sbuild (Debian sbuild) 0.81.2+deb11u1 (31 August 2022) on debian-ci-siliconvalley +==============================================================================+ | vt 0.57721+ds-3 (mips64el) Thu, 20 Apr 2023 21:21:00 +0000 | +==============================================================================+ Package: vt Version: 0.57721+ds-3 Source Version: 0.57721+ds-3 Distribution: unstable Machine Architecture: amd64 Host Architecture: mips64el Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/sid-amd64-sbuild-3b3b3670-6bed-4d4d-89c1-775724b88eb5' with '<>' I: NOTICE: Log filtering will replace 'build/vt-Ytf5U8/resolver-lYxTJe' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://localhost:3142/debian sid InRelease [184 kB] Get:2 http://localhost:3142/debian sid/main Sources.diff/Index [63.6 kB] Get:3 http://localhost:3142/debian sid/main amd64 Packages.diff/Index [63.6 kB] Get:4 http://localhost:3142/debian sid/main Sources T-2023-04-20-2009.52-F-2023-04-20-0223.33.pdiff [15.7 kB] Get:4 http://localhost:3142/debian sid/main Sources T-2023-04-20-2009.52-F-2023-04-20-0223.33.pdiff [15.7 kB] Get:5 http://localhost:3142/debian sid/main amd64 Packages T-2023-04-20-2009.52-F-2023-04-20-0223.33.pdiff [18.0 kB] Get:5 http://localhost:3142/debian sid/main amd64 Packages T-2023-04-20-2009.52-F-2023-04-20-0223.33.pdiff [18.0 kB] Get:6 http://localhost:3142/debian sid/main mips64el Packages [9065 kB] Fetched 9410 kB in 3s (2819 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: '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://localhost:3142/debian sid/main vt 0.57721+ds-3 (dsc) [2162 B] Get:2 http://localhost:3142/debian sid/main vt 0.57721+ds-3 (tar) [18.6 MB] Get:3 http://localhost:3142/debian sid/main vt 0.57721+ds-3 (diff) [8092 B] Fetched 18.6 MB in 0s (187 MB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/vt-Ytf5U8/vt-0.57721+ds' with '<>' I: NOTICE: Log filtering will replace 'build/vt-Ytf5U8' 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:amd64, fakeroot:amd64, crossbuild-essential-mips64el:amd64, libc-dev:mips64el, libstdc++-dev:mips64el 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:amd64, fakeroot:amd64, crossbuild-essential-mips64el:amd64, libc-dev:mips64el, libstdc++-dev:mips64el 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 [471 B] Get:5 copy:/<>/apt_archive ./ Packages [560 B] Fetched 1988 B in 0s (0 B/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev binutils-mips64el-linux-gnuabi64 bsdextrautils ca-certificates cpp-12-mips64el-linux-gnuabi64 cpp-mips64el-linux-gnuabi64 cross-config crossbuild-essential-mips64el debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file fontconfig fontconfig-config fonts-dejavu-core g++-12-mips64el-linux-gnuabi64 g++-mips64el-linux-gnuabi64 gcc-11-base:mips64el gcc-12-base:mips64el gcc-12-cross-base-mipsen gcc-12-mips64el-linux-gnuabi64 gcc-12-mips64el-linux-gnuabi64-base gcc-mips64el-linux-gnuabi64 gettext gettext-base groff-base intltool-debian libarchive-zip-perl libatomic1:mips64el libatomic1-mips64el-cross libblas3:mips64el libblkid1:mips64el libbrotli1 libbrotli1:mips64el libbsd0:mips64el libbz2-1.0:mips64el libbz2-dev:mips64el libc6:mips64el libc6-dev:mips64el libc6-dev-mips64el-cross libc6-mips64el-cross libcairo2:mips64el libcom-err2:mips64el libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev:mips64el libcrypt1:mips64el libcurl3-gnutls:mips64el libcurl4:mips64el libcurl4-gnutls-dev:mips64el libdatrie1:mips64el libdb5.3:mips64el libdebhelper-perl libdebian-dpkgcross-perl libdeflate-dev:mips64el libdeflate0:mips64el libelf1 libexpat1 libexpat1:mips64el libffi8:mips64el libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libfontconfig1 libfontconfig1:mips64el libfreetype6 libfreetype6:mips64el libfribidi0:mips64el libgcc-11-dev:mips64el libgcc-12-dev-mips64el-cross libgcc-s1:mips64el libgcc-s1-mips64el-cross libgfortran5:mips64el libglib2.0-0:mips64el libgmp10:mips64el libgnutls30:mips64el libgomp1:mips64el libgomp1-mips64el-cross libgraphite2-3:mips64el libgssapi-krb5-2:mips64el libharfbuzz0b:mips64el libhogweed6:mips64el libhts-dev:mips64el libhts3:mips64el libhtscodecs2:mips64el libice6:mips64el libicu72 libicu72:mips64el libidn2-0:mips64el libio-string-perl libjbig0:mips64el libjpeg62-turbo:mips64el libk5crypto3:mips64el libkeyutils1:mips64el libkrb5-3:mips64el libkrb5support0:mips64el liblapack3:mips64el libldap-2.5-0:mips64el liblerc4:mips64el liblocale-gettext-perl liblzma-dev:mips64el liblzma5:mips64el libmagic-mgc libmagic1 libmd0:mips64el libmount1:mips64el libnettle8:mips64el libnghttp2-14:mips64el libnsl-dev:mips64el libnsl2:mips64el libp11-kit0:mips64el libpango-1.0-0:mips64el libpangocairo-1.0-0:mips64el libpangoft2-1.0-0:mips64el libpaper-utils libpaper1 libpcre2-16-0:mips64el libpcre2-32-0:mips64el libpcre2-8-0:mips64el libpcre2-dev:mips64el libpcre2-posix3:mips64el libpipeline1 libpixman-1-0:mips64el libpng16-16 libpng16-16:mips64el libpsl5:mips64el libreadline8:mips64el librtmp1:mips64el libsasl2-2:mips64el libsasl2-modules-db:mips64el libselinux1:mips64el libsm6:mips64el libssh2-1:mips64el libssl-dev:mips64el libssl3:mips64el libstdc++-11-dev:mips64el libstdc++-12-dev-mips64el-cross libstdc++6:mips64el libstdc++6-mips64el-cross libsub-override-perl libsvm-dev:mips64el libsvm3:mips64el libtasn1-6:mips64el libtcl8.6:mips64el libtclap-dev:mips64el libthai-data libthai0:mips64el libtiff6:mips64el libtinfo6:mips64el libtirpc-dev:mips64el libtirpc3:mips64el libtk8.6:mips64el libtool libuchardet0 libunistring2:mips64el libuuid1:mips64el libwebp7:mips64el libx11-6:mips64el libx11-data libxau6:mips64el libxcb-render0:mips64el libxcb-shm0:mips64el libxcb1:mips64el libxdmcp6:mips64el libxext6:mips64el libxft2:mips64el libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libxrender1:mips64el libxss1:mips64el libxt6:mips64el libyaml-perl libzstd1:mips64el linux-libc-dev:mips64el linux-libc-dev-mips64el-cross m4 man-db openssl po-debconf r-base-core:mips64el r-mathlib:mips64el readline-common sensible-utils ucf unzip x11-common xdg-utils zip zlib1g:mips64el zlib1g-dev:mips64el 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-mips64el-linux-gnuabi64 gcc-12-doc gcc-12-multilib-mips64el-linux-gnuabi64 manpages-dev flex bison gdb-mips64el-linux-gnuabi64 gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff glibc-doc:mips64el libc-l10n:mips64el locales:mips64el libnss-nis:mips64el libnss-nisplus:mips64el manpages-dev:mips64el libcurl4-doc:mips64el libgnutls28-dev:mips64el libidn-dev:mips64el libkrb5-dev:mips64el libldap2-dev:mips64el librtmp-dev:mips64el libssh2-1-dev:mips64el pkg-config:mips64el low-memory-monitor:mips64el gnutls-bin:mips64el krb5-doc:mips64el krb5-user:mips64el liblzma-doc:mips64el cryptsetup-bin:mips64el libssl-doc:mips64el libstdc++-11-doc:mips64el tcl8.6:mips64el tk8.6:mips64el libtool-doc gfortran | fortran95-compiler gcj-jdk libyaml-shell-perl m4-doc apparmor less www-browser libmail-box-perl elpa-ess:mips64el r-doc-info:mips64el | r-doc-pdf:mips64el r-base-html:mips64el readline-doc Recommended packages: curl | wget | lynx bzip2-doc:mips64el libarchive-cpio-perl libglib2.0-data:mips64el shared-mime-info:mips64el xdg-user-dirs:mips64el krb5-locales:mips64el libldap-common:mips64el publicsuffix:mips64el libsasl2-modules:mips64el libltdl-dev uuid-runtime:mips64el libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl | libyaml-syck-perl libmail-sendmail-perl r-recommended:mips64el r-base-dev:mips64el r-doc-html:mips64el 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-mips64el-linux-gnuabi64 bsdextrautils ca-certificates cpp-12-mips64el-linux-gnuabi64 cpp-mips64el-linux-gnuabi64 cross-config crossbuild-essential-mips64el debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file fontconfig fontconfig-config fonts-dejavu-core g++-12-mips64el-linux-gnuabi64 g++-mips64el-linux-gnuabi64 gcc-11-base:mips64el gcc-12-base:mips64el gcc-12-cross-base-mipsen gcc-12-mips64el-linux-gnuabi64 gcc-12-mips64el-linux-gnuabi64-base gcc-mips64el-linux-gnuabi64 gettext gettext-base groff-base intltool-debian libarchive-zip-perl libatomic1:mips64el libatomic1-mips64el-cross libblas3:mips64el libblkid1:mips64el libbrotli1 libbrotli1:mips64el libbsd0:mips64el libbz2-1.0:mips64el libbz2-dev:mips64el libc6:mips64el libc6-dev:mips64el libc6-dev-mips64el-cross libc6-mips64el-cross libcairo2:mips64el libcom-err2:mips64el libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev:mips64el libcrypt1:mips64el libcurl3-gnutls:mips64el libcurl4:mips64el libcurl4-gnutls-dev:mips64el libdatrie1:mips64el libdb5.3:mips64el libdebhelper-perl libdebian-dpkgcross-perl libdeflate-dev:mips64el libdeflate0:mips64el libelf1 libexpat1 libexpat1:mips64el libffi8:mips64el libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libfontconfig1 libfontconfig1:mips64el libfreetype6 libfreetype6:mips64el libfribidi0:mips64el libgcc-11-dev:mips64el libgcc-12-dev-mips64el-cross libgcc-s1:mips64el libgcc-s1-mips64el-cross libgfortran5:mips64el libglib2.0-0:mips64el libgmp10:mips64el libgnutls30:mips64el libgomp1:mips64el libgomp1-mips64el-cross libgraphite2-3:mips64el libgssapi-krb5-2:mips64el libharfbuzz0b:mips64el libhogweed6:mips64el libhts-dev:mips64el libhts3:mips64el libhtscodecs2:mips64el libice6:mips64el libicu72 libicu72:mips64el libidn2-0:mips64el libio-string-perl libjbig0:mips64el libjpeg62-turbo:mips64el libk5crypto3:mips64el libkeyutils1:mips64el libkrb5-3:mips64el libkrb5support0:mips64el liblapack3:mips64el libldap-2.5-0:mips64el liblerc4:mips64el liblocale-gettext-perl liblzma-dev:mips64el liblzma5:mips64el libmagic-mgc libmagic1 libmd0:mips64el libmount1:mips64el libnettle8:mips64el libnghttp2-14:mips64el libnsl-dev:mips64el libnsl2:mips64el libp11-kit0:mips64el libpango-1.0-0:mips64el libpangocairo-1.0-0:mips64el libpangoft2-1.0-0:mips64el libpaper-utils libpaper1 libpcre2-16-0:mips64el libpcre2-32-0:mips64el libpcre2-8-0:mips64el libpcre2-dev:mips64el