:2.1.2-1+b1) ... Setting up libnettle8:amd64 (3.8.1-2) ... Setting up libgmp10:amd64 (2:6.2.1+dfsg1-1.1) ... Setting up libfribidi0:amd64 (1.0.8-2.1) ... Setting up libquadmath0:amd64 (12.2.0-7) ... Setting up libp11-kit0:amd64 (0.24.1-1) ... Setting up libssl-dev:amd64 (3.0.5-4) ... Setting up libpng16-16:amd64 (1.6.38-2) ... Setting up libsvm-dev:amd64 (3.24+ds-6) ... Setting up libatomic1:amd64 (12.2.0-7) ... Setting up libuuid1:amd64 (2.38.1-1.1+b1) ... Setting up libtcl8.6:amd64 (8.6.12+dfsg-1+b1) ... Setting up libpcre2-8-0:amd64 (10.40-1) ... Setting up libk5crypto3:amd64 (1.20-1+b1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg-8) ... Setting up libgfortran5:amd64 (12.2.0-7) ... Setting up liblzma-dev:amd64 (5.2.7-0.0) ... Setting up libubsan1:amd64 (12.2.0-7) ... Setting up libpcre2-posix3:amd64 (10.40-1) ... Setting up libcrypt-dev:amd64 (1:4.4.28-2) ... Setting up libx11-6:amd64 (2:1.8.1-2) ... Setting up libssh2-1:amd64 (1.10.0-3+b1) ... Setting up libkrb5-3:amd64 (1.20-1+b1) ... Setting up libtiff5:amd64 (4.4.0-4) ... Setting up libdeflate-dev:amd64 (1.14-1) ... Setting up libsm6:amd64 (2:1.2.3-1) ... Setting up liblapack3:amd64 (3.10.1-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libpsl5:amd64 (0.21.0-1.2) ... Setting up libhogweed6:amd64 (3.8.1-2) ... Setting up libxrender1:amd64 (1:0.9.10-1.1) ... Setting up libxext6:amd64 (2:1.3.4-1+b1) ... Setting up libselinux1:amd64 (3.4-1+b2) ... Setting up libgnutls30:amd64 (3.7.8-2) ... Setting up libfreetype6:amd64 (2.12.1+dfsg-3) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libgcc-12-dev:amd64 (12.2.0-7) ... Setting up libgssapi-krb5-2:amd64 (1.20-1+b1) ... Setting up libxt6:amd64 (1:1.2.1-1) ... Setting up libmount1:amd64 (2.38.1-1.1+b1) ... Setting up libxss1:amd64 (1:1.2.3-1) ... Setting up libfontconfig1:amd64 (2.13.1-4.5) ... Setting up libtirpc3:amd64 (1.3.3+ds-1) ... Setting up libxft2:amd64 (2.3.6-1) ... Setting up libglib2.0-0:amd64 (2.74.0-3) ... /var/lib/dpkg/info/libglib2.0-0:amd64.postinst: 42: /usr/lib/x86_64-linux-gnu/glib-2.0/glib-compile-schemas: Exec format error /var/lib/dpkg/info/libglib2.0-0:amd64.postinst: 43: /usr/lib/x86_64-linux-gnu/glib-2.0/gio-querymodules: Exec format error Setting up libtk8.6:amd64 (8.6.12-1+b1) ... Setting up libcairo2:amd64 (1.16.0-6) ... Setting up libldap-2.5-0:amd64 (2.5.13+dfsg-2+b1) ... Setting up libtirpc-dev:amd64 (1.3.3+ds-1) ... Setting up libnsl2:amd64 (1.3.0-2) ... Setting up libcurl4:amd64 (7.85.0-1) ... Setting up libharfbuzz0b:amd64 (5.2.0-2) ... Setting up libpango-1.0-0:amd64 (1.50.10+ds-1) ... Setting up libcurl3-gnutls:amd64 (7.85.0-1) ... Setting up libcurl4-gnutls-dev:amd64 (7.85.0-1) ... Setting up libnsl-dev:amd64 (1.3.0-2) ... Setting up libc6-dev:amd64 (2.35-3) ... Setting up libpangoft2-1.0-0:amd64 (1.50.10+ds-1) ... Setting up libpangocairo-1.0-0:amd64 (1.50.10+ds-1) ... Setting up libbz2-dev:amd64 (1.0.8-5+b1) ... Setting up libhts3:amd64 (1.16+ds-3) ... Setting up libpcre2-dev:amd64 (10.40-1) ... Setting up libstdc++-12-dev:amd64 (12.2.0-7) ... Setting up r-base-core:amd64 (4.2.1-3) ... grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / Creating config file /etc/R/Renviron with new version grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-4.1) ... Setting up libhts-dev:amd64 (1.16+ds-3) ... Setting up sbuild-build-depends-main-dummy:amd64 (0.invalid.0) ... Processing triggers for libc-bin (2.35-3) ... 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. +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any all) +------------------------------------------------------------------------------+ | 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_2.39-8 dpkg-dev_1.21.9 g++-12_12.2.0-7 gcc-12_12.2.0-7 libc6-dev_2.35-3 libstdc++-12-dev_12.2.0-7 libstdc++-12-dev-amd64-cross_12.2.0-3cross2 libstdc++6_12.2.0-7 libstdc++6-amd64-cross_12.2.0-3cross2 linux-libc-dev_6.0.2-1+b1 Package versions: adduser_3.129 apt_2.5.3+b1 autoconf_2.71-2 automake_1:1.16.5-1.3 autopoint_0.21-9 autotools-dev_20220109.1 base-files_12.3 base-passwd_3.6.1 bash_5.2-1 binutils_2.39-8 binutils-aarch64-linux-gnu_2.39-8 binutils-common_2.39-8 binutils-x86-64-linux-gnu_2.39-8 bsdextrautils_2.38.1-1.1+b1 bsdutils_1:2.38.1-1.1+b1 build-essential_12.9 bzip2_1.0.8-5+b1 ca-certificates_20211016 coreutils_9.1-1 cpp_4:12.2.0-1 cpp-12_12.2.0-7 cpp-12-x86-64-linux-gnu_12.2.0-3cross2 cpp-x86-64-linux-gnu_4:12.2.0-1 cross-config_2.6.18+nmu2 crossbuild-essential-amd64_12.9 dash_0.5.11+git20210903+057cd650a4ed-9 debconf_1.5.79 debhelper_13.10 debian-archive-keyring_2021.1.1 debianutils_5.7-0.3 dh-autoreconf_20 dh-strip-nondeterminism_1.13.0-1 diffutils_1:3.8-1 dpkg_1.21.9+b1 dpkg-cross_2.6.18+nmu2 dpkg-dev_1.21.9 dwz_0.14+20220924-2 fakeroot_1.29-1 file_1:5.41-4 findutils_4.9.0-3 fontconfig_2.13.1-4.5 fontconfig-config_2.13.1-4.5 fonts-dejavu-core_2.37-2 g++_4:12.2.0-1 g++-12_12.2.0-7 g++-12-x86-64-linux-gnu_12.2.0-3cross2 g++-x86-64-linux-gnu_4:12.2.0-1 gcc_4:12.2.0-1 gcc-12_12.2.0-7 gcc-12-base_12.2.0-7 gcc-12-cross-base_12.2.0-3cross2 gcc-12-x86-64-linux-gnu_12.2.0-3cross2 gcc-12-x86-64-linux-gnu-base_12.2.0-3cross2 gcc-x86-64-linux-gnu_4:12.2.0-1 gettext_0.21-9 gettext-base_0.21-9 gpgv_2.2.40-1 grep_3.8-2 groff-base_1.22.4-8 gzip_1.12-1 hostname_3.23 init-system-helpers_1.65.2 intltool-debian_0.35.0+20060710.6 libacl1_2.3.1-1 libapt-pkg6.0_2.5.3+b1 libarchive-zip-perl_1.68-1 libasan8_12.2.0-7 libasan8-amd64-cross_12.2.0-3cross2 libatomic1_12.2.0-7 libatomic1-amd64-cross_12.2.0-3cross2 libattr1_1:2.5.1-1 libaudit-common_1:3.0.7-1.1 libaudit1_1:3.0.7-1.1+b1 libbinutils_2.39-8 libblas3_3.10.1-2 libblkid1_2.38.1-1.1+b1 libbrotli1_1.0.9-2+b4 libbsd0_0.11.7-1 libbz2-1.0_1.0.8-5+b1 libbz2-dev_1.0.8-5+b1 libc-bin_2.35-3 libc-dev-bin_2.35-3 libc6_2.35-3 libc6-amd64-cross_2.35-1cross1 libc6-dev_2.35-3 libc6-dev-amd64-cross_2.35-1cross1 libcairo2_1.16.0-6 libcap-ng0_0.8.3-1+b1 libcap2_1:2.44-1 libcc1-0_12.2.0-7 libcom-err2_1.46.6~rc1-1+b1 libconfig-auto-perl_0.44-2 libconfig-inifiles-perl_3.000003-1 libcrypt-dev_1:4.4.28-2 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MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: vt Binary: vt, vt-examples Architecture: any all Version: 0.57721+ds-3 Maintainer: Debian Med Packaging Team Uploaders: Antoni Villalonga Homepage: https://genome.sph.umich.edu/wiki/Vt Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/vt Vcs-Git: https://salsa.debian.org/med-team/vt.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), zlib1g-dev, libbz2-dev, liblzma-dev, libcurl4-gnutls-dev, libssl-dev, libdeflate-dev, libhts-dev, libpcre2-dev, libsvm-dev, libtclap-dev, r-mathlib, r-base-core Package-List: vt deb science optional arch=any vt-examples deb science optional arch=all Checksums-Sha1: 8d1f794a59a8497084272acc1d6d6d8e5557c961 18574416 vt_0.57721+ds.orig.tar.xz 883ef66dd524310822a2ca0b1e9355515edb7f69 8092 vt_0.57721+ds-3.debian.tar.xz Checksums-Sha256: ce6e49949e5a61cd8e06ebac2dea1db94e2df78881350aba1cd178a1e4f73865 18574416 vt_0.57721+ds.orig.tar.xz 52295d9de36ef140fd0959a1220b85b7acd4e5c34e69a3b65abe56f9a2a3a95a 8092 vt_0.57721+ds-3.debian.tar.xz Files: d431231e862dc0adaa30457001f064f0 18574416 vt_0.57721+ds.orig.tar.xz 2ffd195b13c6e4b77b0d6673787fe57d 8092 vt_0.57721+ds-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl+qvC4RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtGmlRAAg/60CIJgKD2VWa5Vm0ZhR+dED4ZPr2B6 Q0Npp9RQUGwGWVukhU5u5FBGMbV81gCHbj9aegPYNKAaf4c+gwV4yrz7/WPTViKA A5315jD7mtlW9RPcykbf5Lur9FprAyAQFKcx1xqNbKGRRPTjIPJJaItvl+5mHZPf kcVC980xikw5uKDp5PWDydafvfktB9QGRAHMgVNFVBLtHIptntmFYQglKCNEM2e/ efEWXloaY+P9earGLqaDJATR2yUWiAkYQn+SJuJqzWcjT7W79OHaYWcV24QpcY1P l/gLlTDFuAH/shq3Oz1DEohpcwpzMdKQEcfBHNAevF6sxt5axmyINMv9H+JulpXO BKHUQW0Foog8LCnCWzYfa589j9a3I4nlpm83xlcDKsBlzNjFoCSNM4ymDH1uQMT8 EBrVbFNEKCNM7HJZU6JvZ96ES1pZQ1pY2oaXyoZJ4qcE0At4IbXjZR8i5Zxw+/lW KM/3HGzsS2CvsBUKCZVDELMMNv10sfBGTA3Nf0nwIEEcZoMn3pHiJcIfFLlewIxg Lnb4n3IOGTzCG5A6t1y22Bwy+61EPzMwijZwXZ6pz7SpHId/c1LiV8TNSNlMuIzN 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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.amd64 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-771c882a-a994-4f11-8f1b-e0c355195b3c SCHROOT_UID=1002 SCHROOT_USER=helmutg SHELL=/bin/sh USER=helmutg dpkg-buildpackage ----------------- Command: dpkg-buildpackage -aamd64 -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package vt dpkg-buildpackage: info: source version 0.57721+ds-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Antoni Villalonga dpkg-architecture: warning: specified GNU system type x86_64-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 amd64 debian/rules clean dh clean dh_auto_clean make -j1 clean make[1]: Entering directory '/<>' rm -rf vt ahmm.o align.o allele.o annotate_1000g.o annotate_dbsnp_rsid.o annotate_indels.o annotate_indels2.o annotate_regions.o annotate_variants.o annotate_vntrs.o