sbuild (Debian sbuild) 0.78.1 (09 February 2019) on gcc131.bak.milne.osuosl.org +==============================================================================+ | blasr 5.3.3+dfsg-7 (mips64el) Thu, 30 Sep 2021 05:17:58 +0000 | +==============================================================================+ Package: blasr Version: 5.3.3+dfsg-7 Source Version: 5.3.3+dfsg-7 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/unstable-amd64-sbuild-58d11ac0-1592-4c03-b119-ec5b025a86cc' with '<>' I: NOTICE: Log filtering will replace 'build/blasr-tnQibe/resolver-fsoIbE' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://debian.oregonstate.edu/debian unstable InRelease [165 kB] Get:2 http://debian.oregonstate.edu/debian unstable/main Sources.diff/Index [63.6 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 Packages.diff/Index [63.6 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main Sources T-2021-09-30-0203.42-F-2021-09-29-0803.32.pdiff [101 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main Sources T-2021-09-30-0203.42-F-2021-09-29-0803.32.pdiff [101 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 Packages T-2021-09-30-0203.42-F-2021-09-29-0803.32.pdiff [124 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 Packages T-2021-09-30-0203.42-F-2021-09-29-0803.32.pdiff [124 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main mips64el Packages [8468 kB] Fetched 8986 kB in 4s (2456 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: 'blasr' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/blasr.git Please use: git clone https://salsa.debian.org/med-team/blasr.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 137 kB of source archives. Get:1 http://debian.oregonstate.edu/debian unstable/main blasr 5.3.3+dfsg-7 (dsc) [2175 B] Get:2 http://debian.oregonstate.edu/debian unstable/main blasr 5.3.3+dfsg-7 (tar) [124 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main blasr 5.3.3+dfsg-7 (diff) [10.7 kB] Fetched 137 kB in 0s (3503 kB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/blasr-tnQibe/blasr-5.3.3+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/blasr-tnQibe' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), python3:any, meson, cmake, pkg-config, libboost-dev, libhdf5-dev, zlib1g-dev, libpbseq-dev, libpbbam-dev (>= 0.18.0~), libpbdata-dev, libpbcopper-dev, libgtest-dev, libblasr-dev (>= 5.3.4+dfsg-3~), 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), python3:any, meson, cmake, pkg-config, libboost-dev, libhdf5-dev, zlib1g-dev, libpbseq-dev, libpbbam-dev (>= 0.18.0~), libpbdata-dev, libpbcopper-dev, libgtest-dev, libblasr-dev (>= 5.3.4+dfsg-3~), 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 [498 B] Get:5 copy:/<>/apt_archive ./ Packages [592 B] Fetched 2047 B in 0s (78.2 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev binutils-mips64el-linux-gnuabi64 bsdextrautils build-essential cmake cmake-data cpp-10-mips64el-linux-gnuabi64 cpp-mips64el-linux-gnuabi64 cross-config crossbuild-essential-mips64el debhelper dh-autoreconf dh-elpa-helper dh-strip-nondeterminism dpkg-cross dpkg-dev dwz emacsen-common file g++ g++-10 g++-10-mips64el-linux-gnuabi64 g++-mips64el-linux-gnuabi64 gcc-10-base:mips64el gcc-10-cross-base-mipsen gcc-10-mips64el-linux-gnuabi64 gcc-10-mips64el-linux-gnuabi64-base gcc-11-base:mips64el gcc-11-cross-base-mipsen gcc-mips64el-linux-gnuabi64 gettext gettext-base googletest groff-base hdf5-helpers:mips64el intltool-debian libaec-dev:mips64el libaec0:mips64el libarchive-zip-perl libarchive13 libatomic1:mips64el libatomic1-mips64el-cross libblasr-dev:mips64el libblasr5.3.4:mips64el libboost-dev:mips64el libboost1.74-dev:mips64el libbrotli1 libbrotli1:mips64el libbz2-1.0:mips64el libc6:mips64el libc6-dev libc6-dev:mips64el libc6-dev-mips64el-cross libc6-mips64el-cross libcom-err2:mips64el libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev libcrypt-dev:mips64el libcrypt1:mips64el libcurl3-gnutls:mips64el libcurl4 libcurl4-gnutls-dev:mips64el libdb5.3:mips64el libdebhelper-perl libdebian-dpkgcross-perl libdeflate-dev:mips64el libdeflate0:mips64el libdpkg-perl libelf1 libexpat1 libffi8:mips64el libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-10-dev:mips64el libgcc-10-dev-mips64el-cross libgcc-s1:mips64el libgcc-s1-mips64el-cross libgfortran5:mips64el libglib2.0-0 libgmp10:mips64el libgnutls30:mips64el libgomp1:mips64el libgomp1-mips64el-cross libgssapi-krb5-2:mips64el libgtest-dev:mips64el libhdf5-103-1:mips64el libhdf5-cpp-103-1:mips64el libhdf5-dev:mips64el libhdf5-fortran-102:mips64el libhdf5-hl-100:mips64el libhdf5-hl-cpp-100:mips64el libhdf5-hl-fortran-100:mips64el libhogweed6:mips64el libhts-dev:mips64el libhts3:mips64el libhtscodecs2:mips64el libicu67 libidn2-0:mips64el libio-string-perl libjpeg-dev:mips64el libjpeg62-turbo:mips64el libjpeg62-turbo-dev:mips64el libjsoncpp24 libk5crypto3:mips64el libkeyutils1:mips64el libkrb5-3:mips64el libkrb5support0:mips64el libldap-2.4-2 libldap-2.4-2:mips64el liblocale-gettext-perl liblzma-dev:mips64el liblzma5:mips64el libmagic-mgc libmagic1 libmpdec3 libncurses6 libnettle8:mips64el libnghttp2-14 libnghttp2-14:mips64el libnsl-dev libnsl-dev:mips64el libnsl2:mips64el libp11-kit0:mips64el libpbbam-dev:mips64el libpbbam1.6.0:mips64el libpbcopper-dev:mips64el libpbcopper1.8.0:mips64el libpbdata-dev:mips64el libpbihdf-dev:mips64el libpbseq-dev:mips64el libperl5.32 libpipeline1 libprocps8 libpsl5 libpsl5:mips64el libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib librhash0 librtmp1 librtmp1:mips64el libsasl2-2 libsasl2-2:mips64el libsasl2-modules-db libsasl2-modules-db:mips64el libsigsegv2 libsqlite3-0 libssh2-1 libssh2-1:mips64el libssl-dev:mips64el libssl1.1:mips64el libstdc++-10-dev libstdc++-10-dev:mips64el libstdc++-10-dev-mips64el-cross libstdc++6:mips64el libstdc++6-mips64el-cross libsub-override-perl libsz2:mips64el libtasn1-6:mips64el libtirpc-dev libtirpc-dev:mips64el libtirpc3:mips64el libtool libuchardet0 libunistring2:mips64el libuv1 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev:mips64el linux-libc-dev-mips64el-cross m4 man-db media-types meson ninja-build perl perl-modules-5.32 pkg-config po-debconf procps python3 python3-distutils python3-lib2to3 python3-minimal python3-pkg-resources python3.9 python3.9-minimal rpcsvc-proto sensible-utils ucf zlib1g:mips64el zlib1g-dev:mips64el Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc cmake-doc gcc-10-locales cpp-doc dh-make binutils-multiarch debian-keyring g++-multilib g++-10-multilib gcc-10-doc g++-10-multilib-mips64el-linux-gnuabi64 gcc-10-multilib-mips64el-linux-gnuabi64 manpages-dev flex bison gdb-mips64el-linux-gnuabi64 gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff lrzip libboost-doc:mips64el libboost1.74-doc:mips64el libboost-atomic1.74-dev:mips64el libboost-chrono1.74-dev:mips64el libboost-container1.74-dev:mips64el libboost-context1.74-dev:mips64el libboost-contract1.74-dev:mips64el libboost-coroutine1.74-dev:mips64el libboost-date-time1.74-dev:mips64el libboost-exception1.74-dev:mips64el libboost-fiber1.74-dev:mips64el libboost-filesystem1.74-dev:mips64el libboost-graph1.74-dev:mips64el libboost-graph-parallel1.74-dev:mips64el libboost-iostreams1.74-dev:mips64el libboost-locale1.74-dev:mips64el libboost-log1.74-dev:mips64el libboost-math1.74-dev:mips64el libboost-mpi1.74-dev:mips64el libboost-mpi-python1.74-dev:mips64el libboost-numpy1.74-dev:mips64el libboost-program-options1.74-dev:mips64el libboost-python1.74-dev:mips64el libboost-random1.74-dev:mips64el libboost-regex1.74-dev:mips64el libboost-serialization1.74-dev:mips64el libboost-stacktrace1.74-dev:mips64el libboost-system1.74-dev:mips64el libboost-test1.74-dev:mips64el libboost-thread1.74-dev:mips64el libboost-timer1.74-dev:mips64el libboost-type-erasure1.74-dev:mips64el libboost-wave1.74-dev:mips64el libboost1.74-tools-dev:mips64el libmpfrc++-dev:mips64el libntl-dev:mips64el libboost-nowide1.74-dev:mips64el glibc-doc:mips64el libc-l10n:mips64el locales:mips64el libnss-nis:mips64el libnss-nisplus:mips64el glibc-doc manpages-dev:mips64el libcurl4-doc:mips64el libgnutls28-dev:mips64el libidn11-dev:mips64el libkrb5-dev:mips64el libldap2-dev:mips64el librtmp-dev:mips64el libssh2-1-dev:mips64el gnupg git bzr gnutls-bin:mips64el krb5-doc:mips64el krb5-user:mips64el libhdf5-doc:mips64el liblzma-doc:mips64el libssl-doc:mips64el libstdc++-10-doc libstdc++-10-doc:mips64el libtool-doc gfortran | fortran95-compiler gcj-jdk libyaml-shell-perl m4-doc apparmor less www-browser perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl libtap-harness-archive-perl libmail-box-perl python3-doc python3-tk python3-venv python3-setuptools python3.9-venv python3.9-doc binfmt-support Recommended packages: gnupg libalgorithm-merge-perl curl | wget | lynx ca-certificates:mips64el ca-certificates libfile-fcntllock-perl libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales:mips64el libldap-common libldap-common:mips64el libgpm2 publicsuffix publicsuffix:mips64el libsasl2-modules libsasl2-modules:mips64el libltdl-dev libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl | libyaml-syck-perl netbase libmail-sendmail-perl psmisc The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-mips64el-linux-gnuabi64 bsdextrautils build-essential cmake cmake-data cpp-10-mips64el-linux-gnuabi64 cpp-mips64el-linux-gnuabi64 cross-config crossbuild-essential-mips64el debhelper dh-autoreconf dh-elpa-helper dh-strip-nondeterminism dpkg-cross dpkg-dev dwz emacsen-common file g++ g++-10 g++-10-mips64el-linux-gnuabi64 g++-mips64el-linux-gnuabi64 gcc-10-base:mips64el gcc-10-cross-base-mipsen gcc-10-mips64el-linux-gnuabi64 gcc-10-mips64el-linux-gnuabi64-base gcc-11-base:mips64el gcc-11-cross-base-mipsen gcc-mips64el-linux-gnuabi64 gettext gettext-base googletest groff-base hdf5-helpers:mips64el intltool-debian libaec-dev:mips64el libaec0:mips64el libarchive-zip-perl libarchive13 libatomic1:mips64el libatomic1-mips64el-cross libblasr-dev:mips64el libblasr5.3.4:mips64el libboost-dev:mips64el libboost1.74-dev:mips64el libbrotli1 libbrotli1:mips64el libbz2-1.0:mips64el libc6:mips64el libc6-dev libc6-dev:mips64el libc6-dev-mips64el-cross libc6-mips64el-cross libcom-err2:mips64el libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev libcrypt-dev:mips64el libcrypt1:mips64el libcurl3-gnutls:mips64el libcurl4 libcurl4-gnutls-dev:mips64el libdb5.3:mips64el libdebhelper-perl libdebian-dpkgcross-perl libdeflate-dev:mips64el libdeflate0:mips64el libdpkg-perl libelf1 libexpat1 libffi8:mips64el libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-10-dev:mips64el libgcc-10-dev-mips64el-cross libgcc-s1:mips64el libgcc-s1-mips64el-cross libgfortran5:mips64el libglib2.0-0 libgmp10:mips64el libgnutls30:mips64el libgomp1:mips64el libgomp1-mips64el-cross libgssapi-krb5-2:mips64el libgtest-dev:mips64el libhdf5-103-1:mips64el libhdf5-cpp-103-1:mips64el libhdf5-dev:mips64el libhdf5-fortran-102:mips64el libhdf5-hl-100:mips64el libhdf5-hl-cpp-100:mips64el libhdf5-hl-fortran-100:mips64el libhogweed6:mips64el libhts-dev:mips64el libhts3:mips64el libhtscodecs2:mips64el libicu67 libidn2-0:mips64el libio-string-perl libjpeg-dev:mips64el libjpeg62-turbo:mips64el libjpeg62-turbo-dev:mips64el libjsoncpp24 libk5crypto3:mips64el libkeyutils1:mips64el libkrb5-3:mips64el libkrb5support0:mips64el libldap-2.4-2 libldap-2.4-2:mips64el liblocale-gettext-perl liblzma-dev:mips64el liblzma5:mips64el libmagic-mgc libmagic1 libmpdec3 libncurses6 libnettle8:mips64el libnghttp2-14 libnghttp2-14:mips64el libnsl-dev libnsl-dev:mips64el libnsl2:mips64el libp11-kit0:mips64el libpbbam-dev:mips64el libpbbam1.6.0:mips64el libpbcopper-dev:mips64el libpbcopper1.8.0:mips64el libpbdata-dev:mips64el libpbihdf-dev:mips64el libpbseq-dev:mips64el libperl5.32 libpipeline1 libprocps8 libpsl5 libpsl5:mips64el libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib librhash0 librtmp1 librtmp1:mips64el libsasl2-2 libsasl2-2:mips64el libsasl2-modules-db libsasl2-modules-db:mips64el libsigsegv2 libsqlite3-0 libssh2-1 libssh2-1:mips64el libssl-dev:mips64el libssl1.1:mips64el libstdc++-10-dev libstdc++-10-dev:mips64el libstdc++-10-dev-mips64el-cross libstdc++6:mips64el libstdc++6-mips64el-cross libsub-override-perl libsz2:mips64el libtasn1-6:mips64el libtirpc-dev libtirpc-dev:mips64el libtirpc3:mips64el libtool libuchardet0 libunistring2:mips64el libuv1 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev:mips64el linux-libc-dev-mips64el-cross m4 man-db media-types meson ninja-build perl perl-modules-5.32 pkg-config po-debconf procps python3 python3-distutils python3-lib2to3 python3-minimal python3-pkg-resources python3.9 python3.9-minimal rpcsvc-proto sbuild-build-depends-main-dummy:mips64el sensible-utils ucf zlib1g:mips64el zlib1g-dev:mips64el 0 upgraded, 203 newly installed, 0 to remove and 0 not upgraded. Need to get 148 MB of archives. After this operation, 704 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [1020 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 bsdextrautils amd64 2.37.2-3 [143 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 groff-base amd64 1.22.4-7 [935 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 libpipeline1 amd64 1.5.3-1 [34.3 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 man-db amd64 2.9.4-2 [1354 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 perl-modules-5.32 all 5.32.1-6 [2824 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 libperl5.32 amd64 5.32.1-6 [4106 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 perl amd64 5.32.1-6 [293 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 liblocale-gettext-perl amd64 1.07-4+b1 [19.0 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 libpython3.9-minimal amd64 3.9.7-4 [804 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 libexpat1 amd64 2.4.1-2+b1 [104 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 python3.9-minimal amd64 3.9.7-4 [1963 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 python3-minimal amd64 3.9.2-3 [38.2 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 media-types all 4.0.0 [30.3 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libmpdec3 amd64 2.5.1-2 [87.8 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 libsqlite3-0 amd64 3.36.0-2 [815 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 libpython3.9-stdlib amd64 3.9.7-4 [1688 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 python3.9 amd64 3.9.7-4 [480 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 libpython3-stdlib amd64 3.9.2-3 [21.4 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 python3 amd64 3.9.2-3 [37.9 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main mips64el gcc-10-base mips64el 10.3.0-11 [206 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main mips64el gcc-11-base mips64el 11.2.0-8 [205 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 libncurses6 amd64 6.2+20210905-1 [102 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 libprocps8 amd64 2:3.3.17-5 [63.9 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 procps amd64 2:3.3.17-5 [502 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 sensible-utils all 0.0.17 [21.5 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic-mgc amd64 1:5.39-3 [273 kB] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic1 amd64 1:5.39-3 [126 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 file amd64 1:5.39-3 [69.1 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 gettext-base amd64 0.21-4 [175 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 ucf all 3.0043 [74.0 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 libsigsegv2 amd64 2.13-1 [34.8 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 m4 amd64 1.4.18-5 [204 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 autoconf all 2.71-2 [343 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 automake all 1:1.16.4-2 [819 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 autopoint all 0.21-4 [510 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-mips64el-linux-gnuabi64 amd64 2.37-4cross4 [2447 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libcrypt-dev amd64 1:4.4.25-2 [104 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libtirpc-dev amd64 1.3.2-2 [190 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libnsl-dev amd64 1.3.0-2 [66.4 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 rpcsvc-proto amd64 1.4.2-4 [63.1 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev amd64 2.32-4 [2251 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-10-dev amd64 10.3.0-11 [1750 kB] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 g++-10 amd64 10.3.0-11 [9434 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 g++ amd64 4:10.2.1-1 [1644 B] Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 libdpkg-perl all 1.20.9 [1537 kB] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-dev all 1.20.9 [2153 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 build-essential amd64 12.9 [7704 B] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 libxml2 amd64 2.9.12+dfsg-5 [696 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive13 amd64 3.4.3-2+b1 [343 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.1 [69.1 kB] Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.1 [106 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 libldap-2.4-2 amd64 2.4.59+dfsg-1 [232 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 libnghttp2-14 amd64 1.43.0-1 [77.1 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 libssh2-1 amd64 1.10.0-2 [178 kB] Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 libcurl4 amd64 7.74.0-1.3+b1 [341 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 libjsoncpp24 amd64 1.9.4-5 [78.8 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 librhash0 amd64 1.4.2-1 [129 kB] Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 libuv1 amd64 1.42.0-1 [135 kB] Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 dh-elpa-helper all 2.0.9 [11.2 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 emacsen-common all 3.0.4 [19.3 kB] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 cmake-data all 3.21.3-3 [1878 kB] Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 cmake amd64 3.21.3-3 [7885 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-10-mips64el-linux-gnuabi64-base amd64 10.2.1-6cross1 [202 kB] Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-10-mips64el-linux-gnuabi64 amd64 10.2.1-6cross1 [6982 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-mips64el-linux-gnuabi64 amd64 4:10.2.0-1 [16.9 kB] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 cross-config all 2.6.18+nmu2 [31.7 kB] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-10-cross-base-mipsen all 10.2.1-6cross1 [197 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-11-cross-base-mipsen all 11.2.0-3cross1 [200 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-mips64el-cross all 2.32-1cross3 [1316 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-s1-mips64el-cross all 11.2.0-3cross1 [70.1 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 libgomp1-mips64el-cross all 11.2.0-3cross1 [92.5 kB] Get:79 http://debian.oregonstate.edu/debian unstable/main amd64 libatomic1-mips64el-cross all 11.2.0-3cross1 [7364 B] Get:80 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-10-dev-mips64el-cross all 10.2.1-6cross1 [270 kB] Get:81 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-10-mips64el-linux-gnuabi64 amd64 10.2.1-6cross1 [13.6 MB] Get:82 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-mips64el-linux-gnuabi64 amd64 4:10.2.0-1 [1480 B] Get:83 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++6-mips64el-cross all 11.2.0-3cross1 [467 kB] Get:84 http://debian.oregonstate.edu/debian unstable/main amd64 linux-libc-dev-mips64el-cross all 5.10.46-4cross3 [1460 kB] Get:85 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev-mips64el-cross all 2.32-1cross3 [2104 kB] Get:86 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-10-dev-mips64el-cross all 10.2.1-6cross1 [1768 kB] Get:87 http://debian.oregonstate.edu/debian