libpcre2-posix3:mips64el libpipeline1 libpixman-1-0:mips64el libpng16-16 libpng16-16:mips64el libpsl5:mips64el libreadline8:mips64el librtmp1:mips64el libsasl2-2:mips64el libsasl2-modules-db:mips64el libselinux1:mips64el libsm6:mips64el libssh2-1:mips64el libssl-dev:mips64el libssl3:mips64el libstdc++-11-dev:mips64el libstdc++-12-dev-mips64el-cross libstdc++6:mips64el libstdc++6-mips64el-cross libsub-override-perl libsvm-dev:mips64el libsvm3:mips64el libtasn1-6:mips64el libtcl8.6:mips64el libtclap-dev:mips64el libthai-data libthai0:mips64el libtiff6:mips64el libtinfo6:mips64el libtirpc-dev:mips64el libtirpc3:mips64el libtk8.6:mips64el libtool libuchardet0 libunistring2:mips64el libuuid1:mips64el libwebp7:mips64el libx11-6:mips64el libx11-data libxau6:mips64el libxcb-render0:mips64el libxcb-shm0:mips64el libxcb1:mips64el libxdmcp6:mips64el libxext6:mips64el libxft2:mips64el libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libxrender1:mips64el libxss1:mips64el libxt6:mips64el libyaml-perl libzstd1:mips64el linux-libc-dev:mips64el linux-libc-dev-mips64el-cross m4 man-db openssl po-debconf r-base-core:mips64el r-mathlib:mips64el readline-common sbuild-build-depends-main-dummy:mips64el sensible-utils ucf unzip x11-common xdg-utils zip zlib1g:mips64el zlib1g-dev:mips64el 0 upgraded, 200 newly installed, 0 to remove and 0 not upgraded. Need to get 148 MB of archives. After this operation, 520 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://localhost:3142/debian sid/main amd64 liblocale-gettext-perl amd64 1.07-5 [15.4 kB] Get:3 http://localhost:3142/debian sid/main amd64 readline-common all 8.2-1.3 [69.0 kB] Get:4 http://localhost:3142/debian sid/main amd64 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get:5 http://localhost:3142/debian sid/main amd64 openssl amd64 3.0.8-1 [1407 kB] Get:6 http://localhost:3142/debian sid/main amd64 ca-certificates all 20230311 [153 kB] Get:7 http://localhost:3142/debian sid/main amd64 libmagic-mgc amd64 1:5.44-3 [305 kB] Get:8 http://localhost:3142/debian sid/main amd64 libmagic1 amd64 1:5.44-3 [104 kB] Get:9 http://localhost:3142/debian sid/main amd64 file amd64 1:5.44-3 [42.5 kB] Get:10 http://localhost:3142/debian sid/main amd64 gettext-base amd64 0.21-12 [160 kB] Get:11 http://localhost:3142/debian sid/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get:12 http://localhost:3142/debian sid/main amd64 groff-base amd64 1.22.4-10 [916 kB] Get:13 http://localhost:3142/debian sid/main amd64 bsdextrautils amd64 2.38.1-5+b1 [86.6 kB] Get:14 http://localhost:3142/debian sid/main amd64 libpipeline1 amd64 1.5.7-1 [38.5 kB] Get:15 http://localhost:3142/debian sid/main amd64 man-db amd64 2.11.2-2 [1386 kB] Get:16 http://localhost:3142/debian sid/main amd64 ucf all 3.0043+nmu1 [55.2 kB] Get:17 http://localhost:3142/debian sid/main amd64 m4 amd64 1.4.19-3 [287 kB] Get:18 http://localhost:3142/debian sid/main amd64 autoconf all 2.71-3 [332 kB] Get:19 http://localhost:3142/debian sid/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get:20 http://localhost:3142/debian sid/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get:21 http://localhost:3142/debian sid/main amd64 autopoint all 0.21-12 [495 kB] Get:22 http://localhost:3142/debian sid/main amd64 binutils-mips64el-linux-gnuabi64 amd64 2.40-2cross2 [2798 kB] Get:23 http://localhost:3142/debian sid/main amd64 gcc-12-mips64el-linux-gnuabi64-base amd64 12.2.0-14cross5 [37.7 kB] Get:24 http://localhost:3142/debian sid/main amd64 cpp-12-mips64el-linux-gnuabi64 amd64 12.2.0-14cross5 [8093 kB] Get:25 http://localhost:3142/debian sid/main amd64 cpp-mips64el-linux-gnuabi64 amd64 4:12.2.0-4 [3296 B] Get:26 http://localhost:3142/debian sid/main amd64 cross-config all 2.6.20 [16.3 kB] Get:27 http://localhost:3142/debian sid/main amd64 gcc-12-cross-base-mipsen all 12.2.0-14cross5 [33.3 kB] Get:28 http://localhost:3142/debian sid/main amd64 libc6-mips64el-cross all 2.36-8cross2 [1057 kB] Get:29 http://localhost:3142/debian sid/main amd64 libgcc-s1-mips64el-cross all 12.2.0-14cross5 [70.9 kB] Get:30 http://localhost:3142/debian sid/main amd64 libgomp1-mips64el-cross all 12.2.0-14cross5 [102 kB] Get:31 http://localhost:3142/debian sid/main amd64 libatomic1-mips64el-cross all 12.2.0-14cross5 [7172 B] Get:32 http://localhost:3142/debian sid/main amd64 libgcc-12-dev-mips64el-cross all 12.2.0-14cross5 [294 kB] Get:33 http://localhost:3142/debian sid/main amd64 gcc-12-mips64el-linux-gnuabi64 amd64 12.2.0-14cross5 [15.9 MB] Get:34 http://localhost:3142/debian sid/main amd64 gcc-mips64el-linux-gnuabi64 amd64 4:12.2.0-4 [1480 B] Get:35 http://localhost:3142/debian sid/main amd64 libstdc++6-mips64el-cross all 12.2.0-14cross5 [504 kB] Get:36 http://localhost:3142/debian sid/main amd64 linux-libc-dev-mips64el-cross all 6.1.8-1cross2 [1837 kB] Get:37 http://localhost:3142/debian sid/main amd64 libc6-dev-mips64el-cross all 2.36-8cross2 [1572 kB] Get:38 http://localhost:3142/debian sid/main amd64 libstdc++-12-dev-mips64el-cross all 12.2.0-14cross5 [2065 kB] Get:39 http://localhost:3142/debian sid/main amd64 g++-12-mips64el-linux-gnuabi64 amd64 12.2.0-14cross5 [9008 kB] Get:40 http://localhost:3142/debian sid/main amd64 g++-mips64el-linux-gnuabi64 amd64 4:12.2.0-4 [1188 B] Get:41 http://localhost:3142/debian sid/main amd64 libconfig-inifiles-perl all 3.000003-2 [45.9 kB] Get:42 http://localhost:3142/debian sid/main amd64 libio-string-perl all 1.08-4 [12.1 kB] Get:43 http://localhost:3142/debian sid/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get:44 http://localhost:3142/debian sid/main amd64 libxml2 amd64 2.9.14+dfsg-1.2 [687 kB] Get:45 http://localhost:3142/debian sid/main amd64 libxml-namespacesupport-perl all 1.12-2 [15.1 kB] Get:46 http://localhost:3142/debian sid/main amd64 libxml-sax-base-perl all 1.09-3 [20.6 kB] Get:47 http://localhost:3142/debian sid/main amd64 libxml-sax-perl all 1.02+dfsg-3 [59.4 kB] Get:48 http://localhost:3142/debian sid/main amd64 libxml-libxml-perl amd64 2.0207+dfsg+really+2.0134-1+b1 [322 kB] Get:49 http://localhost:3142/debian sid/main amd64 libxml-simple-perl all 2.25-2 [69.8 kB] Get:50 http://localhost:3142/debian sid/main amd64 libyaml-perl all 1.30-2 [63.4 kB] Get:51 http://localhost:3142/debian sid/main amd64 libconfig-auto-perl all 0.44-2 [19.2 kB] Get:52 http://localhost:3142/debian sid/main amd64 libfile-which-perl all 1.27-2 [15.1 kB] Get:53 http://localhost:3142/debian sid/main amd64 libfile-homedir-perl all 1.006-2 [42.4 kB] Get:54 http://localhost:3142/debian sid/main amd64 libdebian-dpkgcross-perl all 2.6.20 [15.3 kB] Get:55 http://localhost:3142/debian sid/main amd64 dpkg-cross all 2.6.20 [25.8 kB] Get:56 http://localhost:3142/debian sid/main amd64 crossbuild-essential-mips64el all 12.9 [6740 B] Get:57 http://localhost:3142/debian sid/main amd64 libdebhelper-perl all 13.11.4 [81.2 kB] Get:58 http://localhost:3142/debian sid/main amd64 libtool all 2.4.7-5 [517 kB] Get:59 http://localhost:3142/debian sid/main amd64 dh-autoreconf all 20 [17.1 kB] Get:60 http://localhost:3142/debian sid/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:61 http://localhost:3142/debian sid/main amd64 libsub-override-perl all 0.09-4 [9304 B] Get:62 http://localhost:3142/debian sid/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get:63 http://localhost:3142/debian sid/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get:64 http://localhost:3142/debian sid/main amd64 libelf1 amd64 0.188-2.1 [174 kB] Get:65 http://localhost:3142/debian sid/main amd64 dwz amd64 0.15-1 [109 kB] Get:66 http://localhost:3142/debian sid/main amd64 gettext amd64 0.21-12 [1300 kB] Get:67 http://localhost:3142/debian sid/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:68 http://localhost:3142/debian sid/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get:69 http://localhost:3142/debian sid/main amd64 debhelper all 13.11.4 [942 kB] Get:70 http://localhost:3142/debian sid/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get:71 http://localhost:3142/debian sid/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get:72 http://localhost:3142/debian sid/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB] Get:73 http://localhost:3142/debian sid/main amd64 libfreetype6 amd64 2.12.1+dfsg-4 [399 kB] Get:74 http://localhost:3142/debian sid/main amd64 fonts-dejavu-core all 2.37-6 [1068 kB] Get:75 http://localhost:3142/debian sid/main amd64 fontconfig-config amd64 2.14.1-4 [315 kB] Get:76 http://localhost:3142/debian sid/main amd64 libfontconfig1 amd64 2.14.1-4 [386 kB] Get:77 http://localhost:3142/debian sid/main amd64 fontconfig amd64 2.14.1-4 [449 kB] Get:78 http://localhost:3142/debian sid/main mips64el gcc-11-base mips64el 11.3.0-12 [38.4 kB] Get:79 http://localhost:3142/debian sid/main mips64el gcc-12-base mips64el 12.2.0-14 [37.5 kB] Get:80 http://localhost:3142/debian sid/main mips64el libgcc-s1 mips64el 12.2.0-14 [70.5 kB] Get:81 http://localhost:3142/debian sid/main mips64el libc6 mips64el 2.36-9 [2376 kB] Get:82 http://localhost:3142/debian sid/main mips64el libatomic1 mips64el 12.2.0-14 [7444 B] Get:83 http://localhost:3142/debian sid/main mips64el libblas3 mips64el 3.11.0-2 [101 kB] Get:84 http://localhost:3142/debian sid/main mips64el libblkid1 mips64el 2.38.1-5+b1 [137 kB] Get:85 http://localhost:3142/debian sid/main mips64el libbrotli1 mips64el 1.0.9-2+b6 [291 kB] Get:86 http://localhost:3142/debian sid/main mips64el libmd0 mips64el 1.0.4-2 [29.2 kB] Get:87 http://localhost:3142/debian sid/main mips64el libbsd0 mips64el 0.11.7-4 [113 kB] Get:88 http://localhost:3142/debian sid/main mips64el libbz2-1.0 mips64el 1.0.8-5+b1 [48.8 kB] Get:89 http://localhost:3142/debian sid/main mips64el linux-libc-dev mips64el 6.1.20-2 [1745 kB] Get:90 http://localhost:3142/debian sid/main mips64el libcrypt1 mips64el 1:4.4.33-2 [94.0 kB] Get:91 http://localhost:3142/debian sid/main mips64el libcrypt-dev mips64el 1:4.4.33-2 [127 kB] Get:92 http://localhost:3142/debian