augmented_bam_record.o bcf_genotyping_buffered_reader.o bcf_single_genotyping_buffered_reader.o bam_ordered_reader.o bcf_ordered_reader.o bcf_ordered_writer.o bcf_synced_reader.o bed.o candidate_motif_picker.o candidate_region_extractor.o cat.o chmm.o complex_genotyping_record.o compute_concordance.o compute_features.o compute_features2.o compute_rl_dist.o config.o consolidate_multiallelics.o consolidate_vntrs.o consolidate.o construct_probes.o decompose.o decompose2.o decompose_blocksub.o discover.o duplicate.o estimate.o estimator.o extract_vntrs.o filter.o filter_overlap.o flank_detector.o fuzzy_aligner.o fuzzy_partition.o gencode.o genome_interval.o genotype.o genotyping_record.o ghmm.o hts_utils.o hfilter.o indel_annotator.o indel_genotyping_record.o index.o info2tab.o interval_tree.o interval.o lfhmm.o lhmm.o lhmm1.o liftover.o log_tool.o merge.o merge_candidate_variants.o merge_genotypes.o milk_filter.o motif_tree.o motif_map.o multi_partition.o multiallelics_consolidator.o needle.o normalize.o nuclear_pedigree.o ordered_bcf_overlap_matcher.o ordered_region_overlap_matcher.o partition.o paste.o paste_and_compute_features_sequential.o paste_genotypes.o pedigree.o peek.o pileup.o pregex.o profile_afs.o profile_chm1.o profile_chrom.o profile_fic_hwe.o profile_hwe.o profile_indels.o profile_len.o profile_mendelian.o profile_na12878.o profile_snps.o profile_vntrs.o program.o read_filter.o reference_sequence.o rfhmm.o rfhmm_x.o rminfo.o seq.o set_ref.o snp_genotyping_record.o sort.o subset.o sv_tree.o svm_train.o svm_predict.o tbx_ordered_reader.o test.o trio.o union_variants.o uniq.o utils.o validate.o variant.o variant_manip.o variant_filter.o view.o vntr.o vntr_annotator.o vntr_consolidator.o vntr_extractor.o vntr_genotyping_record.o vntr_tree.o vntrize.o wdp_ahmm.o main.o make[1]: Leaving directory '/<>' dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a dh_auto_build -a make -j1 "INSTALL=install --strip-program=true" PKG_CONFIG=x86_64-linux-gnu-pkg-config CXX=x86_64-linux-gnu-g\+\+ CC=x86_64-linux-gnu-gcc make[1]: Entering directory '/<>' x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o ahmm.o -c ahmm.cpp ahmm.cpp: In member function ‘void AHMM::collect_statistics(int32_t, int32_t, int32_t)’: ahmm.cpp:687:35: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 687 | rflank_start[MODEL] = NAN; | ^~~ ahmm.cpp:688:34: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 688 | rflank_start[READ] = NAN; | ^~~ ahmm.cpp:689:33: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+Inff’ to ‘2147483647’ [-Woverflow] 689 | rflank_end[MODEL] = INFINITY; | ^~~~~~~~ ahmm.cpp:690:32: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+Inff’ to ‘2147483647’ [-Woverflow] 690 | rflank_end[READ] = INFINITY; | ^~~~~~~~ ahmm.cpp: In member function ‘void AHMM::clear_statistics()’: ahmm.cpp:737:27: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 737 | lflank_start[MODEL] = NAN; | ^~~ ahmm.cpp:738:26: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 738 | lflank_start[READ] = NAN; | ^~~ ahmm.cpp:739:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 739 | lflank_end[MODEL] = NAN; | ^~~ ahmm.cpp:740:24: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 740 | lflank_end[READ] = NAN; | ^~~ ahmm.cpp:741:26: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 741 | motif_start[MODEL] = NAN; | ^~~ ahmm.cpp:742:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 742 | motif_start[READ] = NAN; | ^~~ ahmm.cpp:743:24: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 743 | motif_end[MODEL] = NAN; | ^~~ ahmm.cpp:744:23: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 744 | motif_end[READ] = NAN; | ^~~ ahmm.cpp:745:19: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 745 | motif_count = NAN; | ^~~ ahmm.cpp:746:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 746 | exact_motif_count = NAN; | ^~~ ahmm.cpp:747:15: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 747 | motif_m = NAN; | ^~~ ahmm.cpp:748:17: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 748 | motif_xid = NAN; | ^~~ ahmm.cpp:750:27: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 750 | rflank_start[MODEL] = NAN; | ^~~ ahmm.cpp:751:26: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 751 | rflank_start[READ] = NAN; | ^~~ ahmm.cpp:752:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 752 | rflank_end[MODEL] = NAN; | ^~~ ahmm.cpp:753:24: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 753 | rflank_end[READ] = NAN; | ^~~ x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o align.o -c align.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o allele.o -c allele.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o annotate_1000g.o -c annotate_1000g.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o annotate_dbsnp_rsid.o -c annotate_dbsnp_rsid.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o annotate_indels.o -c annotate_indels.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o annotate_indels2.o -c annotate_indels2.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o annotate_regions.o -c annotate_regions.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o annotate_variants.o -c annotate_variants.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o annotate_vntrs.o -c annotate_vntrs.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o augmented_bam_record.o -c augmented_bam_record.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o bcf_genotyping_buffered_reader.o -c bcf_genotyping_buffered_reader.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o bcf_single_genotyping_buffered_reader.o -c bcf_single_genotyping_buffered_reader.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o bam_ordered_reader.o -c bam_ordered_reader.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o bcf_ordered_reader.o -c bcf_ordered_reader.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o bcf_ordered_writer.o -c bcf_ordered_writer.cpp bcf_ordered_writer.cpp: In member function ‘void BCFOrderedWriter::write(bcf1_t*)’: bcf_ordered_writer.cpp:162:114: warning: format ‘%d’ expects argument of type ‘int’, but argument 8 has type ‘hts_pos_t’ {aka ‘long int’} [-Wformat=] 162 | fprintf(stderr, "[%s:%d %s] Might not be sorted for window size %d at current record %s:%d < %d (%d [last record] - %d), please increase window size to at least %d.\n", | ~^ | | | int | %ld bcf_ordered_writer.cpp:162:123: warning: format ‘%d’ expects argument of type ‘int’, but argument 10 has type ‘hts_pos_t’ {aka ‘long int’} [-Wformat=] 162 | fprintf(stderr, "[%s:%d %s] Might not be sorted for window size %d at current record %s:%d < %d (%d [last record] - %d), please increase window size to at least %d.\n", | ~^ | | | int | %ld bcf_ordered_writer.cpp:162:187: warning: format ‘%d’ expects argument of type ‘int’, but argument 12 has type ‘hts_pos_t’ {aka ‘long int’} [-Wformat=] 162 | fprintf(stderr, "[%s:%d %s] Might not be sorted for window size %d at current record %s:%d < %d (%d [last record] - %d), please increase window size to at least %d.\n", | ~^ | | | int | %ld bcf_ordered_writer.cpp: In member function ‘void BCFOrderedWriter::write_hdr()’: bcf_ordered_writer.cpp:129:18: warning: ignoring return value of ‘int bcf_hdr_write(htsFile*, bcf_hdr_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 129 | bcf_hdr_write(file, hdr); | ~~~~~~~~~~~~~^~~~~~~~~~~ bcf_ordered_writer.cpp: In member function ‘void BCFOrderedWriter::write(bcf1_t*)’: bcf_ordered_writer.cpp:195:18: warning: ignoring return value of ‘int bcf_write(htsFile*, bcf_hdr_t*, bcf1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 195 | bcf_write(file, hdr, v); | ~~~~~~~~~^~~~~~~~~~~~~~ bcf_ordered_writer.cpp: In member function ‘void BCFOrderedWriter::flush(bool)’: bcf_ordered_writer.cpp:245:22: warning: ignoring return value of ‘int bcf_write(htsFile*, bcf_hdr_t*, bcf1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 245 | bcf_write(file, hdr, buffer.back()); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ bcf_ordered_writer.cpp:261:30: warning: ignoring return value of ‘int bcf_write(htsFile*, bcf_hdr_t*, bcf1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 261 | bcf_write(file, hdr, buffer.back()); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o bcf_synced_reader.o -c bcf_synced_reader.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o bed.o -c bed.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o candidate_motif_picker.o -c candidate_motif_picker.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o candidate_region_extractor.o -c candidate_region_extractor.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o cat.o -c cat.