unstable/main amd64 g++-10-mips64el-linux-gnuabi64 amd64 10.2.1-6cross1 [7656 kB] Get:88 http://debian.oregonstate.edu/debian unstable/main amd64 g++-mips64el-linux-gnuabi64 amd64 4:10.2.0-1 [1192 B] Get:89 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-inifiles-perl all 3.000003-1 [52.1 kB] Get:90 http://debian.oregonstate.edu/debian unstable/main amd64 libio-string-perl all 1.08-3.1 [11.8 kB] Get:91 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-namespacesupport-perl all 1.12-1.1 [14.9 kB] Get:92 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-base-perl all 1.09-1.1 [20.7 kB] Get:93 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-perl all 1.02+dfsg-3 [59.4 kB] Get:94 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-libxml-perl amd64 2.0134+dfsg-2+b1 [337 kB] Get:95 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:96 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-perl all 1.30-1 [67.7 kB] Get:97 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-auto-perl all 0.44-1.1 [19.0 kB] Get:98 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-which-perl all 1.23-1 [16.6 kB] Get:99 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-homedir-perl all 1.006-1 [43.8 kB] Get:100 http://debian.oregonstate.edu/debian unstable/main amd64 libdebian-dpkgcross-perl all 2.6.18+nmu2 [30.6 kB] Get:101 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-cross all 2.6.18+nmu2 [40.9 kB] Get:102 http://debian.oregonstate.edu/debian unstable/main amd64 crossbuild-essential-mips64el all 12.9 [6740 B] Get:103 http://debian.oregonstate.edu/debian unstable/main amd64 libdebhelper-perl all 13.5.2 [192 kB] Get:104 http://debian.oregonstate.edu/debian unstable/main amd64 libtool all 2.4.6-15 [513 kB] Get:105 http://debian.oregonstate.edu/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get:106 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:107 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get:108 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get:109 http://debian.oregonstate.edu/debian unstable/main amd64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get:110 http://debian.oregonstate.edu/debian unstable/main amd64 libelf1 amd64 0.185-2 [172 kB] Get:111 http://debian.oregonstate.edu/debian unstable/main amd64 dwz amd64 0.14-1 [98.3 kB] Get:112 http://debian.oregonstate.edu/debian unstable/main amd64 gettext amd64 0.21-4 [1311 kB] Get:113 http://debian.oregonstate.edu/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get:114 http://debian.oregonstate.edu/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get:115 http://debian.oregonstate.edu/debian unstable/main amd64 debhelper all 13.5.2 [1056 kB] Get:116 http://debian.oregonstate.edu/debian unstable/main amd64 googletest all 1.11.0-2 [535 kB] Get:117 http://debian.oregonstate.edu/debian unstable/main mips64el hdf5-helpers mips64el 1.10.7+repack-1 [42.7 kB] Get:118 http://debian.oregonstate.edu/debian unstable/main mips64el libgcc-s1 mips64el 11.2.0-8 [70.0 kB] Get:119 http://debian.oregonstate.edu/debian unstable/main mips64el libc6 mips64el 2.32-4 [2550 kB] Get:120 http://debian.oregonstate.edu/debian unstable/main mips64el libaec0 mips64el 1.0.6-1 [20.4 kB] Get:121 http://debian.oregonstate.edu/debian unstable/main mips64el libsz2 mips64el 1.0.6-1 [7448 B] Get:122 http://debian.oregonstate.edu/debian unstable/main mips64el libaec-dev mips64el 1.0.6-1 [20.1 kB] Get:123 http://debian.oregonstate.edu/debian unstable/main mips64el libatomic1 mips64el 11.2.0-8 [7456 B] Get:124 http://debian.oregonstate.edu/debian unstable/main mips64el zlib1g mips64el 1:1.2.11.dfsg-2 [88.2 kB] Get:125 http://debian.oregonstate.edu/debian unstable/main mips64el libhdf5-103-1 mips64el 1.10.7+repack-1 [838 kB] Get:126 http://debian.oregonstate.edu/debian unstable/main mips64el libstdc++6 mips64el 11.2.0-8 [508 kB] Get:127 http://debian.oregonstate.edu/debian unstable/main mips64el libhdf5-cpp-103-1 mips64el 1.10.7+repack-1 [123 kB] Get:128 http://debian.oregonstate.edu/debian unstable/main mips64el libbz2-1.0 mips64el 1.0.8-4 [47.5 kB] Get:129 http://debian.oregonstate.edu/debian unstable/main mips64el libbrotli1 mips64el 1.0.9-2+b2 [289 kB] Get:130 http://debian.oregonstate.edu/debian unstable/main mips64el libgmp10 mips64el 2:6.2.1+dfsg-2 [550 kB] Get:131 http://debian.oregonstate.edu/debian unstable/main mips64el libnettle8 mips64el 3.7.3-1 [279 kB] Get:132 http://debian.oregonstate.edu/debian unstable/main mips64el libhogweed6 mips64el 3.7.3-1 [313 kB] Get:133 http://debian.oregonstate.edu/debian unstable/main mips64el libunistring2 mips64el 0.9.10-6 [368 kB] Get:134 http://debian.oregonstate.edu/debian unstable/main mips64el libidn2-0 mips64el 2.3.2-2 [94.5 kB] Get:135 http://debian.oregonstate.edu/debian unstable/main mips64el libffi8 mips64el 3.4.2-2 [23.8 kB] Get:136 http://debian.oregonstate.edu/debian unstable/main mips64el libp11-kit0 mips64el 0.24.0-2+b1 [286 kB] Get:137 http://debian.oregonstate.edu/debian unstable/main mips64el libtasn1-6 mips64el 4.17.0-2 [52.7 kB] Get:138 http://debian.oregonstate.edu/debian unstable/main mips64el libgnutls30 mips64el 3.7.2-2 [1192 kB] Get:139 http://debian.oregonstate.edu/debian unstable/main mips64el libcom-err2 mips64el 1.46.4-1 [75.0 kB] Get:140 http://debian.oregonstate.edu/debian unstable/main mips64el libkrb5support0 mips64el 1.18.3-7 [63.5 kB] Get:141 http://debian.oregonstate.edu/debian unstable/main mips64el libk5crypto3 mips64el 1.18.3-7 [120 kB] Get:142 http://debian.oregonstate.edu/debian unstable/main mips64el libkeyutils1 mips64el 1.6.1-2 [15.0 kB] Get:143 http://debian.oregonstate.edu/debian unstable/main mips64el libssl1.1 mips64el 1.1.1l-1 [1151 kB] Get:144 http://debian.oregonstate.edu/debian unstable/main mips64el libkrb5-3 mips64el 1.18.3-7 [329 kB] Get:145 http://debian.oregonstate.edu/debian unstable/main mips64el libgssapi-krb5-2 mips64el 1.18.3-7 [150 kB] Get:146 http://debian.oregonstate.edu/debian unstable/main mips64el libdb5.3 mips64el 5.3.28+dfsg1-0.8 [599 kB] Get:147 http://debian.oregonstate.edu/debian unstable/main mips64el libsasl2-modules-db mips64el 2.1.27+dfsg-2.1 [68.4 kB] Get:148 http://debian.oregonstate.edu/debian unstable/main mips64el libsasl2-2 mips64el 2.1.27+dfsg-2.1 [102 kB] Get:149 http://debian.oregonstate.edu/debian unstable/main mips64el libldap-2.4-2 mips64el 2.4.59+dfsg-1 [212 kB] Get:150 http://debian.oregonstate.edu/debian unstable/main mips64el libnghttp2-14 mips64el 1.43.0-1 [72.4 kB] Get:151 http://debian.oregonstate.edu/debian unstable/main mips64el libpsl5 mips64el 0.21.0-1.2 [57.1 kB] Get:152 http://debian.oregonstate.edu/debian unstable/main mips64el librtmp1 mips64el 2.4+20151223.gitfa8646d.1-2+b2 [56.0 kB] Get:153 http://debian.oregonstate.edu/debian unstable/main mips64el libssh2-1 mips64el 1.10.0-2 [170 kB] Get:154 http://debian.oregonstate.edu/debian unstable/main mips64el libcurl3-gnutls mips64el 7.74.0-1.3+b1 [313 kB] Get:155 http://debian.oregonstate.edu/debian unstable/main mips64el libdeflate0 mips64el 1.7-2 [47.8 kB] Get:156 http://debian.oregonstate.edu/debian unstable/main mips64el libhtscodecs2 mips64el 1.1.1-3+b1 [56.6 kB] Get:157 http://debian.oregonstate.edu/debian unstable/main mips64el liblzma5 mips64el 5.2.5-2 [166 kB] Get:158 http://debian.oregonstate.edu/debian unstable/main mips64el libhts3 mips64el 1.13+ds-2 [362 kB] Get:159 http://debian.oregonstate.edu/debian unstable/main mips64el libpbcopper1.8.0 mips64el 1.8.0+dfsg-2+b1 [372 kB] Get:160 http://debian.oregonstate.edu/debian unstable/main mips64el libpbbam1.6.0 mips64el 1.6.0+dfsg-2 [570 kB] Get:161 http://debian.oregonstate.edu/debian unstable/main mips64el libblasr5.3.4 mips64el 5.3.4+dfsg-3 [1010 kB] Get:162 http://debian.oregonstate.edu/debian unstable/main mips64el libpbcopper-dev mips64el 1.8.0+dfsg-2+b1 [718 kB] Get:163 http://debian.oregonstate.edu/debian unstable/main mips64el libpbdata-dev mips64el 5.3.4+dfsg-3 [41.0 kB] Get:164 http://debian.oregonstate.edu/debian unstable/main mips64el libblasr-dev mips64el 5.3.4+dfsg-3 [2127 kB] Get:165 http://debian.oregonstate.edu/debian unstable/main mips64el libgomp1 mips64el 11.2.0-8 [94.5 kB] Get:166 http://debian.oregonstate.edu/debian unstable/main mips64el libgcc-10-dev mips64el 10.3.0-11 [268 kB] Get:167 http://debian.oregonstate.edu/debian unstable/main mips64el linux-libc-dev mips64el 5.14.6-3 [1411 kB] Get:168 http://debian.oregonstate.edu/debian unstable/main mips64el libcrypt1 mips64el 1:4.4.25-2 [95.0 kB] Get:169 http://debian.oregonstate.edu/debian unstable/main mips64el libcrypt-dev mips64el 1:4.4.25-2 [114 kB] Get:170 http://debian.oregonstate.edu/debian unstable/main mips64el libtirpc3 mips64el 1.3.2-2 [74.4 kB] Get:171 http://debian.oregonstate.edu/debian unstable/main mips64el libnsl2 mips64el 1.3.0-2 [35.5 kB] Get:172 http://debian.oregonstate.edu/debian unstable/main mips64el libtirpc-dev mips64el 1.3.2-2 [199 kB] Get:173 http://debian.oregonstate.edu/debian unstable/main mips64el libnsl-dev mips64el 1.3.0-2 [70.3 kB] Get:174 http://debian.oregonstate.edu/debian unstable/main mips64el libc6-dev mips64el 2.32-4 [2107 kB] Get:175 http://debian.oregonstate.edu/debian unstable/main mips64el libstdc++-10-dev mips64el 10.3.0-11 [1796 kB] Get:176 http://debian.oregonstate.edu/debian unstable/main mips64el libboost1.74-dev mips64el 1.74.0-11 [9533 kB] Get:177 http://debian.oregonstate.edu/debian unstable/main mips64el libboost-dev mips64el 1.74.0.3 [4548 B] Get:178 http://debian.oregonstate.edu/debian unstable/main mips64el libcurl4-gnutls-dev mips64el 7.74.0-1.3+b1 [443 kB] Get:179 http://debian.oregonstate.edu/debian unstable/main mips64el libdeflate-dev mips64el 1.7-2 [46.2 kB] Get:180 http://debian.oregonstate.edu/debian unstable/main mips64el libgfortran5 mips64el 11.2.0-8 [311 kB] Get:181 http://debian.oregonstate.edu/debian unstable/main amd64 libglib2.0-0 amd64 2.70.0-1+b1 [1402 kB] Get:182 http://debian.oregonstate.edu/debian unstable/main mips64el libgtest-dev mips64el 1.11.0-2 [267 kB] Get:183 http://debian.oregonstate.edu/debian unstable/main mips64el libhdf5-fortran-102 mips64el 1.10.7+repack-1 [96.9 kB] Get:184 http://debian.oregonstate.edu/debian unstable/main mips64el libhdf5-hl-100 mips64el 1.10.7+repack-1 [76.3 kB] Get:185 http://debian.oregonstate.edu/debian unstable/main mips64el libhdf5-hl-fortran-100 mips64el 1.10.7+repack-1 [53.3 kB] Get:186 http://debian.oregonstate.edu/debian unstable/main mips64el libhdf5-hl-cpp-100 mips64el 1.10.7+repack-1 [40.1 kB] Get:187 http://debian.oregonstate.edu/debian unstable/main mips64el zlib1g-dev mips64el 1:1.2.11.dfsg-2 [191 kB] Get:188 http://debian.oregonstate.edu/debian unstable/main mips64el libjpeg62-turbo mips64el 1:2.0.6-4 [140 kB] Get:189 http://debian.oregonstate.edu/debian unstable/main mips64el libjpeg62-turbo-dev mips64el 1:2.0.6-4 [268 kB] Get:190 http://debian.oregonstate.edu/debian unstable/main mips64el libjpeg-dev mips64el 1:2.0.6-4 [67.8 kB] Get:191 http://debian.oregonstate.edu/debian unstable/main mips64el libhdf5-dev mips64el 1.10.7+repack-1 [2543 kB] Get:192 http://debian.oregonstate.edu/debian unstable/main mips64el liblzma-dev mips64el 5.2.5-2 [233 kB] Get:193 http://debian.oregonstate.edu/debian unstable/main mips64el libhts-dev mips64el 1.13+ds-2 [4108 kB] Get:194 http://debian.oregonstate.edu/debian unstable/main mips64el libssl-dev mips64el 1.1.1l-1 [1634 kB] Get:195 http://debian.oregonstate.edu/debian unstable/main mips64el libpbbam-dev mips64el 1.6.0+dfsg-2 [87.2 kB] Get:196 http://debian.oregonstate.edu/debian unstable/main mips64el libpbihdf-dev mips64el 5.3.4+dfsg-3 [47.5 kB] Get:197 http://debian.oregonstate.edu/debian unstable/main mips64el libpbseq-dev mips64el 5.3.4+dfsg-3 [5224 B] Get:198 http://debian.oregonstate.edu/debian unstable/main amd64 ninja-build amd64 1.10.1-1 [112 kB] Get:199 http://debian.oregonstate.edu/debian unstable/main amd64 python3-pkg-resources all 52.0.0-4 [190 kB] Get:200 http://debian.oregonstate.edu/debian unstable/main amd64 python3-lib2to3 all 3.9.7-1 [79.4 kB] Get:201 http://debian.oregonstate.edu/debian unstable/main amd64 python3-distutils all 3.9.7-1 [146 kB] Get:202 http://debian.oregonstate.edu/debian unstable/main amd64 meson all 0.59.2-1 [496 kB] Get:203 http://debian.oregonstate.edu/debian unstable/main amd64 pkg-config amd64 0.29.2-1 [65.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 148 MB in 1s (102 MB/s) Selecting previously unselected package bsdextrautils. (Reading database ... 10536 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.37.2-3_amd64.deb ... Unpacking bsdextrautils (2.37.2-3) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../01-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-7_amd64.deb ... Unpacking groff-base (1.22.4-7) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../03-libpipeline1_1.5.3-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.4-2_amd64.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package perl-modules-5.32. Preparing to unpack .../05-perl-modules-5.32_5.32.1-6_all.deb ... Unpacking perl-modules-5.32 (5.32.1-6) ... 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Setting up binutils-mips64el-linux-gnuabi64 (2.37-4cross4) ... Setting up googletest (1.11.0-2) ... Setting up ninja-build (1.10.1-1) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1) ... Setting up gcc-10-base:mips64el (10.3.0-11) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up cross-config (2.6.18+nmu2) ... Setting up libtirpc-dev:amd64 (1.3.2-2) ... Setting up libuv1:amd64 (1.42.0-1) ... Setting up rpcsvc-proto (1.4.2-4) ... Setting up gcc-10-cross-base-mipsen (10.2.1-6cross1) ... Setting up emacsen-common (3.0.4) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up dh-elpa-helper (2.0.9) ... Setting up libncurses6:amd64 (6.2+20210905-1) ... Setting up libsigsegv2:amd64 (2.13-1) ... Setting up autopoint (0.21-4) ... Setting up libperl5.32:amd64 (5.32.1-6) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2.1) ... Setting up libjsoncpp24:amd64 (1.9.4-5) ... Setting up libnsl-dev:amd64 (1.3.0-2) ... Setting up sensible-utils (0.0.17) ... Setting up librhash0:amd64 (1.4.2-1) ... Setting up libcrypt-dev:amd64 (1:4.4.25-2) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libmpdec3:amd64 (2.5.1-2) ... Setting up libc6-dev:amd64 (2.32-4) ... Setting up libssh2-1:amd64 (1.10.0-2) ... Setting up linux-libc-dev-mips64el-cross (5.10.46-4cross3) ... Setting up cmake-data (3.21.3-3) ... Setting up cpp-mips64el-linux-gnuabi64 (4:10.2.0-1) ... Setting up libgomp1-mips64el-cross (11.2.0-3cross1) ... Setting up libgcc-s1-mips64el-cross (11.2.0-3cross1) ... Setting up libelf1:amd64 (0.185-2) ... Setting up libxml2:amd64 (2.9.12+dfsg-5) ... Setting up liblocale-gettext-perl (1.07-4+b1) ... Setting up libprocps8:amd64 (2:3.3.17-5) ... Setting up libpython3.9-stdlib:amd64 (3.9.7-4) ... Setting up libpython3-stdlib:amd64 (3.9.2-3) ... Setting up gettext (0.21-4) ... Setting up libatomic1-mips64el-cross (11.2.0-3cross1) ... Setting up libstdc++-10-dev:amd64 (10.3.0-11) ... Setting up g++-10 (10.3.0-11) ... Setting up libgtest-dev:mips64el (1.11.0-2) ... Setting up libtool (2.4.6-15) ... Setting up libarchive13:amd64 (3.4.3-2+b1) ... Setting up libldap-2.4-2:amd64 (2.4.59+dfsg-1) ... Setting up m4 (1.4.18-5) ... Setting up perl (5.32.1-6) ... Setting up libc6-dev-mips64el-cross (2.32-1cross3) ... Setting up libgcc-10-dev-mips64el-cross (10.2.1-6cross1) ... Setting up ucf (3.0043) ... Setting up libdpkg-perl (1.20.9) ... Setting up autoconf (2.71-2) ... Setting up libstdc++6-mips64el-cross (11.2.0-3cross1) ... Setting up libstdc++-10-dev-mips64el-cross (10.2.1-6cross1) ... Setting up g++ (4:10.2.1-1) ... update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode Setting up dwz (0.14-1) ... Setting up gcc-10-mips64el-linux-gnuabi64 (10.2.1-6cross1) ... Setting up groff-base (1.22.4-7) ... Setting up procps (2:3.3.17-5) ... Setting up libcurl4:amd64 (7.74.0-1.3+b1) ... Setting up libsub-override-perl (0.09-2) ... Setting up python3.9 (3.9.7-4) ... Setting up automake (1:1.16.4-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-which-perl (1.23-1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up g++-10-mips64el-linux-gnuabi64 (10.2.1-6cross1) ... Setting up libdebhelper-perl (13.5.2) ... Setting up libxml-namespacesupport-perl (1.12-1.1) ... Setting up python3 (3.9.2-3) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libyaml-perl (1.30-1) ... Setting up dpkg-dev (1.20.9) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up dh-autoreconf (20) ... Setting up libxml-sax-base-perl (1.09-1.1) ... Setting up libio-string-perl (1.08-3.1) ... Setting up pkg-config (0.29.2-1) ... Setting up gcc-mips64el-linux-gnuabi64 (4:10.2.0-1) ... Setting up cmake (3.21.3-3) ... Setting up build-essential (12.9) ... Setting up libfile-homedir-perl (1.006-1) ... Setting up python3-lib2to3 (3.9.7-1) ... Setting up python3-pkg-resources (52.0.0-4) ... Setting up python3-distutils (3.9.7-1) ... Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up g++-mips64el-linux-gnuabi64 (4:10.2.0-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up meson (0.59.2-1) ... 