sid/main mips64el libcom-err2 mips64el 1.47.0-2 [19.6 kB] Get:93 http://localhost:3142/debian sid/main mips64el libkrb5support0 mips64el 1.20.1-1+b1 [30.4 kB] Get:94 http://localhost:3142/debian sid/main mips64el libk5crypto3 mips64el 1.20.1-1+b1 [85.5 kB] Get:95 http://localhost:3142/debian sid/main mips64el libkeyutils1 mips64el 1.6.3-2 [8432 B] Get:96 http://localhost:3142/debian sid/main mips64el libssl3 mips64el 3.0.8-1 [1486 kB] Get:97 http://localhost:3142/debian sid/main mips64el libkrb5-3 mips64el 1.20.1-1+b1 [296 kB] Get:98 http://localhost:3142/debian sid/main mips64el libgssapi-krb5-2 mips64el 1.20.1-1+b1 [117 kB] Get:99 http://localhost:3142/debian sid/main mips64el libtirpc3 mips64el 1.3.3+ds-1 [74.9 kB] Get:100 http://localhost:3142/debian sid/main mips64el libnsl2 mips64el 1.3.0-2 [35.5 kB] Get:101 http://localhost:3142/debian sid/main mips64el libtirpc-dev mips64el 1.3.3+ds-1 [200 kB] Get:102 http://localhost:3142/debian sid/main mips64el libnsl-dev mips64el 1.3.0-2 [70.3 kB] Get:103 http://localhost:3142/debian sid/main mips64el libc6-dev mips64el 2.36-9 [1576 kB] Get:104 http://localhost:3142/debian sid/main mips64el libbz2-dev mips64el 1.0.8-5+b1 [33.9 kB] Get:105 http://localhost:3142/debian sid/main mips64el libexpat1 mips64el 2.5.0-1 [96.3 kB] Get:106 http://localhost:3142/debian sid/main mips64el zlib1g mips64el 1:1.2.13.dfsg-1 [77.9 kB] Get:107 http://localhost:3142/debian sid/main mips64el libpng16-16 mips64el 1.6.39-2 [269 kB] Get:108 http://localhost:3142/debian sid/main mips64el libfreetype6 mips64el 2.12.1+dfsg-4 [374 kB] Get:109 http://localhost:3142/debian sid/main mips64el libfontconfig1 mips64el 2.14.1-4 [384 kB] Get:110 http://localhost:3142/debian sid/main mips64el libpixman-1-0 mips64el 0.42.2-1 [479 kB] Get:111 http://localhost:3142/debian sid/main mips64el libxau6 mips64el 1:1.0.9-1 [19.6 kB] Get:112 http://localhost:3142/debian sid/main mips64el libxdmcp6 mips64el 1:1.1.2-3 [26.1 kB] Get:113 http://localhost:3142/debian sid/main mips64el libxcb1 mips64el 1.15-1 [136 kB] Get:114 http://localhost:3142/debian sid/main amd64 libx11-data all 2:1.8.4-2 [292 kB] Get:115 http://localhost:3142/debian sid/main mips64el libx11-6 mips64el 2:1.8.4-2 [711 kB] Get:116 http://localhost:3142/debian sid/main mips64el libxcb-render0 mips64el 1.15-1 [113 kB] Get:117 http://localhost:3142/debian sid/main mips64el libxcb-shm0 mips64el 1.15-1 [105 kB] Get:118 http://localhost:3142/debian sid/main mips64el libxext6 mips64el 2:1.3.4-1+b1 [49.6 kB] Get:119 http://localhost:3142/debian sid/main mips64el libxrender1 mips64el 1:0.9.10-1.1 [31.9 kB] Get:120 http://localhost:3142/debian sid/main mips64el libcairo2 mips64el 1.16.0-7 [528 kB] Get:121 http://localhost:3142/debian sid/main mips64el libgmp10 mips64el 2:6.2.1+dfsg1-1.1 [551 kB] Get:122 http://localhost:3142/debian sid/main mips64el libnettle8 mips64el 3.8.1-2 [295 kB] Get:123 http://localhost:3142/debian sid/main mips64el libhogweed6 mips64el 3.8.1-2 [320 kB] Get:124 http://localhost:3142/debian sid/main mips64el libunistring2 mips64el 1.0-2 [417 kB] Get:125 http://localhost:3142/debian sid/main mips64el libidn2-0 mips64el 2.3.3-1+b1 [122 kB] Get:126 http://localhost:3142/debian sid/main mips64el libffi8 mips64el 3.4.4-1 [23.2 kB] Get:127 http://localhost:3142/debian sid/main mips64el libp11-kit0 mips64el 0.24.1-2 [283 kB] Get:128 http://localhost:3142/debian sid/main mips64el libtasn1-6 mips64el 4.19.0-2 [54.1 kB] Get:129 http://localhost:3142/debian sid/main mips64el libgnutls30 mips64el 3.7.9-2 [1228 kB] Get:130 http://localhost:3142/debian sid/main mips64el libdb5.3 mips64el 5.3.28+dfsg2-1 [605 kB] Get:131 http://localhost:3142/debian sid/main mips64el libsasl2-modules-db mips64el 2.1.28+dfsg-11 [19.5 kB] Get:132 http://localhost:3142/debian sid/main mips64el libsasl2-2 mips64el 2.1.28+dfsg-11 [54.5 kB] Get:133 http://localhost:3142/debian sid/main mips64el libldap-2.5-0 mips64el 2.5.13+dfsg-5 [159 kB] Get:134 http://localhost:3142/debian sid/main mips64el libnghttp2-14 mips64el 1.52.0-1 [66.8 kB] Get:135 http://localhost:3142/debian sid/main mips64el libpsl5 mips64el 0.21.2-1 [58.4 kB] Get:136 http://localhost:3142/debian sid/main mips64el librtmp1 mips64el 2.4+20151223.gitfa8646d.1-2+b2 [56.0 kB] Get:137 http://localhost:3142/debian sid/main mips64el libssh2-1 mips64el 1.10.0-3+b1 [170 kB] Get:138 http://localhost:3142/debian sid/main mips64el libzstd1 mips64el 1.5.4+dfsg2-5 [280 kB] Get:139 http://localhost:3142/debian sid/main mips64el libcurl3-gnutls mips64el 7.88.1-9 [350 kB] Get:140 http://localhost:3142/debian sid/main mips64el libcurl4 mips64el 7.88.1-9 [355 kB] Get:141 http://localhost:3142/debian sid/main mips64el libcurl4-gnutls-dev mips64el 7.88.1-9 [494 kB] Get:142 http://localhost:3142/debian sid/main mips64el libdatrie1 mips64el 0.2.13-2+b1 [42.7 kB] Get:143 http://localhost:3142/debian sid/main mips64el libdeflate0 mips64el 1.14-1 [49.3 kB] Get:144 http://localhost:3142/debian sid/main mips64el libdeflate-dev mips64el 1.14-1 [49.5 kB] Get:145 http://localhost:3142/debian sid/main mips64el libfribidi0 mips64el 1.0.8-2.1 [65.6 kB] Get:146 http://localhost:3142/debian sid/main mips64el libgomp1 mips64el 12.2.0-14 [104 kB] Get:147 http://localhost:3142/debian sid/main mips64el libgcc-11-dev mips64el 11.3.0-12 [281 kB] Get:148 http://localhost:3142/debian sid/main mips64el libgfortran5 mips64el 12.2.0-14 [315 kB] Get:149 http://localhost:3142/debian sid/main mips64el libpcre2-8-0 mips64el 10.42-1 [248 kB] Get:150 http://localhost:3142/debian sid/main mips64el libselinux1 mips64el 3.4-1+b5 [63.2 kB] Get:151 http://localhost:3142/debian sid/main mips64el libmount1 mips64el 2.38.1-5+b1 [145 kB] Get:152 http://localhost:3142/debian sid/main mips64el libglib2.0-0 mips64el 2.74.6-2 [1187 kB] Get:153 http://localhost:3142/debian sid/main mips64el libgraphite2-3 mips64el 1.3.14-1 [77.5 kB] Get:154 http://localhost:3142/debian sid/main mips64el libharfbuzz0b mips64el 6.0.0+dfsg-3 [1925 kB] Get:155 http://localhost:3142/debian sid/main mips64el libhtscodecs2 mips64el 1.3.0-4 [69.0 kB] Get:156 http://localhost:3142/debian sid/main mips64el liblzma5 mips64el 5.4.1-0.2 [201 kB] Get:157 http://localhost:3142/debian sid/main mips64el libhts3 mips64el 1.16+ds-3 [387 kB] Get:158 http://localhost:3142/debian sid/main mips64el liblzma-dev mips64el 5.4.1-0.2 [263 kB] Get:159 http://localhost:3142/debian sid/main mips64el zlib1g-dev mips64el 1:1.2.13.dfsg-1 [909 kB] Get:160 http://localhost:3142/debian sid/main mips64el libhts-dev mips64el 1.16+ds-3 [1627 kB] Get:161 http://localhost:3142/debian sid/main amd64 x11-common all 1:7.7+23 [252 kB] Get:162 http://localhost:3142/debian sid/main mips64el libice6 mips64el 2:1.0.10-1 [53.0 kB] Get:163 http://localhost:3142/debian sid/main mips64el libstdc++6 mips64el 12.2.0-14 [546 kB] Get:164 http://localhost:3142/debian sid/main mips64el libicu72 mips64el 72.1-3 [9227 kB] Get:165 http://localhost:3142/debian sid/main mips64el libjbig0 mips64el 2.1-6.1 [30.6 kB] Get:166 http://localhost:3142/debian sid/main mips64el libjpeg62-turbo mips64el 1:2.1.5-2 [163 kB] Get:167 http://localhost:3142/debian sid/main mips64el liblapack3 mips64el 3.11.0-2 [1605 kB] Get:168 http://localhost:3142/debian sid/main mips64el liblerc4 mips64el 4.0.0+ds-2 [155 kB] Get:169 http://localhost:3142/debian sid/main amd64 libthai-data all 0.1.29-1 [176 kB] Get:170 http://localhost:3142/debian sid/main mips64el libthai0 mips64el 0.1.29-1 [56.3 kB] Get:171 http://localhost:3142/debian sid/main mips64el libpango-1.0-0 mips64el 1.50.12+ds-1 [199 kB] Get:172 http://localhost:3142/debian sid/main mips64el libpangoft2-1.0-0 mips64el 1.50.12+ds-1 [43.7 kB] Get:173 http://localhost:3142/debian sid/main mips64el libpangocairo-1.0-0 mips64el 1.50.12+ds-1 [31.7 kB] Get:174 http://localhost:3142/debian sid/main amd64 libpaper1 amd64 1.1.29 [12.5 kB] Get:175 http://localhost:3142/debian sid/main amd64 libpaper-utils amd64 1.1.29 [8868 B] Get:176 http://localhost:3142/debian sid/main mips64el libpcre2-16-0 mips64el 10.42-1 [230 kB] Get:177 http://localhost:3142/debian sid/main mips64el libpcre2-32-0 mips64el 10.42-1 [220 kB] Get:178 http://localhost:3142/debian sid/main mips64el libpcre2-posix3 mips64el 10.42-1 [55.4 kB] Get:179 http://localhost:3142/debian sid/main mips64el libpcre2-dev mips64el 10.42-1 [744 kB] Get:180 http://localhost:3142/debian sid/main mips64el libtinfo6 mips64el 6.4-2 [323 kB] Get:181 http://localhost:3142/debian sid/main mips64el libreadline8 mips64el 8.2-1.3 [146 kB] Get:182 http://localhost:3142/debian sid/main mips64el libuuid1 mips64el 2.38.1-5+b1 [28.9 kB] Get:183 http://localhost:3142/debian sid/main mips64el libsm6 mips64el 2:1.2.3-1 [33.6 kB] Get:184 http://localhost:3142/debian sid/main mips64el libssl-dev mips64el 3.0.8-1 [2300 kB] Get:185 http://localhost:3142/debian sid/main mips64el libstdc++-11-dev mips64el 11.3.0-12 [2004 kB] Get:186 http://localhost:3142/debian sid/main mips64el libsvm3 mips64el 3.24+ds-6 [43.1 kB] Get:187 http://localhost:3142/debian sid/main mips64el libsvm-dev mips64el 3.24+ds-6 [67.2 kB] Get:188 http://localhost:3142/debian sid/main mips64el libtcl8.6 mips64el 8.6.13+dfsg-2 [940 kB] Get:189 http://localhost:3142/debian sid/main mips64el libtclap-dev mips64el 1.2.5-1+b1 [3359 kB] Get:190 http://localhost:3142/debian sid/main mips64el libwebp7 mips64el 1.2.4-0.1 [246 kB] Get:191 http://localhost:3142/debian sid/main mips64el libtiff6 mips64el 4.5.0-5 [297 kB] Get:192 http://localhost:3142/debian sid/main mips64el libxft2 mips64el 2.3.6-1 [58.1 kB] Get:193 http://localhost:3142/debian sid/main mips64el libxss1 mips64el 1:1.2.3-1 [17.7 kB] Get:194 http://localhost:3142/debian sid/main mips64el libtk8.6 mips64el 8.6.13-2 [714 kB] Get:195 http://localhost:3142/debian sid/main mips64el libxt6 mips64el 1:1.2.1-1.1 [161 kB] Get:196 http://localhost:3142/debian sid/main amd64 zip amd64 3.0-13 [230 kB] Get:197 http://localhost:3142/debian sid/main amd64 unzip amd64 6.0-28 [166 kB] Get:198 http://localhost:3142/debian sid/main amd64 xdg-utils all 1.1.3-4.1 [75.5 kB] Get:199 http://localhost:3142/debian sid/main mips64el r-base-core mips64el 4.2.2.20221110-2 [25.6 MB] Get:200 http://localhost:3142/debian sid/main mips64el r-mathlib mips64el 4.2.2.20221110-2 [2296 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 148 MB in 1s (186 MB/s) Selecting previously unselected package liblocale-gettext-perl. (Reading database ... 