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o chmm.o -c chmm.cpp chmm.cpp: In member function ‘void CHMM::clear_statistics()’: chmm.cpp:1106:27: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 1106 | lflank_start[MODEL] = NAN; | ^~~ chmm.cpp:1107:26: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 1107 | lflank_start[READ] = NAN; | ^~~ chmm.cpp:1108:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 1108 | lflank_end[MODEL] = NAN; | ^~~ chmm.cpp:1109:24: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 1109 | lflank_end[READ] = NAN; | ^~~ chmm.cpp:1110:26: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 1110 | motif_start[MODEL] = NAN; | ^~~ chmm.cpp:1111:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 1111 | motif_start[READ] = NAN; | ^~~ chmm.cpp:1112:24: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 1112 | motif_end[MODEL] = NAN; | ^~~ chmm.cpp:1113:23: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 1113 | motif_end[READ] = NAN; | ^~~ chmm.cpp:1114:27: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 1114 | rflank_start[MODEL] = NAN; | ^~~ chmm.cpp:1115:26: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 1115 | rflank_start[READ] = NAN; | ^~~ chmm.cpp:1116:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 1116 | rflank_end[MODEL] = NAN; | ^~~ chmm.cpp:1117:24: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 1117 | rflank_end[READ] = NAN; | ^~~ chmm.cpp:1118:19: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 1118 | motif_count = NAN; | ^~~ chmm.cpp:1119:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 1119 | exact_motif_count = NAN; | ^~~ chmm.cpp:1120:15: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 1120 | motif_m = NAN; | ^~~ chmm.cpp:1121:17: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 1121 | motif_xid = NAN; | ^~~ x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o complex_genotyping_record.o -c complex_genotyping_record.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o compute_concordance.o -c compute_concordance.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o compute_features.o -c compute_features.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o compute_features2.o -c compute_features2.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o compute_rl_dist.o -c compute_rl_dist.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o config.o -c config.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o consolidate_multiallelics.o -c consolidate_multiallelics.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o consolidate_vntrs.o -c consolidate_vntrs.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o consolidate.o -c consolidate.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o construct_probes.o -c construct_probes.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o decompose.o -c decompose.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o decompose2.o -c decompose2.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o decompose_blocksub.o -c decompose_blocksub.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o discover.o -c discover.cpp In file included from bcf_ordered_reader.h:27, from program.h:32, from discover.h:27, from discover.cpp:24: discover.cpp: In member function ‘bool {anonymous}::Igor::filter_read(bam1_t*)’: hts_utils.h:124:40: warning: narrowing conversion of ‘(s->bam1_t::core.bam1_core_t::pos + 1)’ from ‘hts_pos_t’ {aka ‘long int’} to ‘int32_t’ {aka ‘int’} [-Wnarrowing] 124 | #define bam_get_pos1(s) ((s)->core.pos + 1) | ~~~~~~~~~~~~~~~^~~~ discover.cpp:355:45: note: in expansion of macro ‘bam_get_pos1’ 355 | kh_val(reads, k) = {bam_get_pos1(s), bam_get_pos1(s)+bam_get_l_qseq(s)-1}; | ^~~~~~~~~~~~ discover.cpp:355:95: warning: narrowing conversion of ‘(((s->bam1_t::core.bam1_core_t::pos + 1) + ((hts_pos_t)s->bam1_t::core.bam1_core_t::l_qseq)) - 1)’ from ‘hts_pos_t’ {aka ‘long int’} to ‘int32_t’ {aka ‘int’} [-Wnarrowing] 355 | kh_val(reads, k) = {bam_get_pos1(s), bam_get_pos1(s)+bam_get_l_qseq(s)-1}; x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o duplicate.o -c duplicate.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o estimate.o -c estimate.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o estimator.o -c estimator.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o extract_vntrs.o -c extract_vntrs.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o filter.o -c filter.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o filter_overlap.o -c filter_overlap.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o flank_detector.o -c flank_detector.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o fuzzy_aligner.o -c fuzzy_aligner.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o fuzzy_partition.o -c fuzzy_partition.cpp fuzzy_partition.cpp: In member function ‘void {anonymous}::Igor::initialize()’: fuzzy_partition.cpp:153:21: warning: ignoring return value of ‘int bcf_hdr_sync(bcf_hdr_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 153 | bcf_hdr_sync(odr->hdr); | ~~~~~~~~~~~~^~~~~~~~~~ x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o gencode.o -c gencode.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o genome_interval.o -c genome_interval.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o genotype.o -c genotype.cpp In file included from bam_ordered_reader.h:27, from genotype.h:27, from genotype.cpp:24: genotype.cpp: In member function ‘bool {anonymous}::Igor::filter_read(bam1_t*)’: hts_utils.h:124:40: warning: narrowing conversion of ‘(s->bam1_t::core.bam1_core_t::pos + 1)’ from ‘hts_pos_t’ {aka ‘long int’} to ‘int32_t’ {aka ‘int’} [-Wnarrowing] 124 | #define bam_get_pos1(s) ((s)->core.pos + 1) | ~~~~~~~~~~~~~~~^~~~ genotype.cpp:304:45: note: in expansion of macro ‘bam_get_pos1’ 304 | kh_val(reads, k) = {bam_get_pos1(s), bam_get_pos1(s)+bam_get_l_qseq(s)-1}; | ^~~~~~~~~~~~ genotype.cpp:304:95: warning: narrowing conversion of ‘(((s->bam1_t::core.bam1_core_t::pos + 1) + ((hts_pos_t)s->bam1_t::core.bam1_core_t::l_qseq)) - 1)’ from ‘hts_pos_t’ {aka ‘long int’} to ‘int32_t’ {aka ‘int’} [-Wnarrowing] 304 | kh_val(reads, k) = {bam_get_pos1(s), bam_get_pos1(s)+bam_get_l_qseq(s)-1}; x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o genotyping_record.o -c genotyping_record.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o ghmm.o -c ghmm.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o hts_utils.o -c hts_utils.cpp hts_utils.cpp: In function ‘void bcf_hdr_print(bcf_hdr_t*)’: hts_utils.cpp:406:33: warning: ignoring return value of ‘int bcf_hdr_sync(bcf_hdr_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 406 | if ( h->dirty ) bcf_hdr_sync(h); | ~~~~~~~~~~~~^~~ x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o hfilter.o -c hfilter.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o indel_annotator.o -c indel_annotator.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o indel_genotyping_record.o -c indel_genotyping_record.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o index.o -c index.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o info2tab.o -c info2tab.cpp info2tab.cpp: In member function ‘void {anonymous}::Igor::info2tab()’: info2tab.cpp:278:32: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘hts_pos_t’ {aka ‘long int’} [-Wformat=] 278 | fprintf(out, "%s\t%d", bcf_get_chrom(h, v), bcf_get_pos1(v)); | ~^ | | | int | %ld x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o interval_tree.o -c interval_tree.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o interval.o -c interval.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o lfhmm.o -c lfhmm.cpp lfhmm.cpp: In member function ‘void LFHMM::collect_statistics(int32_t, int32_t, int32_t)’: lfhmm.cpp:761:33: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 761 | rflank_end[MODEL] = NAN; | ^~~ lfhmm.cpp: In member function ‘void LFHMM::clear_statistics()’: lfhmm.cpp:868:27: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 868 | lflank_start[MODEL] = NAN; | ^~~ lfhmm.cpp:869:26: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 869 | lflank_start[READ] = NAN; | ^~~ lfhmm.cpp:870:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 870 | lflank_end[MODEL] = NAN; | ^~~ lfhmm.cpp:871:24: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 871 | lflank_end[READ] = NAN; | ^~~ lfhmm.cpp:872:26: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 872 | motif_start[MODEL] = NAN; | ^~~ lfhmm.cpp:873:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 873 | motif_start[READ] = NAN; | ^~~ lfhmm.cpp:874:24: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 874 | motif_end[MODEL] = NAN; | ^~~ lfhmm.cpp:875:23: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 875 | motif_end[READ] = NAN; | ^~~ lfhmm.cpp:876:19: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 876 | motif_count = NAN; | ^~~ lfhmm.cpp:877:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 877 | exact_motif_count = NAN; | ^~~ lfhmm.cpp:878:15: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 878 | motif_m = NAN; | ^~~ lfhmm.cpp:879:17: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 879 | motif_xid = NAN; | ^~~ lfhmm.cpp:881:27: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 881 | rflank_start[MODEL] = NAN; | ^~~ lfhmm.cpp:882:26: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 882 | rflank_start[READ] = NAN; | ^~~ lfhmm.cpp:883:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 883 | rflank_end[MODEL] = NAN; | ^~~ lfhmm.cpp:884:24: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 884 | rflank_end[READ] = NAN; | ^~~ x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o lhmm.o -c lhmm.