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 libxml-libxml-perl (2.0134+dfsg-2+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 dh-strip-nondeterminism (1.12.0-1) ... Setting up debhelper (13.5.2) ... Setting up libxml-simple-perl (2.25-1) ... Setting up libconfig-auto-perl (0.44-1.1) ... Setting up libdebian-dpkgcross-perl (2.6.18+nmu2) ... Setting up dpkg-cross (2.6.18+nmu2) ... Setting up crossbuild-essential-mips64el (12.9) ... Setting up libgcc-s1:mips64el (11.2.0-8) ... Setting up libc6:mips64el (2.32-4) ... Setting up libffi8:mips64el (3.4.2-2) ... Setting up libtasn1-6:mips64el (4.17.0-2) ... Setting up libbz2-1.0:mips64el (1.0.8-4) ... Setting up libdb5.3:mips64el (5.3.28+dfsg1-0.8) ... Setting up libstdc++6:mips64el (11.2.0-8) ... Setting up libhtscodecs2:mips64el (1.1.1-3+b1) ... Setting up libkeyutils1:mips64el (1.6.1-2) ... Setting up liblzma5:mips64el (5.2.5-2) ... Setting up libssl1.1:mips64el (1.1.1l-1) ... Setting up libbrotli1:mips64el (1.0.9-2+b2) ... Setting up libnghttp2-14:mips64el (1.43.0-1) ... Setting up libunistring2:mips64el (0.9.10-6) ... Setting up libdeflate0:mips64el (1.7-2) ... Setting up zlib1g:mips64el (1:1.2.11.dfsg-2) ... Setting up libcrypt1:mips64el (1:4.4.25-2) ... Setting up libidn2-0:mips64el (2.3.2-2) ... Setting up libcom-err2:mips64el (1.46.4-1) ... Setting up libgomp1:mips64el (11.2.0-8) ... Setting up libaec0:mips64el (1.0.6-1) ... Setting up libkrb5support0:mips64el (1.18.3-7) ... Setting up libsasl2-modules-db:mips64el (2.1.27+dfsg-2.1) ... Setting up libjpeg62-turbo:mips64el (1:2.0.6-4) ... Setting up libnettle8:mips64el (3.7.3-1) ... Setting up libgmp10:mips64el (2:6.2.1+dfsg-2) ... Setting up libp11-kit0:mips64el (0.24.0-2+b1) ... Setting up libssl-dev:mips64el (1.1.1l-1) ... Setting up libatomic1:mips64el (11.2.0-8) ... Setting up libk5crypto3:mips64el (1.18.3-7) ... Setting up libsasl2-2:mips64el (2.1.27+dfsg-2.1) ... Setting up libgfortran5:mips64el (11.2.0-8) ... Setting up liblzma-dev:mips64el (5.2.5-2) ... Setting up libcrypt-dev:mips64el (1:4.4.25-2) ... Setting up libpbcopper1.8.0:mips64el (1.8.0+dfsg-2+b1) ... Setting up libssh2-1:mips64el (1.10.0-2) ... Setting up libkrb5-3:mips64el (1.18.3-7) ... Setting up libdeflate-dev:mips64el (1.7-2) ... Setting up libsz2:mips64el (1.0.6-1) ... Setting up libpsl5:mips64el (0.21.0-1.2) ... Setting up libhogweed6:mips64el (3.7.3-1) ... Setting up libgcc-10-dev:mips64el (10.3.0-11) ... Setting up libaec-dev:mips64el (1.0.6-1) ... Setting up libgnutls30:mips64el (3.7.2-2) ... Setting up librtmp1:mips64el (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libgssapi-krb5-2:mips64el (1.18.3-7) ... Setting up libpbcopper-dev:mips64el (1.8.0+dfsg-2+b1) ... Setting up libhdf5-103-1:mips64el (1.10.7+repack-1) ... Setting up libhdf5-cpp-103-1:mips64el (1.10.7+repack-1) ... Setting up libhdf5-hl-100:mips64el (1.10.7+repack-1) ... Setting up libtirpc3:mips64el (1.3.2-2) ... Setting up libpbdata-dev:mips64el (5.3.4+dfsg-3) ... Setting up libldap-2.4-2:mips64el (2.4.59+dfsg-1) ... Setting up libcurl3-gnutls:mips64el (7.74.0-1.3+b1) ... Setting up libcurl4-gnutls-dev:mips64el (7.74.0-1.3+b1) ... Setting up libhdf5-hl-cpp-100:mips64el (1.10.7+repack-1) ... Setting up libtirpc-dev:mips64el (1.3.2-2) ... Setting up libhdf5-fortran-102:mips64el (1.10.7+repack-1) ... Setting up libnsl2:mips64el (1.3.0-2) ... Setting up libhdf5-hl-fortran-100:mips64el (1.10.7+repack-1) ... Setting up libhts3:mips64el (1.13+ds-2) ... Setting up libnsl-dev:mips64el (1.3.0-2) ... Setting up libc6-dev:mips64el (2.32-4) ... Setting up libpbbam1.6.0:mips64el (1.6.0+dfsg-2) ... Setting up libstdc++-10-dev:mips64el (10.3.0-11) ... Setting up libboost1.74-dev:mips64el (1.74.0-11) ... Setting up libblasr5.3.4:mips64el (5.3.4+dfsg-3) ... Setting up libjpeg62-turbo-dev:mips64el (1:2.0.6-4) ... Setting up libblasr-dev:mips64el (5.3.4+dfsg-3) ... Setting up zlib1g-dev:mips64el (1:1.2.11.dfsg-2) ... Setting up libboost-dev:mips64el (1.74.0.3) ... Setting up libjpeg-dev:mips64el (1:2.0.6-4) ... Setting up libhts-dev:mips64el (1.13+ds-2) ... Setting up libhdf5-dev:mips64el (1.10.7+repack-1) ... update-alternatives: using /usr/lib/mips64el-linux-gnuabi64/pkgconfig/hdf5-serial.pc to provide /usr/lib/mips64el-linux-gnuabi64/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up libpbbam-dev:mips64el (1.6.0+dfsg-2) ... Setting up libpbihdf-dev:mips64el (5.3.4+dfsg-3) ... Setting up libpbseq-dev:mips64el (5.3.4+dfsg-3) ... Setting up sbuild-build-depends-main-dummy:mips64el (0.invalid.0) ... Processing triggers for libc-bin (2.32-4) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (mips64el included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.19.0-17-amd64 #1 SMP Debian 4.19.194-3 (2021-07-18) amd64 (x86_64) Toolchain package versions: binutils_2.37-7 dpkg-dev_1.20.9 g++-10_10.3.0-11 gcc-10_10.3.0-11 libc6-dev_2.32-4 libstdc++-10-dev_10.3.0-11 libstdc++-10-dev-mips64el-cross_10.2.1-6cross1 libstdc++6_11.2.0-8 libstdc++6-mips64el-cross_11.2.0-3cross1 linux-libc-dev_5.14.6-3 Package versions: adduser_3.118 apt_2.3.9 autoconf_2.71-2 automake_1:1.16.4-2 autopoint_0.21-4 autotools-dev_20180224.1+nmu1 base-files_12 base-passwd_3.5.52 bash_5.1-3+b1 binutils_2.37-7 binutils-common_2.37-7 binutils-mips64el-linux-gnuabi64_2.37-4cross4 binutils-x86-64-linux-gnu_2.37-7 bsdextrautils_2.37.2-3 bsdutils_1:2.37.2-3 build-essential_12.9 bzip2_1.0.8-4 cmake_3.21.3-3 cmake-data_3.21.3-3 coreutils_8.32-4+b1 cpp_4:10.2.1-1 cpp-10_10.3.0-11 cpp-10-mips64el-linux-gnuabi64_10.2.1-6cross1 cpp-8_8.4.0-7 cpp-mips64el-linux-gnuabi64_4:10.2.0-1 cross-config_2.6.18+nmu2 crossbuild-essential-mips64el_12.9 dash_0.5.11+git20210120+802ebd4-1 debconf_1.5.77 debhelper_13.5.2 debian-archive-keyring_2021.1.1 debianutils_5.5-1 dh-autoreconf_20 dh-elpa-helper_2.0.9 dh-strip-nondeterminism_1.12.0-1 diffutils_1:3.7-5 dpkg_1.20.9 dpkg-cross_2.6.18+nmu2 dpkg-dev_1.20.9 dwz_0.14-1 e2fsprogs_1.46.4-1 emacsen-common_3.0.4 fakeroot_1.26-1 fdisk_2.37.2-3 file_1:5.39-3 findutils_4.8.0-1 g++_4:10.2.1-1 g++-10_10.3.0-11 g++-10-mips64el-linux-gnuabi64_10.2.1-6cross1 g++-mips64el-linux-gnuabi64_4:10.2.0-1 gcc_4:10.2.1-1 gcc-10_10.3.0-11 gcc-10-base_10.3.0-11 gcc-10-cross-base-mipsen_10.2.1-6cross1 gcc-10-mips64el-linux-gnuabi64_10.2.1-6cross1 gcc-10-mips64el-linux-gnuabi64-base_10.2.1-6cross1 gcc-11-base_11.2.0-8 gcc-11-cross-base-mipsen_11.2.0-3cross1 gcc-8-base_8.4.0-7 gcc-9-base_9.4.0-3 gcc-mips64el-linux-gnuabi64_4:10.2.0-1 gettext_0.21-4 gettext-base_0.21-4 googletest_1.11.0-2 gpgv_2.2.27-2 grep_3.7-1 groff-base_1.22.4-7 gzip_1.10-4 hdf5-helpers_1.10.7+repack-1 hostname_3.23 init-system-helpers_1.60 intltool-debian_0.35.0+20060710.5 libacl1_2.3.1-1 libaec-dev_1.0.6-1 libaec0_1.0.6-1 libapt-pkg5.0_1.8.4 libapt-pkg6.0_2.3.9 libarchive-zip-perl_1.68-1 libarchive13_3.4.3-2+b1 libasan5_9.4.0-3 libasan6_11.2.0-8 libatomic1_11.2.0-8 libatomic1-mips64el-cross_11.2.0-3cross1 libattr1_1:2.5.1-1 libaudit-common_1:3.0.5-1 libaudit1_1:3.0.5-1 libbinutils_2.37-7 libblasr-dev_5.3.4+dfsg-3 libblasr5.3.4_5.3.4+dfsg-3 libblkid1_2.37.2-3 libboost-dev_1.74.0.3 libboost1.74-dev_1.74.0-11 libbrotli1_1.0.9-2+b2 libbz2-1.0_1.0.8-4 libc-bin_2.32-4 libc-dev-bin_2.32-4 libc6_2.32-4 libc6-dev_2.32-4 libc6-dev-mips64el-cross_2.32-1cross3 libc6-mips64el-cross_2.32-1cross3 libcap-ng0_0.7.9-2.2+b1 libcap2_1:2.44-1 libcc1-0_11.2.0-8 libcom-err2_1.46.4-1 libconfig-auto-perl_0.44-1.1 libconfig-inifiles-perl_3.000003-1 libcrypt-dev_1:4.4.25-2 libcrypt1_1:4.4.25-2 libctf-nobfd0_2.37-7 libctf0_2.37-7 libcurl3-gnutls_7.74.0-1.3+b1 libcurl4_7.74.0-1.3+b1 libcurl4-gnutls-dev_7.74.0-1.3+b1 libdb5.3_5.3.28+dfsg1-0.8 libdebconfclient0_0.260 libdebhelper-perl_13.5.2 libdebian-dpkgcross-perl_2.6.18+nmu2 libdeflate-dev_1.7-2 libdeflate0_1.7-2 libdpkg-perl_1.20.9 libelf1_0.185-2 libexpat1_2.4.1-2+b1 libext2fs2_1.46.4-1 libfakeroot_1.26-1 libfdisk1_2.37.2-3 libffi6_3.2.1-9 libffi8_3.4.2-2 libfile-homedir-perl_1.006-1 libfile-stripnondeterminism-perl_1.12.0-1 libfile-which-perl_1.23-1 libgcc-10-dev_10.3.0-11 libgcc-10-dev-mips64el-cross_10.2.1-6cross1 libgcc-s1_11.2.0-8 libgcc-s1-mips64el-cross_11.2.0-3cross1 libgcrypt20_1.9.4-3+b1 libgdbm-compat4_1.21-1 libgdbm6_1.21-1 libgfortran5_11.2.0-8 libglib2.0-0_2.70.0-1+b1 libgmp10_2:6.2.1+dfsg-2 libgnutls30_3.7.2-2 libgomp1_11.2.0-8 libgomp1-mips64el-cross_11.2.0-3cross1 libgpg-error0_1.42-3 libgssapi-krb5-2_1.18.3-7 libgtest-dev_1.11.0-2 libhdf5-103-1_1.10.7+repack-1 libhdf5-cpp-103-1_1.10.7+repack-1 libhdf5-dev_1.10.7+repack-1 libhdf5-fortran-102_1.10.7+repack-1 libhdf5-hl-100_1.10.7+repack-1 libhdf5-hl-cpp-100_1.10.7+repack-1 libhdf5-hl-fortran-100_1.10.7+repack-1 libhogweed4_3.5.1+really3.4.1-1 libhogweed6_3.7.3-1 libhts-dev_1.13+ds-2 libhts3_1.13+ds-2 libhtscodecs2_1.1.1-3+b1 libicu67_67.1-7 libidn2-0_2.3.2-2 libio-string-perl_1.08-3.1 libisl19_0.20-2 libisl23_0.23-1 libitm1_11.2.0-8 libjpeg-dev_1:2.0.6-4 libjpeg62-turbo_1:2.0.6-4 libjpeg62-turbo-dev_1:2.0.6-4 libjsoncpp24_1.9.4-5 libk5crypto3_1.18.3-7 libkeyutils1_1.6.1-2 libkrb5-3_1.18.3-7 libkrb5support0_1.18.3-7 libldap-2.4-2_2.4.59+dfsg-1 liblocale-gettext-perl_1.07-4+b1 liblsan0_11.2.0-8 liblz4-1_1.9.3-2 liblzma-dev_5.2.5-2 liblzma5_5.2.5-2 libmagic-mgc_1:5.39-3 libmagic1_1:5.39-3 libmount1_2.37.2-3 libmpc3_1.2.0-1 libmpdec3_2.5.1-2 libmpfr6_4.1.0-3 libmpx2_8.4.0-7 libncurses6_6.2+20210905-1 libncursesw6_6.2+20210905-1 libnettle6_3.5.1+really3.4.1-1 libnettle8_3.7.3-1 libnghttp2-14_1.43.0-1 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libp11-kit0_0.24.0-2+b1 libpam-modules_1.4.0-10 libpam-modules-bin_1.4.0-10 libpam-runtime_1.4.0-10 libpam0g_1.4.0-10 libpbbam-dev_1.6.0+dfsg-2 libpbbam1.6.0_1.6.0+dfsg-2 libpbcopper-dev_1.8.0+dfsg-2+b1 libpbcopper1.8.0_1.8.0+dfsg-2+b1 libpbdata-dev_5.3.4+dfsg-3 libpbihdf-dev_5.3.4+dfsg-3 libpbseq-dev_5.3.4+dfsg-3 libpcre2-8-0_10.36-2 libpcre3_2:8.39-13 libperl5.28_5.28.1-6 libperl5.32_5.32.1-6 libpipeline1_1.5.3-1 libprocps8_2:3.3.17-5 libpsl5_0.21.0-1.2 libpython3-stdlib_3.9.2-3 libpython3.9-minimal_3.9.7-4 libpython3.9-stdlib_3.9.7-4 libquadmath0_11.2.0-8 libreadline8_8.1-2 librhash0_1.4.2-1 librtmp1_2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2_2.1.27+dfsg-2.1 libsasl2-modules-db_2.1.27+dfsg-2.1 libseccomp2_2.5.2-1 libselinux1_3.1-3 libsemanage-common_3.1-1 libsemanage1_3.1-1+b2 libsepol1_3.1-1 libsigsegv2_2.13-1 libsmartcols1_2.37.2-3 libsqlite3-0_3.36.0-2 libss2_1.46.4-1 libssh2-1_1.10.0-2 libssl-dev_1.1.1l-1 libssl1.1_1.1.1l-1 libstdc++-10-dev_10.3.0-11 libstdc++-10-dev-mips64el-cross_10.2.1-6cross1 libstdc++6_11.2.0-8 libstdc++6-mips64el-cross_11.2.0-3cross1 libsub-override-perl_0.09-2 libsystemd0_247.9-3 libsz2_1.0.6-1 libtasn1-6_4.17.0-2 libtinfo6_6.2+20210905-1 libtirpc-common_1.3.2-2 libtirpc-dev_1.3.2-2 libtirpc3_1.3.2-2 libtool_2.4.6-15 libtsan0_11.2.0-8 libubsan1_11.2.0-8 libuchardet0_0.0.7-1 libudev1_247.9-3 libunistring2_0.9.10-6 libuuid1_2.37.2-3 libuv1_1.42.0-1 libxml-libxml-perl_2.0134+dfsg-2+b1 libxml-namespacesupport-perl_1.12-1.1 libxml-sax-base-perl_1.09-1.1 libxml-sax-perl_1.02+dfsg-3 libxml-simple-perl_2.25-1 libxml2_2.9.12+dfsg-5 libxxhash0_0.8.0-2 libyaml-perl_1.30-1 libzstd1_1.4.8+dfsg-2.1 linux-libc-dev_5.14.6-3 linux-libc-dev-mips64el-cross_5.10.46-4cross3 login_1:4.8.1-1 logsave_1.46.4-1 lsb-base_11.1.0 m4_1.4.18-5 make_4.3-4.1 man-db_2.9.4-2 mawk_1.3.4.20200120-2 media-types_4.0.0 meson_0.59.2-1 mount_2.37.2-3 ncurses-base_6.2+20210905-1 ncurses-bin_6.2+20210905-1 ninja-build_1.10.1-1 passwd_1:4.8.1-1 patch_2.7.6-7 perl_5.32.1-6 perl-base_5.32.1-6 perl-modules-5.28_5.28.1-6 perl-modules-5.32_5.32.1-6 pkg-config_0.29.2-1 po-debconf_1.0.21+nmu1 procps_2:3.3.17-5 python3_3.9.2-3 python3-distutils_3.9.7-1 python3-lib2to3_3.9.7-1 python3-minimal_3.9.2-3 python3-pkg-resources_52.0.0-4 python3.9_3.9.7-4 python3.9-minimal_3.9.7-4 readline-common_8.1-2 rpcsvc-proto_1.4.2-4 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.8-1 sensible-utils_0.0.17 sysvinit-utils_3.00-1 tar_1.34+dfsg-1 tzdata_2021b-1 ucf_3.0043 util-linux_2.37.2-3 xz-utils_5.2.5-2 zlib1g_1:1.2.11.dfsg-2 zlib1g-dev_1:1.2.11.dfsg-2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: blasr Binary: blasr Architecture: any Version: 5.3.3+dfsg-7 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/PacificBiosciences/blasr Standards-Version: 4.5.1 Vcs-Browser: https://salsa.debian.org/med-team/blasr Vcs-Git: https://salsa.debian.org/med-team/blasr.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), python3:any, meson, cmake, pkg-config, libboost-dev, libhdf5-dev, zlib1g-dev, libpbseq-dev, libpbbam-dev (>= 0.18.0~), libpbdata-dev, libpbcopper-dev, libgtest-dev, libblasr-dev (>= 5.3.4+dfsg-3~) Package-List: blasr deb science optional arch=any Checksums-Sha1: b6eb48681a0e989963740398298871f305a023ca 123932 blasr_5.3.3+dfsg.orig.tar.xz 45d8bf095bdfaec0e3eaae9f8c7fe8160c23c3a9 10740 blasr_5.3.3+dfsg-7.debian.tar.xz Checksums-Sha256: e58d4d1765998b0fd6935230d458142f2e3b73d67979c6d2ad6256685b984c81 123932 blasr_5.3.3+dfsg.orig.tar.xz 5f5c43598d1c75bd4394bac2c0292dd57ea6c891e16077fb5892f2d36378e783 10740 blasr_5.3.3+dfsg-7.debian.tar.xz Files: 5db2ee053065d0a8e3c0cf1315fae1cd 123932 blasr_5.3.3+dfsg.orig.tar.xz 57a6a81c9714e85c46c9837029fe969f 10740 blasr_5.3.3+dfsg-7.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEPpmlJvXcwMu/HO6mALrnSzQzafEFAmEhYTcUHG5wYXRyYTk3 NEBnbWFpbC5jb20ACgkQALrnSzQzafGjaxAAp8Fvwy/2oMg8ib+kPbQ5EICdZlq2 cP/WKRw9eOe1jig3cV+tMvdTFbqCS5rk+ls/N5/h50wtYxnX2CNj0vJdC9vuh/be +XZtKT0W+mMik1OrtX0vm+z6DQ52AFev2bFYW6VJ1gPVZETKQoHt9Fj/jTac1Rue 2th3vnyB56pW4ZaC8MDZiZ0txpwLaa5H5deG7O9ec+oUMdG8je7578S57Pxwpwdh uxuLTAs57rKAUCGsIy4srekec4WwxeXCp6GW1EsKlYLAKn5Ubfuc96+JjaKsCNv4 6wgBEIfXEBnPr8hHajbLRf0RMQIwiBWX6gyKO3ZyflWrLXrBfO7Q2r1wnUIZcJqI 0/VNVjMvX5Tdg8IUVzSSr9JYrQpVpT6huNvnEEQmkHZI5FikeDgN3+04bVwCUX2P qYFdLu2XeRUaapFYWdyLndzIlGFU3/UxLcfuLM1FOtEDbheQv6jIdYqxv+hfGLFj 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---------------- 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=helmut PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=unstable-amd64-sbuild SCHROOT_CHROOT_NAME=unstable-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1003 SCHROOT_GROUP=helmut SCHROOT_SESSION_ID=unstable-amd64-sbuild-58d11ac0-1592-4c03-b119-ec5b025a86cc SCHROOT_UID=1003 SCHROOT_USER=helmut SHELL=/bin/sh USER=helmut dpkg-buildpackage ----------------- Command: dpkg-buildpackage -amips64el -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package blasr dpkg-buildpackage: info: source version 5.3.3+dfsg-7 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Nilesh Patra 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 --buildsystem=meson dh_auto_clean -O--buildsystem=meson dh_autoreconf_clean -O--buildsystem=meson dh_clean -O--buildsystem=meson debian/rules binary-arch dh binary-arch --buildsystem=meson dh_update_autotools_config -a -O--buildsystem=meson dh_autoreconf -a -O--buildsystem=meson debian/rules override_dh_auto_configure make[1]: Entering directory '/<>' LDFLAGS="-L/usr/lib/mips64el-linux-gnuabi64 -L/usr/lib/mips64el-linux-gnuabi64/hdf5/serial -lhdf5_cpp -lhdf5 -Wl,-z,relro" CPPFLAGS="-isystem /usr/include/hdf5/serial" dh_auto_configure -- -Dtests=false cd obj-mips64el-linux-gnuabi64 && LC_ALL=C.UTF-8 meson .. --wrap-mode=nodownload --buildtype=plain --prefix=/usr --sysconfdir=/etc --localstatedir=/var --libdir=lib/mips64el-linux-gnuabi64 --cross-file /<>/blasr-5.3.3\+dfsg/debian/.debhelper/generated/_source/meson-cross-file.conf -Dtests=false DEPRECATION: c_args in the [properties] section of the machine file is deprecated, use the [built-in options] section. DEPRECATION: cpp_args in the [properties] section of the machine file is deprecated, use the [built-in options] section. DEPRECATION: c_link_args in the [properties] section of the machine file is deprecated, use the [built-in options] section. DEPRECATION: cpp_link_args in the [properties] section of the machine file is deprecated, use the [built-in options] section. The Meson build system Version: 0.59.2 Source dir: /<> Build dir: /<>/obj-mips64el-linux-gnuabi64 Build type: cross build Project name: blasr Project version: 5.3.3 C++ compiler for the host machine: /usr/bin/mips64el-linux-gnuabi64-g++ (gcc 10.2.1 "mips64el-linux-gnuabi64-g++ (Debian 10.2.1-6) 10.2.1 20210110") C++ linker for the host machine: /usr/bin/mips64el-linux-gnuabi64-g++ ld.bfd 2.37 C++ compiler for the build machine: c++ (gcc 10.3.0 "c++ (Debian 10.3.0-11) 10.3.0") C++ linker for the build machine: c++ ld.bfd 2.37 Build machine cpu family: x86_64 Build machine cpu: x86_64 Host machine cpu family: mips64 Host machine cpu: mips64 Target machine cpu family: mips64 Target machine cpu: mips64 Compiler for C++ supports arguments -Wno-delete-non-virtual-dtor: YES Compiler for C++ supports arguments -Wno-non-virtual-dtor: YES Compiler for C++ supports arguments -Wno-unused-but-set-variable: YES Compiler for C++ supports arguments -Wno-unused-variable: YES Run-time dependency threads found: YES Found pkg-config: /usr/bin/mips64el-linux-gnuabi64-pkg-config (0.29.2) Run-time dependency Boost found: YES 1.74.0 (/usr/include) Library pbbam found: YES Run-time dependency libblasr found: YES 5.3.4 Run-time dependency zlib found: YES 1.2.11 Library pbcopper found: YES Configuring BlasrVersion.h using configuration Program /usr/bin/meson found: YES (/usr/bin/meson) Build targets in project: 5 Option buildtype is: plain [default: release] Found ninja-1.10.1 at /usr/bin/ninja make[1]: Leaving directory '/<>' dh_auto_build -a -O--buildsystem=meson cd obj-mips64el-linux-gnuabi64 && LC_ALL=C.UTF-8 ninja -j1 -v [1/25] /usr/bin/meson --internal vcstagger ../BlasrGitHash.h.in BlasrGitHash.h '' /<> @BLASR_GIT_SHA1@ '(.*)' /<>/git describe --always '--dirty=*' [2/25] /usr/bin/mips64el-linux-gnuabi64-g++ -Ilibblasr_impl.a.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -fPIC -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -MD -MQ libblasr_impl.a.p/extrautils_SuffixArrayToBWT.cpp.o -MF libblasr_impl.a.p/extrautils_SuffixArrayToBWT.cpp.o.d -o libblasr_impl.a.p/extrautils_SuffixArrayToBWT.cpp.o -c ../extrautils/SuffixArrayToBWT.cpp In file included from ../extrautils/SuffixArrayToBWT.cpp:4: /usr/include/pbseq/alignment/bwt/BWT.hpp: In member function ‘void Bwt::InitializeDNACharacterCount() [with T_BWT_Sequence = PackedDNASequence; T_DNASequence = FASTASequence]’: /usr/include/pbseq/alignment/bwt/BWT.hpp:192:21: warning: this statement may fall through [-Wimplicit-fallthrough=] 192 | charCount[0]++; | ^~~~~~~~~ /usr/include/pbseq/alignment/bwt/BWT.hpp:193:17: note: here 193 | case 0: //A | ^~~~ /usr/include/pbseq/alignment/bwt/BWT.hpp:194:21: warning: this statement may fall through [-Wimplicit-fallthrough=] 194 | charCount[1]++; | ^~~~~~~~~ /usr/include/pbseq/alignment/bwt/BWT.hpp:195:17: note: here 195 | case 1: //C | ^~~~ /usr/include/pbseq/alignment/bwt/BWT.hpp:196:21: warning: this statement may fall through [-Wimplicit-fallthrough=] 196 | charCount[2]++; | ^~~~~~~~~ /usr/include/pbseq/alignment/bwt/BWT.hpp:197:17: note: here 197 | case 2: //G | ^~~~ /usr/include/pbseq/alignment/bwt/BWT.hpp:198:21: warning: this statement may fall through [-Wimplicit-fallthrough=] 198 | charCount[3]++; | ^~~~~~~~~ /usr/include/pbseq/alignment/bwt/BWT.hpp:199:17: note: here 199 | case 3: //T | ^~~~ /usr/include/pbseq/alignment/bwt/BWT.hpp:200:21: warning: this statement may fall through [-Wimplicit-fallthrough=] 200 | charCount[4]++; | ^~~~~~~~~ /usr/include/pbseq/alignment/bwt/BWT.hpp:201:17: note: here 201 | case 4: //N | ^~~~ [3/25] /usr/bin/mips64el-linux-gnuabi64-g++ -Ilibblasr_impl.a.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -fPIC -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -MD -MQ libblasr_impl.a.p/extrautils_BwtToSuffixArray.cpp.o -MF libblasr_impl.a.p/extrautils_BwtToSuffixArray.cpp.o.d -o libblasr_impl.a.p/extrautils_BwtToSuffixArray.cpp.o -c ../extrautils/BwtToSuffixArray.cpp [4/25] /usr/bin/mips64el-linux-gnuabi64-g++ -Ilibblasr_impl.a.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -fPIC -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -MD -MQ libblasr_impl.a.p/extrautils_SWMatcher.cpp.o -MF libblasr_impl.a.p/extrautils_SWMatcher.cpp.o.d -o libblasr_impl.a.p/extrautils_SWMatcher.cpp.o -c ../extrautils/SWMatcher.cpp In file included from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from ../extrautils/SWMatcher.cpp:6: /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp: In instantiation of ‘void __gnu_cxx::new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment]’: /usr/mips64el-linux-gnuabi64/include/c++/10/bits/alloc_traits.h:512:17: required from ‘static void std::allocator_traits >::construct(std::allocator_traits >::allocator_type&, _Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment; std::allocator_traits >::allocator_type = std::allocator]’ /usr/mips64el-linux-gnuabi64/include/c++/10/bits/stl_vector.h:1192:30: required from ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = blasr::CompSeqAlignment; _Alloc = std::allocator; std::vector<_Tp, _Alloc>::value_type = blasr::CompSeqAlignment]’ /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtilsImpl.hpp:112:39: required from here /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:209:7: warning: implicitly-declared ‘blasr::Alignment::Alignment(const blasr::Alignment&)’ is deprecated [-Wdeprecated-copy] 209 | class CompSeqAlignment : public Alignment | ^~~~~~~~~~~~~~~~ /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:103:16: note: because ‘blasr::Alignment’ has user-provided ‘blasr::Alignment& blasr::Alignment::operator=(const blasr::Alignment&)’ 103 | Alignment &operator=(const Alignment &rhs); | ^~~~~~~~ /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:58:7: warning: implicitly-declared ‘constexpr blasr::AlignmentStats::AlignmentStats(const blasr::AlignmentStats&)’ is deprecated [-Wdeprecated-copy] 58 | class Alignment : public AlignmentStats | ^~~~~~~~~ In file included from /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:8, from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from ../extrautils/SWMatcher.cpp:6: /usr/include/pbseq/alignment/datastructures/alignment/AlignmentStats.hpp:19:21: note: because ‘blasr::AlignmentStats’ has user-provided ‘blasr::AlignmentStats& blasr::AlignmentStats::operator=(const blasr::AlignmentStats&)’ 19 | AlignmentStats &operator=(const AlignmentStats &rhs); | ^~~~~~~~ In file included from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from ../extrautils/SWMatcher.cpp:6: /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:209:7: note: synthesized method ‘blasr::Alignment::Alignment(const blasr::Alignment&)’ first required here 209 | class CompSeqAlignment : public Alignment | ^~~~~~~~~~~~~~~~ In file included from /usr/mips64el-linux-gnuabi64/include/c++/10/mips64el-linux-gnuabi64/bits/c++allocator.h:33, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/allocator.h:46, from /usr/mips64el-linux-gnuabi64/include/c++/10/string:41, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/locale_classes.h:40, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/ios_base.h:41, from /usr/mips64el-linux-gnuabi64/include/c++/10/ios:42, from /usr/mips64el-linux-gnuabi64/include/c++/10/ostream:38, from /usr/mips64el-linux-gnuabi64/include/c++/10/iostream:39, from ../extrautils/SWMatcher.cpp:2: /usr/mips64el-linux-gnuabi64/include/c++/10/ext/new_allocator.h:150:4: note: synthesized method ‘blasr::CompSeqAlignment::CompSeqAlignment(const blasr::CompSeqAlignment&)’ first required here 150 | { ::new((void *)__p) _Up(std::forward<_Args>(__args)...); } | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [5/25] /usr/bin/mips64el-linux-gnuabi64-g++ -Ilibblasr_impl.a.