15279 files and directories currently installed.) Preparing to unpack .../000-liblocale-gettext-perl_1.07-5_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-5) ... Selecting previously unselected package readline-common. Preparing to unpack .../001-readline-common_8.2-1.3_all.deb ... Unpacking readline-common (8.2-1.3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../002-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package openssl. Preparing to unpack .../003-openssl_3.0.8-1_amd64.deb ... Unpacking openssl (3.0.8-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../004-ca-certificates_20230311_all.deb ... Unpacking ca-certificates (20230311) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../005-libmagic-mgc_1%3a5.44-3_amd64.deb ... Unpacking libmagic-mgc (1:5.44-3) ... 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Setting up libconfig-inifiles-perl (3.000003-2) ... Setting up libexpat1:amd64 (2.5.0-1) ... Setting up libpipeline1:amd64 (1.5.7-1) ... Setting up gcc-11-base:mips64el (11.3.0-12) ... Setting up libfile-which-perl (1.27-2) ... Setting up libicu72:amd64 (72.1-3) ... Setting up bsdextrautils (2.38.1-5+b1) ... Setting up libmagic-mgc (1:5.44-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up unzip (6.0-28) ... Setting up libdebhelper-perl (13.11.4) ... Setting up libbrotli1:amd64 (1.0.9-2+b6) ... 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:amd64 (1:5.44-3) ... Setting up gcc-12-cross-base-mipsen (12.2.0-14cross5) ... Setting up linux-libc-dev:mips64el (6.1.20-2) ... Setting up libc6-mips64el-cross (2.36-8cross2) ... Setting up libxml-namespacesupport-perl (1.12-2) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up file (1:5.44-3) ... Setting up libyaml-perl (1.30-2) ... Setting up binutils-mips64el-linux-gnuabi64 (2.40-2cross2) ... Setting up gcc-12-base:mips64el (12.2.0-14) ... Setting up libxml-sax-base-perl (1.09-3) ... Setting up libio-string-perl (1.08-4) ... Setting up zip (3.0-13) ... Setting up autotools-dev (20220109.1) ... Setting up cross-config (2.6.20) ... Setting up libx11-data (2:1.8.4-2) ... Setting up libpng16-16:amd64 (1.6.39-2) ... Setting up autopoint (0.21-12) ... Setting up fonts-dejavu-core (2.37-6) ... Setting up autoconf (2.71-3) ... Setting up libtclap-dev:mips64el (1.2.5-1+b1) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libsub-override-perl (0.09-4) ... Setting up libthai-data (0.1.29-1) ... Setting up linux-libc-dev-mips64el-cross (6.1.8-1cross2) ... Setting up gcc-12-mips64el-linux-gnuabi64-base:amd64 (12.2.0-14cross5) ... Setting up cpp-12-mips64el-linux-gnuabi64 (12.2.0-14cross5) ... Setting up libfile-homedir-perl (1.006-2) ... Setting up cpp-mips64el-linux-gnuabi64 (4:12.2.0-4) ... Setting up libgomp1-mips64el-cross (12.2.0-14cross5) ... Setting up openssl (3.0.8-1) ... Setting up libgcc-s1-mips64el-cross (12.2.0-14cross5) ... Setting up libelf1:amd64 (0.188-2.1) ... Setting up readline-common (8.2-1.3) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.2) ... 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 (1.07-5) ... 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 (1.13.1-1) ... Setting up gettext (0.21-12) ... Setting up libatomic1-mips64el-cross (12.2.0-14cross5) ... Setting up libtool (2.4.7-5) ... Setting up fontconfig-config (2.14.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 140 added, 0 removed; done. Setting up libfreetype6:amd64 (2.12.1+dfsg-4) ... Setting up libc6-dev-mips64el-cross (2.36-8cross2) ... Setting up ucf (3.0043+nmu1) ... Setting up libstdc++6-mips64el-cross (12.2.0-14cross5) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.22.4-10) ... Setting up libfontconfig1:amd64 (2.14.1-4) ... Setting up libpaper1:amd64 (1.1.29) ... Creating config file /etc/papersize with new version Setting up fontconfig (2.14.1-4) ... Regenerating fonts cache... done. Setting up libgcc-12-dev-mips64el-cross (12.2.0-14cross5) ... Setting up gcc-12-mips64el-linux-gnuabi64 (12.2.0-14cross5) ... Setting up libstdc++-12-dev-mips64el-cross (12.2.0-14cross5) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up g++-12-mips64el-linux-gnuabi64 (12.2.0-14cross5) ... Setting up libpaper-utils (1.1.29) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libxml-sax-perl (1.02+dfsg-3) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up gcc-mips64el-linux-gnuabi64 (4:12.2.0-4) ... Setting up libxml-libxml-perl (2.0207+dfsg+really+2.0134-1+b1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up g++-mips64el-linux-gnuabi64 (4:12.2.0-4) ... Setting up debhelper (13.11.4) ... Setting up libxml-simple-perl (2.25-2) ... Setting up libconfig-auto-perl (0.44-2) ... Setting up libdebian-dpkgcross-perl (2.6.20) ... Setting up dpkg-cross (2.6.20) ... Setting up crossbuild-essential-mips64el (12.9) ... Setting up libgcc-s1:mips64el (12.2.0-14) ... Setting up libc6:mips64el (2.36-9) ... Setting up libwebp7:mips64el (1.2.4-0.1) ... Setting up libffi8:mips64el (3.4.4-1) ... Setting up libmd0:mips64el (1.0.4-2) ... Setting up libtasn1-6:mips64el (4.19.0-2) ... Setting up r-mathlib:mips64el (4.2.2.20221110-2) ... Setting up libbz2-1.0:mips64el (1.0.8-5+b1) ... Setting up libbsd0:mips64el (0.11.7-4) ... Setting up libdb5.3:mips64el (5.3.28+dfsg2-1) ... Setting up libblkid1:mips64el (2.38.1-5+b1) ... Setting up libstdc++6:mips64el (12.2.0-14) ... Setting up libsvm3:mips64el (3.24+ds-6) ... Setting up libtinfo6:mips64el (6.4-2) ... Setting up libhtscodecs2:mips64el (1.3.0-4) ... Setting up libexpat1:mips64el (2.5.0-1) ... Setting up libgraphite2-3:mips64el (1.3.14-1) ... Setting up libpixman-1-0:mips64el (0.42.2-1) ... Setting up libzstd1:mips64el (1.5.4+dfsg2-5) ... Setting up libice6:mips64el (2:1.0.10-1) ... Setting up libxau6:mips64el (1:1.0.9-1) ... Setting up libxdmcp6:mips64el (1:1.1.2-3) ... Setting up libkeyutils1:mips64el (1.6.3-2) ... Setting up libxcb1:mips64el (1.15-1) ... Setting up libicu72:mips64el (72.1-3) ... Setting up liblerc4:mips64el (4.0.0+ds-2) ... Setting up liblzma5:mips64el (5.4.1-0.2) ... Setting up libdatrie1:mips64el (0.2.13-2+b1) ... Setting up libxcb-render0:mips64el (1.15-1) ... Setting up libbrotli1:mips64el (1.0.9-2+b6) ... Setting up libreadline8:mips64el (8.2-1.3) ... Setting up libssl3:mips64el (3.0.8-1) ... Setting up libnghttp2-14:mips64el (1.52.0-1) ... Setting up libunistring2:mips64el (1.0-2) ... Setting up libdeflate0:mips64el (1.14-1) ... Setting up zlib1g:mips64el (1:1.2.13.dfsg-1) ... Setting up libcrypt1:mips64el (1:4.4.33-2) ... Setting up libidn2-0:mips64el (2.3.3-1+b1) ... Setting up libxcb-shm0:mips64el (1.15-1) ... Setting up libcom-err2:mips64el (1.47.0-2) ... Setting up libgomp1:mips64el (12.2.0-14) ... Setting up libjbig0:mips64el (2.1-6.1) ... Setting up libpcre2-16-0:mips64el (10.42-1) ... Setting up libkrb5support0:mips64el (1.20.1-1+b1) ... Setting up libsasl2-modules-db:mips64el (2.1.28+dfsg-11) ... Setting up libthai0:mips64el (0.1.29-1) ... Setting up libpcre2-32-0:mips64el (10.42-1) ... Setting up libblas3:mips64el (3.11.0-2) ... update-alternatives: using /usr/lib/mips64el-linux-gnuabi64/blas/libblas.so.3 to provide /usr/lib/mips64el-linux-gnuabi64/libblas.so.3 (libblas.so.3-mips64el-linux-gnuabi64) in auto mode Setting up libjpeg62-turbo:mips64el (1:2.1.5-2) ... Setting up libnettle8:mips64el (3.8.1-2) ... Setting up libgmp10:mips64el (2:6.2.1+dfsg1-1.1) ... Setting up libfribidi0:mips64el (1.0.8-2.1) ... Setting up libp11-kit0:mips64el (0.24.1-2) ... Setting up libssl-dev:mips64el (3.0.8-1) ... Setting up libpng16-16:mips64el (1.6.39-2) ... Setting up libsvm-dev:mips64el (3.24+ds-6) ... Setting up libatomic1:mips64el (12.2.0-14) ... Setting up libuuid1:mips64el (2.38.1-5+b1) ... Setting up libtcl8.6:mips64el (8.6.13+dfsg-2) ... Setting up libpcre2-8-0:mips64el (10.42-1) ... Setting up libk5crypto3:mips64el (1.20.1-1+b1) ... Setting up libsasl2-2:mips64el (2.1.28+dfsg-11) ... Setting up libgfortran5:mips64el (12.2.0-14) ... Setting up liblzma-dev:mips64el (5.4.1-0.2) ... Setting up libpcre2-posix3:mips64el (10.42-1) ... Setting up libgcc-11-dev:mips64el (11.3.0-12) ... Setting up libcrypt-dev:mips64el (1:4.4.33-2) ... Setting up libtiff6:mips64el (4.5.0-5) ... Setting up libx11-6:mips64el (2:1.8.4-2) ... Setting up libssh2-1:mips64el (1.10.0-3+b1) ... Setting up libkrb5-3:mips64el (1.20.1-1+b1) ... Setting up libdeflate-dev:mips64el (1.14-1) ... Setting up libsm6:mips64el (2:1.2.3-1) ... Setting up liblapack3:mips64el (3.11.0-2) ... update-alternatives: using /usr/lib/mips64el-linux-gnuabi64/lapack/liblapack.so.3 to provide /usr/lib/mips64el-linux-gnuabi64/liblapack.so.3 (liblapack.so.3-mips64el-linux-gnuabi64) in auto mode Setting up libpsl5:mips64el (0.21.2-1) ... Setting up libhogweed6:mips64el (3.8.1-2) ... Setting up libxrender1:mips64el (1:0.9.10-1.1) ... Setting up libxext6:mips64el (2:1.3.4-1+b1) ... Setting up libselinux1:mips64el (3.4-1+b5) ... Setting up libgnutls30:mips64el (3.7.9-2) ... Setting up libfreetype6:mips64el (2.12.1+dfsg-4) ... Setting up librtmp1:mips64el (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libgssapi-krb5-2:mips64el (1.20.1-1+b1) ... Setting up libxt6:mips64el (1:1.2.1-1.1) ... Setting up libmount1:mips64el (2.38.1-5+b1) ... Setting up libxss1:mips64el (1:1.2.3-1) ... Setting up libfontconfig1:mips64el (2.14.1-4) ... Setting up libtirpc3:mips64el (1.3.3+ds-1) ... Setting up libxft2:mips64el (2.3.6-1) ... Setting up libglib2.0-0:mips64el (2.74.6-2) ... /var/lib/dpkg/info/libglib2.0-0:mips64el.postinst: 