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o lhmm1.o -c lhmm1.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o liftover.o -c liftover.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o log_tool.o -c log_tool.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o merge.o -c merge.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o merge_candidate_variants.o -c merge_candidate_variants.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o merge_genotypes.o -c merge_genotypes.cpp merge_genotypes.cpp: In member function ‘void {anonymous}::Igor::initialize()’: merge_genotypes.cpp:215:21: warning: ignoring return value of ‘int bcf_hdr_sync(bcf_hdr_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 215 | bcf_hdr_sync(odw->hdr); | ~~~~~~~~~~~~^~~~~~~~~~ x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o milk_filter.o -c milk_filter.cpp milk_filter.cpp: In member function ‘void {anonymous}::Igor::milk_filter()’: milk_filter.cpp:456:53: warning: format ‘%d’ expects argument of type ‘int’, but argument 5 has type ‘hts_pos_t’ {aka ‘long int’} [-Wformat=] 456 | fprintf(stderr,"Processing %d variants at %s:%d\n", nread + 1, bcf_seqname(odw->hdr,nv), nv->pos); | ~^ ~~~~~~~ | | | | int hts_pos_t {aka long int} | %ld x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o motif_tree.o -c motif_tree.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o motif_map.o -c motif_map.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o multi_partition.o -c multi_partition.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o multiallelics_consolidator.o -c multiallelics_consolidator.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o needle.o -c needle.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o normalize.o -c normalize.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o nuclear_pedigree.o -c nuclear_pedigree.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o ordered_bcf_overlap_matcher.o -c ordered_bcf_overlap_matcher.cpp ordered_bcf_overlap_matcher.cpp: In constructor ‘OrderedBCFOverlapMatcher::OrderedBCFOverlapMatcher(std::string&, std::vector&)’: ordered_bcf_overlap_matcher.cpp:34:17: warning: ignoring return value of ‘int bcf_hdr_sync(bcf_hdr_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 34 | bcf_hdr_sync(odr->hdr); | ~~~~~~~~~~~~^~~~~~~~~~ ordered_bcf_overlap_matcher.cpp: In constructor ‘OrderedBCFOverlapMatcher::OrderedBCFOverlapMatcher(std::string&, std::vector&, std::string)’: ordered_bcf_overlap_matcher.cpp:52:17: warning: ignoring return value of ‘int bcf_hdr_sync(bcf_hdr_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 52 | bcf_hdr_sync(odr->hdr); | ~~~~~~~~~~~~^~~~~~~~~~ x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o ordered_region_overlap_matcher.o -c ordered_region_overlap_matcher.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o partition.o -c partition.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o paste.o -c paste.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o paste_and_compute_features_sequential.o -c paste_and_compute_features_sequential.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o paste_genotypes.o -c paste_genotypes.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o pedigree.o -c pedigree.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o peek.o -c peek.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o pileup.o -c pileup.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o pregex.o -c pregex.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o profile_afs.o -c profile_afs.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o profile_chm1.o -c profile_chm1.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o profile_chrom.o -c profile_chrom.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o profile_fic_hwe.o -c profile_fic_hwe.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o profile_hwe.o -c profile_hwe.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o profile_indels.o -c profile_indels.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o profile_len.o -c profile_len.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o profile_mendelian.o -c profile_mendelian.cpp profile_mendelian.cpp: In member function ‘void {anonymous}::Igor::initialize()’: profile_mendelian.cpp:191:25: warning: ignoring return value of ‘int bcf_hdr_sync(bcf_hdr_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 191 | bcf_hdr_sync(odw->hdr); | ~~~~~~~~~~~~^~~~~~~~~~ x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o profile_na12878.o -c profile_na12878.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o profile_snps.o -c profile_snps.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o profile_vntrs.o -c profile_vntrs.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o program.o -c program.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o read_filter.o -c read_filter.cpp In file included from read_filter.h:30, from read_filter.cpp:24: read_filter.cpp: In member function ‘bool ReadFilter::filter_read(bam_hdr_t*, bam1_t*)’: hts_utils.h:124:40: warning: narrowing conversion of ‘(s->bam1_t::core.bam1_core_t::pos + 1)’ from ‘hts_pos_t’ {aka ‘long int’} to ‘int32_t’ {aka ‘int’} [-Wnarrowing] 124 | #define bam_get_pos1(s) ((s)->core.pos + 1) | ~~~~~~~~~~~~~~~^~~~ read_filter.cpp:95:41: note: in expansion of macro ‘bam_get_pos1’ 95 | kh_val(reads, k) = {bam_get_pos1(s), bam_get_pos1(s)+bam_get_l_qseq(s)-1}; | ^~~~~~~~~~~~ read_filter.cpp:95:91: warning: narrowing conversion of ‘(((s->bam1_t::core.bam1_core_t::pos + 1) + ((hts_pos_t)s->bam1_t::core.bam1_core_t::l_qseq)) - 1)’ from ‘hts_pos_t’ {aka ‘long int’} to ‘int32_t’ {aka ‘int’} [-Wnarrowing] 95 | kh_val(reads, k) = {bam_get_pos1(s), bam_get_pos1(s)+bam_get_l_qseq(s)-1}; x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o reference_sequence.o -c reference_sequence.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o rfhmm.o -c rfhmm.cpp rfhmm.cpp: In member function ‘void RFHMM::clear_statistics()’: rfhmm.cpp:833:27: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 833 | lflank_start[MODEL] = NAN; | ^~~ rfhmm.cpp:834:26: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 834 | lflank_start[READ] = NAN; | ^~~ rfhmm.cpp:835:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 835 | lflank_end[MODEL] = NAN; | ^~~ rfhmm.cpp:836:24: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 836 | lflank_end[READ] = NAN; | ^~~ rfhmm.cpp:837:26: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 837 | motif_start[MODEL] = NAN; | ^~~ rfhmm.cpp:838:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 838 | motif_start[READ] = NAN; | ^~~ rfhmm.cpp:839:24: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 839 | motif_end[MODEL] = NAN; | ^~~ rfhmm.cpp:840:23: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 840 | motif_end[READ] = NAN; | ^~~ rfhmm.cpp:841:27: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 841 | rflank_start[MODEL] = NAN; | ^~~ rfhmm.cpp:842:26: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 842 | rflank_start[READ] = NAN; | ^~~ rfhmm.cpp:843:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 843 | rflank_end[MODEL] = NAN; | ^~~ rfhmm.cpp:844:24: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 844 | rflank_end[READ] = NAN; | ^~~ rfhmm.cpp:845:19: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 845 | motif_count = NAN; | ^~~ rfhmm.cpp:846:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 846 | exact_motif_count = NAN; | ^~~ rfhmm.cpp:847:15: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 847 | motif_m = NAN; | ^~~ rfhmm.cpp:848:17: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 848 | motif_xid = NAN; | ^~~ x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o rfhmm_x.o -c rfhmm_x.cpp rfhmm_x.cpp: In member function ‘void RFHMM_X::clear_statistics()’: rfhmm_x.cpp:928:27: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 928 | lflank_start[MODEL] = NAN; | ^~~ rfhmm_x.cpp:929:26: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 929 | lflank_start[READ] = NAN; | ^~~ rfhmm_x.cpp:930:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 930 | lflank_end[MODEL] = NAN; | ^~~ rfhmm_x.cpp:931:24: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 931 | lflank_end[READ] = NAN; | ^~~ rfhmm_x.cpp:932:26: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 932 | motif_start[MODEL] = NAN; | ^~~ rfhmm_x.cpp:933:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 933 | motif_start[READ] = NAN; | ^~~ rfhmm_x.cpp:934:24: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 934 | motif_end[MODEL] = NAN; | ^~~ rfhmm_x.cpp:935:23: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 935 | motif_end[READ] = NAN; | ^~~ rfhmm_x.cpp:936:27: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 936 | rflank_start[MODEL] = NAN; | ^~~ rfhmm_x.cpp:937:26: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 937 | rflank_start[READ] = NAN; | ^~~ rfhmm_x.cpp:938:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 938 | rflank_end[MODEL] = NAN; | ^~~ rfhmm_x.cpp:939:24: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 939 | rflank_end[READ] = NAN; | ^~~ rfhmm_x.cpp:940:19: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 940 | motif_count = NAN; | ^~~ rfhmm_x.cpp:941:25: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 941 | exact_motif_count = NAN; | ^~~ rfhmm_x.cpp:942:15: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 942 | motif_m = NAN; | ^~~ rfhmm_x.cpp:943:17: warning: overflow in conversion from ‘float’ to ‘int32_t’ {aka ‘int’} changes value from ‘+QNaNf’ to ‘0’ [-Woverflow] 943 | motif_xid = NAN; | ^~~ x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o rminfo.o -c rminfo.