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -fPIC -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -MD -MQ libblasr_impl.a.p/extrautils_SAModify.cpp.o -MF libblasr_impl.a.p/extrautils_SAModify.cpp.o.d -o libblasr_impl.a.p/extrautils_SAModify.cpp.o -c ../extrautils/SAModify.cpp [6/25] /usr/bin/mips64el-linux-gnuabi64-g++ -Ilibblasr_impl.a.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -fPIC -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -MD -MQ libblasr_impl.a.p/extrautils_ExciseRepeats.cpp.o -MF libblasr_impl.a.p/extrautils_ExciseRepeats.cpp.o.d -o libblasr_impl.a.p/extrautils_ExciseRepeats.cpp.o -c ../extrautils/ExciseRepeats.cpp [7/25] /usr/bin/mips64el-linux-gnuabi64-g++ -Ilibblasr_impl.a.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -fPIC -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -MD -MQ libblasr_impl.a.p/extrautils_StoreQualityByContextFromCmpH5.cpp.o -MF libblasr_impl.a.p/extrautils_StoreQualityByContextFromCmpH5.cpp.o.d -o libblasr_impl.a.p/extrautils_StoreQualityByContextFromCmpH5.cpp.o -c ../extrautils/StoreQualityByContextFromCmpH5.cpp In file included from /usr/include/pbseq/hdf/BufferedHDFArray.hpp:217, from /usr/include/pbseq/hdf/HDFArray.hpp:9, from /usr/include/pbseq/hdf/HDFBasReader.hpp:13, from /usr/include/pbseq/alignment/files/ReaderAgglomerate.hpp:8, from ../extrautils/StoreQualityByContextFromCmpH5.cpp:2: /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp: In instantiation of ‘void BufferedHDFArray::Flush(bool, DSLength) [with T = std::__cxx11::basic_string; DSLength = long unsigned int]’: /usr/include/pbseq/hdf/HDFArray.hpp:67:20: required from ‘void HDFArray::Write(const T*, int) [with T = std::__cxx11::basic_string]’ /usr/include/pbseq/hdf/HDFFileLogGroup.hpp:36:43: required from here /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp:146:36: warning: catching polymorphic type ‘class H5::DataSetIException’ by value [-Wcatch-value=] 146 | } catch (H5::DataSetIException e) { | ^ /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp: In instantiation of ‘void BufferedHDFArray::Flush(bool, DSLength) [with T = unsigned int; DSLength = long unsigned int]’: /usr/include/pbseq/hdf/HDFArray.hpp:67:20: required from ‘void HDFArray::Write(const T*, int) [with T = unsigned int]’ /usr/include/pbseq/hdf/HDFFileLogGroup.hpp:44:29: required from here /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp:146:36: warning: catching polymorphic type ‘class H5::DataSetIException’ by value [-Wcatch-value=] /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp: In instantiation of ‘void BufferedHDFArray::Flush(bool, DSLength) [with T = float; DSLength = long unsigned int]’: /usr/include/pbseq/hdf/HDFArray.hpp:51:20: required from ‘void HDFArray::WriteToPos(const T*, int, UInt) [with T = float; UInt = unsigned int]’ /usr/include/pbseq/hdf/HDFMovieInfoGroup.hpp:81:60: required from here /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp:146:36: warning: catching polymorphic type ‘class H5::DataSetIException’ by value [-Wcatch-value=] In file included from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from /usr/include/pbseq/alignment/format/StickAlignmentPrinter.hpp:8, from ../extrautils/StoreQualityByContextFromCmpH5.cpp:3: /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp: In instantiation of ‘void __gnu_cxx::new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment]’: /usr/mips64el-linux-gnuabi64/include/c++/10/bits/alloc_traits.h:512:17: required from ‘static void std::allocator_traits >::construct(std::allocator_traits >::allocator_type&, _Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment; std::allocator_traits >::allocator_type = std::allocator]’ /usr/mips64el-linux-gnuabi64/include/c++/10/bits/stl_vector.h:1192:30: required from ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = blasr::CompSeqAlignment; _Alloc = std::allocator; std::vector<_Tp, _Alloc>::value_type = blasr::CompSeqAlignment]’ /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtilsImpl.hpp:112:39: required from here /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:209:7: warning: implicitly-declared ‘blasr::Alignment::Alignment(const blasr::Alignment&)’ is deprecated [-Wdeprecated-copy] 209 | class CompSeqAlignment : public Alignment | ^~~~~~~~~~~~~~~~ /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:103:16: note: because ‘blasr::Alignment’ has user-provided ‘blasr::Alignment& blasr::Alignment::operator=(const blasr::Alignment&)’ 103 | Alignment &operator=(const Alignment &rhs); | ^~~~~~~~ /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:58:7: warning: implicitly-declared ‘constexpr blasr::AlignmentStats::AlignmentStats(const blasr::AlignmentStats&)’ is deprecated [-Wdeprecated-copy] 58 | class Alignment : public AlignmentStats | ^~~~~~~~~ In file included from /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:8, from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from /usr/include/pbseq/alignment/format/StickAlignmentPrinter.hpp:8, from ../extrautils/StoreQualityByContextFromCmpH5.cpp:3: /usr/include/pbseq/alignment/datastructures/alignment/AlignmentStats.hpp:19:21: note: because ‘blasr::AlignmentStats’ has user-provided ‘blasr::AlignmentStats& blasr::AlignmentStats::operator=(const blasr::AlignmentStats&)’ 19 | AlignmentStats &operator=(const AlignmentStats &rhs); | ^~~~~~~~ In file included from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from /usr/include/pbseq/alignment/format/StickAlignmentPrinter.hpp:8, from ../extrautils/StoreQualityByContextFromCmpH5.cpp:3: /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:209:7: note: synthesized method ‘blasr::Alignment::Alignment(const blasr::Alignment&)’ first required here 209 | class CompSeqAlignment : public Alignment | ^~~~~~~~~~~~~~~~ In file included from /usr/mips64el-linux-gnuabi64/include/c++/10/mips64el-linux-gnuabi64/bits/c++allocator.h:33, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/allocator.h:46, from /usr/mips64el-linux-gnuabi64/include/c++/10/vector:64, from /usr/include/pbseq/alignment/datastructures/alignment/CmpFile.hpp:4, from ../extrautils/StoreQualityByContextFromCmpH5.cpp:1: /usr/mips64el-linux-gnuabi64/include/c++/10/ext/new_allocator.h:150:4: note: synthesized method ‘blasr::CompSeqAlignment::CompSeqAlignment(const blasr::CompSeqAlignment&)’ first required here 150 | { ::new((void *)__p) _Up(std::forward<_Args>(__args)...); } | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [8/25] /usr/bin/mips64el-linux-gnuabi64-g++ -Ilibblasr_impl.a.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -fPIC -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -MD -MQ libblasr_impl.a.p/extrautils_SALS.cpp.o -MF libblasr_impl.a.p/extrautils_SALS.cpp.o.d -o libblasr_impl.a.p/extrautils_SALS.cpp.o -c ../extrautils/SALS.cpp [9/25] /usr/bin/mips64el-linux-gnuabi64-g++ -Ilibblasr_impl.a.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -fPIC -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -MD -MQ libblasr_impl.a.p/extrautils_SimpleShredder.cpp.o -MF libblasr_impl.a.p/extrautils_SimpleShredder.cpp.o.d -o libblasr_impl.a.p/extrautils_SimpleShredder.cpp.o -c ../extrautils/SimpleShredder.cpp [10/25] /usr/bin/mips64el-linux-gnuabi64-g++ -Ilibblasr_impl.a.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -fPIC -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -MD -MQ libblasr_impl.a.p/extrautils_Evolve.cpp.o -MF libblasr_impl.a.p/extrautils_Evolve.cpp.o.d -o libblasr_impl.a.p/extrautils_Evolve.cpp.o -c ../extrautils/Evolve.cpp [11/25] /usr/bin/mips64el-linux-gnuabi64-g++ -Ilibblasr_impl.a.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -fPIC -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -MD -MQ libblasr_impl.a.p/extrautils_BuildSequenceDB.cpp.o -MF libblasr_impl.a.p/extrautils_BuildSequenceDB.cpp.o.d -o libblasr_impl.a.p/extrautils_BuildSequenceDB.cpp.o -c ../extrautils/BuildSequenceDB.cpp [12/25] /usr/bin/mips64el-linux-gnuabi64-g++ -Ilibblasr_impl.a.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -fPIC -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -MD -MQ libblasr_impl.a.p/extrautils_PrintTupleCountTable.cpp.o -MF libblasr_impl.a.p/extrautils_PrintTupleCountTable.cpp.o.d -o libblasr_impl.a.p/extrautils_PrintTupleCountTable.cpp.o -c ../extrautils/PrintTupleCountTable.cpp [13/25] /usr/bin/mips64el-linux-gnuabi64-g++ -Ilibblasr_impl.a.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -fPIC -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -MD -MQ libblasr_impl.a.p/utils_SamToM4.cpp.o -MF libblasr_impl.a.p/utils_SamToM4.cpp.o.d -o libblasr_impl.a.p/utils_SamToM4.cpp.o -c ../utils/SamToM4.cpp In file included from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from ../utils/SamToM4.cpp:21: /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp: In instantiation of ‘void __gnu_cxx::new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment]’: /usr/mips64el-linux-gnuabi64/include/c++/10/bits/alloc_traits.h:512:17: required from ‘static void std::allocator_traits >::construct(std::allocator_traits >::allocator_type&, _Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment; std::allocator_traits >::allocator_type = std::allocator]’ /usr/mips64el-linux-gnuabi64/include/c++/10/bits/stl_vector.h:1192:30: required from ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = blasr::CompSeqAlignment; _Alloc = std::allocator; std::vector<_Tp, _Alloc>::value_type = blasr::CompSeqAlignment]’ /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtilsImpl.hpp:112:39: required from here /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:209:7: warning: implicitly-declared ‘blasr::Alignment::Alignment(const blasr::Alignment&)’ is deprecated [-Wdeprecated-copy] 209 | class CompSeqAlignment : public Alignment | ^~~~~~~~~~~~~~~~ /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:103:16: note: because ‘blasr::Alignment’ has user-provided ‘blasr::Alignment& blasr::Alignment::operator=(const blasr::Alignment&)’ 103 | Alignment &operator=(const Alignment &rhs); | ^~~~~~~~ /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:58:7: warning: implicitly-declared ‘constexpr blasr::AlignmentStats::AlignmentStats(const blasr::AlignmentStats&)’ is deprecated [-Wdeprecated-copy] 58 | class Alignment : public AlignmentStats | ^~~~~~~~~ In file included from /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:8, from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from ../utils/SamToM4.cpp:21: /usr/include/pbseq/alignment/datastructures/alignment/AlignmentStats.hpp:19:21: note: because ‘blasr::AlignmentStats’ has user-provided ‘blasr::AlignmentStats& blasr::AlignmentStats::operator=(const blasr::AlignmentStats&)’ 19 | AlignmentStats &operator=(const AlignmentStats &rhs); | ^~~~~~~~ In file included from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from ../utils/SamToM4.cpp:21: /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:209:7: note: synthesized method ‘blasr::Alignment::Alignment(const blasr::Alignment&)’ first required here 209 | class CompSeqAlignment : public Alignment | ^~~~~~~~~~~~~~~~ In file included from /usr/mips64el-linux-gnuabi64/include/c++/10/mips64el-linux-gnuabi64/bits/c++allocator.h:33, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/allocator.h:46, from /usr/mips64el-linux-gnuabi64/include/c++/10/string:41, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/locale_classes.h:40, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/ios_base.h:41, from /usr/mips64el-linux-gnuabi64/include/c++/10/ios:42, from /usr/mips64el-linux-gnuabi64/include/c++/10/ostream:38, from /usr/mips64el-linux-gnuabi64/include/c++/10/iostream:39, from ../utils/SamToM4.cpp:19: /usr/mips64el-linux-gnuabi64/include/c++/10/ext/new_allocator.h:150:4: note: synthesized method ‘blasr::CompSeqAlignment::CompSeqAlignment(const blasr::CompSeqAlignment&)’ first required here 150 | { ::new((void *)__p) _Up(std::forward<_Args>(__args)...); } | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [14/25] /usr/bin/mips64el-linux-gnuabi64-g++ -Ilibblasr_impl.a.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -fPIC -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -MD -MQ libblasr_impl.a.p/utils_SamToCmpH5.cpp.o -MF libblasr_impl.a.p/utils_SamToCmpH5.cpp.o.d -o libblasr_impl.a.p/utils_SamToCmpH5.cpp.o -c ../utils/SamToCmpH5.cpp In file included from /usr/include/pbseq/hdf/BufferedHDFArray.hpp:217, from /usr/include/pbseq/hdf/HDFArray.hpp:9, from /usr/include/pbseq/hdf/HDFAlnGroupGroup.hpp:6, from /usr/include/pbseq/hdf/HDFCmpFile.hpp:12, from /usr/include/pbseq/alignment/datastructures/alignmentset/AlignmentSetToCmpH5Adapter.hpp:7, from ../utils/SamToCmpH5.cpp:5: /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp: In instantiation of ‘void BufferedHDFArray::Flush(bool, DSLength) [with T = std::__cxx11::basic_string; DSLength = long unsigned int]’: /usr/include/pbseq/hdf/HDFArray.hpp:67:20: required from ‘void HDFArray::Write(const T*, int) [with T = std::__cxx11::basic_string]’ /usr/include/pbseq/hdf/HDFFileLogGroup.hpp:36:43: required from here /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp:146:36: warning: catching polymorphic type ‘class H5::DataSetIException’ by value [-Wcatch-value=] 146 | } catch (H5::DataSetIException e) { | ^ /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp: In instantiation of ‘void BufferedHDFArray::Flush(bool, DSLength) [with T = unsigned int; DSLength = long unsigned int]’: /usr/include/pbseq/hdf/HDFArray.hpp:67:20: required from ‘void HDFArray::Write(const T*, int) [with T = unsigned int]’ /usr/include/pbseq/hdf/HDFFileLogGroup.hpp:44:29: required from here /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp:146:36: warning: catching polymorphic type ‘class H5::DataSetIException’ by value [-Wcatch-value=] /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp: In instantiation of ‘void BufferedHDFArray::Flush(bool, DSLength) [with T = float; DSLength = long unsigned int]’: /usr/include/pbseq/hdf/HDFArray.hpp:51:20: required from ‘void HDFArray::WriteToPos(const T*, int, UInt) [with T = float; UInt = unsigned int]’ /usr/include/pbseq/hdf/HDFMovieInfoGroup.hpp:81:60: required from here /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp:146:36: warning: catching polymorphic type ‘class H5::DataSetIException’ by value [-Wcatch-value=] In file included from /usr/include/pbseq/alignment/datastructures/alignment/AlignmentCandidate.hpp:6, from ../utils/SamToCmpH5.cpp:3: /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp: In instantiation of ‘void __gnu_cxx::new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment]’: /usr/mips64el-linux-gnuabi64/include/c++/10/bits/alloc_traits.h:512:17: required from ‘static void std::allocator_traits >::construct(std::allocator_traits >::allocator_type&, _Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment; std::allocator_traits >::allocator_type = std::allocator]’ /usr/mips64el-linux-gnuabi64/include/c++/10/bits/stl_vector.h:1192:30: required from ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = blasr::CompSeqAlignment; _Alloc = std::allocator; std::vector<_Tp, _Alloc>::value_type = blasr::CompSeqAlignment]’ /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtilsImpl.hpp:112:39: required from here /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:209:7: warning: implicitly-declared ‘blasr::Alignment::Alignment(const blasr::Alignment&)’ is deprecated [-Wdeprecated-copy] 209 | class CompSeqAlignment : public Alignment | ^~~~~~~~~~~~~~~~ /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:103:16: note: because ‘blasr::Alignment’ has user-provided ‘blasr::Alignment& blasr::Alignment::operator=(const blasr::Alignment&)’ 103 | Alignment &operator=(const Alignment &rhs); | ^~~~~~~~ /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:58:7: warning: implicitly-declared ‘constexpr blasr::AlignmentStats::AlignmentStats(const blasr::AlignmentStats&)’ is deprecated [-Wdeprecated-copy] 58 | class Alignment : public AlignmentStats | ^~~~~~~~~ In file included from /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:8, from /usr/include/pbseq/alignment/datastructures/alignment/AlignmentCandidate.hpp:6, from ../utils/SamToCmpH5.cpp:3: /usr/include/pbseq/alignment/datastructures/alignment/AlignmentStats.hpp:19:21: note: because ‘blasr::AlignmentStats’ has user-provided ‘blasr::AlignmentStats& blasr::AlignmentStats::operator=(const blasr::AlignmentStats&)’ 19 | AlignmentStats &operator=(const AlignmentStats &rhs); | ^~~~~~~~ In file included from /usr/include/pbseq/alignment/datastructures/alignment/AlignmentCandidate.hpp:6, from ../utils/SamToCmpH5.cpp:3: /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:209:7: note: synthesized method ‘blasr::Alignment::Alignment(const blasr::Alignment&)’ first required here 209 | class CompSeqAlignment : public Alignment | ^~~~~~~~~~~~~~~~ In file included from /usr/mips64el-linux-gnuabi64/include/c++/10/mips64el-linux-gnuabi64/bits/c++allocator.h:33, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/allocator.h:46, from /usr/mips64el-linux-gnuabi64/include/c++/10/string:41, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/locale_classes.h:40, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/ios_base.h:41, from /usr/mips64el-linux-gnuabi64/include/c++/10/ios:42, from /usr/mips64el-linux-gnuabi64/include/c++/10/ostream:38, from /usr/mips64el-linux-gnuabi64/include/c++/10/iostream:39, from ../utils/SamToCmpH5.cpp:1: /usr/mips64el-linux-gnuabi64/include/c++/10/ext/new_allocator.h:150:4: note: synthesized method ‘blasr::CompSeqAlignment::CompSeqAlignment(const blasr::CompSeqAlignment&)’ first required here 150 | { ::new((void *)__p) _Up(std::forward<_Args>(__args)...); } | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/pbseq/alignment/datastructures/alignmentset/AlignmentSetToCmpH5Adapter.hpp:79, from ../utils/SamToCmpH5.cpp:5: /usr/include/pbseq/alignment/datastructures/alignmentset/AlignmentSetToCmpH5AdapterImpl.hpp: In instantiation of ‘unsigned int AlignmentSetToCmpH5Adapter::StoreRefGroup(std::string, T_CmpFile&) [with T_CmpFile = HDFCmpFile >; std::string = std::__cxx11::basic_string]’: /usr/include/pbseq/alignment/datastructures/alignmentset/AlignmentSetToCmpH5AdapterImpl.hpp:136:31: required from ‘void AlignmentSetToCmpH5Adapter::StoreAlignmentCandidate(AlignmentCandidate<>&, int, T_CmpFile&, int, bool) [with T_CmpFile = HDFCmpFile >]’ /usr/include/pbseq/alignment/datastructures/alignmentset/AlignmentSetToCmpH5AdapterImpl.hpp:246:32: required from ‘void AlignmentSetToCmpH5Adapter::StoreAlignmentCandidateList(std::vector >&, T_CmpFile&, int, bool) [with T_CmpFile = HDFCmpFile >]’ ../utils/SamToCmpH5.cpp:199:98: required from here /usr/include/pbseq/alignment/datastructures/alignmentset/AlignmentSetToCmpH5AdapterImpl.hpp:64:45: warning: implicitly-declared ‘RefGroupNameId& RefGroupNameId::operator=(const RefGroupNameId&)’ is deprecated [-Wdeprecated-copy] 64 | refNameToRefGroupNameandId[refName] = RefGroupNameId(refGroupName, refGroupId); In file included from ../utils/SamToCmpH5.cpp:5: /usr/include/pbseq/alignment/datastructures/alignmentset/AlignmentSetToCmpH5Adapter.hpp:28:5: note: because ‘RefGroupNameId’ has user-provided ‘RefGroupNameId::RefGroupNameId(const RefGroupNameId&)’ 28 | RefGroupNameId(const RefGroupNameId &rhs) | ^~~~~~~~~~~~~~ [15/25] /usr/bin/mips64el-linux-gnuabi64-g++ -Ilibblasr_impl.a.