sbuild (Debian sbuild) 0.81.2+deb11u1 (31 August 2022) on debian-ci-siliconvalley +==============================================================================+ | blasr 5.3.5+dfsg-5 (arm64) Sun, 02 Oct 2022 08:31:15 +0000 | +==============================================================================+ Package: blasr Version: 5.3.5+dfsg-5 Source Version: 5.3.5+dfsg-5 Distribution: unstable Machine Architecture: amd64 Host Architecture: arm64 Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/sid-amd64-sbuild-12368c9e-f05d-4867-97f6-f3e699f67d84' with '<>' I: NOTICE: Log filtering will replace 'build/blasr-rrhsel/resolver-CLTRBx' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://localhost:3142/debian sid InRelease [158 kB] Get:2 http://localhost:3142/debian sid/main Sources.diff/Index [63.6 kB] Get:3 http://localhost:3142/debian sid/main amd64 Packages.diff/Index [63.6 kB] Get:4 http://localhost:3142/debian sid/main Sources T-2022-10-02-0203.47-F-2022-10-01-2009.15.pdiff [45.8 kB] Get:5 http://localhost:3142/debian sid/main amd64 Packages T-2022-10-02-0203.47-F-2022-10-01-2009.15.pdiff [63.9 kB] Get:4 http://localhost:3142/debian sid/main Sources T-2022-10-02-0203.47-F-2022-10-01-2009.15.pdiff [45.8 kB] Get:6 http://localhost:3142/debian sid/main arm64 Packages [9211 kB] Get:5 http://localhost:3142/debian sid/main amd64 Packages T-2022-10-02-0203.47-F-2022-10-01-2009.15.pdiff [63.9 kB] Fetched 9606 kB in 3s (3401 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 138 kB of source archives. Get:1 http://localhost:3142/debian sid/main blasr 5.3.5+dfsg-5 (dsc) [2158 B] Get:2 http://localhost:3142/debian sid/main blasr 5.3.5+dfsg-5 (tar) [124 kB] Get:3 http://localhost:3142/debian sid/main blasr 5.3.5+dfsg-5 (diff) [11.3 kB] Fetched 138 kB in 1s (110 kB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/blasr-rrhsel/blasr-5.3.5+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/blasr-rrhsel' 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, libpbdata-dev, libpbcopper-dev, libgtest-dev, libblasr-dev (>= 5.3.4+dfsg-4~), libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-arm64:amd64, libc-dev:arm64, libstdc++-dev:arm64 Filtered Build-Depends: debhelper-compat (= 13), python3:any, meson, cmake, pkg-config, libboost-dev, libhdf5-dev, zlib1g-dev, libpbseq-dev, libpbbam-dev, libpbdata-dev, libpbcopper-dev, libgtest-dev, libblasr-dev (>= 5.3.4+dfsg-4~), libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-arm64:amd64, libc-dev:arm64, libstdc++-dev:arm64 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 [492 B] Get:5 copy:/<>/apt_archive ./ Packages [583 B] Fetched 2032 B in 0s (0 B/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev binutils-aarch64-linux-gnu bsdextrautils cmake cmake-data cpp-12-aarch64-linux-gnu cpp-aarch64-linux-gnu cross-config crossbuild-essential-arm64 debhelper dh-autoreconf dh-elpa-helper dh-strip-nondeterminism dpkg-cross dwz emacsen-common file g++-12-aarch64-linux-gnu g++-aarch64-linux-gnu gcc-12-aarch64-linux-gnu gcc-12-aarch64-linux-gnu-base gcc-12-base:arm64 gcc-12-cross-base gcc-aarch64-linux-gnu gettext gettext-base googletest groff-base hdf5-helpers:arm64 intltool-debian libaec-dev:arm64 libaec0:arm64 libarchive-zip-perl libarchive13 libasan8:arm64 libasan8-arm64-cross libatomic1:arm64 libatomic1-arm64-cross libblasr-dev:arm64 libblasr5.3.5:arm64 libboost-dev:arm64 libboost1.74-dev:arm64 libbrotli1 libbrotli1:arm64 libbz2-1.0:arm64 libc6:arm64 libc6-arm64-cross libc6-dev:arm64 libc6-dev-arm64-cross libcom-err2:arm64 libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev:arm64 libcrypt1:arm64 libcurl3-gnutls:arm64 libcurl4 libcurl4:arm64 libcurl4-gnutls-dev:arm64 libdb5.3:arm64 libdebhelper-perl libdebian-dpkgcross-perl libdeflate-dev:arm64 libdeflate0:arm64 libelf1 libexpat1 libffi8:arm64 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-12-dev:arm64 libgcc-12-dev-arm64-cross libgcc-s1:arm64 libgcc-s1-arm64-cross libgfortran5:arm64 libglib2.0-0 libgmp10:arm64 libgnutls30:arm64 libgomp1:arm64 libgomp1-arm64-cross libgssapi-krb5-2:arm64 libgtest-dev:arm64 libhdf5-103-1:arm64 libhdf5-cpp-103-1:arm64 libhdf5-dev:arm64 libhdf5-fortran-102:arm64 libhdf5-hl-100:arm64 libhdf5-hl-cpp-100:arm64 libhdf5-hl-fortran-100:arm64 libhogweed6:arm64 libhts-dev:arm64 libhts3:arm64 libhtscodecs2:arm64 libhwasan0:arm64 libhwasan0-arm64-cross libicu71 libidn2-0:arm64 libio-string-perl libitm1:arm64 libitm1-arm64-cross libjpeg-dev:arm64 libjpeg62-turbo:arm64 libjpeg62-turbo-dev:arm64 libjsoncpp25 libk5crypto3:arm64 libkeyutils1:arm64 libkrb5-3:arm64 libkrb5support0:arm64 libldap-2.5-0 libldap-2.5-0:arm64 liblocale-gettext-perl liblsan0:arm64 liblsan0-arm64-cross liblzma-dev:arm64 liblzma5:arm64 libmagic-mgc libmagic1 libmpdec3 libncurses6 libncursesw6 libnettle8:arm64 libnghttp2-14 libnghttp2-14:arm64 libnsl-dev:arm64 libnsl2:arm64 libp11-kit0:arm64 libpbbam-dev:arm64 libpbbam2.1.0:arm64 libpbcopper-dev:arm64 libpbcopper2.0.0:arm64 libpbdata-dev:arm64 libpbihdf-dev:arm64 libpbseq-dev:arm64 libpipeline1 libprocps8 libpsl5 libpsl5:arm64 libpython3-stdlib libpython3.10-minimal libpython3.10-stdlib libreadline8 librhash0 librtmp1 librtmp1:arm64 libsasl2-2 libsasl2-2:arm64 libsasl2-modules-db libsasl2-modules-db:arm64 libsqlite3-0 libssh2-1 libssh2-1:arm64 libssl-dev:arm64 libssl3:arm64 libstdc++-12-dev:arm64 libstdc++-12-dev-arm64-cross libstdc++6:arm64 libstdc++6-arm64-cross libsub-override-perl libsz2:arm64 libtasn1-6:arm64 libtirpc-dev:arm64 libtirpc3:arm64 libtool libtsan2:arm64 libtsan2-arm64-cross libubsan1:arm64 libubsan1-arm64-cross libuchardet0 libunistring2:arm64 libuv1 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl libzstd1:arm64 linux-libc-dev:arm64 linux-libc-dev-arm64-cross m4 man-db media-types meson ninja-build pkg-config po-debconf procps python3 python3-distutils python3-lib2to3 python3-minimal python3-pkg-resources python3-setuptools python3.10 python3.10-minimal readline-common sensible-utils ucf zlib1g:arm64 zlib1g-dev:arm64 Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc cmake-doc cmake-format gcc-12-locales cpp-12-doc cpp-doc dh-make binutils-multiarch gcc-12-doc manpages-dev flex bison gdb-aarch64-linux-gnu gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff lrzip libboost-doc:arm64 libboost1.74-doc:arm64 libboost-atomic1.74-dev:arm64 libboost-chrono1.74-dev:arm64 libboost-container1.74-dev:arm64 libboost-context1.74-dev:arm64 libboost-contract1.74-dev:arm64 libboost-coroutine1.74-dev:arm64 libboost-date-time1.74-dev:arm64 libboost-exception1.74-dev:arm64 libboost-fiber1.74-dev:arm64 libboost-filesystem1.74-dev:arm64 libboost-graph1.74-dev:arm64 libboost-graph-parallel1.74-dev:arm64 libboost-iostreams1.74-dev:arm64 libboost-locale1.74-dev:arm64 libboost-log1.74-dev:arm64 libboost-math1.74-dev:arm64 libboost-mpi1.74-dev:arm64 libboost-mpi-python1.74-dev:arm64 libboost-numpy1.74-dev:arm64 libboost-program-options1.74-dev:arm64 libboost-python1.74-dev:arm64 libboost-random1.74-dev:arm64 libboost-regex1.74-dev:arm64 libboost-serialization1.74-dev:arm64 libboost-stacktrace1.74-dev:arm64 libboost-system1.74-dev:arm64 libboost-test1.74-dev:arm64 libboost-thread1.74-dev:arm64 libboost-timer1.74-dev:arm64 libboost-type-erasure1.74-dev:arm64 libboost-wave1.74-dev:arm64 libboost1.74-tools-dev:arm64 libmpfrc++-dev:arm64 libntl-dev:arm64 libboost-nowide1.74-dev:arm64 glibc-doc:arm64 libc-l10n:arm64 locales:arm64 libnss-nis:arm64 libnss-nisplus:arm64 manpages-dev:arm64 libcurl4-doc:arm64 libgnutls28-dev:arm64 libidn11-dev:arm64 libkrb5-dev:arm64 libldap2-dev:arm64 librtmp-dev:arm64 libssh2-1-dev:arm64 gnutls-bin:arm64 krb5-doc:arm64 krb5-user:arm64 libhdf5-doc:arm64 liblzma-doc:arm64 libssl-doc:arm64 libstdc++-12-doc:arm64 libtool-doc gfortran | fortran95-compiler gcj-jdk libyaml-shell-perl m4-doc apparmor less www-browser libmail-box-perl python3-doc python3-tk python3-venv python-setuptools-doc python3.10-venv python3.10-doc binfmt-support readline-doc Recommended packages: curl | wget | lynx ca-certificates:arm64 ca-certificates libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales:arm64 libldap-common libldap-common:arm64 libgpm2 publicsuffix publicsuffix:arm64 libsasl2-modules libsasl2-modules:arm64 libltdl-dev libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl | libyaml-syck-perl libmail-sendmail-perl psmisc The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-aarch64-linux-gnu bsdextrautils cmake cmake-data cpp-12-aarch64-linux-gnu cpp-aarch64-linux-gnu cross-config crossbuild-essential-arm64 debhelper dh-autoreconf dh-elpa-helper dh-strip-nondeterminism dpkg-cross dwz emacsen-common file g++-12-aarch64-linux-gnu g++-aarch64-linux-gnu gcc-12-aarch64-linux-gnu gcc-12-aarch64-linux-gnu-base gcc-12-base:arm64 gcc-12-cross-base gcc-aarch64-linux-gnu gettext