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o seq.o -c seq.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o set_ref.o -c set_ref.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o snp_genotyping_record.o -c snp_genotyping_record.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o sort.o -c sort.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o subset.o -c subset.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o sv_tree.o -c sv_tree.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o svm_train.o -c svm_train.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o svm_predict.o -c svm_predict.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o tbx_ordered_reader.o -c tbx_ordered_reader.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o test.o -c test.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o trio.o -c trio.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o union_variants.o -c union_variants.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o uniq.o -c uniq.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o utils.o -c utils.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o validate.o -c validate.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o variant.o -c variant.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o variant_manip.o -c variant_manip.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o variant_filter.o -c variant_filter.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o view.o -c view.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o vntr.o -c vntr.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o vntr_annotator.o -c vntr_annotator.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o vntr_consolidator.o -c vntr_consolidator.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o vntr_extractor.o -c vntr_extractor.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o vntr_genotyping_record.o -c vntr_genotyping_record.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o vntr_tree.o -c vntr_tree.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o vntrize.o -c vntrize.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o wdp_ahmm.o -c wdp_ahmm.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o main.o -c main.cpp x86_64-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o vt ahmm.o align.o allele.o annotate_1000g.o annotate_dbsnp_rsid.o annotate_indels.o annotate_indels2.o annotate_regions.o annotate_variants.o annotate_vntrs.o augmented_bam_record.o bcf_genotyping_buffered_reader.o bcf_single_genotyping_buffered_reader.o bam_ordered_reader.o bcf_ordered_reader.o bcf_ordered_writer.o bcf_synced_reader.o bed.o candidate_motif_picker.o candidate_region_extractor.o cat.o chmm.o complex_genotyping_record.o compute_concordance.o compute_features.o compute_features2.o compute_rl_dist.o config.o consolidate_multiallelics.o consolidate_vntrs.o consolidate.o construct_probes.o decompose.o decompose2.o decompose_blocksub.o discover.o duplicate.o estimate.o estimator.o extract_vntrs.o filter.o filter_overlap.o flank_detector.o fuzzy_aligner.o fuzzy_partition.o gencode.o genome_interval.o genotype.o genotyping_record.o ghmm.o hts_utils.o hfilter.o indel_annotator.o indel_genotyping_record.o index.o info2tab.o interval_tree.o interval.o lfhmm.o lhmm.o lhmm1.o liftover.o log_tool.o merge.o merge_candidate_variants.o merge_genotypes.o milk_filter.o motif_tree.o motif_map.o multi_partition.o multiallelics_consolidator.o needle.o normalize.o nuclear_pedigree.o ordered_bcf_overlap_matcher.o ordered_region_overlap_matcher.o partition.o paste.o paste_and_compute_features_sequential.o paste_genotypes.o pedigree.o peek.o pileup.o pregex.o profile_afs.o profile_chm1.o profile_chrom.o profile_fic_hwe.o profile_hwe.o profile_indels.o profile_len.o profile_mendelian.o profile_na12878.o profile_snps.o profile_vntrs.o program.o read_filter.o reference_sequence.o rfhmm.o rfhmm_x.o rminfo.o seq.o set_ref.o snp_genotyping_record.o sort.o subset.o sv_tree.o svm_train.o svm_predict.o tbx_ordered_reader.o test.o trio.o union_variants.o uniq.o utils.o validate.o variant.o variant_manip.o variant_filter.o view.o vntr.o vntr_annotator.o vntr_consolidator.o vntr_extractor.o vntr_genotyping_record.o vntr_tree.o vntrize.o wdp_ahmm.o main.o -lz -lpthread -lbz2 -llzma -lcurl -lcrypto -lhts -lpcre2-8 -lsvm -lRmath -lR make[1]: Leaving directory '/<>' dh: command-omitted: The call to "dh_auto_test -a" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_prep -a dh_auto_install -a dh_install -a dh_installdocs -a dh_installchangelogs -a dh_installman -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'vt' in '../vt_0.57721+ds-3_amd64.deb'. dpkg-deb: building package 'vt-dbgsym' in '../vt-dbgsym_0.57721+ds-3_amd64.deb'. dpkg-genbuildinfo --build=any -O../vt_0.57721+ds-3_amd64.buildinfo dpkg-genchanges --build=any -O../vt_0.57721+ds-3_amd64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2022-10-22T12:54:06Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ vt_0.57721+ds-3_amd64.changes: ------------------------------ Format: 1.8 Date: Mon, 09 Nov 2020 09:29:40 +0100 Source: vt Binary: vt vt-dbgsym Built-For-Profiles: cross nocheck Architecture: amd64 Version: 0.57721+ds-3 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Antoni Villalonga Description: vt - toolset for short variant discovery in genetic sequence data Changes: vt (0.57721+ds-3) unstable; urgency=medium . * patch 0001: Get rid of commented code * Add patch 0002-hts-1.11.patch Checksums-Sha1: 7ab4d230013483c684aaef9a24e19c1fbd5b341b 32366264 vt-dbgsym_0.57721+ds-3_amd64.deb a14edcc0bfff69307977305e25bf34c3661b35c5 7620 vt_0.57721+ds-3_amd64.buildinfo 27cdad996b7b542423cde9c849391dccf293f4da 798956 vt_0.57721+ds-3_amd64.deb Checksums-Sha256: 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Checksums-Sha1: 7ab4d230013483c684aaef9a24e19c1fbd5b341b 32366264 vt-dbgsym_0.57721+ds-3_amd64.deb 27cdad996b7b542423cde9c849391dccf293f4da 798956 vt_0.57721+ds-3_amd64.deb Checksums-Sha256: e353bdd5cc64b6ce6a13d022ab1232a70fe194fa3e635dc19ea91a99ba96fb2e 32366264 vt-dbgsym_0.57721+ds-3_amd64.deb f5f4901496fbfb304fb0963e4dc5dd434132d903ebab875b9cdc59daca31c9c4 798956 vt_0.57721+ds-3_amd64.deb Build-Origin: Debian Build-Architecture: arm64 Build-Date: Sat, 22 Oct 2022 12:54:04 +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 (= 0.21-9), autotools-dev (= 20220109.1), base-files (= 12.3), base-passwd (= 3.6.1), bash (= 5.2-1), binutils (= 2.39-8), binutils-aarch64-linux-gnu (= 2.39-8), binutils-common (= 2.39-8), bsdextrautils (= 2.38.1-1.1+b1), bsdutils (= 1:2.38.1-1.1+b1), build-essential (= 12.9), bzip2 (= 1.0.8-5+b1), ca-certificates (= 20211016), coreutils (= 9.1-1), cpp (= 4:12.2.0-1), cpp-12 (= 12.2.0-7), dash (= 0.5.11+git20210903+057cd650a4ed-9), debconf (= 1.5.79), debhelper (= 13.10), debianutils (= 5.7-0.3), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.13.0-1), diffutils (= 1:3.8-1), dpkg (= 1.21.9+b1), dpkg-dev (= 1.21.9), dwz (= 0.14+20220924-2), file (= 1:5.41-4), findutils (= 4.9.0-3), fontconfig (= 2.13.1-4.5), fontconfig-config (= 2.13.1-4.5), fonts-dejavu-core (= 2.37-2), g++ (= 4:12.2.0-1), g++-12 (= 12.2.0-7), gcc (= 4:12.2.0-1), gcc-12 (= 12.2.0-7), gcc-12-base (= 12.2.0-7), gettext (= 0.21-9), gettext-base (= 0.21-9), grep (= 3.8-2), groff-base (= 1.22.4-8), gzip (= 1.12-1), hostname (= 3.23), init-system-helpers (= 1.65.2), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.1-1), libarchive-zip-perl (= 1.68-1), libasan8 (= 12.2.0-7), libatomic1 (= 12.2.0-7), libattr1 (= 1:2.5.1-1), libaudit-common (= 1:3.0.7-1.1), libaudit1 (= 1:3.0.7-1.1+b1), libbinutils (= 2.39-8), libblas3 (= 3.10.1-2), libblkid1 (= 2.38.1-1.1+b1), libbrotli1 (= 1.0.9-2+b4), libbsd0 (= 0.11.7-1), libbz2-1.0 (= 1.0.8-5+b1), libbz2-dev (= 1.0.8-5+b1), libc-bin (= 2.35-3), libc-dev-bin (= 2.35-3), libc6 (= 2.35-3), libc6-dev (= 2.35-3), libcairo2 (= 1.16.0-6), libcap-ng0 (= 0.8.3-1+b1), libcap2 (= 1:2.44-1), libcc1-0 (= 12.2.0-7), libcom-err2 (= 1.46.6~rc1-1+b1), libcrypt-dev (= 1:4.4.28-2), libcrypt1 (= 1:4.4.28-2), libctf-nobfd0 (= 2.39-8), libctf0 (= 2.39-8), libcurl3-gnutls (= 7.85.0-1), libcurl4 (= 7.85.0-1), libcurl4-gnutls-dev (= 7.85.0-1), libdatrie1 (= 0.2.13-2+b1), libdb5.3 (= 5.3.28+dfsg1-0.10), libdebconfclient0 (= 0.264), libdebhelper-perl (= 13.10), libdeflate-dev (= 1.14-1), libdeflate0 (= 1.14-1), libdpkg-perl (= 1.21.9), libelf1 (= 0.187-4), libexpat1 (= 2.4.9-1), libffi8 (= 3.4.3-3), libfile-find-rule-perl (= 0.34-2), libfile-stripnondeterminism-perl (= 1.13.0-1), libfontconfig1 (= 2.13.1-4.5), libfreetype6 (= 2.12.1+dfsg-3), libfribidi0 (= 1.0.8-2.1), libgcc-12-dev (= 12.2.0-7), libgcc-s1 (= 12.2.0-7), libgcrypt20 (= 1.10.1-2), libgdbm-compat4 (= 1.23-3), libgdbm6 (= 1.23-3), libgfortran5 (= 12.2.0-7), libglib2.0-0 (= 2.74.0-3), libgmp10 (= 2:6.2.1+dfsg1-1.1), libgnutls30 (= 3.7.8-2), libgomp1 (= 12.2.0-7), libgpg-error0 (= 1.46-1), libgprofng0 (= 2.39-8), libgraphite2-3 (= 1.3.14-1), libgssapi-krb5-2 (= 1.20-1+b1), libharfbuzz0b (= 5.2.0-2), libhogweed6 (= 3.8.1-2), libhts-dev (= 1.16+ds-3), libhts3 (= 1.16+ds-3), libhtscodecs2 (= 1.3.0-4), libice6 (= 2:1.0.10-1), libicu71 (= 71.1-3), libidn2-0 (= 2.3.3-1+b1), libisl23 (= 0.25-1), libitm1 (= 12.2.0-7), libjbig0 (= 2.1-6), libjpeg62-turbo (= 1:2.1.2-1+b1), libk5crypto3 (= 1.20-1+b1), libkeyutils1 (= 1.6.3-1), libkrb5-3 (= 1.20-1+b1), libkrb5support0 (= 1.20-1+b1), liblapack3 (= 3.10.1-2), libldap-2.5-0 (= 2.5.13+dfsg-2+b1), liblerc4 (= 4.0.0+ds-2), liblsan0 (= 12.2.0-7), liblz4-1 (= 1.9.4-1), liblzma-dev (= 5.2.7-0.0), liblzma5 (= 5.2.7-0.0), libmagic-mgc (= 1:5.41-4), libmagic1 (= 1:5.41-4), libmd0 (= 1.0.4-2), libmount1 (= 2.38.1-1.1+b1), libmpc3 (= 1.2.1-2), libmpfr6 (= 4.1.0-3), libnettle8 (= 3.8.1-2), libnghttp2-14 (= 1.50.0-1+b1), libnsl-dev (= 1.3.0-2), libnsl2 (= 1.3.0-2), libnumber-compare-perl (= 0.03-3), libp11-kit0 (= 0.24.1-1), libpam-modules (= 1.5.2-5), libpam-modules-bin (= 1.5.2-5), libpam-runtime (= 1.5.2-5), libpam0g (= 1.5.2-5), libpango-1.0-0 (= 1.50.10+ds-1), libpangocairo-1.0-0 (= 1.50.10+ds-1), libpangoft2-1.0-0 (= 1.50.10+ds-1), libpaper-utils (= 1.1.28+b1), libpaper1 (= 1.1.28+b1), libpcre2-16-0 (= 10.40-1), libpcre2-32-0 (= 10.40-1), libpcre2-8-0 (= 10.40-1), libpcre2-dev (= 10.40-1), libpcre2-posix3 (= 10.40-1), libperl5.36 (= 5.36.0-4), libpipeline1 (= 1.5.6-3), libpixman-1-0 (= 0.40.0-1), libpng16-16 (= 1.6.38-2), libpsl5 (= 0.21.0-1.2), libquadmath0 (= 12.2.0-7), libreadline8 (= 8.2-1), librtmp1 (= 2.4+20151223.gitfa8646d.1-2+b2), libsasl2-2 (= 2.1.28+dfsg-8), libsasl2-modules-db (= 2.1.28+dfsg-8), libseccomp2 (= 2.5.4-1+b1), libselinux1 (= 3.4-1+b2), libsm6 (= 2:1.2.3-1), libsmartcols1 (= 2.38.1-1.1+b1), libssh2-1 (= 1.10.0-3+b1), libssl-dev (= 3.0.5-4), libssl3 (= 3.0.5-4), libstdc++-12-dev (= 12.2.0-7), libstdc++6 (= 12.2.0-7), libsub-override-perl (= 0.09-4), libsvm-dev (= 3.24+ds-6), libsvm3 (= 3.24+ds-6), libsystemd0 (= 251.6-1), libtasn1-6 (= 4.19.0-2), libtcl8.6 (= 8.6.12+dfsg-1+b1), libtclap-dev (= 1.2.5-1+b1), libtext-glob-perl (= 0.11-3), libthai-data (= 0.1.29-1), libthai0 (= 0.1.29-1), libtiff5 (= 4.4.0-4), libtinfo6 (= 6.3+20220423-2), libtirpc-common (= 1.3.3+ds-1), libtirpc-dev (= 1.3.3+ds-1), libtirpc3 (= 1.3.3+ds-1), libtk8.6 (= 8.6.12-1+b1), libtool (= 2.4.7-4), libtsan2 (= 12.2.0-7), libubsan1 (= 12.2.0-7), libuchardet0 (= 0.0.7-1), libudev1 (= 251.6-1), libunistring2 (= 1.0-2), libuuid1 (= 2.38.1-1.1+b1), libwebp7 (= 1.2.2-2+b1), libx11-6 (= 2:1.8.1-2), libx11-data (= 2:1.8.1-2), libxau6 (= 1:1.0.9-1), libxcb-render0 (= 1.15-1), libxcb-shm0 (= 1.15-1), libxcb1 (= 1.15-1), libxdmcp6 (= 1:1.1.2-3), libxext6 (= 2:1.3.4-1+b1), libxft2 (= 2.3.6-1), libxml2 (= 2.9.14+dfsg-1+b1), libxrender1 (= 1:0.9.10-1.1), libxss1 (= 1:1.2.3-1), libxt6 (= 1:1.2.1-1), libzstd1 (= 1.5.2+dfsg-1), linux-libc-dev (= 6.0.2-1+b1), login (= 1:4.12.3+dfsg1-1), m4 (= 1.4.19-1), make (= 4.3-4.1), man-db (= 2.11.0-1+b1), mawk (= 1.3.4.20200120-3.1), ncurses-base (= 6.3+20220423-2), ncurses-bin (= 6.3+20220423-2), openssl (= 3.0.5-4), patch (= 2.7.6-7), perl (= 5.36.0-4), perl-base (= 5.36.0-4), perl-modules-5.36 (= 5.36.0-4), po-debconf (= 1.0.21+nmu1), r-base-core (= 4.2.1-3), r-mathlib (= 4.2.1-3), readline-common (= 8.2-1), rpcsvc-proto (= 1.4.2-4), sed (= 4.8-1), sensible-utils (= 0.0.17), sysvinit-utils (= 3.05-6), tar (= 1.34+dfsg-1), tzdata (= 2022e-1), ucf (= 3.0043), unzip (= 6.0-27), usrmerge (= 33), util-linux (= 2.38.1-1.1+b1), util-linux-extra (= 2.38.1-1.1+b1), x11-common (= 1:7.7+23), xdg-utils (= 1.1.3-4.1), xz-utils (= 5.2.7-0.0), zip (= 3.0-12), zlib1g (= 1:1.2.11.dfsg-4.1), zlib1g-dev (= 1:1.2.11.dfsg-4.1) 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="1604910580" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ vt-dbgsym_0.57721+ds-3_amd64.deb -------------------------------- new Debian package, version 2.0. size 32366264 bytes: control archive=536 bytes. 362 bytes, 12 lines control 106 bytes, 1 lines md5sums Package: vt-dbgsym Source: vt Version: 0.57721+ds-3 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 32568 Depends: vt (= 0.57721+ds-3) Section: debug Priority: optional Description: debug symbols for vt Build-Ids: 46d32cc8e25e8ba874f3c7e72e864123cf26cf97 drwxr-xr-x root/root 0 2020-11-09 08:29 ./ drwxr-xr-x root/root 0 2020-11-09 08:29 ./usr/ drwxr-xr-x root/root 0 2020-11-09 08:29 ./usr/lib/ drwxr-xr-x root/root 0 2020-11-09 08:29 ./usr/lib/debug/ drwxr-xr-x root/root 0 2020-11-09 08:29 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2020-11-09 08:29 ./usr/lib/debug/.build-id/46/ -rw-r--r-- root/root 33338944 2020-11-09 08:29 ./usr/lib/debug/.build-id/46/d32cc8e25e8ba874f3c7e72e864123cf26cf97.debug drwxr-xr-x root/root 0 2020-11-09 08:29 ./usr/share/ drwxr-xr-x root/root 0 2020-11-09 08:29 ./usr/share/doc/ lrwxrwxrwx root/root 0 2020-11-09 08:29 ./usr/share/doc/vt-dbgsym -> vt vt_0.57721+ds-3_amd64.deb ------------------------- new Debian package, version 2.0. size 798956 bytes: control archive=916 bytes. 821 bytes, 17 lines control 301 bytes, 5 lines md5sums Package: vt Version: 0.57721+ds-3 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 2769 Depends: libc6 (>= 2.34), libgcc-s1 (>= 3.0), libhts3 (>= 1.10), libpcre2-8-0 (>= 10.22), libstdc++6 (>= 11), r-base-core Section: science Priority: optional Homepage: https://genome.sph.umich.edu/wiki/Vt Description: toolset for short variant discovery in genetic sequence data vt is a variant tool set that discovers short variants from Next Generation Sequencing data. . Vt-normalize is a tool to normalize representation of genetic variants in the VCF. Variant normalization is formally defined as the consistent representation of genetic variants in an unambiguous and concise way. In vt a simple general algorithm to enforce this is implemented. drwxr-xr-x root/root 0 2020-11-09 08:29 ./ drwxr-xr-x root/root 0 2020-11-09 08:29 ./usr/ drwxr-xr-x root/root 0 2020-11-09 08:29 ./usr/bin/ -rwxr-xr-x root/root 2820376 2020-11-09 08:29 ./usr/bin/vt drwxr-xr-x root/root 0 2020-11-09 08:29 ./usr/share/ drwxr-xr-x root/root 0 2020-11-09 08:29 ./usr/share/doc/ drwxr-xr-x root/root 0 2020-11-09 08:29 ./usr/share/doc/vt/ -rw-r--r-- root/root 306 2020-11-09 08:29 ./usr/share/doc/vt/README.test -rw-r--r-- root/root 426 2020-11-09 08:29 ./usr/share/doc/vt/changelog.Debian.gz -rw-r--r-- root/root 1766 2020-11-09 08:29 ./usr/share/doc/vt/copyright drwxr-xr-x root/root 0 2020-11-09 08:29 ./usr/share/man/ drwxr-xr-x root/root 0 2020-11-09 08:29 ./usr/share/man/man1/ -rw-r--r-- root/root 659 2020-11-09 08:29 ./usr/share/man/man1/vt.1.gz 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 [601 B] Get:5 copy:/<>/apt_archive ./ Packages [684 B] Fetched 2248 B in 0s (52.2 kB/s) Reading package lists... Reading package lists... Install lintian build dependencies (apt-based resolver) ------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: diffstat gpg gpgconf 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 libexporter-tiny-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-moreutils-perl liblist-moreutils-xs-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 patchutils perl-openssl-defaults plzip t1utils 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 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: 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 libexporter-tiny-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-moreutils-perl liblist-moreutils-xs-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 