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -fPIC -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -MD -MQ libblasr_impl.a.p/utils_SDPMatcher.cpp.o -MF libblasr_impl.a.p/utils_SDPMatcher.cpp.o.d -o libblasr_impl.a.p/utils_SDPMatcher.cpp.o -c ../utils/SDPMatcher.cpp In file included from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from ../utils/SDPMatcher.cpp:8: /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp: In instantiation of ‘void __gnu_cxx::new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment]’: /usr/mips64el-linux-gnuabi64/include/c++/10/bits/alloc_traits.h:512:17: required from ‘static void std::allocator_traits >::construct(std::allocator_traits >::allocator_type&, _Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment; std::allocator_traits >::allocator_type = std::allocator]’ /usr/mips64el-linux-gnuabi64/include/c++/10/bits/stl_vector.h:1192:30: required from ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = blasr::CompSeqAlignment; _Alloc = std::allocator; std::vector<_Tp, _Alloc>::value_type = blasr::CompSeqAlignment]’ /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtilsImpl.hpp:112:39: required from here /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:209:7: warning: implicitly-declared ‘blasr::Alignment::Alignment(const blasr::Alignment&)’ is deprecated [-Wdeprecated-copy] 209 | class CompSeqAlignment : public Alignment | ^~~~~~~~~~~~~~~~ /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:103:16: note: because ‘blasr::Alignment’ has user-provided ‘blasr::Alignment& blasr::Alignment::operator=(const blasr::Alignment&)’ 103 | Alignment &operator=(const Alignment &rhs); | ^~~~~~~~ /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:58:7: warning: implicitly-declared ‘constexpr blasr::AlignmentStats::AlignmentStats(const blasr::AlignmentStats&)’ is deprecated [-Wdeprecated-copy] 58 | class Alignment : public AlignmentStats | ^~~~~~~~~ In file included from /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:8, from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from ../utils/SDPMatcher.cpp:8: /usr/include/pbseq/alignment/datastructures/alignment/AlignmentStats.hpp:19:21: note: because ‘blasr::AlignmentStats’ has user-provided ‘blasr::AlignmentStats& blasr::AlignmentStats::operator=(const blasr::AlignmentStats&)’ 19 | AlignmentStats &operator=(const AlignmentStats &rhs); | ^~~~~~~~ In file included from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from ../utils/SDPMatcher.cpp:8: /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:209:7: note: synthesized method ‘blasr::Alignment::Alignment(const blasr::Alignment&)’ first required here 209 | class CompSeqAlignment : public Alignment | ^~~~~~~~~~~~~~~~ In file included from /usr/mips64el-linux-gnuabi64/include/c++/10/mips64el-linux-gnuabi64/bits/c++allocator.h:33, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/allocator.h:46, from /usr/mips64el-linux-gnuabi64/include/c++/10/string:41, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/locale_classes.h:40, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/ios_base.h:41, from /usr/mips64el-linux-gnuabi64/include/c++/10/ios:42, from /usr/mips64el-linux-gnuabi64/include/c++/10/ostream:38, from /usr/mips64el-linux-gnuabi64/include/c++/10/iostream:39, from ../utils/SDPMatcher.cpp:3: /usr/mips64el-linux-gnuabi64/include/c++/10/ext/new_allocator.h:150:4: note: synthesized method ‘blasr::CompSeqAlignment::CompSeqAlignment(const blasr::CompSeqAlignment&)’ first required here 150 | { ::new((void *)__p) _Up(std::forward<_Args>(__args)...); } | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [16/25] /usr/bin/mips64el-linux-gnuabi64-g++ -Ilibblasr_impl.a.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -fPIC -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -MD -MQ libblasr_impl.a.p/utils_LoadPulses.cpp.o -MF libblasr_impl.a.p/utils_LoadPulses.cpp.o.d -o libblasr_impl.a.p/utils_LoadPulses.cpp.o -c ../utils/LoadPulses.cpp In file included from ../utils/LoadPulses.cpp:19: /usr/include/pbseq/hdf/HDFPlsReader.hpp: In member function ‘int HDFPlsReader::GetNextFlattenedToBase(SMRTSequence&, int*)’: /usr/include/pbseq/hdf/HDFPlsReader.hpp:549:36: warning: catching polymorphic type ‘class H5::DataSetIException’ by value [-Wcatch-value=] 549 | } catch (DataSetIException e) { | ^ In file included from /usr/include/pbseq/hdf/BufferedHDFArray.hpp:217, from /usr/include/pbseq/hdf/HDFArray.hpp:9, from /usr/include/pbseq/hdf/HDFBasReader.hpp:13, from ../utils/LoadPulses.cpp:16: /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp: In instantiation of ‘void BufferedHDFArray::Flush(bool, DSLength) [with T = std::__cxx11::basic_string; DSLength = long unsigned int]’: /usr/include/pbseq/hdf/HDFArray.hpp:67:20: required from ‘void HDFArray::Write(const T*, int) [with T = std::__cxx11::basic_string]’ /usr/include/pbseq/hdf/HDFFileLogGroup.hpp:36:43: required from here /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp:146:36: warning: catching polymorphic type ‘class H5::DataSetIException’ by value [-Wcatch-value=] 146 | } catch (H5::DataSetIException e) { | ^ /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp: In instantiation of ‘void BufferedHDFArray::Flush(bool, DSLength) [with T = unsigned int; DSLength = long unsigned int]’: /usr/include/pbseq/hdf/HDFArray.hpp:67:20: required from ‘void HDFArray::Write(const T*, int) [with T = unsigned int]’ /usr/include/pbseq/hdf/HDFFileLogGroup.hpp:44:29: required from here /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp:146:36: warning: catching polymorphic type ‘class H5::DataSetIException’ by value [-Wcatch-value=] /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp: In instantiation of ‘void BufferedHDFArray::Flush(bool, DSLength) [with T = float; DSLength = long unsigned int]’: /usr/include/pbseq/hdf/HDFArray.hpp:51:20: required from ‘void HDFArray::WriteToPos(const T*, int, UInt) [with T = float; UInt = unsigned int]’ /usr/include/pbseq/hdf/HDFMovieInfoGroup.hpp:81:60: required from here /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp:146:36: warning: catching polymorphic type ‘class H5::DataSetIException’ by value [-Wcatch-value=] In file included from ../utils/LoadPulses.cpp:16: /usr/include/pbseq/hdf/HDFBasReader.hpp: In instantiation of ‘int T_HDFBasReader::GetNext(SMRTSequence&) [with T_Sequence = FASTASequence]’: /usr/include/pbseq/hdf/HDFBasReader.hpp:135:23: required from ‘DNALength T_HDFBasReader::GetReadAt(UInt, SMRTSequence&) [with T_Sequence = FASTASequence; DNALength = unsigned int; UInt = unsigned int]’ ../utils/LoadPulses.cpp:680:59: required from here /usr/include/pbseq/hdf/HDFBasReader.hpp:760:40: warning: catching polymorphic type ‘class H5::DataSetIException’ by value [-Wcatch-value=] 760 | } catch (H5::DataSetIException e) { | ^ In file included from /usr/include/pbseq/hdf/BufferedHDFArray.hpp:217, from /usr/include/pbseq/hdf/HDFArray.hpp:9, from /usr/include/pbseq/hdf/HDFBasReader.hpp:13, from ../utils/LoadPulses.cpp:16: /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp: In instantiation of ‘void BufferedHDFArray::Flush(bool, DSLength) [with T = unsigned char; DSLength = long unsigned int]’: /usr/include/pbseq/hdf/HDFArray.hpp:51:20: required from ‘void HDFArray::WriteToPos(const T*, int, UInt) [with T = unsigned char; UInt = unsigned int]’ ../utils/LoadPulses.cpp:1525:62: required from here /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp:146:36: warning: catching polymorphic type ‘class H5::DataSetIException’ by value [-Wcatch-value=] 146 | } catch (H5::DataSetIException e) { | ^ /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp: In instantiation of ‘void BufferedHDFArray::Flush(bool, DSLength) [with T = char; DSLength = long unsigned int]’: /usr/include/pbseq/hdf/HDFArray.hpp:51:20: required from ‘void HDFArray::WriteToPos(const T*, int, UInt) [with T = char; UInt = unsigned int]’ ../utils/LoadPulses.cpp:1537:64: required from here /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp:146:36: warning: catching polymorphic type ‘class H5::DataSetIException’ by value [-Wcatch-value=] /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp: In instantiation of ‘void BufferedHDFArray::Flush(bool, DSLength) [with T = short unsigned int; DSLength = long unsigned int]’: /usr/include/pbseq/hdf/HDFArray.hpp:51:20: required from ‘void HDFArray::WriteToPos(const T*, int, UInt) [with T = short unsigned int; UInt = unsigned int]’ ../utils/LoadPulses.cpp:1547:76: required from here /usr/include/pbseq/hdf/BufferedHDFArrayImpl.hpp:146:36: warning: catching polymorphic type ‘class H5::DataSetIException’ by value [-Wcatch-value=] In file included from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from /usr/include/pbseq/alignment/datastructures/alignment/ByteAlignment.h:6, from ../utils/LoadPulses.cpp:11: /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp: In instantiation of ‘void __gnu_cxx::new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment]’: /usr/mips64el-linux-gnuabi64/include/c++/10/bits/alloc_traits.h:512:17: required from ‘static void std::allocator_traits >::construct(std::allocator_traits >::allocator_type&, _Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment; std::allocator_traits >::allocator_type = std::allocator]’ /usr/mips64el-linux-gnuabi64/include/c++/10/bits/stl_vector.h:1192:30: required from ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = blasr::CompSeqAlignment; _Alloc = std::allocator; std::vector<_Tp, _Alloc>::value_type = blasr::CompSeqAlignment]’ /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtilsImpl.hpp:112:39: required from here /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:209:7: warning: implicitly-declared ‘blasr::Alignment::Alignment(const blasr::Alignment&)’ is deprecated [-Wdeprecated-copy] 209 | class CompSeqAlignment : public Alignment | ^~~~~~~~~~~~~~~~ /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:103:16: note: because ‘blasr::Alignment’ has user-provided ‘blasr::Alignment& blasr::Alignment::operator=(const blasr::Alignment&)’ 103 | Alignment &operator=(const Alignment &rhs); | ^~~~~~~~ /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:58:7: warning: implicitly-declared ‘constexpr blasr::AlignmentStats::AlignmentStats(const blasr::AlignmentStats&)’ is deprecated [-Wdeprecated-copy] 58 | class Alignment : public AlignmentStats | ^~~~~~~~~ In file included from /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:8, from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from /usr/include/pbseq/alignment/datastructures/alignment/ByteAlignment.h:6, from ../utils/LoadPulses.cpp:11: /usr/include/pbseq/alignment/datastructures/alignment/AlignmentStats.hpp:19:21: note: because ‘blasr::AlignmentStats’ has user-provided ‘blasr::AlignmentStats& blasr::AlignmentStats::operator=(const blasr::AlignmentStats&)’ 19 | AlignmentStats &operator=(const AlignmentStats &rhs); | ^~~~~~~~ In file included from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from /usr/include/pbseq/alignment/datastructures/alignment/ByteAlignment.h:6, from ../utils/LoadPulses.cpp:11: /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:209:7: note: synthesized method ‘blasr::Alignment::Alignment(const blasr::Alignment&)’ first required here 209 | class CompSeqAlignment : public Alignment | ^~~~~~~~~~~~~~~~ In file included from /usr/mips64el-linux-gnuabi64/include/c++/10/mips64el-linux-gnuabi64/bits/c++allocator.h:33, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/allocator.h:46, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/stl_tree.h:64, from /usr/mips64el-linux-gnuabi64/include/c++/10/map:60, from ../utils/LoadPulses.cpp:6: /usr/mips64el-linux-gnuabi64/include/c++/10/ext/new_allocator.h:150:4: note: synthesized method ‘blasr::CompSeqAlignment::CompSeqAlignment(const blasr::CompSeqAlignment&)’ first required here 150 | { ::new((void *)__p) _Up(std::forward<_Args>(__args)...); } | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../utils/LoadPulses.cpp:16: /usr/include/pbseq/hdf/HDFBasReader.hpp: In instantiation of ‘int T_HDFBasReader::GetNext(FASTQSequence&) [with T_Sequence = FASTASequence]’: /usr/include/pbseq/hdf/HDFBasReader.hpp:726:40: required from ‘int T_HDFBasReader::GetNext(SMRTSequence&) [with T_Sequence = FASTASequence]’ /usr/include/pbseq/hdf/HDFBasReader.hpp:135:23: required from ‘DNALength T_HDFBasReader::GetReadAt(UInt, SMRTSequence&) [with T_Sequence = FASTASequence; DNALength = unsigned int; UInt = unsigned int]’ ../utils/LoadPulses.cpp:680:59: required from here /usr/include/pbseq/hdf/HDFBasReader.hpp:647:40: warning: catching polymorphic type ‘class H5::DataSetIException’ by value [-Wcatch-value=] 647 | } catch (H5::DataSetIException e) { | ^ [17/25] /usr/bin/mips64el-linux-gnuabi64-g++ -Ilibblasr_impl.a.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -fPIC -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -MD -MQ libblasr_impl.a.p/utils_PulseToFasta.cpp.o -MF libblasr_impl.a.p/utils_PulseToFasta.cpp.o.d -o libblasr_impl.a.p/utils_PulseToFasta.cpp.o -c ../utils/PulseToFasta.cpp In file included from ../utils/PulseToFasta.cpp:8: /usr/include/pbseq/hdf/HDFPlsReader.hpp: In member function ‘int HDFPlsReader::GetNextFlattenedToBase(SMRTSequence&, int*)’: /usr/include/pbseq/hdf/HDFPlsReader.hpp:549:36: warning: catching polymorphic type ‘class H5::DataSetIException’ by value [-Wcatch-value=] 549 | } catch (DataSetIException e) { | ^ In file included from /usr/include/pbseq/alignment/files/ReaderAgglomerate.hpp:8, from ../utils/PulseToFasta.cpp:5: /usr/include/pbseq/hdf/HDFBasReader.hpp: In instantiation of ‘int T_HDFBasReader::GetNext(SMRTSequence&) [with T_Sequence = FASTASequence]’: ../utils/PulseToFasta.cpp:157:41: required from here /usr/include/pbseq/hdf/HDFBasReader.hpp:760:40: warning: catching polymorphic type ‘class H5::DataSetIException’ by value [-Wcatch-value=] 760 | } catch (H5::DataSetIException e) { | ^ /usr/include/pbseq/hdf/HDFBasReader.hpp: In instantiation of ‘int T_HDFBasReader::GetNext(FASTQSequence&) [with T_Sequence = FASTASequence]’: /usr/include/pbseq/hdf/HDFBasReader.hpp:726:40: required from ‘int T_HDFBasReader::GetNext(SMRTSequence&) [with T_Sequence = FASTASequence]’ ../utils/PulseToFasta.cpp:157:41: required from here /usr/include/pbseq/hdf/HDFBasReader.hpp:647:40: warning: catching polymorphic type ‘class H5::DataSetIException’ by value [-Wcatch-value=] 647 | } catch (H5::DataSetIException e) { | ^ [18/25] /usr/bin/mips64el-linux-gnuabi64-g++ -Ilibblasr_impl.a.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -fPIC -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -MD -MQ libblasr_impl.a.p/utils_SamFilter.cpp.o -MF libblasr_impl.a.p/utils_SamFilter.cpp.o.d -o libblasr_impl.a.p/utils_SamFilter.cpp.o -c ../utils/SamFilter.cpp In file included from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from ../utils/SamFilter.cpp:32: /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp: In instantiation of ‘void __gnu_cxx::new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment]’: /usr/mips64el-linux-gnuabi64/include/c++/10/bits/alloc_traits.h:512:17: required from ‘static void std::allocator_traits >::construct(std::allocator_traits >::allocator_type&, _Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment; std::allocator_traits >::allocator_type = std::allocator]’ /usr/mips64el-linux-gnuabi64/include/c++/10/bits/stl_vector.h:1192:30: required from ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = blasr::CompSeqAlignment; _Alloc = std::allocator; std::vector<_Tp, _Alloc>::value_type = blasr::CompSeqAlignment]’ /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtilsImpl.hpp:112:39: required from here /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:209:7: warning: implicitly-declared ‘blasr::Alignment::Alignment(const blasr::Alignment&)’ is deprecated [-Wdeprecated-copy] 209 | class CompSeqAlignment : public Alignment | ^~~~~~~~~~~~~~~~ /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:103:16: note: because ‘blasr::Alignment’ has user-provided ‘blasr::Alignment& blasr::Alignment::operator=(const blasr::Alignment&)’ 103 | Alignment &operator=(const Alignment &rhs); | ^~~~~~~~ /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:58:7: warning: implicitly-declared ‘constexpr blasr::AlignmentStats::AlignmentStats(const blasr::AlignmentStats&)’ is deprecated [-Wdeprecated-copy] 58 | class Alignment : public AlignmentStats | ^~~~~~~~~ In file included from /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:8, from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from ../utils/SamFilter.cpp:32: /usr/include/pbseq/alignment/datastructures/alignment/AlignmentStats.hpp:19:21: note: because ‘blasr::AlignmentStats’ has user-provided ‘blasr::AlignmentStats& blasr::AlignmentStats::operator=(const blasr::AlignmentStats&)’ 19 | AlignmentStats &operator=(const AlignmentStats &rhs); | ^~~~~~~~ In file included from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from ../utils/SamFilter.cpp:32: /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:209:7: note: synthesized method ‘blasr::Alignment::Alignment(const blasr::Alignment&)’ first required here 209 | class CompSeqAlignment : public Alignment | ^~~~~~~~~~~~~~~~ In file included from /usr/mips64el-linux-gnuabi64/include/c++/10/mips64el-linux-gnuabi64/bits/c++allocator.h:33, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/allocator.h:46, from /usr/mips64el-linux-gnuabi64/include/c++/10/string:41, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/locale_classes.h:40, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/ios_base.h:41, from /usr/mips64el-linux-gnuabi64/include/c++/10/ios:42, from /usr/mips64el-linux-gnuabi64/include/c++/10/ostream:38, from /usr/mips64el-linux-gnuabi64/include/c++/10/iostream:39, from ../utils/SamFilter.cpp:29: /usr/mips64el-linux-gnuabi64/include/c++/10/ext/new_allocator.h:150:4: note: synthesized method ‘blasr::CompSeqAlignment::CompSeqAlignment(const blasr::CompSeqAlignment&)’ first required here 150 | { ::new((void *)__p) _Up(std::forward<_Args>(__args)...); } | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [19/25] rm -f libblasr_impl.a && /usr/bin/mips64el-linux-gnuabi64-ar csrD libblasr_impl.a libblasr_impl.a.p/extrautils_SuffixArrayToBWT.cpp.o libblasr_impl.a.p/extrautils_BwtToSuffixArray.cpp.o libblasr_impl.a.p/extrautils_SWMatcher.cpp.o libblasr_impl.a.p/extrautils_SAModify.cpp.o libblasr_impl.a.p/extrautils_ExciseRepeats.cpp.o libblasr_impl.a.p/extrautils_StoreQualityByContextFromCmpH5.cpp.o libblasr_impl.a.p/extrautils_SALS.cpp.o libblasr_impl.a.p/extrautils_SimpleShredder.cpp.o libblasr_impl.a.p/extrautils_Evolve.cpp.o libblasr_impl.a.p/extrautils_BuildSequenceDB.cpp.o libblasr_impl.a.p/extrautils_PrintTupleCountTable.cpp.o libblasr_impl.a.p/utils_SamToM4.cpp.o libblasr_impl.a.p/utils_SamToCmpH5.cpp.o libblasr_impl.a.p/utils_SDPMatcher.cpp.o libblasr_impl.a.p/utils_LoadPulses.cpp.o libblasr_impl.a.p/utils_PulseToFasta.cpp.o libblasr_impl.a.p/utils_SamFilter.cpp.o [20/25] /usr/bin/mips64el-linux-gnuabi64-g++ -Iblasr.