gettext-base googletest groff-base hdf5-helpers:arm64 intltool-debian libaec-dev:arm64 libaec0:arm64 libarchive-zip-perl libarchive13 libasan8:arm64 libasan8-arm64-cross libatomic1:arm64 libatomic1-arm64-cross libblasr-dev:arm64 libblasr5.3.5:arm64 libboost-dev:arm64 libboost1.74-dev:arm64 libbrotli1 libbrotli1:arm64 libbz2-1.0:arm64 libc6:arm64 libc6-arm64-cross libc6-dev:arm64 libc6-dev-arm64-cross libcom-err2:arm64 libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev:arm64 libcrypt1:arm64 libcurl3-gnutls:arm64 libcurl4 libcurl4:arm64 libcurl4-gnutls-dev:arm64 libdb5.3:arm64 libdebhelper-perl libdebian-dpkgcross-perl libdeflate-dev:arm64 libdeflate0:arm64 libelf1 libexpat1 libffi8:arm64 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-12-dev:arm64 libgcc-12-dev-arm64-cross libgcc-s1:arm64 libgcc-s1-arm64-cross libgfortran5:arm64 libglib2.0-0 libgmp10:arm64 libgnutls30:arm64 libgomp1:arm64 libgomp1-arm64-cross libgssapi-krb5-2:arm64 libgtest-dev:arm64 libhdf5-103-1:arm64 libhdf5-cpp-103-1:arm64 libhdf5-dev:arm64 libhdf5-fortran-102:arm64 libhdf5-hl-100:arm64 libhdf5-hl-cpp-100:arm64 libhdf5-hl-fortran-100:arm64 libhogweed6:arm64 libhts-dev:arm64 libhts3:arm64 libhtscodecs2:arm64 libhwasan0:arm64 libhwasan0-arm64-cross libicu71 libidn2-0:arm64 libio-string-perl libitm1:arm64 libitm1-arm64-cross libjpeg-dev:arm64 libjpeg62-turbo:arm64 libjpeg62-turbo-dev:arm64 libjsoncpp25 libk5crypto3:arm64 libkeyutils1:arm64 libkrb5-3:arm64 libkrb5support0:arm64 libldap-2.5-0 libldap-2.5-0:arm64 liblocale-gettext-perl liblsan0:arm64 liblsan0-arm64-cross liblzma-dev:arm64 liblzma5:arm64 libmagic-mgc libmagic1 libmpdec3 libncurses6 libncursesw6 libnettle8:arm64 libnghttp2-14 libnghttp2-14:arm64 libnsl-dev:arm64 libnsl2:arm64 libp11-kit0:arm64 libpbbam-dev:arm64 libpbbam2.1.0:arm64 libpbcopper-dev:arm64 libpbcopper2.0.0:arm64 libpbdata-dev:arm64 libpbihdf-dev:arm64 libpbseq-dev:arm64 libpipeline1 libprocps8 libpsl5 libpsl5:arm64 libpython3-stdlib libpython3.10-minimal libpython3.10-stdlib libreadline8 librhash0 librtmp1 librtmp1:arm64 libsasl2-2 libsasl2-2:arm64 libsasl2-modules-db libsasl2-modules-db:arm64 libsqlite3-0 libssh2-1 libssh2-1:arm64 libssl-dev:arm64 libssl3:arm64 libstdc++-12-dev:arm64 libstdc++-12-dev-arm64-cross libstdc++6:arm64 libstdc++6-arm64-cross libsub-override-perl libsz2:arm64 libtasn1-6:arm64 libtirpc-dev:arm64 libtirpc3:arm64 libtool libtsan2:arm64 libtsan2-arm64-cross libubsan1:arm64 libubsan1-arm64-cross libuchardet0 libunistring2:arm64 libuv1 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl libzstd1:arm64 linux-libc-dev:arm64 linux-libc-dev-arm64-cross m4 man-db media-types meson ninja-build pkg-config po-debconf procps python3 python3-distutils python3-lib2to3 python3-minimal python3-pkg-resources python3-setuptools python3.10 python3.10-minimal readline-common sbuild-build-depends-main-dummy:arm64 sensible-utils ucf zlib1g:arm64 zlib1g-dev:arm64 0 upgraded, 204 newly installed, 0 to remove and 0 not upgraded. Need to get 151 MB of archives. After this operation, 723 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [1008 B] Get:2 http://localhost:3142/debian sid/main amd64 liblocale-gettext-perl amd64 1.07-4+b2 [19.2 kB] Get:3 http://localhost:3142/debian sid/main amd64 libpython3.10-minimal amd64 3.10.7-2 [828 kB] Get:4 http://localhost:3142/debian sid/main amd64 libexpat1 amd64 2.4.9-1 [105 kB] Get:5 http://localhost:3142/debian sid/main amd64 python3.10-minimal amd64 3.10.7-2 [1994 kB] Get:6 http://localhost:3142/debian sid/main amd64 python3-minimal amd64 3.10.6-1 [38.7 kB] Get:7 http://localhost:3142/debian sid/main amd64 media-types all 8.0.0 [33.4 kB] Get:8 http://localhost:3142/debian sid/main amd64 libmpdec3 amd64 2.5.1-2 [87.8 kB] Get:9 http://localhost:3142/debian sid/main amd64 libncursesw6 amd64 6.3+20220423-2 [133 kB] Get:10 http://localhost:3142/debian sid/main amd64 readline-common all 8.2-1 [76.0 kB] Get:11 http://localhost:3142/debian sid/main amd64 libreadline8 amd64 8.2-1 [173 kB] Get:12 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http://localhost:3142/debian sid/main amd64 file amd64 1:5.41-4 [67.0 kB] Get:24 http://localhost:3142/debian sid/main amd64 gettext-base amd64 0.21-9 [175 kB] Get:25 http://localhost:3142/debian sid/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get:26 http://localhost:3142/debian sid/main amd64 groff-base amd64 1.22.4-8 [936 kB] Get:27 http://localhost:3142/debian sid/main amd64 bsdextrautils amd64 2.38.1-1 [145 kB] Get:28 http://localhost:3142/debian sid/main amd64 libpipeline1 amd64 1.5.6-3 [39.4 kB] Get:29 http://localhost:3142/debian sid/main amd64 man-db amd64 2.10.2-3 [1413 kB] Get:30 http://localhost:3142/debian sid/main amd64 ucf all 3.0043 [74.0 kB] Get:31 http://localhost:3142/debian sid/main amd64 m4 amd64 1.4.19-1 [291 kB] Get:32 http://localhost:3142/debian sid/main amd64 autoconf all 2.71-2 [343 kB] Get:33 http://localhost:3142/debian sid/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get:34 http://localhost:3142/debian sid/main amd64 automake all 1:1.16.5-1.3 [823 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Get:46 http://localhost:3142/debian sid/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:47 http://localhost:3142/debian sid/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get:48 http://localhost:3142/debian sid/main amd64 libcurl4 amd64 7.85.0-1 [367 kB] Get:49 http://localhost:3142/debian sid/main amd64 libjsoncpp25 amd64 1.9.5-4 [78.6 kB] Get:50 http://localhost:3142/debian sid/main amd64 librhash0 amd64 1.4.3-3 [134 kB] Get:51 http://localhost:3142/debian sid/main amd64 libuv1 amd64 1.44.2-1 [140 kB] Get:52 http://localhost:3142/debian sid/main amd64 dh-elpa-helper all 2.0.13 [11.4 kB] Get:53 http://localhost:3142/debian sid/main amd64 emacsen-common all 3.0.4 [19.3 kB] Get:54 http://localhost:3142/debian sid/main amd64 cmake-data all 3.24.2-1 [2019 kB] Get:55 http://localhost:3142/debian sid/main amd64 cmake amd64 3.24.2-1 [8424 kB] Get:56 http://localhost:3142/debian sid/main amd64 gcc-12-aarch64-linux-gnu-base amd64 12.2.0-3cross2 [208 kB] Get:57 http://localhost:3142/debian sid/main amd64 cpp-12-aarch64-linux-gnu amd64 12.2.0-3cross2 [9154 kB] Get:58 http://localhost:3142/debian sid/main amd64 cpp-aarch64-linux-gnu amd64 4:12.2.0-1 [17.1 kB] Get:59 http://localhost:3142/debian sid/main amd64 cross-config all 2.6.18+nmu2 [31.7 kB] Get:60 http://localhost:3142/debian sid/main amd64 gcc-12-cross-base all 12.2.0-3cross2 [204 kB] Get:61 http://localhost:3142/debian sid/main amd64 libc6-arm64-cross all 2.35-1cross1 [1216 kB] Get:62 http://localhost:3142/debian sid/main amd64 libgcc-s1-arm64-cross all 12.2.0-3cross2 [35.1 kB] Get:63 http://localhost:3142/debian sid/main amd64 libgomp1-arm64-cross all 12.2.0-3cross2 [102 kB] Get:64 http://localhost:3142/debian sid/main amd64 libitm1-arm64-cross all 12.2.0-3cross2 [23.5 kB] Get:65 http://localhost:3142/debian sid/main amd64 libatomic1-arm64-cross all 12.2.0-3cross2 [9304 B] Get:66 http://localhost:3142/debian sid/main amd64 libasan8-arm64-cross all 12.2.0-3cross2 [2096 kB] Get:67 http://localhost:3142/debian sid/main amd64 liblsan0-arm64-cross all 12.2.0-3cross2 [926 kB] Get:68 http://localhost:3142/debian sid/main amd64 libtsan2-arm64-cross all 12.2.0-3cross2 [2179 kB] Get:69 http://localhost:3142/debian sid/main amd64 libstdc++6-arm64-cross all 12.2.0-3cross2 [514 kB] Get:70 http://localhost:3142/debian sid/main amd64 libubsan1-arm64-cross all 12.2.0-3cross2 [860 kB] Get:71 http://localhost:3142/debian sid/main amd64 libhwasan0-arm64-cross all 12.2.0-3cross2 [998 kB] Get:72 http://localhost:3142/debian sid/main amd64 libgcc-12-dev-arm64-cross all 12.2.0-3cross2 [955 kB] Get:73 http://localhost:3142/debian sid/main amd64 gcc-12-aarch64-linux-gnu amd64 12.2.0-3cross2 [18.0 MB] Get:74 http://localhost:3142/debian sid/main amd64 gcc-aarch64-linux-gnu amd64 4:12.2.0-1 [1452 B] Get:75 http://localhost:3142/debian sid/main amd64 linux-libc-dev-arm64-cross all 5.19.6-1cross1 [1733 kB] Get:76 http://localhost:3142/debian sid/main amd64 libc6-dev-arm64-cross all 2.35-1cross1 [1621 kB] Get:77 http://localhost:3142/debian sid/main amd64 libstdc++-12-dev-arm64-cross all 12.2.0-3cross2 [1974 kB] Get:78 http://localhost:3142/debian sid/main amd64 g++-12-aarch64-linux-gnu amd64 12.2.0-3cross2 [10.1 MB] Get:79 http://localhost:3142/debian sid/main amd64 g++-aarch64-linux-gnu amd64 4:12.2.0-1 [1176 B] Get:80 http://localhost:3142/debian sid/main amd64 libconfig-inifiles-perl all 3.000003-1 [52.1 kB] Get:81 http://localhost:3142/debian sid/main amd64 libio-string-perl all 1.08-3.1 [11.8 kB] Get:82 http://localhost:3142/debian sid/main amd64 libxml-namespacesupport-perl all 1.12-2 [15.1 kB] Get:83 http://localhost:3142/debian sid/main amd64 libxml-sax-base-perl all 1.09-2 [21.0 