patchutils perl-openssl-defaults plzip sbuild-build-depends-lintian-dummy:amd64 t1utils 0 upgraded, 126 newly installed, 0 to remove and 0 not upgraded. Need to get 12.1 MB of archives. After this operation, 50.1 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-lintian-dummy 0.invalid.0 [852 B] Get:2 http://mirror.einval.org/debian sid/main arm64 netbase all 6.4 [12.8 kB] Get:3 http://mirror.einval.org/debian sid/main arm64 diffstat arm64 1.64-1 [34.6 kB] Get:4 http://mirror.einval.org/debian sid/main arm64 libassuan0 arm64 2.5.5-4 [48.9 kB] Get:5 http://mirror.einval.org/debian sid/main arm64 libreadline8 arm64 8.2-1 [162 kB] Get:6 http://mirror.einval.org/debian sid/main arm64 gpgconf arm64 2.2.40-1 [556 kB] Get:7 http://mirror.einval.org/debian sid/main arm64 libsqlite3-0 arm64 3.39.4-1 [790 kB] Get:8 http://mirror.einval.org/debian sid/main arm64 gpg arm64 2.2.40-1 [903 kB] Get:9 http://mirror.einval.org/debian sid/main arm64 iso-codes all 4.11.0-1 [2834 kB] Get:10 http://mirror.einval.org/debian sid/main arm64 libaliased-perl all 0.34-3 [13.5 kB] Get:11 http://mirror.einval.org/debian sid/main arm64 libapt-pkg-perl arm64 0.1.40+b2 [66.1 kB] Get:12 http://mirror.einval.org/debian sid/main arm64 libb-hooks-op-check-perl arm64 0.22-2+b1 [10.4 kB] Get:13 http://mirror.einval.org/debian sid/main arm64 libdynaloader-functions-perl all 0.003-3 [12.7 kB] Get:14 http://mirror.einval.org/debian sid/main arm64 libdevel-callchecker-perl arm64 0.008-1+b4 [15.5 kB] Get:15 http://mirror.einval.org/debian sid/main arm64 libparams-classify-perl arm64 0.015-2+b1 [22.9 kB] Get:16 http://mirror.einval.org/debian sid/main arm64 libmodule-runtime-perl all 0.016-2 [19.6 kB] Get:17 http://mirror.einval.org/debian sid/main arm64 libtry-tiny-perl all 0.31-2 [22.6 kB] Get:18 http://mirror.einval.org/debian sid/main arm64 libmodule-implementation-perl all 0.09-2 [12.6 kB] Get:19 http://mirror.einval.org/debian sid/main arm64 libsub-exporter-progressive-perl all 0.001013-3 [7496 B] Get:20 http://mirror.einval.org/debian sid/main arm64 libvariable-magic-perl arm64 0.63-1+b1 [42.8 kB] Get:21 http://mirror.einval.org/debian sid/main arm64 libb-hooks-endofscope-perl all 0.26-1 [19.6 kB] Get:22 http://mirror.einval.org/debian sid/main arm64 libberkeleydb-perl arm64 0.64-2+b1 [121 kB] Get:23 http://mirror.einval.org/debian sid/main arm64 libcapture-tiny-perl all 0.48-1 [26.0 kB] Get:24 http://mirror.einval.org/debian sid/main arm64 libhtml-tagset-perl all 3.20-6 [11.7 kB] Get:25 http://mirror.einval.org/debian sid/main arm64 libregexp-ipv6-perl all 0.03-3 [5212 B] Get:26 http://mirror.einval.org/debian sid/main arm64 liburi-perl all 5.16-1 [90.3 kB] Get:27 http://mirror.einval.org/debian sid/main arm64 libhtml-parser-perl arm64 3.79-1+b1 [98.8 kB] Get:28 http://mirror.einval.org/debian sid/main arm64 libcgi-pm-perl all 4.54-1 [224 kB] Get:29 http://mirror.einval.org/debian sid/main arm64 libclass-data-inheritable-perl all 0.08-3 [8588 B] Get:30 http://mirror.einval.org/debian sid/main arm64 libclass-method-modifiers-perl all 2.13-2 [19.4 kB] Get:31 http://mirror.einval.org/debian sid/main arm64 libclass-xsaccessor-perl arm64 1.19-4+b1 [35.3 kB] Get:32 http://mirror.einval.org/debian sid/main arm64 libclone-perl arm64 0.45-1+b3 [13.5 kB] Get:33 http://mirror.einval.org/debian sid/main arm64 libconfig-tiny-perl all 2.28-2 [16.4 kB] Get:34 http://mirror.einval.org/debian sid/main arm64 libparams-util-perl arm64 1.102-2+b1 [24.2 kB] Get:35 http://mirror.einval.org/debian sid/main arm64 libsub-install-perl all 0.928-3 [9724 B] Get:36 http://mirror.einval.org/debian sid/main arm64 libdata-optlist-perl all 0.112-1 [11.8 kB] Get:37 http://mirror.einval.org/debian sid/main arm64 libsub-exporter-perl all 0.988-1 [51.9 kB] Get:38 http://mirror.einval.org/debian sid/main arm64 libconst-fast-perl all 0.014-2 [8792 B] Get:39 http://mirror.einval.org/debian sid/main arm64 libcpanel-json-xs-perl arm64 4.32-1+b1 [128 kB] Get:40 http://mirror.einval.org/debian sid/main arm64 libdevel-stacktrace-perl all 2.0400-1 [28.6 kB] Get:41 http://mirror.einval.org/debian sid/main arm64 libexception-class-perl all 1.45-1 [34.6 kB] Get:42 http://mirror.einval.org/debian sid/main arm64 libiterator-perl all 0.03+ds1-2 [18.8 kB] Get:43 http://mirror.einval.org/debian sid/main arm64 libiterator-util-perl all 0.02+ds1-2 [14.0 kB] Get:44 http://mirror.einval.org/debian sid/main arm64 libexporter-tiny-perl all 1.004003-1 [39.0 kB] Get:45 http://mirror.einval.org/debian sid/main arm64 liblist-moreutils-xs-perl arm64 0.430-3+b1 [37.5 kB] Get:46 http://mirror.einval.org/debian sid/main arm64 liblist-moreutils-perl all 0.430-2 [46.9 kB] Get:47 http://mirror.einval.org/debian sid/main arm64 libdata-dpath-perl all 0.58-1 [43.5 kB] Get:48 http://mirror.einval.org/debian sid/main arm64 libdata-messagepack-perl arm64 1.02-1+b1 [34.0 kB] Get:49 http://mirror.einval.org/debian sid/main arm64 libnet-domain-tld-perl all 1.75-3 [31.9 kB] Get:50 http://mirror.einval.org/debian sid/main arm64 libdata-validate-domain-perl all 0.10-1.1 [11.1 kB] Get:51 http://mirror.einval.org/debian sid/main arm64 libnet-ipv6addr-perl all 1.02-1 [21.7 kB] Get:52 http://mirror.einval.org/debian sid/main arm64 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 0.30-1 [21.0 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 0.09-1 [16.4 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 6.04-1 [19.9 kB] Get:67 http://mirror.einval.org/debian sid/main arm64 libhttp-message-perl all 6.41-1 [81.1 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 5.07-2 [213 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 6.01-1 [12.8 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 2.075-1 [220 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 0.048-2 [34.2 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 0.58-3 [36.5 kB] Get:87 http://mirror.einval.org/debian sid/main arm64 liblist-utilsby-perl all 0.12-1 [16.1 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 2.006006-1 [21.0 kB] Get:94 http://mirror.einval.org/debian sid/main arm64 libmoo-perl all 2.005004-3 [60.5 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 0.14-2+b1 [11.1 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 0.124-1 [56.1 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 0.009-1+b2 [11.4 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-1+b1 [99.1 kB] Get:109 http://mirror.einval.org/debian sid/main arm64 libsort-versions-perl all 1.62-2 [10.7 kB] Get:110 http://mirror.einval.org/debian sid/main arm64 libxs-parse-keyword-perl arm64 0.25-1+b1 [52.4 kB] Get:111 http://mirror.einval.org/debian sid/main arm64 libsyntax-keyword-try-perl arm64 0.27-1+b1 [28.4 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 0.13-1+b2 [12.6 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 1.21-1 [13.7 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 0.62-1+b4 [19.7 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 lintian all 2.115.3 [1417 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 12.1 MB in 0s (35.6 MB/s) Selecting previously unselected package netbase. (Reading database ... 24045 files and directories currently installed.) Preparing to unpack .../000-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package diffstat. Preparing to unpack .../001-diffstat_1.64-1_arm64.deb ... Unpacking diffstat (1.64-1) ... Selecting previously unselected package libassuan0:arm64. Preparing to unpack .../002-libassuan0_2.5.5-4_arm64.deb ... Unpacking libassuan0:arm64 (2.5.5-4) ... Selecting previously unselected package libreadline8:arm64. Preparing to unpack .../003-libreadline8_8.2-1_arm64.deb ... Unpacking libreadline8:arm64 (8.2-1) ... Selecting previously unselected package gpgconf. Preparing to unpack .../004-gpgconf_2.2.40-1_arm64.deb ... Unpacking gpgconf (2.2.40-1) ... Selecting previously unselected package libsqlite3-0:arm64. Preparing to unpack .../005-libsqlite3-0_3.39.4-1_arm64.deb ... Unpacking libsqlite3-0:arm64 (3.39.4-1) ... Selecting previously unselected package gpg. 