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -DCMAKE_BUILD=1 -MD -MQ blasr.p/Blasr.cpp.o -MF blasr.p/Blasr.cpp.o.d -o blasr.p/Blasr.cpp.o -c ../Blasr.cpp In file included from ../iblasr/BlasrMiscs.hpp:56, from ../iblasr/BlasrAlign.hpp:5, from ../Blasr.cpp:3: ../iblasr/BlasrMiscsImpl.hpp: In function ‘void MakeSubreadIntervals(std::vector&, std::vector&)’: ../iblasr/BlasrMiscsImpl.hpp:136:25: warning: implicitly-declared ‘SMRTSequence::SMRTSequence(const SMRTSequence&)’ is deprecated [-Wdeprecated-copy] 136 | for (auto subread : subreads) { | ^~~~~~~~ In file included from /usr/include/pbseq/pbdata/CCSSequence.hpp:5, from /usr/include/pbseq/alignment/files/CCSIterator.hpp:4, from ../iblasr/BlasrHeaders.h:57, from ../iblasr/BlasrAlign.hpp:4, from ../Blasr.cpp:3: /usr/include/pbseq/pbdata/SMRTSequence.hpp:171:19: note: because ‘SMRTSequence’ has user-provided ‘SMRTSequence& SMRTSequence::operator=(const SMRTSequence&)’ 171 | SMRTSequence &operator=(const SMRTSequence &rhs); | ^~~~~~~~ In file included from ../iblasr/BlasrUtils.hpp:138, from ../iblasr/BlasrAlignImpl.hpp:4, from ../iblasr/BlasrAlign.hpp:67, from ../Blasr.cpp:3: ../iblasr/BlasrUtilsImpl.hpp: In function ‘void PrintAlignment(T_AlignmentCandidate&, SMRTSequence&, MappingParameters&, AlignmentContext&, std::ostream&, SMRTSequence&, PacBio::BAM::IRecordWriter*)’: ../iblasr/BlasrUtilsImpl.hpp:976:36: warning: catching polymorphic type ‘class std::ios_base::failure’ by value [-Wcatch-value=] 976 | } catch (std::ostream::failure f) { | ^ In file included from ../iblasr/MappingIPC.h:5, from ../iblasr/BlasrHeaders.h:99, from ../iblasr/BlasrAlign.hpp:4, from ../Blasr.cpp:3: ../iblasr/MappingParameters.h: In copy constructor ‘MappingParameters::MappingParameters(const MappingParameters&)’: ../iblasr/MappingParameters.h:19:7: warning: implicitly-declared ‘constexpr AnchorParameters::AnchorParameters(const AnchorParameters&)’ is deprecated [-Wdeprecated-copy] 19 | class MappingParameters | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/pbseq/alignment/algorithms/anchoring/BWTSearch.hpp:7, from ../iblasr/BlasrHeaders.h:42, from ../iblasr/BlasrAlign.hpp:4, from ../Blasr.cpp:3: /usr/include/pbseq/alignment/datastructures/anchoring/AnchorParameters.hpp:33:23: note: because ‘AnchorParameters’ has user-provided ‘AnchorParameters& AnchorParameters::operator=(const AnchorParameters&)’ 33 | AnchorParameters &operator=(const AnchorParameters &rhs); | ^~~~~~~~ ../Blasr.cpp: In function ‘void MapReadsNonCCS(MappingData >, FASTASequence, DNATuple>*, MappingBuffers&, SMRTSequence&, SMRTSequence&, std::vector&, MappingParameters&, const int&, ReadAlignments&, std::ofstream&)’: ../Blasr.cpp:382:49: note: synthesized method ‘MappingParameters::MappingParameters(const MappingParameters&)’ first required here 382 | MappingParameters sensitiveParams = params; | ^~~~~~ ../Blasr.cpp: In function ‘int main(int, char**)’: ../Blasr.cpp:1407:32: warning: cast between incompatible function types from ‘void (*)(MappingData >, FASTASequence, DNATuple>*)’ to ‘void* (*)(void*)’ [-Wcast-function-type] 1407 | (void *(*)(void *))MapReads, &mapdb[procIndex]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../Blasr.cpp:1462:37: warning: catching polymorphic type ‘class std::exception’ by value [-Wcatch-value=] 1462 | } catch (std::exception e) { | ^ In file included from /usr/include/pbseq/alignment/format/BAMPrinter.hpp:29, from ../iblasr/BlasrHeaders.h:60, from ../iblasr/BlasrAlign.hpp:4, from ../Blasr.cpp:3: /usr/include/pbseq/alignment/format/BAMPrinterImpl.hpp: In instantiation of ‘void AlignmentToBamRecord(T_AlignmentCandidate&, T_Sequence&, T_Sequence&, PacBio::BAM::BamRecord&, AlignmentContext&, SupplementalQVList&, SAMOutput::Clipping, bool, bool) [with T_Sequence = SMRTSequence; T_AlignmentCandidate = AlignmentCandidate]’: /usr/include/pbseq/alignment/format/BAMPrinterImpl.hpp:167:25: required from ‘void BAMOutput::PrintAlignment(T_AlignmentCandidate&, T_Sequence&, T_Sequence&, PacBio::BAM::IRecordWriter&, AlignmentContext&, SupplementalQVList&, SAMOutput::Clipping, bool, bool) [with T_Sequence = SMRTSequence; T_AlignmentCandidate = AlignmentCandidate]’ ../iblasr/BlasrUtilsImpl.hpp:953:65: required from here /usr/include/pbseq/alignment/format/BAMPrinterImpl.hpp:27:45: warning: the compiler can assume that the address of ‘read’ will never be NULL [-Waddress] 27 | if (dynamic_cast(&read) == NULL) { | ^ In file included from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from /usr/include/pbseq/alignment/algorithms/alignment/GuidedAlign.hpp:11, from /usr/include/pbseq/alignment/algorithms/alignment/AffineGuidedAlign.hpp:4, from ../iblasr/BlasrHeaders.h:30, from ../iblasr/BlasrAlign.hpp:4, from ../Blasr.cpp:3: /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp: In instantiation of ‘void __gnu_cxx::new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment]’: /usr/mips64el-linux-gnuabi64/include/c++/10/bits/alloc_traits.h:512:17: required from ‘static void std::allocator_traits >::construct(std::allocator_traits >::allocator_type&, _Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment; std::allocator_traits >::allocator_type = std::allocator]’ /usr/mips64el-linux-gnuabi64/include/c++/10/bits/stl_vector.h:1192:30: required from ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = blasr::CompSeqAlignment; _Alloc = std::allocator; std::vector<_Tp, _Alloc>::value_type = blasr::CompSeqAlignment]’ /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtilsImpl.hpp:112:39: required from here /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:209:7: warning: implicitly-declared ‘blasr::Alignment::Alignment(const blasr::Alignment&)’ is deprecated [-Wdeprecated-copy] 209 | class CompSeqAlignment : public Alignment | ^~~~~~~~~~~~~~~~ /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:103:16: note: because ‘blasr::Alignment’ has user-provided ‘blasr::Alignment& blasr::Alignment::operator=(const blasr::Alignment&)’ 103 | Alignment &operator=(const Alignment &rhs); | ^~~~~~~~ /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:58:7: warning: implicitly-declared ‘constexpr blasr::AlignmentStats::AlignmentStats(const blasr::AlignmentStats&)’ is deprecated [-Wdeprecated-copy] 58 | class Alignment : public AlignmentStats | ^~~~~~~~~ In file included from /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:8, from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from /usr/include/pbseq/alignment/algorithms/alignment/GuidedAlign.hpp:11, from /usr/include/pbseq/alignment/algorithms/alignment/AffineGuidedAlign.hpp:4, from ../iblasr/BlasrHeaders.h:30, from ../iblasr/BlasrAlign.hpp:4, from ../Blasr.cpp:3: /usr/include/pbseq/alignment/datastructures/alignment/AlignmentStats.hpp:19:21: note: because ‘blasr::AlignmentStats’ has user-provided ‘blasr::AlignmentStats& blasr::AlignmentStats::operator=(const blasr::AlignmentStats&)’ 19 | AlignmentStats &operator=(const AlignmentStats &rhs); | ^~~~~~~~ In file included from /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp:7, from /usr/include/pbseq/alignment/algorithms/alignment/GuidedAlign.hpp:11, from /usr/include/pbseq/alignment/algorithms/alignment/AffineGuidedAlign.hpp:4, from ../iblasr/BlasrHeaders.h:30, from ../iblasr/BlasrAlign.hpp:4, from ../Blasr.cpp:3: /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp:209:7: note: synthesized method ‘blasr::Alignment::Alignment(const blasr::Alignment&)’ first required here 209 | class CompSeqAlignment : public Alignment | ^~~~~~~~~~~~~~~~ In file included from /usr/mips64el-linux-gnuabi64/include/c++/10/mips64el-linux-gnuabi64/bits/c++allocator.h:33, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/allocator.h:46, from /usr/mips64el-linux-gnuabi64/include/c++/10/string:41, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/locale_classes.h:40, from /usr/mips64el-linux-gnuabi64/include/c++/10/bits/ios_base.h:41, from /usr/mips64el-linux-gnuabi64/include/c++/10/ios:42, from /usr/mips64el-linux-gnuabi64/include/c++/10/ostream:38, from /usr/mips64el-linux-gnuabi64/include/c++/10/iostream:39, from ../iblasr/BlasrHeaders.h:10, from ../iblasr/BlasrAlign.hpp:4, from ../Blasr.cpp:3: /usr/mips64el-linux-gnuabi64/include/c++/10/ext/new_allocator.h:150:4: note: synthesized method ‘blasr::CompSeqAlignment::CompSeqAlignment(const blasr::CompSeqAlignment&)’ first required here 150 | { ::new((void *)__p) _Up(std::forward<_Args>(__args)...); } | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/mips64el-linux-gnuabi64/include/c++/10/cassert:44, from /usr/include/pbseq/alignment/algorithms/alignment/sdp/SparseDynamicProgrammingImpl.hpp:5, from /usr/include/pbseq/alignment/algorithms/alignment/sdp/SparseDynamicProgramming.hpp:35, from /usr/include/pbseq/alignment/algorithms/alignment/SDPAlignImpl.hpp:18, from /usr/include/pbseq/alignment/algorithms/alignment/SDPAlign.hpp:44, from /usr/include/pbseq/alignment/algorithms/alignment/GuidedAlign.hpp:13, from /usr/include/pbseq/alignment/algorithms/alignment/AffineGuidedAlign.hpp:4, from ../iblasr/BlasrHeaders.h:30, from ../iblasr/BlasrAlign.hpp:4, from ../Blasr.cpp:3: /usr/include/pbseq/alignment/algorithms/alignment/GuidedAlign.hpp: In instantiation of ‘int GuidedAlign(QSequence&, TSequence&, blasr::Alignment&, T_ScoreFn&, int, blasr::Alignment&, std::vector&, std::vector&, std::vector&, std::vector&, std::vector&, std::vector&, std::vector&, std::vector&, AlignmentType, bool) [with QSequence = SMRTSequence; TSequence = DNASequence; T_ScoreFn = IDSScoreFunction]’: /usr/include/pbseq/alignment/algorithms/alignment/GuidedAlign.hpp:526:23: required from ‘int GuidedAlign(QSequence&, TSequence&, blasr::Alignment&, T_ScoreFn&, int, T_BufferCache&, blasr::Alignment&, AlignmentType, bool) [with QSequence = SMRTSequence; TSequence = DNASequence; T_ScoreFn = IDSScoreFunction; T_BufferCache = MappingBuffers]’ /usr/include/pbseq/alignment/algorithms/alignment/GuidedAlign.hpp:512:23: required from ‘int GuidedAlign(QSequence&, TSequence&, T_ScoreFn&, int, int, int, float, T_BufferCache&, blasr::Alignment&, AlignmentType, bool, int) [with QSequence = SMRTSequence; TSequence = DNASequence; T_ScoreFn = IDSScoreFunction; T_BufferCache = MappingBuffers]’ ../iblasr/BlasrAlignImpl.hpp:1450:93: required from here /usr/include/pbseq/alignment/algorithms/alignment/GuidedAlign.hpp:97:24: warning: comparison of unsigned expression in ‘>= 0’ is always true [-Wtype-limits] 97 | assert(matrixNElem >= 0); | ~~~~~~~~~~~~^~~~ In file included from /usr/mips64el-linux-gnuabi64/include/c++/10/cassert:44, from /usr/include/pbseq/alignment/statistics/StatUtils.hpp:5, from /usr/include/pbseq/alignment/algorithms/alignment/KBandAlign.hpp:12, from /usr/include/pbseq/alignment/algorithms/alignment/AffineKBandAlign.hpp:9, from ../iblasr/BlasrHeaders.h:31, from ../iblasr/BlasrAlign.hpp:4, from ../Blasr.cpp:3: /usr/include/pbseq/alignment/algorithms/alignment/KBandAlign.hpp: In instantiation of ‘int KBandAlign(T_QuerySequence&, T_TargetSequence&, int (*)[5], int, int, DNALength, std::vector&, std::vector&, T_Alignment&, AlignmentType, T_ScoreFn&, bool) [with T_QuerySequence = SMRTSequence; T_TargetSequence = DNASequence; T_Alignment = AlignmentCandidate; T_ScoreFn = IDSScoreFunction; DNALength = unsigned int]’: /usr/include/pbseq/alignment/algorithms/alignment/KBandAlign.hpp:30:22: required from ‘int KBandAlign(T_QuerySequence&, T_TargetSequence&, int (*)[5], int, int, DNALength, std::vector&, std::vector&, T_Alignment&, T_ScoreFn&, AlignmentType, bool) [with T_QuerySequence = SMRTSequence; T_TargetSequence = DNASequence; T_Alignment = AlignmentCandidate; T_ScoreFn = IDSScoreFunction; DNALength = unsigned int]’ ../iblasr/BlasrUtilsImpl.hpp:639:19: required from ‘void RefineAlignment(std::vector&, T_RefSequence&, T_AlignmentCandidate&, MappingParameters&, MappingBuffers&) [with T_RefSequence = DNASequence; T_Sequence = SMRTSequence; T_AlignmentCandidate = AlignmentCandidate]’ ../iblasr/BlasrAlignImpl.hpp:1555:93: required from here /usr/include/pbseq/alignment/algorithms/alignment/KBandAlign.hpp:151:26: warning: comparison of unsigned expression in ‘>= 0’ is always true [-Wtype-limits] 151 | assert(t - 1 >= 0); | ~~~~~~^~~~ /usr/include/pbseq/alignment/algorithms/alignment/KBandAlign.hpp:152:26: warning: comparison of unsigned expression in ‘>= 0’ is always true [-Wtype-limits] 152 | assert(q - 1 >= 0); | ~~~~~~^~~~ In file included from /usr/mips64el-linux-gnuabi64/include/c++/10/cassert:44, from /usr/include/pbseq/alignment/algorithms/alignment/sdp/SparseDynamicProgrammingImpl.hpp:5, from /usr/include/pbseq/alignment/algorithms/alignment/sdp/SparseDynamicProgramming.hpp:35, from /usr/include/pbseq/alignment/algorithms/alignment/SDPAlignImpl.hpp:18, from /usr/include/pbseq/alignment/algorithms/alignment/SDPAlign.hpp:44, from /usr/include/pbseq/alignment/algorithms/alignment/GuidedAlign.hpp:13, from /usr/include/pbseq/alignment/algorithms/alignment/AffineGuidedAlign.hpp:4, from ../iblasr/BlasrHeaders.h:30, from ../iblasr/BlasrAlign.hpp:4, from ../Blasr.cpp:3: /usr/include/pbseq/alignment/algorithms/alignment/GuidedAlign.hpp: In instantiation of ‘int GuidedAlign(QSequence&, TSequence&, blasr::Alignment&, T_ScoreFn&, int, blasr::Alignment&, std::vector&, std::vector&, std::vector&, std::vector&, std::vector&, std::vector&, std::vector&, std::vector&, AlignmentType, bool) [with QSequence = FASTQSequence; TSequence = DNASequence; T_ScoreFn = IDSScoreFunction]’: /usr/include/pbseq/alignment/algorithms/alignment/GuidedAlign.hpp:526:23: required from ‘int GuidedAlign(QSequence&, TSequence&, blasr::Alignment&, T_ScoreFn&, int, T_BufferCache&, blasr::Alignment&, AlignmentType, bool) [with QSequence = FASTQSequence; TSequence = DNASequence; T_ScoreFn = IDSScoreFunction; T_BufferCache = MappingBuffers]’ ../iblasr/BlasrUtilsImpl.hpp:689:32: required from ‘void RefineAlignment(std::vector&, T_RefSequence&, T_AlignmentCandidate&, MappingParameters&, MappingBuffers&) [with T_RefSequence = DNASequence; T_Sequence = SMRTSequence; T_AlignmentCandidate = AlignmentCandidate]’ ../iblasr/BlasrAlignImpl.hpp:1555:93: required from here /usr/include/pbseq/alignment/algorithms/alignment/GuidedAlign.hpp:97:24: warning: comparison of unsigned expression in ‘>= 0’ is always true [-Wtype-limits] 97 | assert(matrixNElem >= 0); | ~~~~~~~~~~~~^~~~ /usr/include/pbseq/alignment/algorithms/alignment/GuidedAlign.hpp: In instantiation of ‘int GuidedAlign(QSequence&, TSequence&, blasr::Alignment&, T_ScoreFn&, int, blasr::Alignment&, std::vector&, std::vector&, std::vector&, std::vector&, std::vector&, std::vector&, std::vector&, std::vector&, AlignmentType, bool) [with QSequence = FASTQSequence; TSequence = DNASequence; T_ScoreFn = DistanceMatrixScoreFunction]’: /usr/include/pbseq/alignment/algorithms/alignment/GuidedAlign.hpp:526:23: required from ‘int GuidedAlign(QSequence&, TSequence&, blasr::Alignment&, T_ScoreFn&, int, T_BufferCache&, blasr::Alignment&, AlignmentType, bool) [with QSequence = FASTQSequence; TSequence = DNASequence; T_ScoreFn = DistanceMatrixScoreFunction; T_BufferCache = MappingBuffers]’ ../iblasr/BlasrUtilsImpl.hpp:698:32: required from ‘void RefineAlignment(std::vector&, T_RefSequence&, T_AlignmentCandidate&, MappingParameters&, MappingBuffers&) [with T_RefSequence = DNASequence; T_Sequence = SMRTSequence; T_AlignmentCandidate = AlignmentCandidate]’ ../iblasr/BlasrAlignImpl.hpp:1555:93: required from here /usr/include/pbseq/alignment/algorithms/alignment/GuidedAlign.hpp:97:24: warning: comparison of unsigned expression in ‘>= 0’ is always true [-Wtype-limits] In file included from /usr/mips64el-linux-gnuabi64/include/c++/10/cassert:44, from /usr/include/pbseq/alignment/statistics/StatUtils.hpp:5, from /usr/include/pbseq/alignment/algorithms/alignment/KBandAlign.hpp:12, from /usr/include/pbseq/alignment/algorithms/alignment/AffineKBandAlign.hpp:9, from ../iblasr/BlasrHeaders.h:31, from ../iblasr/BlasrAlign.hpp:4, from ../Blasr.cpp:3: /usr/include/pbseq/alignment/algorithms/alignment/OneGapAlignment.hpp: In instantiation of ‘int OneGapAlign(T_QuerySequence&, T_RefSequence&, T_ScoreFunction&, T_BufferList&, blasr::Alignment&) [with T_QuerySequence = FASTQSequence; T_RefSequence = DNASequence; T_ScoreFunction = DistanceMatrixScoreFunction; T_BufferList = MappingBuffers]’: ../iblasr/BlasrAlignImpl.hpp:918:40: required from ‘void AlignIntervals(T_TargetSequence&, T_QuerySequence&, T_QuerySequence&, WeightedIntervalSet&, int (*)[5], int, int, int, int, SequenceIndexDatabase&, std::vector*>&, MappingParameters&, MappingBuffers&, int) [with T_TargetSequence = FASTASequence; T_QuerySequence = SMRTSequence; TDBSequence = FASTQSequence]’ ../iblasr/BlasrAlignImpl.hpp:280:23: required from ‘void MapRead(T_Sequence&, T_Sequence&, T_RefSequence&, T_SuffixArray&, BWT&, SeqBoundaryFtr&, T_TupleCountTable&, SequenceIndexDatabase&, MappingParameters&, MappingMetrics&, std::vector*>&, MappingBuffers&, MappingIPC*, MappingSemaphores&) [with T_Sequence = SMRTSequence; T_RefSequence = FASTASequence; T_SuffixArray = SuffixArray >; T_TupleCountTable = TupleCountTable; BWT = Bwt; MappingIPC = MappingData >, FASTASequence, DNATuple>]’ ../Blasr.cpp:371:27: required from here /usr/include/pbseq/alignment/algorithms/alignment/OneGapAlignment.hpp:337:40: warning: comparison of unsigned expression in ‘>= 0’ is always true [-Wtype-limits] 337 | assert(distanceBetweenLeftAndRight >= 0); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /usr/include/pbseq/alignment/algorithms/alignment/KBandAlign.hpp: In instantiation of ‘int KBandAlign(T_QuerySequence&, T_TargetSequence&, int (*)[5], int, int, DNALength, std::vector&, std::vector&, T_Alignment&, AlignmentType, T_ScoreFn&, bool) [with T_QuerySequence = FASTQSequence; T_TargetSequence = DNASequence; T_Alignment = AlignmentCandidate; T_ScoreFn = IDSScoreFunction; DNALength = unsigned int]’: /usr/include/pbseq/alignment/algorithms/alignment/KBandAlign.hpp:30:22: required from ‘int KBandAlign(T_QuerySequence&, T_TargetSequence&, int (*)[5], int, int, DNALength, std::vector&, std::vector&, T_Alignment&, T_ScoreFn&, AlignmentType, bool) [with T_QuerySequence = FASTQSequence; T_TargetSequence = DNASequence; T_Alignment = AlignmentCandidate; T_ScoreFn = IDSScoreFunction; DNALength = unsigned int]’ ../iblasr/BlasrAlignImpl.hpp:1301:38: required from ‘void PairwiseLocalAlign(T_Sequence&, T_RefSequence&, int, MappingParameters&, T_AlignmentCandidate&, MappingBuffers&, AlignmentType) [with T_RefSequence = DNASequence; T_Sequence = FASTQSequence; T_AlignmentCandidate = AlignmentCandidate]’ ../iblasr/BlasrUtilsImpl.hpp:873:27: required from ‘void RefineAlignment(std::vector&, T_RefSequence&, T_AlignmentCandidate&, MappingParameters&, MappingBuffers&) [with T_RefSequence = DNASequence; T_Sequence = SMRTSequence; T_AlignmentCandidate = AlignmentCandidate]’ ../iblasr/BlasrAlignImpl.hpp:1555:93: required from here /usr/include/pbseq/alignment/algorithms/alignment/KBandAlign.hpp:151:26: warning: comparison of unsigned expression in ‘>= 0’ is always true [-Wtype-limits] 151 | assert(t - 1 >= 0); | ~~~~~~^~~~ /usr/include/pbseq/alignment/algorithms/alignment/KBandAlign.hpp:152:26: warning: comparison of unsigned expression in ‘>= 0’ is always true [-Wtype-limits] 152 | assert(q - 1 >= 0); | ~~~~~~^~~~ /usr/include/pbseq/alignment/algorithms/alignment/KBandAlign.hpp: In instantiation of ‘int KBandAlign(T_QuerySequence&, T_TargetSequence&, int (*)[5], int, int, DNALength, std::vector&, std::vector&, T_Alignment&, AlignmentType, T_ScoreFn&, bool) [with T_QuerySequence = FASTQSequence; T_TargetSequence = DNASequence; T_Alignment = AlignmentCandidate; T_ScoreFn = QualityValueScoreFunction; DNALength = unsigned int]’: /usr/include/pbseq/alignment/algorithms/alignment/KBandAlign.hpp:30:22: required from ‘int KBandAlign(T_QuerySequence&, T_TargetSequence&, int (*)[5], int, int, DNALength, std::vector&, std::vector&, T_Alignment&, T_ScoreFn&, AlignmentType, bool) [with T_QuerySequence = FASTQSequence; T_TargetSequence = DNASequence; T_Alignment = AlignmentCandidate; T_ScoreFn = QualityValueScoreFunction; DNALength = unsigned int]’ ../iblasr/BlasrAlignImpl.hpp:1310:38: required from ‘void PairwiseLocalAlign(T_Sequence&, T_RefSequence&, int, MappingParameters&, T_AlignmentCandidate&, MappingBuffers&, AlignmentType) [with T_RefSequence = DNASequence; T_Sequence = FASTQSequence; T_AlignmentCandidate = AlignmentCandidate]’ ../iblasr/BlasrUtilsImpl.hpp:873:27: required from ‘void RefineAlignment(std::vector&, T_RefSequence&, T_AlignmentCandidate&, MappingParameters&, MappingBuffers&) [with T_RefSequence = DNASequence; T_Sequence = SMRTSequence; T_AlignmentCandidate = AlignmentCandidate]’ ../iblasr/BlasrAlignImpl.hpp:1555:93: required from here /usr/include/pbseq/alignment/algorithms/alignment/KBandAlign.hpp:151:26: warning: comparison of unsigned expression in ‘>= 0’ is always true [-Wtype-limits] 151 | assert(t - 1 >= 0); | ~~~~~~^~~~ /usr/include/pbseq/alignment/algorithms/alignment/KBandAlign.hpp:152:26: warning: comparison of unsigned expression in ‘>= 0’ is always true [-Wtype-limits] 152 | assert(q - 1 >= 0); | ~~~~~~^~~~ In file included from /usr/include/pbseq/alignment/format/BAMPrinter.hpp:29, from ../iblasr/BlasrHeaders.h:60, from ../iblasr/BlasrAlign.hpp:4, from ../Blasr.cpp:3: /usr/include/pbseq/alignment/format/BAMPrinterImpl.hpp: In function ‘void AlignmentToBamRecord(T_AlignmentCandidate&, T_Sequence&, T_Sequence&, PacBio::BAM::BamRecord&, AlignmentContext&, SupplementalQVList&, SAMOutput::Clipping, bool, bool) [with T_Sequence = SMRTSequence]’: /usr/include/pbseq/alignment/format/BAMPrinterImpl.hpp:27:5: warning: ‘nonnull’ argument ‘read’ compared to NULL [-Wnonnull-compare] 27 | if (dynamic_cast(&read) == NULL) { | ^~ [21/25] /usr/bin/mips64el-linux-gnuabi64-g++ -o blasr blasr.p/Blasr.cpp.o -I/usr/include/pbseq -L/usr/lib/mips64el-linux-gnuabi64 -L/usr/lib/mips64el-linux-gnuabi64/hdf5/serial -Wl,--as-needed -Wl,--no-undefined -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -Wl,--start-group -lhdf5_cpp -lhdf5 -Wl,-z,relro libblasr_impl.a -pthread -lpbbam /usr/lib/mips64el-linux-gnuabi64/libblasr.so /usr/lib/mips64el-linux-gnuabi64/libpbbam.so /usr/lib/mips64el-linux-gnuabi64/libpbcopper.so -lpbcopper /usr/lib/mips64el-linux-gnuabi64/libz.so -lpbbam -lpbcopper -Wl,--end-group [22/25] /usr/bin/mips64el-linux-gnuabi64-g++ -Isawriter.