kB] Get:84 http://localhost:3142/debian sid/main amd64 libxml-sax-perl all 1.02+dfsg-3 [59.4 kB] Get:85 http://localhost:3142/debian sid/main amd64 libxml-libxml-perl amd64 2.0207+dfsg+really+2.0134-1 [337 kB] Get:86 http://localhost:3142/debian sid/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:87 http://localhost:3142/debian sid/main amd64 libyaml-perl all 1.30-1 [67.7 kB] Get:88 http://localhost:3142/debian sid/main amd64 libconfig-auto-perl all 0.44-2 [19.2 kB] Get:89 http://localhost:3142/debian sid/main amd64 libfile-which-perl all 1.27-1 [17.3 kB] Get:90 http://localhost:3142/debian sid/main amd64 libfile-homedir-perl all 1.006-1 [43.8 kB] Get:91 http://localhost:3142/debian sid/main amd64 libdebian-dpkgcross-perl all 2.6.18+nmu2 [30.6 kB] Get:92 http://localhost:3142/debian sid/main amd64 dpkg-cross all 2.6.18+nmu2 [40.9 kB] Get:93 http://localhost:3142/debian sid/main amd64 crossbuild-essential-arm64 all 12.9 [6708 B] Get:94 http://localhost:3142/debian sid/main amd64 libdebhelper-perl all 13.9.1 [196 kB] Get:95 http://localhost:3142/debian sid/main amd64 libtool all 2.4.7-4 [526 kB] Get:96 http://localhost:3142/debian sid/main amd64 dh-autoreconf all 20 [17.1 kB] Get:97 http://localhost:3142/debian sid/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:98 http://localhost:3142/debian sid/main amd64 libsub-override-perl all 0.09-3 [10.4 kB] Get:99 http://localhost:3142/debian sid/main amd64 libfile-stripnondeterminism-perl all 1.13.0-1 [26.6 kB] Get:100 http://localhost:3142/debian sid/main amd64 dh-strip-nondeterminism all 1.13.0-1 [15.8 kB] Get:101 http://localhost:3142/debian sid/main amd64 libelf1 amd64 0.187-4 [179 kB] Get:102 http://localhost:3142/debian sid/main amd64 dwz amd64 0.14+20220924-2 [109 kB] Get:103 http://localhost:3142/debian sid/main amd64 gettext amd64 0.21-9 [1315 kB] Get:104 http://localhost:3142/debian sid/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get:105 http://localhost:3142/debian sid/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get:106 http://localhost:3142/debian sid/main amd64 debhelper all 13.9.1 [1071 kB] Get:107 http://localhost:3142/debian sid/main arm64 gcc-12-base arm64 12.2.0-3 [208 kB] Get:108 http://localhost:3142/debian sid/main amd64 googletest all 1.12.1-0.2 [506 kB] Get:109 http://localhost:3142/debian sid/main arm64 hdf5-helpers arm64 1.10.8+repack-1 [45.1 kB] Get:110 http://localhost:3142/debian sid/main arm64 libgcc-s1 arm64 12.2.0-3 [35.1 kB] Get:111 http://localhost:3142/debian sid/main arm64 libc6 arm64 2.35-1 [2523 kB] Get:112 http://localhost:3142/debian sid/main arm64 libaec0 arm64 1.0.6-1+b1 [19.9 kB] Get:113 http://localhost:3142/debian sid/main arm64 libsz2 arm64 1.0.6-1+b1 [7740 B] Get:114 http://localhost:3142/debian sid/main arm64 libaec-dev arm64 1.0.6-1+b1 [18.7 kB] Get:115 http://localhost:3142/debian sid/main arm64 libasan8 arm64 12.2.0-3 [2095 kB] Get:116 http://localhost:3142/debian sid/main arm64 libatomic1 arm64 12.2.0-3 [9528 B] Get:117 http://localhost:3142/debian sid/main arm64 libbrotli1 arm64 1.0.9-2+b4 [270 kB] Get:118 http://localhost:3142/debian sid/main arm64 libcom-err2 arm64 1.46.6~rc1-1 [75.7 kB] Get:119 http://localhost:3142/debian sid/main arm64 libkrb5support0 arm64 1.20-1 [65.0 kB] Get:120 http://localhost:3142/debian sid/main arm64 libk5crypto3 arm64 1.20-1 [113 kB] Get:121 http://localhost:3142/debian sid/main arm64 libkeyutils1 arm64 1.6.3-1 [15.7 kB] Get:122 http://localhost:3142/debian sid/main arm64 libssl3 arm64 3.0.5-4 [1816 kB] Get:123 http://localhost:3142/debian sid/main arm64 libkrb5-3 arm64 1.20-1 [346 kB] Get:124 http://localhost:3142/debian sid/main arm64 libgssapi-krb5-2 arm64 1.20-1 [157 kB] Get:125 http://localhost:3142/debian sid/main arm64 libunistring2 arm64 1.0-1 [406 kB] Get:126 http://localhost:3142/debian sid/main arm64 libidn2-0 arm64 2.3.3-1+b1 [122 kB] Get:127 http://localhost:3142/debian sid/main arm64 libgmp10 arm64 2:6.2.1+dfsg1-1 [539 kB] Get:128 http://localhost:3142/debian sid/main arm64 libnettle8 arm64 3.8.1-2 [294 kB] Get:129 http://localhost:3142/debian sid/main arm64 libhogweed6 arm64 3.8.1-2 [324 kB] Get:130 http://localhost:3142/debian sid/main arm64 libffi8 arm64 3.4.3-2 [23.7 kB] Get:131 http://localhost:3142/debian sid/main arm64 libp11-kit0 arm64 0.24.1-1 [335 kB] Get:132 http://localhost:3142/debian sid/main arm64 libtasn1-6 arm64 4.19.0-2 [54.2 kB] Get:133 http://localhost:3142/debian sid/main arm64 libgnutls30 arm64 3.7.7-2 [1324 kB] Get:134 http://localhost:3142/debian sid/main arm64 libdb5.3 arm64 5.3.28+dfsg1-0.10 [623 kB] Get:135 http://localhost:3142/debian sid/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg-8 [39.2 kB] Get:136 http://localhost:3142/debian sid/main arm64 libsasl2-2 arm64 2.1.28+dfsg-8 [76.5 kB] Get:137 http://localhost:3142/debian sid/main arm64 libldap-2.5-0 arm64 2.5.13+dfsg-2 [219 kB] Get:138 http://localhost:3142/debian sid/main arm64 libnghttp2-14 arm64 1.50.0-1 [72.1 kB] Get:139 http://localhost:3142/debian sid/main arm64 libpsl5 arm64 0.21.0-1.2 [57.1 kB] Get:140 http://localhost:3142/debian sid/main arm64 zlib1g arm64 1:1.2.11.dfsg-4.1 [89.0 kB] Get:141 http://localhost:3142/debian sid/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b2 [59.4 kB] Get:142 http://localhost:3142/debian sid/main arm64 libssh2-1 arm64 1.10.0-3+b1 [172 kB] Get:143 http://localhost:3142/debian sid/main arm64 libzstd1 arm64 1.5.2+dfsg-1 [241 kB] Get:144 http://localhost:3142/debian sid/main arm64 libcurl4 arm64 7.85.0-1 [341 kB] Get:145 http://localhost:3142/debian sid/main arm64 libhdf5-103-1 arm64 1.10.8+repack-1 [1054 kB] Get:146 http://localhost:3142/debian sid/main arm64 libstdc++6 arm64 12.2.0-3 [557 kB] Get:147 http://localhost:3142/debian sid/main arm64 libhdf5-cpp-103-1 arm64 1.10.8+repack-1 [136 kB] Get:148 http://localhost:3142/debian sid/main arm64 libbz2-1.0 arm64 1.0.8-5+b1 [47.5 kB] Get:149 http://localhost:3142/debian sid/main arm64 libcurl3-gnutls arm64 7.85.0-1 [336 kB] Get:150 http://localhost:3142/debian sid/main arm64 libdeflate0 arm64 1.12-1 [64.1 kB] Get:151 http://localhost:3142/debian sid/main arm64 libhtscodecs2 arm64 1.3.0-3 [61.9 kB] Get:152 http://localhost:3142/debian sid/main arm64 liblzma5 arm64 5.2.5-2.1 [164 kB] Get:153 http://localhost:3142/debian sid/main arm64 libhts3 arm64 1.16+ds-2 [395 kB] Get:154 http://localhost:3142/debian sid/main arm64 libpbcopper2.0.0 arm64 2.0.0+dfsg-2 [510 kB] Get:155 http://localhost:3142/debian sid/main arm64 libpbbam2.1.0 arm64 2.1.0+dfsg-1+b1 [666 kB] Get:156 http://localhost:3142/debian sid/main arm64 libblasr5.3.5 arm64 5.3.5+dfsg-4+b2 [1040 kB] Get:157 http://localhost:3142/debian sid/main arm64 libpbcopper-dev arm64 2.0.0+dfsg-2 [846 kB] Get:158 http://localhost:3142/debian sid/main arm64 libpbdata-dev arm64 5.3.5+dfsg-4+b2 [41.5 kB] Get:159 http://localhost:3142/debian sid/main arm64 libblasr-dev arm64 5.3.5+dfsg-4+b2 [2041 kB] Get:160 http://localhost:3142/debian sid/main arm64 libgomp1 arm64 12.2.0-3 [104 kB] Get:161 http://localhost:3142/debian sid/main arm64 libitm1 arm64 12.2.0-3 [23.9 kB] Get:162 http://localhost:3142/debian sid/main arm64 liblsan0 arm64 12.2.0-3 [927 kB] Get:163 http://localhost:3142/debian sid/main arm64 libtsan2 arm64 12.2.0-3 [2178 kB] Get:164 http://localhost:3142/debian sid/main arm64 libubsan1 arm64 12.2.0-3 [862 kB] Get:165 http://localhost:3142/debian sid/main arm64 libhwasan0 arm64 12.2.0-3 [998 kB] Get:166 http://localhost:3142/debian sid/main arm64 libgcc-12-dev arm64 12.2.0-3 [957 kB] Get:167 http://localhost:3142/debian sid/main arm64 linux-libc-dev arm64 5.19.11-1 [1615 kB] Get:168 http://localhost:3142/debian sid/main arm64 libcrypt1 arm64 1:4.4.28-2 [90.8 kB] Get:169 http://localhost:3142/debian sid/main arm64 libcrypt-dev arm64 1:4.4.28-2 [122 kB] Get:170 http://localhost:3142/debian sid/main arm64 libtirpc3 arm64 1.3.3+ds-1 [80.9 kB] Get:171 http://localhost:3142/debian sid/main arm64 libnsl2 arm64 1.3.0-2 [36.9 kB] Get:172 http://localhost:3142/debian sid/main arm64 libtirpc-dev arm64 1.3.3+ds-1 [194 kB] Get:173 http://localhost:3142/debian sid/main arm64 libnsl-dev arm64 1.3.0-2 [66.1 kB] Get:174 http://localhost:3142/debian sid/main arm64 libc6-dev arm64 2.35-1 [1625 kB] Get:175 http://localhost:3142/debian sid/main arm64 libstdc++-12-dev arm64 12.2.0-3 [2008 kB] Get:176 http://localhost:3142/debian sid/main arm64 libboost1.74-dev arm64 1.74.0-17 [9533 kB] Get:177 http://localhost:3142/debian sid/main arm64 libboost-dev arm64 1.74.0.3 [4548 B] Get:178 http://localhost:3142/debian sid/main arm64 libcurl4-gnutls-dev arm64 7.85.0-1 [442 kB] Get:179 http://localhost:3142/debian sid/main arm64 libdeflate-dev arm64 1.12-1 [54.2 kB] Get:180 http://localhost:3142/debian sid/main arm64 libgfortran5 arm64 12.2.0-3 [340 kB] Get:181 http://localhost:3142/debian