42: /usr/lib/mips64el-linux-gnuabi64/glib-2.0/glib-compile-schemas: Exec format error /var/lib/dpkg/info/libglib2.0-0:mips64el.postinst: 43: /usr/lib/mips64el-linux-gnuabi64/glib-2.0/gio-querymodules: Exec format error Setting up libtk8.6:mips64el (8.6.13-2) ... Setting up libcairo2:mips64el (1.16.0-7) ... Setting up libldap-2.5-0:mips64el (2.5.13+dfsg-5) ... Setting up libtirpc-dev:mips64el (1.3.3+ds-1) ... Setting up libnsl2:mips64el (1.3.0-2) ... Setting up libcurl4:mips64el (7.88.1-9) ... Setting up libharfbuzz0b:mips64el (6.0.0+dfsg-3) ... Setting up libpango-1.0-0:mips64el (1.50.12+ds-1) ... Setting up libcurl3-gnutls:mips64el (7.88.1-9) ... Setting up libcurl4-gnutls-dev:mips64el (7.88.1-9) ... Setting up libnsl-dev:mips64el (1.3.0-2) ... Setting up libc6-dev:mips64el (2.36-9) ... Setting up libpangoft2-1.0-0:mips64el (1.50.12+ds-1) ... Setting up libpangocairo-1.0-0:mips64el (1.50.12+ds-1) ... Setting up libbz2-dev:mips64el (1.0.8-5+b1) ... Setting up libhts3:mips64el (1.16+ds-3) ... Setting up libpcre2-dev:mips64el (10.42-1) ... Setting up r-base-core:mips64el (4.2.2.20221110-2) ... Creating config file /etc/R/Renviron with new version Setting up libstdc++-11-dev:mips64el (11.3.0-12) ... Setting up zlib1g-dev:mips64el (1:1.2.13.dfsg-1) ... Setting up libhts-dev:mips64el (1.16+ds-3) ... Setting up sbuild-build-depends-main-dummy:mips64el (0.invalid.0) ... Processing triggers for libc-bin (2.36-9) ... Processing triggers for ca-certificates (20230311) ... 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 (mips64el included in any all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.10.0-21-amd64 #1 SMP Debian 5.10.162-1 (2023-01-21) amd64 (x86_64) Toolchain package versions: binutils_2.40-2 dpkg-dev_1.21.21 g++-11_11.3.0-12 g++-12_12.2.0-14 gcc-11_11.3.0-12 gcc-12_12.2.0-14 libc6-dev_2.36-9 libstdc++-11-dev_11.3.0-12 libstdc++-12-dev_12.2.0-14 libstdc++-12-dev-mips64el-cross_12.2.0-14cross5 libstdc++6_12.2.0-14 libstdc++6-mips64el-cross_12.2.0-14cross5 linux-libc-dev_6.1.20-2 Package versions: adduser_3.132 apt_2.6.0 autoconf_2.71-3 automake_1:1.16.5-1.3 autopoint_0.21-12 autotools-dev_20220109.1 base-files_12.4 base-passwd_3.6.1 bash_5.2.15-2+b1 binutils_2.40-2 binutils-common_2.40-2 binutils-mips64el-linux-gnuabi64_2.40-2cross2 binutils-x86-64-linux-gnu_2.40-2 bsdextrautils_2.38.1-5+b1 bsdutils_1:2.38.1-5+b1 build-essential_12.9 bzip2_1.0.8-5+b1 ca-certificates_20230311 coreutils_9.1-1 cpp_4:12.2.0-3 cpp-11_11.3.0-12 cpp-12_12.2.0-14 cpp-12-mips64el-linux-gnuabi64_12.2.0-14cross5 cpp-mips64el-linux-gnuabi64_4:12.2.0-4 cross-config_2.6.20 crossbuild-essential-mips64el_12.9 dash_0.5.12-2 debconf_1.5.82 debhelper_13.11.4 debian-archive-keyring_2023.3 debianutils_5.7-0.4 dh-autoreconf_20 dh-strip-nondeterminism_1.13.1-1 diffutils_1:3.8-4 dpkg_1.21.21 dpkg-cross_2.6.20 dpkg-dev_1.21.21 dwz_0.15-1 e2fsprogs_1.47.0-2 fakeroot_1.31-1.2 file_1:5.44-3 findutils_4.9.0-4 fontconfig_2.14.1-4 fontconfig-config_2.14.1-4 fonts-dejavu-core_2.37-6 g++_4:12.2.0-3 g++-11_11.3.0-12 g++-12_12.2.0-14 g++-12-mips64el-linux-gnuabi64_12.2.0-14cross5 g++-mips64el-linux-gnuabi64_4:12.2.0-4 gcc_4:12.2.0-3 gcc-11_11.3.0-12 gcc-11-base_11.3.0-12 gcc-12_12.2.0-14 gcc-12-base_12.2.0-14 gcc-12-cross-base-mipsen_12.2.0-14cross5 gcc-12-mips64el-linux-gnuabi64_12.2.0-14cross5 gcc-12-mips64el-linux-gnuabi64-base_12.2.0-14cross5 gcc-9-base_9.5.0-3 gcc-mips64el-linux-gnuabi64_4:12.2.0-4 gettext_0.21-12 gettext-base_0.21-12 gpgv_2.2.40-1.1 grep_3.8-5 groff-base_1.22.4-10 gzip_1.12-1 hostname_3.23+nmu1 init-system-helpers_1.65.2 intltool-debian_0.35.0+20060710.6 libacl1_2.3.1-3 libapt-pkg6.0_2.6.0 libarchive-zip-perl_1.68-1 libasan6_11.3.0-12 libasan8_12.2.0-14 libatomic1_12.2.0-14 libatomic1-mips64el-cross_12.2.0-14cross5 libattr1_1:2.5.1-4 libaudit-common_1:3.0.9-1 libaudit1_1:3.0.9-1 libbinutils_2.40-2 libblas3_3.11.0-2 libblkid1_2.38.1-5+b1 libbrotli1_1.0.9-2+b6 libbsd0_0.11.7-4 libbz2-1.0_1.0.8-5+b1 libbz2-dev_1.0.8-5+b1 libc-bin_2.36-9 libc-dev-bin_2.36-9 libc6_2.36-9 libc6-dev_2.36-9 libc6-dev-mips64el-cross_2.36-8cross2 libc6-mips64el-cross_2.36-8cross2 libcairo2_1.16.0-7 libcap-ng0_0.8.3-1+b3 libcap2_1:2.66-3 libcc1-0_12.2.0-14 libcom-err2_1.47.0-2 libconfig-auto-perl_0.44-2 libconfig-inifiles-perl_3.000003-2 libcrypt-dev_1:4.4.33-2 libcrypt1_1:4.4.33-2 libctf-nobfd0_2.40-2 libctf0_2.40-2 libcurl3-gnutls_7.88.1-9 libcurl4_7.88.1-9 libcurl4-gnutls-dev_7.88.1-9 libdatrie1_0.2.13-2+b1 libdb5.3_5.3.28+dfsg2-1 libdebconfclient0_0.268 libdebhelper-perl_13.11.4 libdebian-dpkgcross-perl_2.6.20 libdeflate-dev_1.14-1 libdeflate0_1.14-1 libdpkg-perl_1.21.21 libelf1_0.188-2.1 libexpat1_2.5.0-1 libext2fs2_1.47.0-2 libfakeroot_1.31-1.2 libffi8_3.4.4-1 libfile-find-rule-perl_0.34-3 libfile-homedir-perl_1.006-2 libfile-stripnondeterminism-perl_1.13.1-1 libfile-which-perl_1.27-2 libfontconfig1_2.14.1-4 libfreetype6_2.12.1+dfsg-4 libfribidi0_1.0.8-2.1 libgcc-11-dev_11.3.0-12 libgcc-12-dev_12.2.0-14 libgcc-12-dev-mips64el-cross_12.2.0-14cross5 libgcc-s1_12.2.0-14 libgcc-s1-mips64el-cross_12.2.0-14cross5 libgcrypt20_1.10.1-3 libgdbm-compat4_1.23-3 libgdbm6_1.23-3 libgfortran5_12.2.0-14 libglib2.0-0_2.74.6-2 libgmp10_2:6.2.1+dfsg1-1.1 libgnutls30_3.7.9-2 libgomp1_12.2.0-14 libgomp1-mips64el-cross_12.2.0-14cross5 libgpg-error0_1.46-1 libgprofng0_2.40-2 libgraphite2-3_1.3.14-1 libgssapi-krb5-2_1.20.1-1+b1 libharfbuzz0b_6.0.0+dfsg-3 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 libicu72_72.1-3 libidn2-0_2.3.3-1+b1 libio-string-perl_1.08-4 libisl23_0.25-1 libitm1_12.2.0-14 libjansson4_2.14-2 libjbig0_2.1-6.1 libjpeg62-turbo_1:2.1.5-2 libk5crypto3_1.20.1-1+b1 libkeyutils1_1.6.3-2 libkrb5-3_1.20.1-1+b1 libkrb5support0_1.20.1-1+b1 liblapack3_3.11.0-2 libldap-2.5-0_2.5.13+dfsg-5 liblerc4_4.0.0+ds-2 liblocale-gettext-perl_1.07-5 liblsan0_12.2.0-14 liblz4-1_1.9.4-1 liblzma-dev_5.4.1-0.2 liblzma5_5.4.1-0.2 libmagic-mgc_1:5.44-3 libmagic1_1:5.44-3 libmd0_1.0.4-2 libmount1_2.38.1-5+b1 libmpc3_1.3.1-1 libmpfr6_4.2.0-1 libnettle8_3.8.1-2 libnghttp2-14_1.52.0-1 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libnumber-compare-perl_0.03-3 libp11-kit0_0.24.1-2 libpam-modules_1.5.2-6 libpam-modules-bin_1.5.2-6 libpam-runtime_1.5.2-6 libpam0g_1.5.2-6 libpango-1.0-0_1.50.12+ds-1 libpangocairo-1.0-0_1.50.12+ds-1 libpangoft2-1.0-0_1.50.12+ds-1 libpaper-utils_1.1.29 libpaper1_1.1.29 libpcre2-16-0_10.42-1 libpcre2-32-0_10.42-1 libpcre2-8-0_10.42-1 libpcre2-dev_10.42-1 libpcre2-posix3_10.42-1 libpcre3_2:8.39-15 libperl5.34_5.34.0-5 libperl5.36_5.36.0-7 libpipeline1_1.5.7-1 libpixman-1-0_0.42.2-1 libpng16-16_1.6.39-2 libpsl5_0.21.2-1 libquadmath0_12.2.0-14 libreadline8_8.2-1.3 librtmp1_2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2_2.1.28+dfsg-11 libsasl2-modules-db_2.1.28+dfsg-11 libseccomp2_2.5.4-1+b3 libselinux1_3.4-1+b5 libsemanage-common_3.4-1 libsemanage2_3.4-1+b5 libsepol2_3.4-2 libsm6_2:1.2.3-1 libsmartcols1_2.38.1-5+b1 libss2_1.47.0-2 libssh2-1_1.10.0-3+b1 libssl-dev_3.0.8-1 libssl3_3.0.8-1 libstdc++-11-dev_11.3.0-12 libstdc++-12-dev_12.2.0-14 libstdc++-12-dev-mips64el-cross_12.2.0-14cross5 libstdc++6_12.2.0-14 libstdc++6-mips64el-cross_12.2.0-14cross5 libsub-override-perl_0.09-4 libsvm-dev_3.24+ds-6 libsvm3_3.24+ds-6 libsystemd0_252.6-1 libtasn1-6_4.19.0-2 libtcl8.6_8.6.13+dfsg-2 libtclap-dev_1.2.5-1+b1 libtext-glob-perl_0.11-3 libthai-data_0.1.29-1 libthai0_0.1.29-1 libtiff6_4.5.0-5 libtinfo6_6.4-2 libtirpc-common_1.3.3+ds-1 libtirpc-dev_1.3.3+ds-1 libtirpc3_1.3.3+ds-1 libtk8.6_8.6.13-2 libtool_2.4.7-5 libtsan0_11.3.0-12 libtsan2_12.2.0-14 libubsan1_12.2.0-14 libuchardet0_0.0.7-1 libudev1_252.6-1 libunistring2_1.0-2 libuuid1_2.38.1-5+b1 libwebp7_1.2.4-0.1 libx11-6_2:1.8.4-2 libx11-data_2:1.8.4-2 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 libxml-libxml-perl_2.0207+dfsg+really+2.0134-1+b1 libxml-namespacesupport-perl_1.12-2 libxml-sax-base-perl_1.09-3 libxml-sax-perl_1.02+dfsg-3 libxml-simple-perl_2.25-2 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+------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED 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 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0001-updated-faidx_fetch_uc_seq.patch dpkg-source: info: applying 0002-hts-1.11.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf CONFIG_SITE=/etc/dpkg-cross/cross-config.mips64el DEB_BUILD_OPTIONS=nocheck HOME=/sbuild-nonexistent LANG=en_US.UTF-8 LC_ALL=C.UTF-8 LOGNAME=crossqa PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=unstable-amd64-sbuild SCHROOT_CHROOT_NAME=sid-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1000 SCHROOT_GROUP=crossqa SCHROOT_SESSION_ID=sid-amd64-sbuild-3b3b3670-6bed-4d4d-89c1-775724b88eb5 SCHROOT_UID=1000 SCHROOT_USER=crossqa SHELL=/bin/sh USER=crossqa dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -amips64el -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 mips64el-linux-gnuabi64 does not match CC system type x86_64-linux-gnu, try setting a correct CC environment variable dpkg-source --before-build . dpkg-buildpackage: info: host architecture mips64el 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=mips64el-linux-gnuabi64-pkg-config CXX=mips64el-linux-gnuabi64-g\+\+ CC=mips64el-linux-gnuabi64-gcc make[1]: Entering directory '/<>' mips64el-linux-gnuabi64-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; | ^~~ mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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()); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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; | ^~~ mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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}; mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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); | ~~~~~~~~~~~~^~~~~~~~~~ mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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}; mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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); | ~~~~~~~~~~~~^~~ mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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; | ^~~ mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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); | ~~~~~~~~~~~~^~~~~~~~~~ mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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); | ~~~~~~~~~~~~^~~~~~~~~~ mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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); | ~~~~~~~~~~~~^~~~~~~~~~ mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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}; mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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; | ^~~ mips64el-linux-gnuabi64-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; | ^~~ mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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 mips64el-linux-gnuabi64-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_mips64el.deb'. dpkg-deb: building package 'vt-dbgsym' in '../vt-dbgsym_0.57721+ds-3_mips64el.deb'. dpkg-genbuildinfo --build=any -O../vt_0.57721+ds-3_mips64el.buildinfo dpkg-genchanges --build=any -O../vt_0.57721+ds-3_mips64el.