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Selecting previously unselected package libdevel-callchecker-perl. Preparing to unpack .../012-libdevel-callchecker-perl_0.008-1+b4_arm64.deb ... Unpacking libdevel-callchecker-perl (0.008-1+b4) ... Selecting previously unselected package libparams-classify-perl:arm64. Preparing to unpack .../013-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 .../014-libmodule-runtime-perl_0.016-2_all.deb ... Unpacking libmodule-runtime-perl (0.016-2) ... Selecting previously unselected package libtry-tiny-perl. Preparing to unpack .../015-libtry-tiny-perl_0.31-2_all.deb ... Unpacking libtry-tiny-perl (0.31-2) ... Selecting previously unselected package libmodule-implementation-perl. Preparing to unpack .../016-libmodule-implementation-perl_0.09-2_all.deb ... Unpacking libmodule-implementation-perl (0.09-2) ... Selecting previously unselected package libsub-exporter-progressive-perl. Preparing to unpack .../017-libsub-exporter-progressive-perl_0.001013-3_all.deb ... Unpacking libsub-exporter-progressive-perl (0.001013-3) ... Selecting previously unselected package libvariable-magic-perl. Preparing to unpack .../018-libvariable-magic-perl_0.63-1+b1_arm64.deb ... Unpacking libvariable-magic-perl (0.63-1+b1) ... Selecting previously unselected package libb-hooks-endofscope-perl. Preparing to unpack .../019-libb-hooks-endofscope-perl_0.26-1_all.deb ... Unpacking libb-hooks-endofscope-perl (0.26-1) ... Selecting previously unselected package libberkeleydb-perl:arm64. Preparing to unpack .../020-libberkeleydb-perl_0.64-2+b1_arm64.deb ... Unpacking libberkeleydb-perl:arm64 (0.64-2+b1) ... Selecting previously unselected package libcapture-tiny-perl. Preparing to unpack .../021-libcapture-tiny-perl_0.48-1_all.deb ... Unpacking libcapture-tiny-perl (0.48-1) ... 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Unpacking libclass-data-inheritable-perl (0.08-3) ... Selecting previously unselected package libclass-method-modifiers-perl. Preparing to unpack .../028-libclass-method-modifiers-perl_2.13-2_all.deb ... Unpacking libclass-method-modifiers-perl (2.13-2) ... Selecting previously unselected package libclass-xsaccessor-perl. Preparing to unpack .../029-libclass-xsaccessor-perl_1.19-4+b1_arm64.deb ... Unpacking libclass-xsaccessor-perl (1.19-4+b1) ... Selecting previously unselected package libclone-perl. Preparing to unpack .../030-libclone-perl_0.45-1+b3_arm64.deb ... Unpacking libclone-perl (0.45-1+b3) ... Selecting previously unselected package libconfig-tiny-perl. Preparing to unpack .../031-libconfig-tiny-perl_2.28-2_all.deb ... Unpacking libconfig-tiny-perl (2.28-2) ... Selecting previously unselected package libparams-util-perl. Preparing to unpack .../032-libparams-util-perl_1.102-2+b1_arm64.deb ... Unpacking libparams-util-perl (1.102-2+b1) ... Selecting previously unselected package libsub-install-perl. Preparing to unpack .../033-libsub-install-perl_0.928-3_all.deb ... Unpacking libsub-install-perl (0.928-3) ... Selecting previously unselected package libdata-optlist-perl. Preparing to unpack .../034-libdata-optlist-perl_0.112-1_all.deb ... Unpacking libdata-optlist-perl (0.112-1) ... Selecting previously unselected package libsub-exporter-perl. Preparing to unpack .../035-libsub-exporter-perl_0.988-1_all.deb ... Unpacking libsub-exporter-perl (0.988-1) ... Selecting previously unselected package libconst-fast-perl. Preparing to unpack .../036-libconst-fast-perl_0.014-2_all.deb ... Unpacking libconst-fast-perl (0.014-2) ... Selecting previously unselected package libcpanel-json-xs-perl:arm64. Preparing to unpack .../037-libcpanel-json-xs-perl_4.32-1+b1_arm64.deb ... Unpacking libcpanel-json-xs-perl:arm64 (4.32-1+b1) ... Selecting previously unselected package libdevel-stacktrace-perl. 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Setting up libapt-pkg-perl (0.1.40+b2) ... 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 (0.62-1+b4) ... Setting up libmouse-perl (2.5.10-1+b3) ... Setting up libdata-messagepack-perl (1.02-1+b1) ... Setting up libdynaloader-functions-perl (0.003-3) ... Setting up libclass-method-modifiers-perl (2.13-2) ... Setting up liblist-compare-perl (0.55-2) ... Setting up libclone-perl (0.45-1+b3) ... Setting up libyaml-0-2:arm64 (0.2.5-1) ... Setting up libsub-identify-perl (0.14-2+b1) ... 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 libreadline8:arm64 (8.2-1) ... Setting up libsqlite3-0:arm64 (3.39.4-1) ... Setting up liblwp-mediatypes-perl (6.04-1) ... Setting up libyaml-libyaml-perl (0.84+ds-1+b1) ... Setting up libio-interactive-perl (1.023-2) ... Setting up libtry-tiny-perl (0.31-2) ... Setting up perl-openssl-defaults: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 (2.5.5-4) ... Setting up libconfig-tiny-perl (2.28-2) ... Setting up libsereal-encoder-perl:arm64 (5.001+ds-1+b1) ... Setting up liblist-utilsby-perl (0.12-1) ... Setting up libnet-netmask-perl (2.0002-2) ... Setting up libsub-install-perl (0.928-3) ... Setting up patchutils (0.4.2-1) ... Setting up libjson-maybexs-perl (1.004004-1) ... Setting up libnetaddr-ip-perl (4.079+dfsg-2+b1) ... Setting up libclass-data-inheritable-perl (0.08-3) ... Setting up libxs-parse-keyword-perl (0.25-1+b1) ... Setting up libipc-system-simple-perl (1.30-2) ... Setting up libnet-domain-tld-perl (1.75-3) ... Setting up libperlio-utf8-strict-perl (0.009-1+b2) ... Setting up t1utils (1.41-4) ... Setting up diffstat (1.64-1) ... Setting up libvariable-magic-perl (0.63-1+b1) ... Setting up libio-html-perl (1.004-3) ... Setting up libb-hooks-op-check-perl:arm64 (0.22-2+b1) ... Setting up liblist-moreutils-xs-perl (0.430-3+b1) ... Setting up libparams-util-perl (1.102-2+b1) ... Setting up libtime-duration-perl (1.21-1) ... Setting up libtext-xslate-perl:arm64 (3.5.9-1+b2) ... Setting up libsub-exporter-progressive-perl (0.001013-3) ... Setting up libcapture-tiny-perl (0.48-1) ... Setting up libtimedate-perl (2.3300-2) ... Setting up libregexp-ipv6-perl (0.03-3) ... Setting up libsub-name-perl:arm64 (0.26-2+b1) ... Setting up libsyntax-keyword-try-perl (0.27-1+b1) ... Setting up libdata-validate-domain-perl (0.10-1.1) ... Setting up libproc-processtable-perl:arm64 (0.634-1+b2) ... Setting up libpath-tiny-perl (0.124-1) ... Setting up lzop (1.04-2) ... Setting up gpgconf (2.2.40-1) ... Setting up librole-tiny-perl (2.002004-1) ... Setting up libipc-run3-perl (0.048-2) ... Setting up libregexp-wildcards-perl (1.05-3) ... Setting up libaliased-perl (0.34-3) ... Setting up netbase (6.4) ... Setting up libstrictures-perl (2.000006-1) ... Setting up libsub-quote-perl (2.006006-1) ... Setting up libdevel-stacktrace-perl (2.0400-1) ... Setting up libclass-xsaccessor-perl (1.19-4+b1) ... Setting up libsort-versions-perl (1.62-2) ... Setting up libexporter-tiny-perl (1.004003-1) ... Setting up libterm-readkey-perl (2.38-2+b1) ... Setting up libfont-ttf-perl (1.06-2) ... Setting up libtext-levenshteinxs-perl (0.03-5+b1) ... Setting up libperlio-gzip-perl (0.20-1+b1) ... 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 (5.16-1) ... Setting up iso-codes (4.11.0-1) ... Setting up libnet-ipv6addr-perl (1.02-1) ... Setting up gpg (2.2.40-1) ... Setting up libdata-validate-ip-perl (0.30-1) ... Setting up libemail-address-xs-perl (1.05-1+b1) ... Setting up libnet-ssleay-perl:arm64 (1.92-2+b1) ... Setting up libhttp-date-perl (6.05-2) ... Setting up libfile-basedir-perl (0.09-1) ... Setting up libfile-listing-perl (6.15-1) ... Setting up liblist-moreutils-perl (0.430-2) ... Setting up libnet-http-perl (6.22-1) ... Setting up libtext-markdown-discount-perl:arm64 (0.13-1+b2) ... Setting up libexception-class-perl (1.45-1) ... Setting up libdevel-callchecker-perl (0.008-1+b4) ... Setting up libdata-validate-uri-perl (0.07-2) ... Setting up libdata-optlist-perl (0.112-1) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libhtml-parser-perl:arm64 (3.79-1+b1) ... Setting up libio-socket-ssl-perl (2.075-1) ... Setting up libsub-exporter-perl (0.988-1) ... Setting up libhttp-message-perl (6.41-1) ... Setting up libhtml-form-perl (6.10-1) ... Setting up libiterator-perl (0.03+ds1-2) ... Setting up libhttp-negotiate-perl (6.01-1) ... Setting up libiterator-util-perl (0.02+ds1-2) ... Setting up libhttp-cookies-perl (6.10-1) ... Setting up libhtml-tree-perl (5.07-2) ... Setting up libparams-classify-perl: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 (0.58-1) ... Setting up libmodule-implementation-perl (0.09-2) ... Setting up libpackage-stash-perl (0.40-1) ... Setting up libimport-into-perl (1.002005-2) ... Setting up libmoo-perl (2.005004-3) ... Setting up liblist-someutils-perl (0.58-3) ... Setting up libmoox-aliases-perl (0.001006-2) ... Setting up libb-hooks-endofscope-perl (0.26-1) ... Setting up libnamespace-clean-perl (0.27-2) ... Setting up libwww-perl (6.67-1) ... Setting up libhtml-tokeparser-simple-perl (3.16-4) ... Setting up libwww-mechanize-perl (2.15-1) ... Setting up liblwp-protocol-https-perl (6.10-1) ... Setting up lintian (2.115.3) ... Setting up sbuild-build-depends-lintian-dummy:amd64 (0.invalid.0) ... Processing triggers for libc-bin (2.35-3) ... Processing triggers for man-db (2.11.0-1+b1) ... Not building database; man-db/auto-update is not 'true'. 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: 532692 Build-Time: 1723 Distribution: unstable Foreign Architectures: amd64 Host Architecture: amd64 Install-Time: 133 Job: vt_0.57721+ds-3 Lintian: pass Machine Architecture: arm64 Package: vt Package-Time: 1914 Source-Version: 0.57721+ds-3 Space: 532692 Status: successful Version: 0.57721+ds-3 -------------------------------------------------------------------------------- Finished at 2022-10-22T12:54:06Z Build needed 00:31:54, 532692k disk space