sid/main amd64 libglib2.0-0 amd64 2.74.0-2 [1463 kB] Get:182 http://localhost:3142/debian sid/main arm64 libgtest-dev arm64 1.12.1-0.2 [231 kB] Get:183 http://localhost:3142/debian sid/main arm64 libhdf5-fortran-102 arm64 1.10.8+repack-1 [108 kB] Get:184 http://localhost:3142/debian sid/main arm64 libhdf5-hl-100 arm64 1.10.8+repack-1 [81.2 kB] Get:185 http://localhost:3142/debian sid/main arm64 libhdf5-hl-fortran-100 arm64 1.10.8+repack-1 [59.9 kB] Get:186 http://localhost:3142/debian sid/main arm64 libhdf5-hl-cpp-100 arm64 1.10.8+repack-1 [42.6 kB] Get:187 http://localhost:3142/debian sid/main arm64 zlib1g-dev arm64 1:1.2.11.dfsg-4.1 [189 kB] Get:188 http://localhost:3142/debian sid/main arm64 libjpeg62-turbo arm64 1:2.1.2-1+b1 [170 kB] Get:189 http://localhost:3142/debian sid/main arm64 libjpeg62-turbo-dev arm64 1:2.1.2-1+b1 [291 kB] Get:190 http://localhost:3142/debian sid/main arm64 libjpeg-dev arm64 1:2.1.2-1+b1 [75.0 kB] Get:191 http://localhost:3142/debian sid/main arm64 libssl-dev arm64 3.0.5-4 [2313 kB] Get:192 http://localhost:3142/debian sid/main arm64 libhdf5-dev arm64 1.10.8+repack-1 [2681 kB] Get:193 http://localhost:3142/debian sid/main arm64 liblzma-dev arm64 5.2.5-2.1 [227 kB] Get:194 http://localhost:3142/debian sid/main arm64 libhts-dev arm64 1.16+ds-2 [1528 kB] Get:195 http://localhost:3142/debian sid/main arm64 libpbbam-dev arm64 2.1.0+dfsg-1+b1 [89.1 kB] Get:196 http://localhost:3142/debian sid/main arm64 libpbihdf-dev arm64 5.3.5+dfsg-4+b2 [48.0 kB] Get:197 http://localhost:3142/debian sid/main arm64 libpbseq-dev arm64 5.3.5+dfsg-4+b2 [5776 B] Get:198 http://localhost:3142/debian sid/main amd64 ninja-build amd64 1.11.1-1 [136 kB] Get:199 http://localhost:3142/debian sid/main amd64 python3-pkg-resources all 65.3.0-1.1 [281 kB] Get:200 http://localhost:3142/debian sid/main amd64 python3-lib2to3 all 3.10.7-1 [79.9 kB] Get:201 http://localhost:3142/debian sid/main amd64 python3-distutils all 3.10.7-1 [141 kB] Get:202 http://localhost:3142/debian sid/main amd64 python3-setuptools all 65.3.0-1.1 [523 kB] Get:203 http://localhost:3142/debian sid/main amd64 meson all 0.63.2-1 [534 kB] Get:204 http://localhost:3142/debian sid/main amd64 pkg-config amd64 0.29.2-1 [65.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 151 MB in 8s (19.6 MB/s) Selecting previously unselected package liblocale-gettext-perl. (Reading database ... 13652 files and directories currently installed.) Preparing to unpack .../liblocale-gettext-perl_1.07-4+b2_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-4+b2) ... Selecting previously unselected package libpython3.10-minimal:amd64. Preparing to unpack .../libpython3.10-minimal_3.10.7-2_amd64.deb ... Unpacking libpython3.10-minimal:amd64 (3.10.7-2) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.4.9-1_amd64.deb ... Unpacking libexpat1:amd64 (2.4.9-1) ... Selecting previously unselected package python3.10-minimal. Preparing to unpack .../python3.10-minimal_3.10.7-2_amd64.deb ... Unpacking python3.10-minimal (3.10.7-2) ... Setting up libpython3.10-minimal:amd64 (3.10.7-2) ... Setting up libexpat1:amd64 (2.4.9-1) ... Setting up python3.10-minimal (3.10.7-2) ... Selecting previously unselected package python3-minimal. (Reading database ... 13970 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.10.6-1_amd64.deb ... Unpacking python3-minimal (3.10.6-1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_8.0.0_all.deb ... Unpacking media-types (8.0.0) ... Selecting previously unselected package libmpdec3:amd64. Preparing to unpack .../2-libmpdec3_2.5.1-2_amd64.deb ... Unpacking libmpdec3:amd64 (2.5.1-2) ... Selecting previously unselected package libncursesw6:amd64. Preparing to unpack .../3-libncursesw6_6.3+20220423-2_amd64.deb ... Unpacking libncursesw6:amd64 (6.3+20220423-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../4-readline-common_8.2-1_all.deb ... Unpacking readline-common (8.2-1) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../5-libreadline8_8.2-1_amd64.deb ... Unpacking libreadline8:amd64 (8.2-1) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../6-libsqlite3-0_3.39.3-1_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.39.3-1) ... Selecting previously unselected package libpython3.10-stdlib:amd64. Preparing to unpack .../7-libpython3.10-stdlib_3.10.7-2_amd64.deb ... Unpacking libpython3.10-stdlib:amd64 (3.10.7-2) ... Selecting previously unselected package python3.10. Preparing to unpack .../8-python3.10_3.10.7-2_amd64.deb ... Unpacking python3.10 (3.10.7-2) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../9-libpython3-stdlib_3.10.6-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.10.6-1) ... Setting up python3-minimal (3.10.6-1) ... Selecting previously unselected package python3. (Reading database ... 14413 files and directories currently installed.) Preparing to unpack .../000-python3_3.10.6-1_amd64.deb ... Unpacking python3 (3.10.6-1) ... Selecting previously unselected package libncurses6:amd64. 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Preparing to unpack .../189-sbuild-build-depends-main-dummy_0.invalid.0_arm64.deb ... Unpacking sbuild-build-depends-main-dummy:arm64 (0.invalid.0) ... Setting up libconfig-inifiles-perl (3.000003-1) ... Setting up media-types (8.0.0) ... Setting up libpipeline1:amd64 (1.5.6-3) ... Setting up libicu71:amd64 (71.1-3) ... Setting up libfile-which-perl (1.27-1) ... Setting up libpsl5:amd64 (0.21.0-1.2) ... Setting up gcc-12-cross-base (12.2.0-3cross2) ... Setting up bsdextrautils (2.38.1-1) ... Setting up hdf5-helpers:arm64 (1.10.8+repack-1) ... Setting up libmagic-mgc (1:5.41-4) ... Setting up gcc-12-aarch64-linux-gnu-base:amd64 (12.2.0-3cross2) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:amd64 (2.74.0-2) ... No schema files found: doing nothing. Setting up libdebhelper-perl (13.9.1) ... Setting up libbrotli1:amd64 (1.0.9-2+b4) ... Setting up libsqlite3-0:amd64 (3.39.3-1) ... Setting up libnghttp2-14:amd64 (1.50.0-1) ... Setting up libmagic1:amd64 (1:5.41-4) ... Setting up linux-libc-dev:arm64 (5.19.11-1) ... Setting up libxml-namespacesupport-perl (1.12-2) ... Setting up gettext-base (0.21-9) ... Setting up m4 (1.4.19-1) ... Setting up binutils-aarch64-linux-gnu (2.39-6) ... Setting up file (1:5.41-4) ... Setting up libyaml-perl (1.30-1) ... Setting up googletest (1.12.1-0.2) ... Setting up ninja-build (1.11.1-1) ... Setting up gcc-12-base:arm64 (12.2.0-3) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg-8) ... Setting up libxml-sax-base-perl (1.09-2) ... Setting up libio-string-perl (1.08-3.1) ... Setting up autotools-dev (20220109.1) ... Setting up cross-config (2.6.18+nmu2) ... Setting up libuv1:amd64 (1.44.2-1) ... Setting up emacsen-common (3.0.4) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up dh-elpa-helper (2.0.13) ... Setting up libncurses6:amd64 (6.3+20220423-2) ... Setting up libc6-arm64-cross (2.35-1cross1) ... Setting up autopoint (0.21-9) ... Setting up libjsoncpp25:amd64 (1.9.5-4) ... Setting up pkg-config (0.29.2-1) ... Setting up libitm1-arm64-cross (12.2.0-3cross2) ... Setting up libncursesw6:amd64 (6.3+20220423-2) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg-8) ... Setting up autoconf (2.71-2) ... Setting up linux-libc-dev-arm64-cross (5.19.6-1cross1) ... Setting up sensible-utils (0.0.17) ... Setting up librhash0:amd64 (1.4.3-3) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libmpdec3:amd64 (2.5.1-2) ... Setting up libsub-override-perl (0.09-3) ... Setting up libssh2-1:amd64 (1.10.0-3+b1) ... Setting up cmake-data (3.24.2-1) ... Setting up libfile-homedir-perl (1.006-1) ... Setting up libelf1:amd64 (0.187-4) ... Setting up readline-common (8.2-1) ... Setting up libxml2:amd64 (2.9.14+dfsg-1+b1) ... Setting up liblocale-gettext-perl (1.07-4+b2) ... Setting up libprocps8:amd64 (2:3.3.17-7+b1) ... Setting up libgcc-s1-arm64-cross (12.2.0-3cross2) ... Setting up libatomic1-arm64-cross (12.2.0-3cross2) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.0-1) ... Setting up liblsan0-arm64-cross (12.2.0-3cross2) ... Setting up libgomp1-arm64-cross (12.2.0-3cross2) ... Setting up gettext (0.21-9) ... Setting up cpp-12-aarch64-linux-gnu (12.2.0-3cross2) ... Setting up libgtest-dev:arm64 (1.12.1-0.2) ... Setting up libtool (2.4.7-4) ... Setting up libarchive13:amd64 (3.6.0-1) ... Setting up libreadline8:amd64 (8.2-1) ... Setting up libhwasan0-arm64-cross (12.2.0-3cross2) ... Setting up libc6-dev-arm64-cross (2.35-1cross1) ... Setting up libldap-2.5-0:amd64 (2.5.13+dfsg-2) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libstdc++6-arm64-cross (12.2.0-3cross2) ... Setting up libpython3.10-stdlib:amd64 (3.10.7-2) ... Setting up dh-autoreconf (20) ... Setting up cpp-aarch64-linux-gnu (4:12.2.0-1) ... Setting up ucf (3.0043) ... Setting up dh-strip-nondeterminism (1.13.0-1) ... Setting up dwz (0.14+20220924-2) ... Setting up groff-base (1.22.4-8) ... Setting up procps (2:3.3.17-7+b1) ... Setting up libcurl4:amd64 (7.85.0-1) ... Setting up libasan8-arm64-cross (12.2.0-3cross2) ... Setting up libtsan2-arm64-cross (12.2.0-3cross2) ... Setting up libpython3-stdlib:amd64 (3.10.6-1) ... Setting up python3.10 (3.10.7-2) ... Setting up libubsan1-arm64-cross (12.2.0-3cross2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up python3 (3.10.6-1) ... Setting up man-db (2.10.2-3) ... Not building database; man-db/auto-update is not 'true'. Setting up libxml-sax-perl (1.02+dfsg-3) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / Setting up libgcc-12-dev-arm64-cross (12.2.0-3cross2) ... Setting up gcc-12-aarch64-linux-gnu (12.2.0-3cross2) ... Setting up libxml-libxml-perl (2.0207+dfsg+really+2.0134-1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / grep: warning: stray \ before / Setting up cmake (3.24.2-1) ... Setting up python3-lib2to3 (3.10.7-1) ... Setting up python3-pkg-resources (65.3.0-1.1) ... Setting up python3-distutils (3.10.7-1) ... Setting up gcc-aarch64-linux-gnu (4:12.2.0-1) ... Setting up python3-setuptools (65.3.0-1.1) ... Setting up meson (0.63.2-1) ... Setting up debhelper (13.9.1) ... Setting up libstdc++-12-dev-arm64-cross (12.2.0-3cross2) ... Setting up libxml-simple-perl (2.25-1) ... Setting up g++-12-aarch64-linux-gnu (12.2.0-3cross2) ... Setting up libconfig-auto-perl (0.44-2) ... Setting up g++-aarch64-linux-gnu (4:12.2.0-1) ... Setting up libdebian-dpkgcross-perl (2.6.18+nmu2) ... Setting up dpkg-cross (2.6.18+nmu2) ... Setting up crossbuild-essential-arm64 (12.9) ... Setting up libgcc-s1:arm64 (12.2.0-3) ... Setting up libc6:arm64 (2.35-1) ... Setting up libffi8:arm64 (3.4.3-2) ... Setting up libhwasan0:arm64 (12.2.0-3) ... Setting up libasan8:arm64 (12.2.0-3) ... Setting up libtasn1-6:arm64 (4.19.0-2) ... Setting up libtsan2:arm64 (12.2.0-3) ... Setting up libbz2-1.0:arm64 (1.0.8-5+b1) ... Setting up libdb5.3:arm64 (5.3.28+dfsg1-0.10) ... Setting up libstdc++6:arm64 (12.2.0-3) ... Setting up liblsan0:arm64 (12.2.0-3) ... Setting up libitm1:arm64 (12.2.0-3) ... Setting up libhtscodecs2:arm64 (1.3.0-3) ... Setting up libzstd1:arm64 (1.5.2+dfsg-1) ... Setting up libkeyutils1:arm64 (1.6.3-1) ... Setting up liblzma5:arm64 (5.2.5-2.1) ... Setting up libpbcopper2.0.0:arm64 (2.0.0+dfsg-2) ... Setting up libbrotli1:arm64 (1.0.9-2+b4) ... Setting up libssl3:arm64 (3.0.5-4) ... Setting up libnghttp2-14:arm64 (1.50.0-1) ... Setting up libunistring2:arm64 (1.0-1) ... Setting up libdeflate0:arm64 (1.12-1) ... Setting up zlib1g:arm64 (1:1.2.11.dfsg-4.1) ... Setting up libcrypt1:arm64 (1:4.4.28-2) ... Setting up libidn2-0:arm64 (2.3.3-1+b1) ... Setting up libcom-err2:arm64 (1.46.6~rc1-1) ... Setting up libgomp1:arm64 (12.2.0-3) ... Setting up libaec0:arm64 (1.0.6-1+b1) ... Setting up libkrb5support0:arm64 (1.20-1) ... Setting up libsasl2-modules-db:arm64 (2.1.28+dfsg-8) ... Setting up libjpeg62-turbo:arm64 (1:2.1.2-1+b1) ... Setting up libnettle8:arm64 (3.8.1-2) ... Setting up libgmp10:arm64 (2:6.2.1+dfsg1-1) ... Setting up libp11-kit0:arm64 (0.24.1-1) ... Setting up libssl-dev:arm64 (3.0.5-4) ... Setting up libatomic1:arm64 (12.2.0-3) ... Setting up libpbcopper-dev:arm64 (2.0.0+dfsg-2) ... Setting up libk5crypto3:arm64 (1.20-1) ... Setting up libsasl2-2:arm64 (2.1.28+dfsg-8) ... Setting up libgfortran5:arm64 (12.2.0-3) ... Setting up liblzma-dev:arm64 (5.2.5-2.1) ... Setting up libubsan1:arm64 (12.2.0-3) ... Setting up libcrypt-dev:arm64 (1:4.4.28-2) ... Setting up libssh2-1:arm64 (1.10.0-3+b1) ... Setting up libkrb5-3:arm64 (1.20-1) ... Setting up libdeflate-dev:arm64 (1.12-1) ... Setting up libsz2:arm64 (1.0.6-1+b1) ... Setting up libpsl5:arm64 (0.21.0-1.2) ... Setting up libhogweed6:arm64 (3.8.1-2) ... Setting up libaec-dev:arm64 (1.0.6-1+b1) ... Setting up libpbdata-dev:arm64 (5.3.5+dfsg-4+b2) ... Setting up libgnutls30:arm64 (3.7.7-2) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libgcc-12-dev:arm64 (12.2.0-3) ... Setting up libgssapi-krb5-2:arm64 (1.20-1) ... Setting up libtirpc3:arm64 (1.3.3+ds-1) ... Setting up libldap-2.5-0:arm64 (2.5.13+dfsg-2) ... Setting up libtirpc-dev:arm64 (1.3.3+ds-1) ... Setting up libnsl2:arm64 (1.3.0-2) ... Setting up libcurl4:arm64 (7.85.0-1) ... Setting up libcurl3-gnutls:arm64 (7.85.0-1) ... Setting up libcurl4-gnutls-dev:arm64 (7.85.0-1) ... Setting up libhdf5-103-1:arm64 (1.10.8+repack-1) ... Setting up libnsl-dev:arm64 (1.3.0-2) ... Setting up libhdf5-cpp-103-1:arm64 (1.10.8+repack-1) ... Setting up libc6-dev:arm64 (2.35-1) ... Setting up libhdf5-hl-100:arm64 (1.10.8+repack-1) ... Setting up libhts3:arm64 (1.16+ds-2) ... Setting up libstdc++-12-dev:arm64 (12.2.0-3) ... Setting up libhdf5-hl-cpp-100:arm64 (1.10.8+repack-1) ... Setting up libjpeg62-turbo-dev:arm64 (1:2.1.2-1+b1) ... Setting up libhdf5-fortran-102:arm64 (1.10.8+repack-1) ... Setting up zlib1g-dev:arm64 (1:1.2.11.dfsg-4.1) ... Setting up libpbbam2.1.0:arm64 (2.1.0+dfsg-1+b1) ... Setting up libhdf5-hl-fortran-100:arm64 (1.10.8+repack-1) ... Setting up libboost1.74-dev:arm64 (1.74.0-17) ... Setting up libjpeg-dev:arm64 (1:2.1.2-1+b1) ... Setting up libhts-dev:arm64 (1.16+ds-2) ... Setting up libblasr5.3.5:arm64 (5.3.5+dfsg-4+b2) ... Setting up libblasr-dev:arm64 (5.3.5+dfsg-4+b2) ... Setting up libhdf5-dev:arm64 (1.10.8+repack-1) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/aarch64-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up libboost-dev:arm64 (1.74.0.3) ... Setting up libpbbam-dev:arm64 (2.1.0+dfsg-1+b1) ... Setting up libpbihdf-dev:arm64 (5.3.5+dfsg-4+b2) ... Setting up libpbseq-dev:arm64 (5.3.5+dfsg-4+b2) ... Setting up sbuild-build-depends-main-dummy:arm64 (0.invalid.0) ... Processing triggers for libc-bin (2.35-1) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (arm64 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.10.0-18-amd64 #1 SMP Debian 5.10.140-1 (2022-09-02) amd64 (x86_64) Toolchain package versions: binutils_2.39-6 dpkg-dev_1.21.9 g++-11_11.3.0-6 g++-12_12.2.0-3 gcc-11_11.3.0-6 gcc-12_12.2.0-3 libc6-dev_2.35-1 libstdc++-11-dev_11.3.0-6 libstdc++-12-dev_12.2.0-3 libstdc++-12-dev-arm64-cross_12.2.0-3cross2 libstdc++6_12.2.0-3 libstdc++6-arm64-cross_12.2.0-3cross2 linux-libc-dev_5.19.11-1 Package versions: adduser_3.129 apt_2.5.3 autoconf_2.71-2 automake_1:1.16.5-1.3 autopoint_0.21-9 autotools-dev_20220109.1 base-files_12.2 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usrmerge_32 util-linux_2.38.1-1 util-linux-extra_2.38.1-1 xz-utils_5.2.5-2.1 zlib1g_1:1.2.11.dfsg-4.1 zlib1g-dev_1:1.2.11.dfsg-4.1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: blasr Binary: blasr Architecture: any Version: 5.3.5+dfsg-5 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/PacificBiosciences/blasr Standards-Version: 4.6.0 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, libpbdata-dev, libpbcopper-dev, libgtest-dev, libblasr-dev (>= 5.3.4+dfsg-4~) Package-List: blasr deb science 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dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use_debian_packaged_pblibs.patch dpkg-source: info: applying 2to3.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf CONFIG_SITE=/etc/dpkg-cross/cross-config.arm64 DEB_BUILD_OPTIONS=nocheck HOME=/sbuild-nonexistent LANG=en_US.UTF-8 LC_ALL=C.UTF-8 LOGNAME=crossqa PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=unstable-amd64-sbuild SCHROOT_CHROOT_NAME=sid-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1000 SCHROOT_GROUP=crossqa SCHROOT_SESSION_ID=sid-amd64-sbuild-12368c9e-f05d-4867-97f6-f3e699f67d84 SCHROOT_UID=1000 SCHROOT_USER=crossqa SHELL=/bin/sh USER=crossqa dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -aarm64 -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package blasr dpkg-buildpackage: info: source version 5.3.5+dfsg-5 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Nilesh Patra dpkg-architecture: warning: specified GNU system type aarch64-linux-gnu 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 arm64 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/aarch64-linux-gnu -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5_cpp -lhdf5 -Wl,-z,relro" CPPFLAGS="-isystem /usr/include/hdf5/serial" dh_auto_configure -- -Dtests=false cd obj-aarch64-linux-gnu && LC_ALL=C.UTF-8 meson .. --wrap-mode=nodownload --buildtype=plain --prefix=/usr --sysconfdir=/etc --localstatedir=/var --libdir=lib/aarch64-linux-gnu --cross-file /<>/blasr-5.3.5\+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: 0.63.2 Source dir: /<> Build dir: /<>/obj-aarch64-linux-gnu Build type: cross build Project name: blasr Project version: 5.3.5 C++ compiler for the host machine: /usr/bin/aarch64-linux-gnu-g++ (gcc 12.2.0 "aarch64-linux-gnu-g++ (Debian 12.2.0-3) 12.2.0") C++ linker for the host machine: /usr/bin/aarch64-linux-gnu-g++ ld.bfd 2.39 C++ compiler for the build machine: c++ (gcc 12.2.0 "c++ (Debian 12.2.0-3) 12.2.0") C++ linker for the build machine: c++ ld.bfd 2.39 Build machine cpu family: x86_64 Build machine cpu: x86_64 Host machine cpu family: aarch64 Host machine cpu: arm64 Target machine cpu family: aarch64 Target machine cpu: arm64 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/aarch64-linux-gnu-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 5.3.5 Run-time dependency zlib found: YES 1.2.11 Run-time dependency htslib found: YES 1.16 Library pbcopper found: YES Configuring BlasrVersion.h using configuration Build targets in project: 5 blasr 5.3.5 User defined options Cross files : /<>/debian/.debhelper/generated/_source/meson-cross-file.conf buildtype : plain libdir : lib/aarch64-linux-gnu localstatedir: /var prefix : /usr sysconfdir : /etc wrap_mode : nodownload tests : false Found ninja-1.11.1 at /usr/bin/ninja make[1]: Leaving directory '/<>' dh_auto_build -a -O--buildsystem=meson cd obj-aarch64-linux-gnu && LC_ALL=C.UTF-8 ninja -j1 -v [1/25] /usr/bin/meson --internal vcstagger ../BlasrGitHash.h.in BlasrGitHash.h 5.3.5 /<> @BLASR_GIT_SHA1@ '(.