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 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autotools-dev (= 20220109.1), base-files (= 12.4), base-passwd (= 3.6.1), bash (= 5.2.15-2+b1), binutils (= 2.40-2), binutils-common (= 2.40-2), binutils-x86-64-linux-gnu (= 2.40-2), bsdextrautils (= 2.38.1-5+b1), bsdutils (= 1:2.38.1-5+b1), build-essential (= 12.9), bzip2 (= 1.0.8-5+b1), ca-certificates (= 20230311), coreutils (= 9.1-1), cpp (= 4:12.2.0-3), cpp-11 (= 11.3.0-12), cpp-12 (= 12.2.0-14), dash (= 0.5.12-2), debconf (= 1.5.82), debhelper (= 13.11.4), debianutils (= 5.7-0.4), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.13.1-1), diffutils (= 1:3.8-4), dpkg (= 1.21.21), dpkg-dev (= 1.21.21), dwz (= 0.15-1), file (= 1:5.44-3), findutils (= 4.9.0-4), fontconfig (= 2.14.1-4), fontconfig-config (= 2.14.1-4), fonts-dejavu-core (= 2.37-6), g++ (= 4:12.2.0-3), g++-12 (= 12.2.0-14), gcc (= 4:12.2.0-3), gcc-11 (= 11.3.0-12), gcc-11-base (= 11.3.0-12), gcc-12 (= 12.2.0-14), gcc-12-base (= 12.2.0-14), gettext (= 0.21-12), gettext-base (= 0.21-12), grep (= 3.8-5), groff-base (= 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libdebhelper-perl (= 13.11.4), libdeflate-dev (= 1.14-1), libdeflate0 (= 1.14-1), libdpkg-perl (= 1.21.21), libelf1 (= 0.188-2.1), libexpat1 (= 2.5.0-1), libffi8 (= 3.4.4-1), libfile-find-rule-perl (= 0.34-3), libfile-stripnondeterminism-perl (= 1.13.1-1), libfontconfig1 (= 2.14.1-4), libfreetype6 (= 2.12.1+dfsg-4), libfribidi0 (= 1.0.8-2.1), libgcc-11-dev (= 11.3.0-12), libgcc-12-dev (= 12.2.0-14), libgcc-s1 (= 12.2.0-14), libgcrypt20 (= 1.10.1-3), libgdbm-compat4 (= 1.23-3), libgdbm6 (= 1.23-3), libgfortran5 (= 12.2.0-14), libglib2.0-0 (= 2.74.6-2), libgmp10 (= 2:6.2.1+dfsg1-1.1), libgnutls30 (= 3.7.9-2), libgomp1 (= 12.2.0-14), libgpg-error0 (= 1.46-1), libgprofng0 (= 2.40-2), libgraphite2-3 (= 1.3.14-1), libgssapi-krb5-2 (= 1.20.1-1+b1), libharfbuzz0b (= 6.0.0+dfsg-3), 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), libicu72 (= 72.1-3), libidn2-0 (= 2.3.3-1+b1), libisl23 (= 0.25-1), libitm1 (= 12.2.0-14), libjansson4 (= 2.14-2), libjbig0 (= 2.1-6.1), libjpeg62-turbo (= 1:2.1.5-2), libk5crypto3 (= 1.20.1-1+b1), libkeyutils1 (= 1.6.3-2), libkrb5-3 (= 1.20.1-1+b1), libkrb5support0 (= 1.20.1-1+b1), liblapack3 (= 3.11.0-2), libldap-2.5-0 (= 2.5.13+dfsg-5), liblerc4 (= 4.0.0+ds-2), liblsan0 (= 12.2.0-14), liblz4-1 (= 1.9.4-1), liblzma-dev (= 5.4.1-0.2), liblzma5 (= 5.4.1-0.2), libmagic-mgc (= 1:5.44-3), libmagic1 (= 1:5.44-3), libmd0 (= 1.0.4-2), libmount1 (= 2.38.1-5+b1), libmpc3 (= 1.3.1-1), libmpfr6 (= 4.2.0-1), libnettle8 (= 3.8.1-2), libnghttp2-14 (= 1.52.0-1), libnsl-dev (= 1.3.0-2), libnsl2 (= 1.3.0-2), libnumber-compare-perl (= 0.03-3), libp11-kit0 (= 0.24.1-2), libpam-modules (= 1.5.2-6), libpam-modules-bin (= 1.5.2-6), libpam-runtime (= 1.5.2-6), libpam0g (= 1.5.2-6), libpango-1.0-0 (= 1.50.12+ds-1), libpangocairo-1.0-0 (= 1.50.12+ds-1), libpangoft2-1.0-0 (= 1.50.12+ds-1), libpaper-utils (= 1.1.29), libpaper1 (= 1.1.29), libpcre2-16-0 (= 10.42-1), libpcre2-32-0 (= 10.42-1), libpcre2-8-0 (= 10.42-1), libpcre2-dev (= 10.42-1), libpcre2-posix3 (= 10.42-1), libperl5.36 (= 5.36.0-7), libpipeline1 (= 1.5.7-1), libpixman-1-0 (= 0.42.2-1), libpng16-16 (= 1.6.39-2), libpsl5 (= 0.21.2-1), libquadmath0 (= 12.2.0-14), libreadline8 (= 8.2-1.3), librtmp1 (= 2.4+20151223.gitfa8646d.1-2+b2), libsasl2-2 (= 2.1.28+dfsg-11), libsasl2-modules-db (= 2.1.28+dfsg-11), libseccomp2 (= 2.5.4-1+b3), libselinux1 (= 3.4-1+b5), libsm6 (= 2:1.2.3-1), libsmartcols1 (= 2.38.1-5+b1), libssh2-1 (= 1.10.0-3+b1), libssl-dev (= 3.0.8-1), libssl3 (= 3.0.8-1), libstdc++-12-dev (= 12.2.0-14), libstdc++6 (= 12.2.0-14), libsub-override-perl (= 0.09-4), libsvm-dev (= 3.24+ds-6), libsvm3 (= 3.24+ds-6), libsystemd0 (= 252.6-1), libtasn1-6 (= 4.19.0-2), libtcl8.6 (= 8.6.13+dfsg-2), libtclap-dev (= 1.2.5-1+b1), libtext-glob-perl (= 0.11-3), libthai-data (= 0.1.29-1), libthai0 (= 0.1.29-1), libtiff6 (= 4.5.0-5), libtinfo6 (= 6.4-2), libtirpc-common (= 1.3.3+ds-1), libtirpc-dev (= 1.3.3+ds-1), libtirpc3 (= 1.3.3+ds-1), libtk8.6 (= 8.6.13-2), libtool (= 2.4.7-5), libtsan0 (= 11.3.0-12), libtsan2 (= 12.2.0-14), libubsan1 (= 12.2.0-14), libuchardet0 (= 0.0.7-1), libudev1 (= 252.6-1), libunistring2 (= 1.0-2), libuuid1 (= 2.38.1-5+b1), libwebp7 (= 1.2.4-0.1), libx11-6 (= 2:1.8.4-2), libx11-data (= 2:1.8.4-2), 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-1.2), libxrender1 (= 1:0.9.10-1.1), libxss1 (= 1:1.2.3-1), libxt6 (= 1:1.2.1-1.1), libzstd1 (= 1.5.4+dfsg2-5), linux-libc-dev (= 6.1.20-2), login (= 1:4.13+dfsg1-1+b1), m4 (= 1.4.19-3), make (= 4.3-4.1), man-db (= 2.11.2-2), mawk (= 1.3.4.20200120-3.1), ncurses-base (= 6.4-2), ncurses-bin (= 6.4-2), openssl (= 3.0.8-1), patch (= 2.7.6-7), perl (= 5.36.0-7), perl-base (= 5.36.0-7), perl-modules-5.36 (= 5.36.0-7), po-debconf (= 1.0.21+nmu1), r-base-core (= 4.2.2.20221110-2), r-mathlib (= 4.2.2.20221110-2), readline-common (= 8.2-1.3), rpcsvc-proto (= 1.4.3-1), sed (= 4.9-1), sensible-utils (= 0.0.17+nmu1), sysvinit-utils (= 3.06-4), tar (= 1.34+dfsg-1.2), tzdata (= 2023c-3), ucf (= 3.0043+nmu1), unzip (= 6.0-28), usrmerge (= 35), util-linux (= 2.38.1-5+b1), util-linux-extra (= 2.38.1-5+b1), x11-common (= 1:7.7+23), xdg-utils (= 1.1.3-4.1), xz-utils (= 5.4.1-0.2), zip (= 3.0-13), zlib1g (= 1:1.2.13.dfsg-1), zlib1g-dev (= 1:1.2.13.dfsg-1) Environment: DEB_BUILD_OPTIONS="nocheck parallel=1" DEB_BUILD_PROFILES="cross nocheck" LANG="en_US.UTF-8" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1604910580" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ vt-dbgsym_0.57721+ds-3_mips64el.deb ----------------------------------- new Debian package, version 2.0. size 32325956 bytes: control archive=536 bytes. 365 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: mips64el Maintainer: Debian Med Packaging Team Installed-Size: 32818 Depends: vt (= 0.57721+ds-3) Section: debug Priority: optional Description: debug symbols for vt Build-Ids: ebf448cf1a4b45addbd56dda6bfc9fd5edd96ca4 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/eb/ -rw-r--r-- root/root 33594376 2020-11-09 08:29 ./usr/lib/debug/.build-id/eb/f448cf1a4b45addbd56dda6bfc9fd5edd96ca4.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_mips64el.deb ---------------------------- new Debian package, version 2.0. size 592152 bytes: control archive=916 bytes. 824 bytes, 17 lines control 301 bytes, 5 lines md5sums Package: vt Version: 0.57721+ds-3 Architecture: mips64el Maintainer: Debian Med Packaging Team Installed-Size: 3442 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 3509760 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:amd64 Filtered Build-Depends: lintian:amd64 dpkg-deb: building package 'sbuild-build-depends-lintian-dummy' in '/<>/apt_archive/sbuild-build-depends-lintian-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [963 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [604 B] Get:5 copy:/<>/apt_archive ./ Packages [687 B] Fetched 2254 B in 0s (0 B/s) Reading package lists... Reading package lists... Install lintian build dependencies (apt-based resolver) ------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: diffstat gpg gpgconf iso-codes libaliased-perl libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libberkeleydb-perl libcapture-tiny-perl libcgi-pm-perl libclass-data-inheritable-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libconst-fast-perl libcpanel-json-xs-perl libdata-dpath-perl libdata-messagepack-perl libdata-optlist-perl libdata-validate-domain-perl libdata-validate-ip-perl libdata-validate-uri-perl libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libencode-locale-perl libexception-class-perl libfile-basedir-perl libfile-listing-perl libfont-ttf-perl libhtml-form-perl libhtml-html5-entities-perl libhtml-parser-perl libhtml-tagset-perl libhtml-tokeparser-simple-perl libhtml-tree-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libimport-into-perl libio-html-perl libio-interactive-perl libio-socket-ssl-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl liblist-compare-perl liblist-someutils-perl liblist-utilsby-perl liblwp-mediatypes-perl liblwp-protocol-https-perl liblz1 liblzo2-2 libmarkdown2 libmldbm-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnet-http-perl libnet-ipv6addr-perl libnet-netmask-perl libnet-ssleay-perl libnetaddr-ip-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libperlio-utf8-strict-perl libproc-processtable-perl libreadline8 libregexp-ipv6-perl libregexp-wildcards-perl librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsort-versions-perl libsqlite3-0 libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libsyntax-keyword-try-perl libterm-readkey-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libwww-mechanize-perl libwww-perl libwww-robotrules-perl libxs-parse-keyword-perl libyaml-0-2 libyaml-libyaml-perl lintian lzop netbase 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 libxstring-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 libfile-basedir-perl libfile-listing-perl libfont-ttf-perl libhtml-form-perl libhtml-html5-entities-perl libhtml-parser-perl libhtml-tagset-perl libhtml-tokeparser-simple-perl libhtml-tree-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libimport-into-perl libio-html-perl libio-interactive-perl libio-socket-ssl-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl liblist-compare-perl liblist-someutils-perl liblist-utilsby-perl liblwp-mediatypes-perl liblwp-protocol-https-perl liblz1 liblzo2-2 libmarkdown2 libmldbm-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnet-http-perl libnet-ipv6addr-perl libnet-netmask-perl libnet-ssleay-perl libnetaddr-ip-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libperlio-utf8-strict-perl libproc-processtable-perl libreadline8 libregexp-ipv6-perl libregexp-wildcards-perl librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsort-versions-perl libsqlite3-0 libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libsyntax-keyword-try-perl libterm-readkey-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libwww-mechanize-perl libwww-perl libwww-robotrules-perl libxs-parse-keyword-perl libyaml-0-2 libyaml-libyaml-perl lintian lzop netbase patchutils perl-openssl-defaults plzip sbuild-build-depends-lintian-dummy:mips64el t1utils 0 upgraded, 123 newly installed, 0 to remove and 0 not upgraded. Need to get 11.9 MB of archives. After this operation, 48.1 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-lintian-dummy 0.invalid.0 [856 B] Get:2 http://localhost:3142/debian sid/main amd64 netbase all 6.4 [12.8 kB] Get:3 http://localhost:3142/debian sid/main amd64 diffstat amd64 1.65-1 [33.3 kB] Get:4 http://localhost:3142/debian sid/main amd64 libassuan0 amd64 2.5.5-5 [48.5 kB] Get:5 http://localhost:3142/debian sid/main amd64 libreadline8 amd64 8.2-1.3 [166 kB] Get:6 http://localhost:3142/debian sid/main amd64 gpgconf amd64 2.2.40-1.1 [564 kB] Get:7 http://localhost:3142/debian sid/main amd64 libsqlite3-0 amd64 3.40.1-2 [837 kB] Get:8 http://localhost:3142/debian sid/main amd64 gpg amd64 2.2.40-1.1 [949 kB] Get:9 http://localhost:3142/debian sid/main amd64 iso-codes all 4.13.0-1 [2899 kB] Get:10 http://localhost:3142/debian sid/main amd64 libaliased-perl all 0.34-3 [13.5 kB] Get:11 http://localhost:3142/debian sid/main amd64 libapt-pkg-perl amd64 0.1.40+b2 [69.2 kB] Get:12 http://localhost:3142/debian sid/main amd64 libb-hooks-op-check-perl amd64 0.22-2+b1 [10.5 kB] Get:13 http://localhost:3142/debian sid/main amd64 libdynaloader-functions-perl all 0.003-3 [12.7 kB] Get:14 http://localhost:3142/debian sid/main amd64 libdevel-callchecker-perl amd64 0.008-2 [15.8 kB] Get:15 http://localhost:3142/debian sid/main amd64 libparams-classify-perl amd64 0.015-2+b1 [23.1 kB] Get:16 http://localhost:3142/debian sid/main amd64 libmodule-runtime-perl all 0.016-2 [19.6 kB] Get:17 http://localhost:3142/debian sid/main amd64 libtry-tiny-perl all 0.31-2 [22.6 kB] Get:18 http://localhost:3142/debian sid/main amd64 libmodule-implementation-perl all 0.09-2 [12.6 kB] Get:19 http://localhost:3142/debian sid/main amd64 libsub-exporter-progressive-perl all 0.001013-3 [7496 B] Get:20 http://localhost:3142/debian sid/main amd64 libvariable-magic-perl amd64 0.63-1+b1 [44.0 kB] Get:21 http://localhost:3142/debian sid/main amd64 libb-hooks-endofscope-perl all 0.26-1 [19.6 kB] Get:22 http://localhost:3142/debian sid/main amd64 libberkeleydb-perl amd64 0.64-2+b1 [123 kB] Get:23 http://localhost:3142/debian sid/main amd64 libcapture-tiny-perl all 0.48-2 [24.6 kB] Get:24 http://localhost:3142/debian sid/main amd64 libhtml-tagset-perl all 3.20-6 [11.7 kB] Get:25 http://localhost:3142/debian sid/main amd64 libregexp-ipv6-perl all 0.03-3 [5212 B] Get:26 http://localhost:3142/debian sid/main amd64 liburi-perl all 5.17-1 [90.4 kB] Get:27 http://localhost:3142/debian sid/main amd64 libhtml-parser-perl amd64 3.81-1 [101 kB] Get:28 http://localhost:3142/debian sid/main amd64 libcgi-pm-perl all 4.55-1 [220 kB] Get:29 http://localhost:3142/debian sid/main amd64 libclass-data-inheritable-perl all 0.08-3 [8588 B] Get:30 http://localhost:3142/debian sid/main amd64 libclass-method-modifiers-perl all 2.14-1 [18.1 kB] Get:31 http://localhost:3142/debian sid/main amd64 libclass-xsaccessor-perl amd64 1.19-4+b1 [36.4 kB] Get:32 http://localhost:3142/debian sid/main amd64 libclone-perl amd64 0.46-1 [13.7 kB] Get:33 http://localhost:3142/debian sid/main amd64 libconfig-tiny-perl all 2.28-2 [16.4 kB] Get:34 http://localhost:3142/debian sid/main amd64 libparams-util-perl amd64 1.102-2+b1 [24.8 kB] Get:35 http://localhost:3142/debian sid/main amd64 libsub-install-perl all 0.929-1 [10.5 kB] Get:36 http://localhost:3142/debian sid/main amd64 libdata-optlist-perl all 0.113-1 [10.6 kB] Get:37 http://localhost:3142/debian sid/main amd64 libsub-exporter-perl all 0.989-1 [50.5 kB] Get:38 http://localhost:3142/debian sid/main amd64 libconst-fast-perl all 0.014-2 [8792 B] Get:39 http://localhost:3142/debian sid/main amd64 libcpanel-json-xs-perl amd64 4.35-1 [131 kB] Get:40 http://localhost:3142/debian sid/main amd64 libdevel-stacktrace-perl all 2.0400-2 [26.8 kB] Get:41 http://localhost:3142/debian sid/main amd64 libexception-class-perl all 1.45-1 [34.6 kB] Get:42 http://localhost:3142/debian sid/main amd64 libiterator-perl all 0.03+ds1-2 [18.8 kB] Get:43 http://localhost:3142/debian sid/main amd64 libiterator-util-perl all 0.02+ds1-2 [14.0 kB] Get:44 http://localhost:3142/debian sid/main amd64 libdata-dpath-perl all 0.58-2 [43.6 kB] Get:45 http://localhost:3142/debian sid/main amd64 libdata-messagepack-perl amd64 1.02-1+b1 [35.2 kB] Get:46 http://localhost:3142/debian sid/main amd64 libnet-domain-tld-perl all 1.75-3 [31.9 kB] Get:47 http://localhost:3142/debian sid/main amd64 libdata-validate-domain-perl all 0.10-1.1 [11.1 kB] Get:48 http://localhost:3142/debian sid/main amd64 libnet-ipv6addr-perl all 1.02-1 [21.7 kB] Get:49 http://localhost:3142/debian sid/main amd64 libnet-netmask-perl all 2.0002-2 [28.6 kB] Get:50 http://localhost:3142/debian sid/main amd64 libnetaddr-ip-perl amd64 4.079+dfsg-2+b1 [99.5 kB] Get:51 http://localhost:3142/debian sid/main amd64 libdata-validate-ip-perl all 0.31-1 [20.6 kB] Get:52 http://localhost:3142/debian sid/main amd64 libdata-validate-uri-perl all 0.07-2 [11.2 kB] Get:53 http://localhost:3142/debian sid/main amd64 libdevel-size-perl amd64 0.83-2+b1 [24.3 kB] Get:54 http://localhost:3142/debian sid/main amd64 libemail-address-xs-perl amd64 1.05-1+b1 [29.4 kB] Get:55 http://localhost:3142/debian sid/main amd64 libencode-locale-perl all 1.05-3 [12.9 kB] Get:56 http://localhost:3142/debian sid/main amd64 libipc-system-simple-perl all 1.30-2 [26.8 kB] Get:57 http://localhost:3142/debian sid/main amd64 libfile-basedir-perl all 0.09-2 [15.1 kB] Get:58 http://localhost:3142/debian sid/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get:59 http://localhost:3142/debian sid/main amd64 libhttp-date-perl all 6.05-2 [10.5 kB] Get:60 http://localhost:3142/debian sid/main amd64 libfile-listing-perl all 6.15-1 [12.6 kB] Get:61 http://localhost:3142/debian sid/main amd64 libfont-ttf-perl all 1.06-2 [318 kB] Get:62 http://localhost:3142/debian sid/main amd64 libio-html-perl all 1.004-3 [16.2 kB] Get:63 http://localhost:3142/debian sid/main amd64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get:64 http://localhost:3142/debian sid/main amd64 libhttp-message-perl all 6.44-1 [81.7 kB] Get:65 http://localhost:3142/debian sid/main amd64 libhtml-form-perl all 6.11-1 [33.1 kB] Get:66 http://localhost:3142/debian sid/main amd64 libhtml-html5-entities-perl all 0.004-3 [21.0 kB] Get:67 http://localhost:3142/debian sid/main amd64 libhtml-tree-perl all 5.07-3 [211 kB] Get:68 http://localhost:3142/debian sid/main amd64 libhttp-cookies-perl all 6.10-1 [19.6 kB] Get:69 http://localhost:3142/debian sid/main amd64 libhttp-negotiate-perl all 6.01-2 [13.1 kB] Get:70 http://localhost:3142/debian sid/main amd64 perl-openssl-defaults amd64 7+b1 [7924 B] Get:71 http://localhost:3142/debian sid/main amd64 libnet-ssleay-perl amd64 1.92-2+b1 [317 kB] Get:72 http://localhost:3142/debian sid/main amd64 libio-socket-ssl-perl all 2.081-2 [219 kB] Get:73 http://localhost:3142/debian sid/main amd64 libnet-http-perl all 6.22-1 [25.3 kB] Get:74 http://localhost:3142/debian sid/main amd64 liblwp-protocol-https-perl all 6.10-1 [12.2 kB] Get:75 http://localhost:3142/debian sid/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get:76 http://localhost:3142/debian sid/main amd64 libwww-perl all 6.68-1 [186 kB] Get:77 http://localhost:3142/debian sid/main amd64 libhtml-tokeparser-simple-perl all 3.16-4 [39.1 kB] Get:78 http://localhost:3142/debian sid/main amd64 libimport-into-perl all 1.002005-2 [11.3 kB] Get:79 http://localhost:3142/debian sid/main amd64 libio-interactive-perl all 1.023-2 [11.0 kB] Get:80 http://localhost:3142/debian sid/main amd64 libipc-run3-perl all 0.048-3 [33.2 kB] Get:81 http://localhost:3142/debian sid/main amd64 libjson-maybexs-perl all 1.004004-1 [13.3 kB] Get:82 http://localhost:3142/debian sid/main amd64 liblist-compare-perl all 0.55-2 [65.7 kB] Get:83 http://localhost:3142/debian sid/main amd64 liblist-someutils-perl all 0.59-1 [37.1 kB] Get:84 http://localhost:3142/debian sid/main amd64 liblist-utilsby-perl all 0.12-2 [15.5 kB] Get:85 http://localhost:3142/debian sid/main amd64 liblz1 amd64 1.13-5 [37.7 kB] Get:86 http://localhost:3142/debian sid/main amd64 liblzo2-2 amd64 2.10-2 [56.9 kB] Get:87 http://localhost:3142/debian sid/main amd64 libmarkdown2 amd64 2.2.7-2 [37.0 kB] Get:88 http://localhost:3142/debian sid/main amd64 libmldbm-perl all 2.05-4 [16.8 kB] Get:89 http://localhost:3142/debian sid/main amd64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get:90 http://localhost:3142/debian sid/main amd64 libsub-quote-perl all 2.006008-1 [21.8 kB] Get:91 http://localhost:3142/debian sid/main amd64 libmoo-perl all 2.005005-1 [58.0 kB] Get:92 http://localhost:3142/debian sid/main amd64 libstrictures-perl all 2.000006-1 [18.6 kB] Get:93 http://localhost:3142/debian sid/main amd64 libmoox-aliases-perl all 0.001006-2 [7156 B] Get:94 http://localhost:3142/debian sid/main amd64 libmouse-perl amd64 2.5.10-1+b3 [170 kB] Get:95 http://localhost:3142/debian sid/main amd64 libpackage-stash-perl all 0.40-1 [22.0 kB] Get:96 http://localhost:3142/debian sid/main amd64 libsub-identify-perl amd64 0.14-3 [10.9 kB] Get:97 http://localhost:3142/debian sid/main amd64 libsub-name-perl amd64 0.26-2+b1 [12.6 kB] Get:98 http://localhost:3142/debian sid/main amd64 libnamespace-clean-perl all 0.27-2 [17.8 kB] Get:99 http://localhost:3142/debian sid/main amd64 libpath-tiny-perl all 0.144-1 [56.4 kB] Get:100 http://localhost:3142/debian sid/main amd64 libperlio-gzip-perl amd64 0.20-1+b1 [17.3 kB] Get:101 http://localhost:3142/debian sid/main amd64 libperlio-utf8-strict-perl amd64 0.010-1 [11.4 kB] Get:102 http://localhost:3142/debian sid/main amd64 libproc-processtable-perl amd64 0.634-1+b2 [43.1 kB] Get:103 http://localhost:3142/debian sid/main amd64 libregexp-wildcards-perl all 1.05-3 [14.1 kB] Get:104 http://localhost:3142/debian sid/main amd64 libsereal-decoder-perl amd64 5.003+ds-1 [99.5 kB] Get:105 http://localhost:3142/debian sid/main amd64 libsereal-encoder-perl amd64 5.003+ds-1 [102 kB] Get:106 http://localhost:3142/debian sid/main amd64 libsort-versions-perl all 1.62-3 [8928 B] Get:107 http://localhost:3142/debian sid/main amd64 libxs-parse-keyword-perl amd64 0.33-1 [58.4 kB] Get:108 http://localhost:3142/debian sid/main amd64 libsyntax-keyword-try-perl amd64 0.28-1 [28.6 kB] Get:109 http://localhost:3142/debian sid/main amd64 libterm-readkey-perl amd64 2.38-2+b1 [24.5 kB] Get:110 http://localhost:3142/debian sid/main amd64 libtext-levenshteinxs-perl amd64 0.03-5+b1 [8404 B] Get:111 http://localhost:3142/debian sid/main amd64 libtext-markdown-discount-perl amd64 0.16-1 [13.0 kB] Get:112 http://localhost:3142/debian sid/main amd64 libtext-xslate-perl amd64 3.5.9-1+b2 [198 kB] Get:113 http://localhost:3142/debian sid/main amd64 libtime-duration-perl all 1.21-2 [13.1 kB] Get:114 http://localhost:3142/debian sid/main amd64 libtime-moment-perl amd64 0.44-2+b1 [73.0 kB] Get:115 http://localhost:3142/debian sid/main amd64 libunicode-utf8-perl amd64 0.62-2 [20.2 kB] Get:116 http://localhost:3142/debian sid/main amd64 libwww-mechanize-perl all 2.16-1 [116 kB] Get:117 http://localhost:3142/debian sid/main amd64 libyaml-0-2 amd64 0.2.5-1 [53.6 kB] Get:118 http://localhost:3142/debian sid/main amd64 libyaml-libyaml-perl amd64 0.86+ds-1 [34.4 kB] Get:119 http://localhost:3142/debian sid/main amd64 plzip amd64 1.10-5 [61.9 kB] Get:120 http://localhost:3142/debian sid/main amd64 lzop amd64 1.04-2 [84.2 kB] Get:121 http://localhost:3142/debian sid/main amd64 patchutils amd64 0.4.2-1 [77.5 kB] Get:122 http://localhost:3142/debian sid/main amd64 t1utils amd64 1.41-4 [62.1 kB] Get:123 http://localhost:3142/debian sid/main amd64 lintian all 2.116.3 [1130 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 11.9 MB in 0s (101 MB/s) Selecting previously unselected package netbase. (Reading database ... 26418 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_1.65-1_amd64.deb ... Unpacking diffstat (1.65-1) ... Selecting previously unselected package libassuan0:amd64. Preparing to unpack .../002-libassuan0_2.5.5-5_amd64.deb ... Unpacking libassuan0:amd64 (2.5.5-5) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../003-libreadline8_8.2-1.3_amd64.deb ... Unpacking libreadline8:amd64 (8.2-1.3) ... Selecting previously unselected package gpgconf. Preparing to unpack .../004-gpgconf_2.2.40-1.1_amd64.deb ... Unpacking gpgconf (2.2.40-1.1) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../005-libsqlite3-0_3.40.1-2_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.40.1-2) ... Selecting previously unselected package gpg. 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Selecting previously unselected package libdevel-callchecker-perl:amd64. Preparing to unpack .../012-libdevel-callchecker-perl_0.008-2_amd64.deb ... Unpacking libdevel-callchecker-perl:amd64 (0.008-2) ... Selecting previously unselected package libparams-classify-perl:amd64. Preparing to unpack .../013-libparams-classify-perl_0.015-2+b1_amd64.deb ... Unpacking libparams-classify-perl:amd64 (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) ... 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Unpacking libdata-messagepack-perl (1.02-1+b1) ... Selecting previously unselected package libnet-domain-tld-perl. Preparing to unpack .../044-libnet-domain-tld-perl_1.75-3_all.deb ... Unpacking libnet-domain-tld-perl (1.75-3) ... Selecting previously unselected package libdata-validate-domain-perl. Preparing to unpack .../045-libdata-validate-domain-perl_0.10-1.1_all.deb ... Unpacking libdata-validate-domain-perl (0.10-1.1) ... Selecting previously unselected package libnet-ipv6addr-perl. Preparing to unpack .../046-libnet-ipv6addr-perl_1.02-1_all.deb ... Unpacking libnet-ipv6addr-perl (1.02-1) ... Selecting previously unselected package libnet-netmask-perl. Preparing to unpack .../047-libnet-netmask-perl_2.0002-2_all.deb ... Unpacking libnet-netmask-perl (2.0002-2) ... Selecting previously unselected package libnetaddr-ip-perl. Preparing to unpack .../048-libnetaddr-ip-perl_4.079+dfsg-2+b1_amd64.deb ... Unpacking libnetaddr-ip-perl (4.079+dfsg-2+b1) ... 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Preparing to unpack .../121-lintian_2.116.3_all.deb ... Unpacking lintian (2.116.3) ... Selecting previously unselected package sbuild-build-depends-lintian-dummy:mips64el. Preparing to unpack .../122-sbuild-build-depends-lintian-dummy_0.invalid.0_mips64el.deb ... Unpacking sbuild-build-depends-lintian-dummy:mips64el (0.invalid.0) ... Setting up libapt-pkg-perl (0.1.40+b2) ... Setting up liblz1:amd64 (1.13-5) ... Setting up libberkeleydb-perl:amd64 (0.64-2+b1) ... Setting up plzip (1.10-5) ... update-alternatives: using /usr/bin/lzip.plzip to provide /usr/bin/lzip (lzip) in auto mode update-alternatives: using /usr/bin/lzip.plzip to provide /usr/bin/lzip-compressor (lzip-compressor) in auto mode update-alternatives: using /usr/bin/lzip.plzip to provide /usr/bin/lzip-decompressor (lzip-decompressor) in auto mode Setting up libunicode-utf8-perl (0.62-2) ... Setting up libmouse-perl (2.5.10-1+b3) ... Setting up libdata-messagepack-perl (1.02-1+b1) ... 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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 (5.003+ds-1) ... Setting up libmarkdown2:amd64 (2.2.7-2) ... Setting up liburi-perl (5.17-1) ... Setting up iso-codes (4.13.0-1) ... Setting up libnet-ipv6addr-perl (1.02-1) ... Setting up gpg (2.2.40-1.1) ... Setting up libdata-validate-ip-perl (0.31-1) ... Setting up libemail-address-xs-perl (1.05-1+b1) ... Setting up libnet-ssleay-perl:amd64 (1.92-2+b1) ... Setting up libhttp-date-perl (6.05-2) ... Setting up libfile-basedir-perl (0.09-2) ... Setting up libfile-listing-perl (6.15-1) ... Setting up libnet-http-perl (6.22-1) ... Setting up libtext-markdown-discount-perl (0.16-1) ... Setting up libexception-class-perl (1.45-1) ... Setting up libdevel-callchecker-perl:amd64 (0.008-2) ... Setting up libdata-validate-uri-perl (0.07-2) ... Setting up libdata-optlist-perl (0.113-1) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libhtml-parser-perl:amd64 (3.81-1) ... Setting up libio-socket-ssl-perl (2.081-2) ... Setting up libsub-exporter-perl (0.989-1) ... Setting up libhttp-message-perl (6.44-1) ... Setting up libhtml-form-perl (6.11-1) ... Setting up libiterator-perl (0.03+ds1-2) ... Setting up libhttp-negotiate-perl (6.01-2) ... Setting up libiterator-util-perl (0.02+ds1-2) ... Setting up libhttp-cookies-perl (6.10-1) ... Setting up libhtml-tree-perl (5.07-3) ... Setting up libparams-classify-perl:amd64 (0.015-2+b1) ... Setting up libcgi-pm-perl (4.55-1) ... Setting up libmodule-runtime-perl (0.016-2) ... Setting up libconst-fast-perl (0.014-2) ... Setting up libdata-dpath-perl (0.58-2) ... Setting up libmodule-implementation-perl (0.09-2) ... Setting up libpackage-stash-perl (0.40-1) ... Setting up libimport-into-perl (1.002005-2) ... Setting up libmoo-perl (2.005005-1) ... Setting up liblist-someutils-perl (0.59-1) ... Setting up libmoox-aliases-perl (0.001006-2) ... Setting up libb-hooks-endofscope-perl (0.26-1) ... Setting up libnamespace-clean-perl (0.27-2) ... Setting up libwww-perl (6.68-1) ... Setting up libhtml-tokeparser-simple-perl (3.16-4) ... Setting up libwww-mechanize-perl (2.16-1) ... Setting up liblwp-protocol-https-perl (6.10-1) ... Setting up lintian (2.116.3) ... Setting up sbuild-build-depends-lintian-dummy:mips64el (0.invalid.0) ... Processing triggers for libc-bin (2.36-9) ... Processing triggers for man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Running lintian... I: Lintian run was successful. +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any Build-Space: 538908 Build-Time: 447 Distribution: unstable Foreign Architectures: mips64el Host Architecture: mips64el Install-Time: 18 Job: vt_0.57721+ds-3 Lintian: pass Machine Architecture: amd64 Package: vt Package-Time: 476 Source-Version: 0.57721+ds-3 Space: 538908 Status: successful Version: 0.57721+ds-3 -------------------------------------------------------------------------------- Finished at 2023-04-20T21:28:56Z Build needed 00:07:56, 538908k disk space