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -DCMAKE_BUILD=1 -MD -MQ sawriter.p/utils_SAWriter.cpp.o -MF sawriter.p/utils_SAWriter.cpp.o.d -o sawriter.p/utils_SAWriter.cpp.o -c ../utils/SAWriter.cpp [23/25] /usr/bin/mips64el-linux-gnuabi64-g++ -o sawriter sawriter.p/utils_SAWriter.cpp.o -I/usr/include/pbseq -L/usr/lib/mips64el-linux-gnuabi64 -L/usr/lib/mips64el-linux-gnuabi64/hdf5/serial -Wl,--as-needed -Wl,--no-undefined -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -Wl,--start-group -lhdf5_cpp -lhdf5 -Wl,-z,relro libblasr_impl.a -pthread -lpbbam /usr/lib/mips64el-linux-gnuabi64/libblasr.so /usr/lib/mips64el-linux-gnuabi64/libpbbam.so /usr/lib/mips64el-linux-gnuabi64/libpbcopper.so -lpbcopper /usr/lib/mips64el-linux-gnuabi64/libz.so -lpbbam -lpbcopper -Wl,--end-group [24/25] /usr/bin/mips64el-linux-gnuabi64-g++ -ItoAfg.p -I. -I.. -I/usr/include -I/usr/include/libblasr -I/usr/include/hdf5/serial -I/usr/include/pbseq -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++11 -isystem /usr/include/hdf5/serial -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -DBOOST_ALL_NO_LIB -pthread -Wno-delete-non-virtual-dtor -Wno-non-virtual-dtor -Wno-unused-but-set-variable -Wno-unused-variable -DCMAKE_BUILD=1 -MD -MQ toAfg.p/utils_ToAfg.cpp.o -MF toAfg.p/utils_ToAfg.cpp.o.d -o toAfg.p/utils_ToAfg.cpp.o -c ../utils/ToAfg.cpp In file included from ../utils/ToAfg.cpp:9: /usr/include/pbseq/hdf/HDFPlsReader.hpp: In member function ‘int HDFPlsReader::GetNextFlattenedToBase(SMRTSequence&, int*)’: /usr/include/pbseq/hdf/HDFPlsReader.hpp:549:36: warning: catching polymorphic type ‘class H5::DataSetIException’ by value [-Wcatch-value=] 549 | } catch (DataSetIException e) { | ^ [25/25] /usr/bin/mips64el-linux-gnuabi64-g++ -o toAfg toAfg.p/utils_ToAfg.cpp.o -I/usr/include/pbseq -L/usr/lib/mips64el-linux-gnuabi64 -L/usr/lib/mips64el-linux-gnuabi64/hdf5/serial -Wl,--as-needed -Wl,--no-undefined -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DHAVE_HDF5_1_10_1 -std=c++14 -Wl,--start-group -lhdf5_cpp -lhdf5 -Wl,-z,relro libblasr_impl.a -pthread -lpbbam /usr/lib/mips64el-linux-gnuabi64/libblasr.so /usr/lib/mips64el-linux-gnuabi64/libpbbam.so /usr/lib/mips64el-linux-gnuabi64/libpbcopper.so -lpbcopper /usr/lib/mips64el-linux-gnuabi64/libz.so -lpbbam -lpbcopper -Wl,--end-group dh: command-omitted: The call to "dh_auto_test -a -O--buildsystem=meson" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_testroot -a -O--buildsystem=meson dh_prep -a -O--buildsystem=meson dh_auto_install --destdir=debian/blasr/ -a -O--buildsystem=meson cd obj-mips64el-linux-gnuabi64 && DESTDIR=/<>/blasr-5.3.3\+dfsg/debian/blasr LC_ALL=C.UTF-8 ninja install [1/4] Generating BlasrGitHash.h with a custom command [1/2] Installing files. Installing blasr to /<>/debian/blasr/usr/bin Installing sawriter to /<>/debian/blasr/usr/bin dh_install -a -O--buildsystem=meson dh_installdocs -a -O--buildsystem=meson dh_installchangelogs -a -O--buildsystem=meson dh_installexamples -a -O--buildsystem=meson dh_installman -a -O--buildsystem=meson dh_installsystemduser -a -O--buildsystem=meson dh_lintian -a -O--buildsystem=meson dh_perl -a -O--buildsystem=meson dh_link -a -O--buildsystem=meson dh_strip_nondeterminism -a -O--buildsystem=meson dh_compress -a -O--buildsystem=meson dh_fixperms -a -O--buildsystem=meson dh_missing -a -O--buildsystem=meson dh_dwz -a -O--buildsystem=meson dh_strip -a -O--buildsystem=meson dh_makeshlibs -a -O--buildsystem=meson dh_shlibdeps -a -O--buildsystem=meson dh_installdeb -a -O--buildsystem=meson dh_gencontrol -a -O--buildsystem=meson dh_md5sums -a -O--buildsystem=meson dh_builddeb -a -O--buildsystem=meson dpkg-deb: building package 'blasr' in '../blasr_5.3.3+dfsg-7_mips64el.deb'. dpkg-deb: building package 'blasr-dbgsym' in '../blasr-dbgsym_5.3.3+dfsg-7_mips64el.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../blasr_5.3.3+dfsg-7_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 finished at 2021-09-30T05:21:34Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ blasr_5.3.3+dfsg-7_mips64el.changes: ------------------------------------ Format: 1.8 Date: Sun, 22 Aug 2021 01:49:16 +0530 Source: blasr Binary: blasr blasr-dbgsym Built-For-Profiles: cross nocheck Architecture: mips64el Version: 5.3.3+dfsg-7 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Nilesh Patra Description: blasr - mapping single-molecule sequencing reads Closes: 983631 Changes: blasr (5.3.3+dfsg-7) unstable; urgency=medium . * Team Upload. * Fix FTCBFS: (Closes: #983631) + Annotate python3 dependency with :any. + Let dh_auto_configure pass a crossfile to meson. Thank you, Helmut Grohne! Checksums-Sha1: 0ef6e5ce31e2baec1d0faecb664119c13da3d06a 3216012 blasr-dbgsym_5.3.3+dfsg-7_mips64el.deb f99c15e12ff9e74631c372473a4b84d155ed8633 7497 blasr_5.3.3+dfsg-7_mips64el.buildinfo 4ef82931bb248fcca0b2daf7e10099c65ed47dfe 207152 blasr_5.3.3+dfsg-7_mips64el.deb Checksums-Sha256: bfac536c935b7f1e1f59b77f9281d86e3d03ccb76e671ba4d91ba1445904baec 3216012 blasr-dbgsym_5.3.3+dfsg-7_mips64el.deb 00e226285ad4da6b91205a7b4f8d48ac630b99eaa92a6d23c3d269393f8f0e3f 7497 blasr_5.3.3+dfsg-7_mips64el.buildinfo d56720d45166234444ede7316f1fa66e7fb2e8abf771d88efcdaf2cbf7bded83 207152 blasr_5.3.3+dfsg-7_mips64el.deb Files: cb8feeaff1597185e0f3d44787dcb49b 3216012 debug optional blasr-dbgsym_5.3.3+dfsg-7_mips64el.deb 96141738c9d5973488bc30b7235dfbb7 7497 science optional blasr_5.3.3+dfsg-7_mips64el.buildinfo 7484de33658a49c4d028e3a478202128 207152 science optional blasr_5.3.3+dfsg-7_mips64el.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: blasr Binary: blasr blasr-dbgsym Architecture: mips64el Version: 5.3.3+dfsg-7 Checksums-Md5: cb8feeaff1597185e0f3d44787dcb49b 3216012 blasr-dbgsym_5.3.3+dfsg-7_mips64el.deb 7484de33658a49c4d028e3a478202128 207152 blasr_5.3.3+dfsg-7_mips64el.deb Checksums-Sha1: 0ef6e5ce31e2baec1d0faecb664119c13da3d06a 3216012 blasr-dbgsym_5.3.3+dfsg-7_mips64el.deb 4ef82931bb248fcca0b2daf7e10099c65ed47dfe 207152 blasr_5.3.3+dfsg-7_mips64el.deb Checksums-Sha256: bfac536c935b7f1e1f59b77f9281d86e3d03ccb76e671ba4d91ba1445904baec 3216012 blasr-dbgsym_5.3.3+dfsg-7_mips64el.deb d56720d45166234444ede7316f1fa66e7fb2e8abf771d88efcdaf2cbf7bded83 207152 blasr_5.3.3+dfsg-7_mips64el.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Thu, 30 Sep 2021 05:21:34 +0000 Build-Path: /<> Installed-Build-Depends: autoconf (= 2.71-2), automake (= 1:1.16.4-2), autopoint (= 0.21-4), autotools-dev (= 20180224.1+nmu1), base-files (= 12), base-passwd (= 3.5.52), bash (= 5.1-3+b1), binutils (= 2.37-7), binutils-common (= 2.37-7), binutils-x86-64-linux-gnu (= 2.37-7), bsdextrautils (= 2.37.2-3), bsdutils (= 1:2.37.2-3), build-essential (= 12.9), bzip2 (= 1.0.8-4), cmake (= 3.21.3-3), cmake-data (= 3.21.3-3), coreutils (= 8.32-4+b1), cpp (= 4:10.2.1-1), cpp-10 (= 10.3.0-11), dash (= 0.5.11+git20210120+802ebd4-1), debconf (= 1.5.77), debhelper (= 13.5.2), debianutils (= 5.5-1), dh-autoreconf (= 20), dh-elpa-helper (= 2.0.9), dh-strip-nondeterminism (= 1.12.0-1), diffutils (= 1:3.7-5), dpkg (= 1.20.9), dpkg-dev (= 1.20.9), dwz (= 0.14-1), emacsen-common (= 3.0.4), file (= 1:5.39-3), findutils (= 4.8.0-1), g++ (= 4:10.2.1-1), g++-10 (= 10.3.0-11), gcc (= 4:10.2.1-1), gcc-10 (= 10.3.0-11), gcc-10-base (= 10.3.0-11), gcc-11-base (= 11.2.0-8), gettext (= 0.21-4), gettext-base (= 0.21-4), googletest (= 1.11.0-2), grep (= 3.7-1), groff-base (= 1.22.4-7), gzip (= 1.10-4), hdf5-helpers (= 1.10.7+repack-1), hostname (= 3.23), init-system-helpers (= 1.60), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.3.1-1), libaec-dev (= 1.0.6-1), libaec0 (= 1.0.6-1), libarchive-zip-perl (= 1.68-1), libarchive13 (= 3.4.3-2+b1), libasan6 (= 11.2.0-8), libatomic1 (= 11.2.0-8), libattr1 (= 1:2.5.1-1), libaudit-common (= 1:3.0.5-1), libaudit1 (= 1:3.0.5-1), libbinutils (= 2.37-7), libblasr-dev (= 5.3.4+dfsg-3), libblasr5.3.4 (= 5.3.4+dfsg-3), libblkid1 (= 2.37.2-3), libboost-dev (= 1.74.0.3), libboost1.74-dev (= 1.74.0-11), libbrotli1 (= 1.0.9-2+b2), libbz2-1.0 (= 1.0.8-4), libc-bin (= 2.32-4), libc-dev-bin (= 2.32-4), libc6 (= 2.32-4), libc6-dev (= 2.32-4), libcap-ng0 (= 0.7.9-2.2+b1), libcap2 (= 1:2.44-1), libcc1-0 (= 11.2.0-8), libcom-err2 (= 1.46.4-1), libcrypt-dev (= 1:4.4.25-2), libcrypt1 (= 1:4.4.25-2), libctf-nobfd0 (= 2.37-7), libctf0 (= 2.37-7), libcurl3-gnutls (= 7.74.0-1.3+b1), libcurl4 (= 7.74.0-1.3+b1), libcurl4-gnutls-dev (= 7.74.0-1.3+b1), libdb5.3 (= 5.3.28+dfsg1-0.8), libdebconfclient0 (= 0.260), libdebhelper-perl (= 13.5.2), libdeflate-dev (= 1.7-2), libdeflate0 (= 1.7-2), libdpkg-perl (= 1.20.9), libelf1 (= 0.185-2), libexpat1 (= 2.4.1-2+b1), libffi8 (= 3.4.2-2), libfile-stripnondeterminism-perl (= 1.12.0-1), libgcc-10-dev (= 10.3.0-11), libgcc-s1 (= 11.2.0-8), libgcrypt20 (= 1.9.4-3+b1), libgdbm-compat4 (= 1.21-1), libgdbm6 (= 1.21-1), libgfortran5 (= 11.2.0-8), libglib2.0-0 (= 2.70.0-1+b1), libgmp10 (= 2:6.2.1+dfsg-2), libgnutls30 (= 3.7.2-2), libgomp1 (= 11.2.0-8), libgpg-error0 (= 1.42-3), libgssapi-krb5-2 (= 1.18.3-7), libgtest-dev (= 1.11.0-2), libhdf5-103-1 (= 1.10.7+repack-1), libhdf5-cpp-103-1 (= 1.10.7+repack-1), libhdf5-dev (= 1.10.7+repack-1), libhdf5-fortran-102 (= 1.10.7+repack-1), libhdf5-hl-100 (= 1.10.7+repack-1), libhdf5-hl-cpp-100 (= 1.10.7+repack-1), libhdf5-hl-fortran-100 (= 1.10.7+repack-1), libhogweed6 (= 3.7.3-1), libhts-dev (= 1.13+ds-2), libhts3 (= 1.13+ds-2), libhtscodecs2 (= 1.1.1-3+b1), libicu67 (= 67.1-7), libidn2-0 (= 2.3.2-2), libisl23 (= 0.23-1), libitm1 (= 11.2.0-8), libjpeg-dev (= 1:2.0.6-4), libjpeg62-turbo (= 1:2.0.6-4), libjpeg62-turbo-dev (= 1:2.0.6-4), libjsoncpp24 (= 1.9.4-5), libk5crypto3 (= 1.18.3-7), libkeyutils1 (= 1.6.1-2), libkrb5-3 (= 1.18.3-7), libkrb5support0 (= 1.18.3-7), libldap-2.4-2 (= 2.4.59+dfsg-1), liblsan0 (= 11.2.0-8), liblz4-1 (= 1.9.3-2), liblzma-dev (= 5.2.5-2), liblzma5 (= 5.2.5-2), libmagic-mgc (= 1:5.39-3), libmagic1 (= 1:5.39-3), libmount1 (= 2.37.2-3), libmpc3 (= 1.2.0-1), libmpdec3 (= 2.5.1-2), libmpfr6 (= 4.1.0-3), libncurses6 (= 6.2+20210905-1), libncursesw6 (= 6.2+20210905-1), libnettle8 (= 3.7.3-1), libnghttp2-14 (= 1.43.0-1), libnsl-dev (= 1.3.0-2), libnsl2 (= 1.3.0-2), libp11-kit0 (= 0.24.0-2+b1), libpam-modules (= 1.4.0-10), libpam-modules-bin (= 1.4.0-10), libpam-runtime (= 1.4.0-10), libpam0g (= 1.4.0-10), libpbbam-dev (= 1.6.0+dfsg-2), libpbbam1.6.0 (= 1.6.0+dfsg-2), libpbcopper-dev (= 1.8.0+dfsg-2+b1), libpbcopper1.8.0 (= 1.8.0+dfsg-2+b1), libpbdata-dev (= 5.3.4+dfsg-3), libpbihdf-dev (= 5.3.4+dfsg-3), libpbseq-dev (= 5.3.4+dfsg-3), libpcre2-8-0 (= 10.36-2), libpcre3 (= 2:8.39-13), libperl5.32 (= 5.32.1-6), libpipeline1 (= 1.5.3-1), libprocps8 (= 2:3.3.17-5), libpsl5 (= 0.21.0-1.2), libpython3-stdlib (= 3.9.2-3), libpython3.9-minimal (= 3.9.7-4), libpython3.9-stdlib (= 3.9.7-4), libquadmath0 (= 11.2.0-8), libreadline8 (= 8.1-2), librhash0 (= 1.4.2-1), librtmp1 (= 2.4+20151223.gitfa8646d.1-2+b2), libsasl2-2 (= 2.1.27+dfsg-2.1), libsasl2-modules-db (= 2.1.27+dfsg-2.1), libseccomp2 (= 2.5.2-1), libselinux1 (= 3.1-3), libsigsegv2 (= 2.13-1), libsmartcols1 (= 2.37.2-3), libsqlite3-0 (= 3.36.0-2), libssh2-1 (= 1.10.0-2), libssl-dev (= 1.1.1l-1), libssl1.1 (= 1.1.1l-1), libstdc++-10-dev (= 10.3.0-11), libstdc++6 (= 11.2.0-8), libsub-override-perl (= 0.09-2), libsystemd0 (= 247.9-3), libsz2 (= 1.0.6-1), libtasn1-6 (= 4.17.0-2), libtinfo6 (= 6.2+20210905-1), libtirpc-common (= 1.3.2-2), libtirpc-dev (= 1.3.2-2), libtirpc3 (= 1.3.2-2), libtool (= 2.4.6-15), libtsan0 (= 11.2.0-8), libubsan1 (= 11.2.0-8), libuchardet0 (= 0.0.7-1), libudev1 (= 247.9-3), libunistring2 (= 0.9.10-6), libuuid1 (= 2.37.2-3), libuv1 (= 1.42.0-1), libxml2 (= 2.9.12+dfsg-5), libzstd1 (= 1.4.8+dfsg-2.1), linux-libc-dev (= 5.14.6-3), login (= 1:4.8.1-1), lsb-base (= 11.1.0), m4 (= 1.4.18-5), make (= 4.3-4.1), man-db (= 2.9.4-2), mawk (= 1.3.4.20200120-2), media-types (= 4.0.0), meson (= 0.59.2-1), ncurses-base (= 6.2+20210905-1), ncurses-bin (= 6.2+20210905-1), ninja-build (= 1.10.1-1), patch (= 2.7.6-7), perl (= 5.32.1-6), perl-base (= 5.32.1-6), perl-modules-5.32 (= 5.32.1-6), pkg-config (= 0.29.2-1), po-debconf (= 1.0.21+nmu1), procps (= 2:3.3.17-5), python3 (= 3.9.2-3), python3-distutils (= 3.9.7-1), python3-lib2to3 (= 3.9.7-1), python3-minimal (= 3.9.2-3), python3-pkg-resources (= 52.0.0-4), python3.9 (= 3.9.7-4), python3.9-minimal (= 3.9.7-4), readline-common (= 8.1-2), rpcsvc-proto (= 1.4.2-4), sed (= 4.8-1), sensible-utils (= 0.0.17), sysvinit-utils (= 3.00-1), tar (= 1.34+dfsg-1), tzdata (= 2021b-1), util-linux (= 2.37.2-3), xz-utils (= 5.2.5-2), zlib1g (= 1:1.2.11.dfsg-2), zlib1g-dev (= 1:1.2.11.dfsg-2) Environment: DEB_BUILD_OPTIONS="nocheck parallel=1" DEB_BUILD_PROFILES="cross nocheck" LANG="en_US.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1629577156" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ blasr-dbgsym_5.3.3+dfsg-7_mips64el.deb -------------------------------------- new Debian package, version 2.0. size 3216012 bytes: control archive=648 bytes. 417 bytes, 12 lines control 301 bytes, 3 lines md5sums Package: blasr-dbgsym Source: blasr Version: 5.3.3+dfsg-7 Auto-Built-Package: debug-symbols Architecture: mips64el Maintainer: Debian Med Packaging Team Installed-Size: 3304 Depends: blasr (= 5.3.3+dfsg-7) Section: debug Priority: optional Description: debug symbols for blasr Build-Ids: 4a185c2fb141a16c5dcacd4edd9a5dc67600daae 7c7190960b99280d164489e1bf257a42caaf1aac drwxr-xr-x root/root 0 2021-08-21 20:19 ./ drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/ drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/lib/ drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/lib/debug/ drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/lib/debug/.build-id/4a/ -rw-r--r-- root/root 136384 2021-08-21 20:19 ./usr/lib/debug/.build-id/4a/185c2fb141a16c5dcacd4edd9a5dc67600daae.debug drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/lib/debug/.build-id/7c/ -rw-r--r-- root/root 3195928 2021-08-21 20:19 ./usr/lib/debug/.build-id/7c/7190960b99280d164489e1bf257a42caaf1aac.debug drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/lib/debug/.dwz/mips64el-linux-gnuabi64/ -rw-r--r-- root/root 35328 2021-08-21 20:19 ./usr/lib/debug/.dwz/mips64el-linux-gnuabi64/blasr.debug drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/share/ drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/share/doc/ lrwxrwxrwx root/root 0 2021-08-21 20:19 ./usr/share/doc/blasr-dbgsym -> blasr blasr_5.3.3+dfsg-7_mips64el.deb ------------------------------- new Debian package, version 2.0. size 207152 bytes: control archive=1196 bytes. 789 bytes, 14 lines control 982 bytes, 15 lines md5sums Package: blasr Version: 5.3.3+dfsg-7 Architecture: mips64el Maintainer: Debian Med Packaging Team Installed-Size: 729 Depends: libblasr5.3.4 (>= 5.3.4+dfsg), libc6 (>= 2.29), libgcc-s1 (>= 3.0), libhdf5-cpp-103-1 (>= 1.10.5), libpbbam1.6.0 (>= 1.6.0+dfsg), libpbcopper1.8.0 (>= 1.8.0+dfsg), libstdc++6 (>= 9), libpbseq Section: science Priority: optional Homepage: https://github.com/PacificBiosciences/blasr Description: mapping single-molecule sequencing reads Basic local alignment with successive refinement (BLASR) is a method for mapping single-molecule sequencing reads against a reference genome. Such reads are thousands of bases long, with divergence between them and the genome being dominated by insertion and deletion error. drwxr-xr-x root/root 0 2021-08-21 20:19 ./ drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/ drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/bin/ -rwxr-xr-x root/root 650512 2021-08-21 20:19 ./usr/bin/blasr -rwxr-xr-x root/root 62544 2021-08-21 20:19 ./usr/bin/sawriter drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/share/ drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/share/doc/ drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/share/doc/blasr/ -rw-r--r-- root/root 373 2021-07-31 18:45 ./usr/share/doc/blasr/NEWS.Debian.gz -rw-r--r-- root/root 1291 2019-03-11 18:23 ./usr/share/doc/blasr/README.md -rw-r--r-- root/root 208 2021-07-31 18:45 ./usr/share/doc/blasr/README.source -rw-r--r-- root/root 542 2021-07-31 18:45 ./usr/share/doc/blasr/README.test -rw-r--r-- root/root 41 2021-07-31 18:45 ./usr/share/doc/blasr/TODO.Debian -rw-r--r-- root/root 2093 2021-08-21 20:19 ./usr/share/doc/blasr/changelog.Debian.gz -rw-r--r-- root/root 2193 2021-08-16 11:10 ./usr/share/doc/blasr/copyright drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/share/doc/blasr/examples/ -rw-r--r-- root/root 65 2021-07-31 18:45 ./usr/share/doc/blasr/examples/query.fasta -rw-r--r-- root/root 72 2021-07-31 18:45 ./usr/share/doc/blasr/examples/ref.fa -rw-r--r-- root/root 774 2021-07-31 18:45 ./usr/share/doc/blasr/run-unit-test drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/share/lintian/ drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 84 2021-07-31 18:45 ./usr/share/lintian/overrides/blasr drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/share/man/ drwxr-xr-x root/root 0 2021-08-21 20:19 ./usr/share/man/man1/ -rw-r--r-- root/root 1369 2021-08-21 20:19 ./usr/share/man/man1/blasr.1.gz -rw-r--r-- root/root 872 2021-08-21 20:19 ./usr/share/man/man1/sawriter.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 [632 B] Get:5 copy:/<>/apt_archive ./ Packages [716 B] Fetched 2311 B in 0s (89.5 kB/s) Reading package lists... Reading package lists... Install lintian build dependencies (apt-based resolver) ------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: diffstat gpg gpgconf libaliased-perl libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libcapture-tiny-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 libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libexception-class-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libhtml-html5-entities-perl libimport-into-perl libio-interactive-perl libio-prompt-tiny-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl liblist-compare-perl liblist-moreutils-perl liblist-moreutils-xs-perl liblist-someutils-perl liblist-utilsby-perl liblzo2-2 libmarkdown2 libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libperlio-utf8-strict-perl libproc-processtable-perl librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsort-versions-perl libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libterm-readkey-perl libtext-glob-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libyaml-0-2 libyaml-libyaml-perl lintian lzip lzop patchutils t1utils unzip Suggested packages: libxml-parser-perl libscalar-number-perl libbareword-filehandles-perl libindirect-perl libmultidimensional-perl libdevel-lexalias-perl libwww-perl binutils-multiarch libtext-template-perl zip Recommended packages: gnupg liblist-someutils-xs-perl libpackage-stash-xs-perl libref-util-perl libtype-tiny-xs-perl The following NEW packages will be installed: diffstat gpg gpgconf libaliased-perl libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libcapture-tiny-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 libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libexception-class-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libhtml-html5-entities-perl libimport-into-perl libio-interactive-perl libio-prompt-tiny-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl liblist-compare-perl liblist-moreutils-perl liblist-moreutils-xs-perl liblist-someutils-perl liblist-utilsby-perl liblzo2-2 libmarkdown2 libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libperlio-utf8-strict-perl libproc-processtable-perl librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsort-versions-perl libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libterm-readkey-perl libtext-glob-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libyaml-0-2 libyaml-libyaml-perl lintian lzip lzop patchutils sbuild-build-depends-lintian-dummy:mips64el t1utils unzip 0 upgraded, 94 newly installed, 0 to remove and 0 not upgraded. Need to get 6777 kB of archives. After this operation, 20.1 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://debian.oregonstate.edu/debian unstable/main amd64 diffstat amd64 1.64-1 [36.6 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 libassuan0 amd64 2.5.5-1 [51.8 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 gpgconf amd64 2.2.27-2 [547 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 gpg amd64 2.2.27-2 [927 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libaliased-perl all 0.34-1.1 [14.1 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 libapt-pkg-perl amd64 0.1.40 [72.2 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 libb-hooks-op-check-perl amd64 0.22-1+b3 [11.3 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 libdynaloader-functions-perl all 0.003-1.1 [12.7 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 libdevel-callchecker-perl amd64 0.008-1+b2 [15.9 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 libparams-classify-perl amd64 0.015-1+b3 [25.7 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 libmodule-runtime-perl all 0.016-1 [19.4 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 libtry-tiny-perl all 0.30-1 [23.3 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 libmodule-implementation-perl all 0.09-1.1 [12.4 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-exporter-progressive-perl all 0.001013-1 [7588 B] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libvariable-magic-perl amd64 0.62-1+b3 [45.7 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 libb-hooks-endofscope-perl all 0.24-1.1 [18.9 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 libcapture-tiny-perl all 0.48-1 [26.0 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 libclass-data-inheritable-perl all 0.08-3 [8588 B] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 libclass-method-modifiers-perl all 2.13-1 [19.2 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 libclass-xsaccessor-perl amd64 1.19-3+b7 [38.1 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 libclone-perl amd64 0.45-1+b1 [15.4 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-tiny-perl all 2.27-1 [17.1 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 libparams-util-perl amd64 1.102-1+b1 [25.6 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-install-perl all 0.928-1.1 [10.8 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 libdata-optlist-perl all 0.112-1 [11.8 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-exporter-perl all 0.988-1 [51.9 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 libconst-fast-perl all 0.014-1.1 [8552 B] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 libcpanel-json-xs-perl amd64 4.26-1 [129 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 libdevel-stacktrace-perl all 2.0400-1 [28.6 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 libexception-class-perl all 1.45-1 [34.6 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 libiterator-perl all 0.03+ds1-1.1 [18.4 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 libiterator-util-perl all 0.02+ds1-1.1 [13.7 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 libexporter-tiny-perl all 1.002002-1 [37.8 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-moreutils-xs-perl amd64 0.430-2 [40.9 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-moreutils-perl all 0.430-2 [46.9 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libdata-dpath-perl all 0.58-1 [43.5 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 libdata-messagepack-perl amd64 1.01-2 [35.5 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-domain-tld-perl all 1.75-1.1 [33.5 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libdata-validate-domain-perl all 0.10-1.1 [11.1 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libdevel-size-perl amd64 0.83-1+b2 [26.1 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libemail-address-xs-perl amd64 1.04-1+b3 [28.0 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 libipc-system-simple-perl all 1.30-1 [28.2 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-basedir-perl all 0.09-1 [16.4 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 libnumber-compare-perl all 0.03-1.1 [6956 B] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-glob-perl all 0.11-1 [8888 B] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-find-rule-perl all 0.34-1 [30.6 kB] Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 libfont-ttf-perl all 1.06-1.1 [318 kB] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 libhtml-html5-entities-perl all 0.004-1.1 [21.3 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 libimport-into-perl all 1.002005-1 [11.6 kB] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 libio-interactive-perl all 1.023-1 [11.5 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 libio-prompt-tiny-perl all 0.003-1 [9150 B] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 libipc-run3-perl all 0.048-2 [34.2 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 libjson-maybexs-perl all 1.004003-1 [13.1 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-compare-perl all 0.55-1 [66.9 kB] Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-someutils-perl all 0.58-1 [36.5 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-utilsby-perl all 0.11-1 [15.4 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 liblzo2-2 amd64 2.10-2 [56.9 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 libmarkdown2 amd64 2.2.7-2 [37.0 kB] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-quote-perl all 2.006006-1 [21.0 kB] Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 libmoo-perl all 2.005004-2 [60.4 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 libstrictures-perl all 2.000006-1 [18.6 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 libmoox-aliases-perl all 0.001006-1.1 [10.8 kB] Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 libmouse-perl amd64 2.5.10-1+b1 [172 kB] Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 libpackage-stash-perl all 0.39-1 [21.9 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-identify-perl amd64 0.14-1+b3 [12.0 kB] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-name-perl amd64 0.26-1+b1 [13.8 kB] Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 libnamespace-clean-perl all 0.27-1 [17.3 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 libpath-tiny-perl all 0.118-1 [53.5 kB] Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 libperlio-gzip-perl amd64 0.19-1+b7 [17.4 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 libperlio-utf8-strict-perl amd64 0.008-1+b1 [12.0 kB] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 libproc-processtable-perl amd64 0.611-1 [45.9 kB] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 libsereal-decoder-perl amd64 4.018+ds-1+b1 [99.3 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 libsereal-encoder-perl amd64 4.018+ds-1+b1 [103 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 libsort-versions-perl all 1.62-1 [11.0 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 libterm-readkey-perl amd64 2.38-1+b2 [27.8 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-levenshteinxs-perl amd64 0.03-4+b8 [8724 B] Get:79 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-markdown-discount-perl amd64 0.13-1 [13.2 kB] Get:80 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-xslate-perl amd64 3.5.8-1+b1 [197 kB] Get:81 http://debian.oregonstate.edu/debian unstable/main amd64 libtime-duration-perl all 1.21-1 [13.7 kB] Get:82 http://debian.oregonstate.edu/debian unstable/main amd64 libtime-moment-perl amd64 0.44-1+b3 [75.8 kB] Get:83 http://debian.oregonstate.edu/debian unstable/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get:84 http://debian.oregonstate.edu/debian unstable/main amd64 libtype-tiny-perl all 1.012004-1 [351 kB] Get:85 http://debian.oregonstate.edu/debian unstable/main amd64 libunicode-utf8-perl amd64 0.62-1+b2 [20.3 kB] Get:86 http://debian.oregonstate.edu/debian unstable/main amd64 liburi-perl all 5.08-1 [90.6 kB] Get:87 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-0-2 amd64 0.2.2-1 [49.6 kB] Get:88 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-libyaml-perl amd64 0.83+ds-1 [35.5 kB] Get:89 http://debian.oregonstate.edu/debian unstable/main amd64 lzip amd64 1.22-3 [88.5 kB] Get:90 http://debian.oregonstate.edu/debian unstable/main amd64 lzop amd64 1.04-2 [84.2 kB] Get:91 http://debian.oregonstate.edu/debian unstable/main amd64 patchutils amd64 0.4.2-1 [77.5 kB] Get:92 http://debian.oregonstate.edu/debian unstable/main amd64 t1utils amd64 1.41-4 [62.1 kB] Get:93 http://debian.oregonstate.edu/debian unstable/main amd64 unzip amd64 6.0-26 [171 kB] Get:94 http://debian.oregonstate.edu/debian unstable/main amd64 lintian all 2.106.1 [1332 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 6777 kB in 0s (30.0 MB/s) Selecting previously unselected package diffstat. (Reading database ... 42288 files and directories currently installed.) Preparing to unpack .../00-diffstat_1.64-1_amd64.deb ... Unpacking diffstat (1.64-1) ... Selecting previously unselected package libassuan0:amd64. Preparing to unpack .../01-libassuan0_2.5.5-1_amd64.deb ... Unpacking libassuan0:amd64 (2.5.5-1) ... Selecting previously unselected package gpgconf. Preparing to unpack .../02-gpgconf_2.2.27-2_amd64.deb ... Unpacking gpgconf (2.2.27-2) ... Selecting previously unselected package gpg. Preparing to unpack .../03-gpg_2.2.27-2_amd64.deb ... Unpacking gpg (2.2.27-2) ... Selecting previously unselected package libaliased-perl. Preparing to unpack .../04-libaliased-perl_0.34-1.1_all.deb ... Unpacking libaliased-perl (0.34-1.1) ... Selecting previously unselected package libapt-pkg-perl. Preparing to unpack .../05-libapt-pkg-perl_0.1.40_amd64.deb ... Unpacking libapt-pkg-perl (0.1.40) ... Selecting previously unselected package libb-hooks-op-check-perl. Preparing to unpack .../06-libb-hooks-op-check-perl_0.22-1+b3_amd64.deb ... Unpacking libb-hooks-op-check-perl (0.22-1+b3) ... Selecting previously unselected package libdynaloader-functions-perl. Preparing to unpack .../07-libdynaloader-functions-perl_0.003-1.1_all.deb ... Unpacking libdynaloader-functions-perl (0.003-1.1) ... Selecting previously unselected package libdevel-callchecker-perl. Preparing to unpack .../08-libdevel-callchecker-perl_0.008-1+b2_amd64.deb ... Unpacking libdevel-callchecker-perl (0.008-1+b2) ... Selecting previously unselected package libparams-classify-perl. Preparing to unpack .../09-libparams-classify-perl_0.015-1+b3_amd64.deb ... Unpacking libparams-classify-perl (0.015-1+b3) ... Selecting previously unselected package libmodule-runtime-perl. Preparing to unpack .../10-libmodule-runtime-perl_0.016-1_all.deb ... Unpacking libmodule-runtime-perl (0.016-1) ... Selecting previously unselected package libtry-tiny-perl. Preparing to unpack .../11-libtry-tiny-perl_0.30-1_all.deb ... Unpacking libtry-tiny-perl (0.30-1) ... Selecting previously unselected package libmodule-implementation-perl. Preparing to unpack .../12-libmodule-implementation-perl_0.09-1.1_all.deb ... Unpacking libmodule-implementation-perl (0.09-1.1) ... Selecting previously unselected package libsub-exporter-progressive-perl. Preparing to unpack .../13-libsub-exporter-progressive-perl_0.001013-1_all.deb ... Unpacking libsub-exporter-progressive-perl (0.001013-1) ... Selecting previously unselected package libvariable-magic-perl. Preparing to unpack .../14-libvariable-magic-perl_0.62-1+b3_amd64.deb ... Unpacking libvariable-magic-perl (0.62-1+b3) ... Selecting previously unselected package libb-hooks-endofscope-perl. Preparing to unpack .../15-libb-hooks-endofscope-perl_0.24-1.1_all.deb ... Unpacking libb-hooks-endofscope-perl (0.24-1.1) ... Selecting previously unselected package libcapture-tiny-perl. Preparing to unpack .../16-libcapture-tiny-perl_0.48-1_all.deb ... Unpacking libcapture-tiny-perl (0.48-1) ... Selecting previously unselected package libclass-data-inheritable-perl. Preparing to unpack .../17-libclass-data-inheritable-perl_0.08-3_all.deb ... Unpacking libclass-data-inheritable-perl (0.08-3) ... Selecting previously unselected package libclass-method-modifiers-perl. Preparing to unpack .../18-libclass-method-modifiers-perl_2.13-1_all.deb ... Unpacking libclass-method-modifiers-perl (2.13-1) ... Selecting previously unselected package libclass-xsaccessor-perl. Preparing to unpack .../19-libclass-xsaccessor-perl_1.19-3+b7_amd64.deb ... Unpacking libclass-xsaccessor-perl (1.19-3+b7) ... Selecting previously unselected package libclone-perl. Preparing to unpack .../20-libclone-perl_0.45-1+b1_amd64.deb ... Unpacking libclone-perl (0.45-1+b1) ... Selecting previously unselected package libconfig-tiny-perl. Preparing to unpack .../21-libconfig-tiny-perl_2.27-1_all.deb ... Unpacking libconfig-tiny-perl (2.27-1) ... Selecting previously unselected package libparams-util-perl. Preparing to unpack .../22-libparams-util-perl_1.102-1+b1_amd64.deb ... Unpacking libparams-util-perl (1.102-1+b1) ... Selecting previously unselected package libsub-install-perl. Preparing to unpack .../23-libsub-install-perl_0.928-1.1_all.deb ... Unpacking libsub-install-perl (0.928-1.1) ... Selecting previously unselected package libdata-optlist-perl. Preparing to unpack .../24-libdata-optlist-perl_0.112-1_all.deb ... Unpacking libdata-optlist-perl (0.112-1) ... Selecting previously unselected package libsub-exporter-perl. Preparing to unpack .../25-libsub-exporter-perl_0.988-1_all.deb ... Unpacking libsub-exporter-perl (0.988-1) ... Selecting previously unselected package libconst-fast-perl. Preparing to unpack .../26-libconst-fast-perl_0.014-1.1_all.deb ... Unpacking libconst-fast-perl (0.014-1.1) ... Selecting previously unselected package libcpanel-json-xs-perl. Preparing to unpack .../27-libcpanel-json-xs-perl_4.26-1_amd64.deb ... Unpacking libcpanel-json-xs-perl (4.26-1) ... Selecting previously unselected package libdevel-stacktrace-perl. Preparing to unpack .../28-libdevel-stacktrace-perl_2.0400-1_all.deb ... Unpacking libdevel-stacktrace-perl (2.0400-1) ... Selecting previously unselected package libexception-class-perl. Preparing to unpack .../29-libexception-class-perl_1.45-1_all.deb ... Unpacking libexception-class-perl (1.45-1) ... Selecting previously unselected package libiterator-perl. Preparing to unpack .../30-libiterator-perl_0.03+ds1-1.1_all.deb ... Unpacking libiterator-perl (0.03+ds1-1.1) ... Selecting previously unselected package libiterator-util-perl. Preparing to unpack .../31-libiterator-util-perl_0.02+ds1-1.1_all.deb ... Unpacking libiterator-util-perl (0.02+ds1-1.1) ... Selecting previously unselected package libexporter-tiny-perl. Preparing to unpack .../32-libexporter-tiny-perl_1.002002-1_all.deb ... Unpacking libexporter-tiny-perl (1.002002-1) ... Selecting previously unselected package liblist-moreutils-xs-perl. Preparing to unpack .../33-liblist-moreutils-xs-perl_0.430-2_amd64.deb ... Unpacking liblist-moreutils-xs-perl (0.430-2) ... Selecting previously unselected package liblist-moreutils-perl. Preparing to unpack .../34-liblist-moreutils-perl_0.430-2_all.deb ... Unpacking liblist-moreutils-perl (0.430-2) ... Selecting previously unselected package libdata-dpath-perl. Preparing to unpack .../35-libdata-dpath-perl_0.58-1_all.deb ... Unpacking libdata-dpath-perl (0.58-1) ... Selecting previously unselected package libdata-messagepack-perl. Preparing to unpack .../36-libdata-messagepack-perl_1.01-2_amd64.deb ... Unpacking libdata-messagepack-perl (1.01-2) ... Selecting previously unselected package libnet-domain-tld-perl. Preparing to unpack .../37-libnet-domain-tld-perl_1.75-1.1_all.deb ... Unpacking libnet-domain-tld-perl (1.75-1.1) ... Selecting previously unselected package libdata-validate-domain-perl. Preparing to unpack .../38-libdata-validate-domain-perl_0.10-1.1_all.deb ... Unpacking libdata-validate-domain-perl (0.10-1.1) ... Selecting previously unselected package libdevel-size-perl. Preparing to unpack .../39-libdevel-size-perl_0.83-1+b2_amd64.deb ... Unpacking libdevel-size-perl (0.83-1+b2) ... Selecting previously unselected package libemail-address-xs-perl. Preparing to unpack .../40-libemail-address-xs-perl_1.04-1+b3_amd64.deb ... Unpacking libemail-address-xs-perl (1.04-1+b3) ... Selecting previously unselected package libipc-system-simple-perl. Preparing to unpack .../41-libipc-system-simple-perl_1.30-1_all.deb ... Unpacking libipc-system-simple-perl (1.30-1) ... Selecting previously unselected package libfile-basedir-perl. Preparing to unpack .../42-libfile-basedir-perl_0.09-1_all.deb ... Unpacking libfile-basedir-perl (0.09-1) ... Selecting previously unselected package libnumber-compare-perl. 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Setting up libterm-readkey-perl (2.38-1+b2) ... Setting up libfont-ttf-perl (1.06-1.1) ... Setting up libtext-levenshteinxs-perl (0.03-4+b8) ... Setting up libperlio-gzip-perl (0.19-1+b7) ... Setting up libhtml-html5-entities-perl (0.004-1.1) ... Setting up libsereal-decoder-perl (4.018+ds-1+b1) ... Setting up libmarkdown2:amd64 (2.2.7-2) ... Setting up liburi-perl (5.08-1) ... Setting up gpg (2.2.27-2) ... Setting up libemail-address-xs-perl (1.04-1+b3) ... Setting up libfile-basedir-perl (0.09-1) ... Setting up liblist-moreutils-perl (0.430-2) ... Setting up libtype-tiny-perl (1.012004-1) ... Setting up libtext-markdown-discount-perl:amd64 (0.13-1) ... Setting up libexception-class-perl (1.45-1) ... Setting up libdevel-callchecker-perl (0.008-1+b2) ... Setting up libdata-optlist-perl (0.112-1) ... Setting up libsub-exporter-perl (0.988-1) ... Setting up libiterator-perl (0.03+ds1-1.1) ... Setting up libiterator-util-perl (0.02+ds1-1.1) ... Setting up libparams-classify-perl (0.015-1+b3) ... Setting up libmodule-runtime-perl (0.016-1) ... Setting up libconst-fast-perl (0.014-1.1) ... Setting up libdata-dpath-perl (0.58-1) ... Setting up libmodule-implementation-perl (0.09-1.1) ... Setting up libpackage-stash-perl (0.39-1) ... Setting up libimport-into-perl (1.002005-1) ... Setting up libmoo-perl (2.005004-2) ... Setting up liblist-someutils-perl (0.58-1) ... Setting up libmoox-aliases-perl (0.001006-1.1) ... Setting up libb-hooks-endofscope-perl (0.24-1.1) ... Setting up libnamespace-clean-perl (0.27-1) ... Setting up lintian (2.106.1) ... Setting up sbuild-build-depends-lintian-dummy:mips64el (0.invalid.0) ... Processing triggers for man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Processing triggers for libc-bin (2.32-4) ... 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: 155460 Build-Time: 171 Distribution: unstable Foreign Architectures: mips64el Host Architecture: mips64el Install-Time: 33 Job: blasr_5.3.3+dfsg-7 Lintian: pass Machine Architecture: amd64 Package: blasr Package-Time: 216 Source-Version: 5.3.3+dfsg-7 Space: 155460 Status: successful Version: 5.3.3+dfsg-7 -------------------------------------------------------------------------------- Finished at 2021-09-30T05:21:34Z Build needed 00:03:36, 155460k disk space