*)' git describe --always '--dirty=*' [2/25] /usr/bin/aarch64-linux-gnu-g++ -Ilibblasr_impl.a.p -I. -I.. -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++17 -O0 -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 -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/aarch64-linux-gnu-g++ -Ilibblasr_impl.a.p -I. -I.. -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++17 -O0 -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 -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/aarch64-linux-gnu-g++ -Ilibblasr_impl.a.p -I. -I.. -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++17 -O0 -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 -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 std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment]’: /usr/aarch64-linux-gnu/include/c++/12/bits/alloc_traits.h:516:17: required from ‘static void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment; allocator_type = std::allocator]’ /usr/aarch64-linux-gnu/include/c++/12/bits/stl_vector.h:1281:30: required from ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = blasr::CompSeqAlignment; _Alloc = std::allocator; value_type = blasr::CompSeqAlignment]’ /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtilsImpl.hpp:112:29: 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: /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); | ^~~~~~~~ /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/aarch64-linux-gnu/include/c++/12/aarch64-linux-gnu/bits/c++allocator.h:33, from /usr/aarch64-linux-gnu/include/c++/12/bits/allocator.h:46, from /usr/aarch64-linux-gnu/include/c++/12/string:41, from /usr/aarch64-linux-gnu/include/c++/12/bits/locale_classes.h:40, from /usr/aarch64-linux-gnu/include/c++/12/bits/ios_base.h:41, from /usr/aarch64-linux-gnu/include/c++/12/ios:42, from /usr/aarch64-linux-gnu/include/c++/12/ostream:38, from /usr/aarch64-linux-gnu/include/c++/12/iostream:39, from ../extrautils/SWMatcher.cpp:2: /usr/aarch64-linux-gnu/include/c++/12/bits/new_allocator.h:175:11: note: synthesized method ‘blasr::CompSeqAlignment::CompSeqAlignment(const blasr::CompSeqAlignment&)’ first required here 175 | { ::new((void *)__p) _Up(std::forward<_Args>(__args)...); } | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [5/25] /usr/bin/aarch64-linux-gnu-g++ -Ilibblasr_impl.a.p -I. -I.. -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++17 -O0 -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 -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/aarch64-linux-gnu-g++ -Ilibblasr_impl.a.p -I. -I.. -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++17 -O0 -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 -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/aarch64-linux-gnu-g++ -Ilibblasr_impl.a.p -I. -I.. -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++17 -O0 -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 -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/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 std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment]’: /usr/aarch64-linux-gnu/include/c++/12/bits/alloc_traits.h:516:17: required from ‘static void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment; allocator_type = std::allocator]’ /usr/aarch64-linux-gnu/include/c++/12/bits/stl_vector.h:1281:30: required from ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = blasr::CompSeqAlignment; _Alloc = std::allocator; value_type = blasr::CompSeqAlignment]’ /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtilsImpl.hpp:112:29: 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: /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); | ^~~~~~~~ /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/aarch64-linux-gnu/include/c++/12/aarch64-linux-gnu/bits/c++allocator.h:33, from /usr/aarch64-linux-gnu/include/c++/12/bits/allocator.h:46, from /usr/aarch64-linux-gnu/include/c++/12/vector:61, from /usr/include/pbseq/alignment/datastructures/alignment/CmpFile.hpp:4, from ../extrautils/StoreQualityByContextFromCmpH5.cpp:1: /usr/aarch64-linux-gnu/include/c++/12/bits/new_allocator.h:175:11: note: synthesized method ‘blasr::CompSeqAlignment::CompSeqAlignment(const blasr::CompSeqAlignment&)’ first required here 175 | { ::new((void *)__p) _Up(std::forward<_Args>(__args)...); } | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [8/25] /usr/bin/aarch64-linux-gnu-g++ -Ilibblasr_impl.a.p -I. -I.. -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++17 -O0 -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 -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/aarch64-linux-gnu-g++ -Ilibblasr_impl.a.p -I. -I.. -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++17 -O0 -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 -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/aarch64-linux-gnu-g++ -Ilibblasr_impl.a.p -I. -I.. -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++17 -O0 -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 -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/aarch64-linux-gnu-g++ -Ilibblasr_impl.a.p -I. -I.. -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++17 -O0 -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 -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/aarch64-linux-gnu-g++ -Ilibblasr_impl.a.p -I. -I.. -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++17 -O0 -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 -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/aarch64-linux-gnu-g++ -Ilibblasr_impl.a.p -I. -I.. -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++17 -O0 -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 -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 std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment]’: /usr/aarch64-linux-gnu/include/c++/12/bits/alloc_traits.h:516:17: required from ‘static void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment; allocator_type = std::allocator]’ /usr/aarch64-linux-gnu/include/c++/12/bits/stl_vector.h:1281:30: required from ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = blasr::CompSeqAlignment; _Alloc = std::allocator; value_type = blasr::CompSeqAlignment]’ /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtilsImpl.hpp:112:29: 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: /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); | ^~~~~~~~ /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/aarch64-linux-gnu/include/c++/12/aarch64-linux-gnu/bits/c++allocator.h:33, from /usr/aarch64-linux-gnu/include/c++/12/bits/allocator.h:46, from /usr/aarch64-linux-gnu/include/c++/12/string:41, from /usr/aarch64-linux-gnu/include/c++/12/bits/locale_classes.h:40, from /usr/aarch64-linux-gnu/include/c++/12/bits/ios_base.h:41, from /usr/aarch64-linux-gnu/include/c++/12/ios:42, from /usr/aarch64-linux-gnu/include/c++/12/ostream:38, from /usr/aarch64-linux-gnu/include/c++/12/iostream:39, from ../utils/SamToM4.cpp:19: /usr/aarch64-linux-gnu/include/c++/12/bits/new_allocator.h:175:11: note: synthesized method ‘blasr::CompSeqAlignment::CompSeqAlignment(const blasr::CompSeqAlignment&)’ first required here 175 | { ::new((void *)__p) _Up(std::forward<_Args>(__args)...); } | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [14/25] /usr/bin/aarch64-linux-gnu-g++ -Ilibblasr_impl.a.p -I. -I.. -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++17 -O0 -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 -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/alignment/datastructures/alignment/AlignmentCandidate.hpp:6, from ../utils/SamToCmpH5.cpp:3: /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp: In instantiation of ‘void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment]’: /usr/aarch64-linux-gnu/include/c++/12/bits/alloc_traits.h:516:17: required from ‘static void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment; allocator_type = std::allocator]’ /usr/aarch64-linux-gnu/include/c++/12/bits/stl_vector.h:1281:30: required from ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = blasr::CompSeqAlignment; _Alloc = std::allocator; value_type = blasr::CompSeqAlignment]’ /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtilsImpl.hpp:112:29: 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: /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); | ^~~~~~~~ /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/aarch64-linux-gnu/include/c++/12/aarch64-linux-gnu/bits/c++allocator.h:33, from /usr/aarch64-linux-gnu/include/c++/12/bits/allocator.h:46, from /usr/aarch64-linux-gnu/include/c++/12/string:41, from /usr/aarch64-linux-gnu/include/c++/12/bits/locale_classes.h:40, from /usr/aarch64-linux-gnu/include/c++/12/bits/ios_base.h:41, from /usr/aarch64-linux-gnu/include/c++/12/ios:42, from /usr/aarch64-linux-gnu/include/c++/12/ostream:38, from /usr/aarch64-linux-gnu/include/c++/12/iostream:39, from ../utils/SamToCmpH5.cpp:1: /usr/aarch64-linux-gnu/include/c++/12/bits/new_allocator.h:175:11: note: synthesized method ‘blasr::CompSeqAlignment::CompSeqAlignment(const blasr::CompSeqAlignment&)’ first required here 175 | { ::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:199:56: 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); /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/aarch64-linux-gnu-g++ -Ilibblasr_impl.a.p -I. -I.. -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++17 -O0 -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 -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 std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment]’: /usr/aarch64-linux-gnu/include/c++/12/bits/alloc_traits.h:516:17: required from ‘static void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment; allocator_type = std::allocator]’ /usr/aarch64-linux-gnu/include/c++/12/bits/stl_vector.h:1281:30: required from ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = blasr::CompSeqAlignment; _Alloc = std::allocator; value_type = blasr::CompSeqAlignment]’ /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtilsImpl.hpp:112:29: 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: /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); | ^~~~~~~~ /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/aarch64-linux-gnu/include/c++/12/aarch64-linux-gnu/bits/c++allocator.h:33, from /usr/aarch64-linux-gnu/include/c++/12/bits/allocator.h:46, from /usr/aarch64-linux-gnu/include/c++/12/string:41, from /usr/aarch64-linux-gnu/include/c++/12/bits/locale_classes.h:40, from /usr/aarch64-linux-gnu/include/c++/12/bits/ios_base.h:41, from /usr/aarch64-linux-gnu/include/c++/12/ios:42, from /usr/aarch64-linux-gnu/include/c++/12/ostream:38, from /usr/aarch64-linux-gnu/include/c++/12/iostream:39, from ../utils/SDPMatcher.cpp:3: /usr/aarch64-linux-gnu/include/c++/12/bits/new_allocator.h:175:11: note: synthesized method ‘blasr::CompSeqAlignment::CompSeqAlignment(const blasr::CompSeqAlignment&)’ first required here 175 | { ::new((void *)__p) _Up(std::forward<_Args>(__args)...); } | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [16/25] /usr/bin/aarch64-linux-gnu-g++ -Ilibblasr_impl.a.p -I. -I.. -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++17 -O0 -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 -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 /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 std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment]’: /usr/aarch64-linux-gnu/include/c++/12/bits/alloc_traits.h:516:17: required from ‘static void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment; allocator_type = std::allocator]’ /usr/aarch64-linux-gnu/include/c++/12/bits/stl_vector.h:1281:30: required from ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = blasr::CompSeqAlignment; _Alloc = std::allocator; value_type = blasr::CompSeqAlignment]’ /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtilsImpl.hpp:112:29: 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: /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); | ^~~~~~~~ /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/aarch64-linux-gnu/include/c++/12/aarch64-linux-gnu/bits/c++allocator.h:33, from /usr/aarch64-linux-gnu/include/c++/12/bits/allocator.h:46, from /usr/aarch64-linux-gnu/include/c++/12/bits/stl_tree.h:64, from /usr/aarch64-linux-gnu/include/c++/12/map:60, from ../utils/LoadPulses.cpp:6: /usr/aarch64-linux-gnu/include/c++/12/bits/new_allocator.h:175:11: note: synthesized method ‘blasr::CompSeqAlignment::CompSeqAlignment(const blasr::CompSeqAlignment&)’ first required here 175 | { ::new((void *)__p) _Up(std::forward<_Args>(__args)...); } | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [17/25] /usr/bin/aarch64-linux-gnu-g++ -Ilibblasr_impl.a.p -I. -I.. -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++17 -O0 -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 -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 [18/25] /usr/bin/aarch64-linux-gnu-g++ -Ilibblasr_impl.a.p -I. -I.. -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++17 -O0 -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 -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 std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment]’: /usr/aarch64-linux-gnu/include/c++/12/bits/alloc_traits.h:516:17: required from ‘static void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment; allocator_type = std::allocator]’ /usr/aarch64-linux-gnu/include/c++/12/bits/stl_vector.h:1281:30: required from ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = blasr::CompSeqAlignment; _Alloc = std::allocator; value_type = blasr::CompSeqAlignment]’ /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtilsImpl.hpp:112:29: 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: /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); | ^~~~~~~~ /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/aarch64-linux-gnu/include/c++/12/aarch64-linux-gnu/bits/c++allocator.h:33, from /usr/aarch64-linux-gnu/include/c++/12/bits/allocator.h:46, from /usr/aarch64-linux-gnu/include/c++/12/string:41, from /usr/aarch64-linux-gnu/include/c++/12/bits/locale_classes.h:40, from /usr/aarch64-linux-gnu/include/c++/12/bits/ios_base.h:41, from /usr/aarch64-linux-gnu/include/c++/12/ios:42, from /usr/aarch64-linux-gnu/include/c++/12/ostream:38, from /usr/aarch64-linux-gnu/include/c++/12/iostream:39, from ../utils/SamFilter.cpp:29: /usr/aarch64-linux-gnu/include/c++/12/bits/new_allocator.h:175:11: note: synthesized method ‘blasr::CompSeqAlignment::CompSeqAlignment(const blasr::CompSeqAlignment&)’ first required here 175 | { ::new((void *)__p) _Up(std::forward<_Args>(__args)...); } | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [19/25] rm -f libblasr_impl.a && /usr/bin/aarch64-linux-gnu-ar csrDT 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/aarch64-linux-gnu-g++ -Iblasr.p -I. -I.. -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++17 -O0 -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 -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: /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/MappingIPC.h:5, from ../iblasr/BlasrHeaders.h:99: ../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: /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]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/pbseq/alignment/format/BAMPrinter.hpp:29, from ../iblasr/BlasrHeaders.h:60: /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:951:38: 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) { | ^ /usr/include/pbseq/alignment/format/BAMPrinterImpl.hpp:16:72: note: ‘read’ declared here 16 | void AlignmentToBamRecord(T_AlignmentCandidate &alignment, T_Sequence &read, T_Sequence &subread, | ~~~~~~~~~~~~^~~~ 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: /usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp: In instantiation of ‘void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment]’: /usr/aarch64-linux-gnu/include/c++/12/bits/alloc_traits.h:516:17: required from ‘static void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = blasr::CompSeqAlignment; _Args = {const blasr::CompSeqAlignment&}; _Tp = blasr::CompSeqAlignment; allocator_type = std::allocator]’ /usr/aarch64-linux-gnu/include/c++/12/bits/stl_vector.h:1281:30: required from ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = blasr::CompSeqAlignment; _Alloc = std::allocator; value_type = blasr::CompSeqAlignment]’ /usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtilsImpl.hpp:112:29: 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: /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); | ^~~~~~~~ /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/aarch64-linux-gnu/include/c++/12/aarch64-linux-gnu/bits/c++allocator.h:33, from /usr/aarch64-linux-gnu/include/c++/12/bits/allocator.h:46, from /usr/aarch64-linux-gnu/include/c++/12/string:41, from /usr/aarch64-linux-gnu/include/c++/12/bits/locale_classes.h:40, from /usr/aarch64-linux-gnu/include/c++/12/bits/ios_base.h:41, from /usr/aarch64-linux-gnu/include/c++/12/ios:42, from /usr/aarch64-linux-gnu/include/c++/12/ostream:38, from /usr/aarch64-linux-gnu/include/c++/12/iostream:39, from ../iblasr/BlasrHeaders.h:10: /usr/aarch64-linux-gnu/include/c++/12/bits/new_allocator.h:175:11: note: synthesized method ‘blasr::CompSeqAlignment::CompSeqAlignment(const blasr::CompSeqAlignment&)’ first required here 175 | { ::new((void *)__p) _Up(std::forward<_Args>(__args)...); } | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/aarch64-linux-gnu/include/c++/12/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: /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:1449:20: 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/aarch64-linux-gnu/include/c++/12/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: /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:1555:32: 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/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:1555:32: 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:1555:32: 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] /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:347:16: 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:1555:32: 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:1555:32: 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/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/aarch64-linux-gnu-g++ -o blasr blasr.p/Blasr.cpp.o -I/usr/include/pbseq -L/usr/lib/aarch64-linux-gnu -L/usr/lib/aarch64-linux-gnu/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 -Wl,--start-group -lhdf5_cpp -lhdf5 -Wl,-z,relro libblasr_impl.a -pthread -lpbbam /usr/lib/aarch64-linux-gnu/libblasr.so /usr/lib/aarch64-linux-gnu/libpbbam.so /usr/lib/aarch64-linux-gnu/libpbcopper.so -lpbcopper /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libhts.so -lpbbam -lpbcopper -Wl,--end-group [22/25] /usr/bin/aarch64-linux-gnu-g++ -Isawriter.p -I. -I.. -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++17 -O0 -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 -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/aarch64-linux-gnu-g++ -o sawriter sawriter.p/utils_SAWriter.cpp.o -I/usr/include/pbseq -L/usr/lib/aarch64-linux-gnu -L/usr/lib/aarch64-linux-gnu/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 -Wl,--start-group -lhdf5_cpp -lhdf5 -Wl,-z,relro libblasr_impl.a -pthread -lpbbam /usr/lib/aarch64-linux-gnu/libblasr.so /usr/lib/aarch64-linux-gnu/libpbbam.so /usr/lib/aarch64-linux-gnu/libpbcopper.so -lpbcopper /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libhts.so -lpbbam -lpbcopper -Wl,--end-group [24/25] /usr/bin/aarch64-linux-gnu-g++ -ItoAfg.p -I. -I.. -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++17 -O0 -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 -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 [25/25] /usr/bin/aarch64-linux-gnu-g++ -o toAfg toAfg.p/utils_ToAfg.cpp.o -I/usr/include/pbseq -L/usr/lib/aarch64-linux-gnu -L/usr/lib/aarch64-linux-gnu/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 -Wl,--start-group -lhdf5_cpp -lhdf5 -Wl,-z,relro libblasr_impl.a -pthread -lpbbam /usr/lib/aarch64-linux-gnu/libblasr.so /usr/lib/aarch64-linux-gnu/libpbbam.so /usr/lib/aarch64-linux-gnu/libpbcopper.so -lpbcopper /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libhts.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-aarch64-linux-gnu && DESTDIR=/<>/blasr-5.3.5\+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_5.3.5+dfsg-5_arm64.deb'. dpkg-deb: building package 'blasr-dbgsym' in '../blasr-dbgsym_5.3.5+dfsg-5_arm64.deb'. dpkg-genbuildinfo --build=any -O../blasr_5.3.5+dfsg-5_arm64.buildinfo dpkg-genchanges --build=any -O../blasr_5.3.5+dfsg-5_arm64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2022-10-02T08:34:11Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ blasr_5.3.5+dfsg-5_arm64.changes: --------------------------------- Format: 1.8 Date: Thu, 29 Sep 2022 20:51:45 +0530 Source: blasr Binary: blasr blasr-dbgsym Built-For-Profiles: cross nocheck Architecture: arm64 Version: 5.3.5+dfsg-5 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Nilesh Patra Description: blasr - mapping single-molecule sequencing reads Closes: 1018972 Changes: blasr (5.3.5+dfsg-5) unstable; urgency=medium . * Team Upload. * Update lintian overrides * Fix test file substitution regex in autopkgtest (Closes: #1018972) Checksums-Sha1: 3d3146f7f89fc13980b4abd8e4be2719f633e048 3108900 blasr-dbgsym_5.3.5+dfsg-5_arm64.deb d53a376b5406101ea2e77e66f14451148a742ef7 7852 blasr_5.3.5+dfsg-5_arm64.buildinfo c6c5712d1d7306ff83b035cdd539218910b4b0ec 195716 blasr_5.3.5+dfsg-5_arm64.deb Checksums-Sha256: 293377301d74e7d34173f2620297dd50e526ce9245ea5d70d22096575c3c3e9a 3108900 blasr-dbgsym_5.3.5+dfsg-5_arm64.deb bdd6a70df4832c55859d7cb20427876fe83dcc8cf3f082c2541a3587af71c556 7852 blasr_5.3.5+dfsg-5_arm64.buildinfo ce70ab024fd0d99a3073f9555c1a636ec15c953b306c37e14648c60792c7313f 195716 blasr_5.3.5+dfsg-5_arm64.deb Files: 7c998c662bbffe818a0e1082b8847bae 3108900 debug optional blasr-dbgsym_5.3.5+dfsg-5_arm64.deb 147ddf66d01f2fe5e4bc20ec775f13af 7852 science optional blasr_5.3.5+dfsg-5_arm64.buildinfo affe8df574ec941e28f7001ba9bd521a 195716 science optional blasr_5.3.5+dfsg-5_arm64.deb /<>/blasr_5.3.5+dfsg-5_arm64.changes.new could not be renamed to /<>/blasr_5.3.5+dfsg-5_arm64.changes: Illegal seek Distribution field may be wrong!!! +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: blasr Binary: blasr blasr-dbgsym Architecture: arm64 Version: 5.3.5+dfsg-5 Checksums-Md5: 7c998c662bbffe818a0e1082b8847bae 3108900 blasr-dbgsym_5.3.5+dfsg-5_arm64.deb affe8df574ec941e28f7001ba9bd521a 195716 blasr_5.3.5+dfsg-5_arm64.deb Checksums-Sha1: 3d3146f7f89fc13980b4abd8e4be2719f633e048 3108900 blasr-dbgsym_5.3.5+dfsg-5_arm64.deb c6c5712d1d7306ff83b035cdd539218910b4b0ec 195716 blasr_5.3.5+dfsg-5_arm64.deb Checksums-Sha256: 293377301d74e7d34173f2620297dd50e526ce9245ea5d70d22096575c3c3e9a 3108900 blasr-dbgsym_5.3.5+dfsg-5_arm64.deb ce70ab024fd0d99a3073f9555c1a636ec15c953b306c37e14648c60792c7313f 195716 blasr_5.3.5+dfsg-5_arm64.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Sun, 02 Oct 2022 08:34:11 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs Installed-Build-Depends: autoconf (= 2.71-2), automake (= 1:1.16.5-1.3), autopoint (= 0.21-9), autotools-dev (= 20220109.1), base-files (= 12.2), base-passwd (= 3.6.1), bash (= 5.2-1), binutils (= 2.39-6), binutils-common (= 2.39-6), binutils-x86-64-linux-gnu (= 2.39-6), bsdextrautils (= 2.38.1-1), bsdutils (= 1:2.38.1-1), build-essential (= 12.9), bzip2 (= 1.0.8-5+b1), cmake (= 3.24.2-1), cmake-data (= 3.24.2-1), coreutils (= 9.1-1), cpp (= 4:12.2.0-1), cpp-11 (= 11.3.0-6), cpp-12 (= 12.2.0-3), dash (= 0.5.11+git20210903+057cd650a4ed-9), debconf (= 1.5.79), debhelper (= 13.9.1), debianutils (= 5.7-0.3), dh-autoreconf (= 20), dh-elpa-helper (= 2.0.13), dh-strip-nondeterminism (= 1.13.0-1), diffutils (= 1:3.8-1), dpkg (= 1.21.9), dpkg-dev (= 1.21.9), dwz (= 0.14+20220924-2), emacsen-common (= 3.0.4), file (= 1:5.41-4), findutils (= 4.9.0-3), g++ (= 4:12.2.0-1), g++-12 (= 12.2.0-3), gcc (= 4:12.2.0-1), gcc-11 (= 11.3.0-6), gcc-11-base (= 11.3.0-6), gcc-12 (= 12.2.0-3), gcc-12-base (= 12.2.0-3), gettext (= 0.21-9), gettext-base (= 0.21-9), googletest (= 1.12.1-0.2), grep (= 3.8-2), groff-base (= 1.22.4-8), gzip (= 1.12-1), hdf5-helpers (= 1.10.8+repack-1), hostname (= 3.23), init-system-helpers (= 1.65.2), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.3.1-1), libaec-dev (= 1.0.6-1+b1), libaec0 (= 1.0.6-1+b1), libarchive-zip-perl (= 1.68-1), libarchive13 (= 3.6.0-1), libasan6 (= 11.3.0-6), libasan8 (= 12.2.0-3), libatomic1 (= 12.2.0-3), libattr1 (= 1:2.5.1-1), libaudit-common (= 1:3.0.7-1.1), libaudit1 (= 1:3.0.7-1.1), libbinutils (= 2.39-6), libblasr-dev (= 5.3.5+dfsg-4+b2), libblasr5.3.5 (= 5.3.5+dfsg-4+b2), libblkid1 (= 2.38.1-1), libboost-dev (= 1.74.0.3), libboost1.74-dev (= 1.74.0-17), libbrotli1 (= 1.0.9-2+b4), libbz2-1.0 (= 1.0.8-5+b1), libc-bin (= 2.35-1), libc-dev-bin (= 2.35-1), libc6 (= 2.35-1), libc6-dev (= 2.35-1), libcap-ng0 (= 0.8.3-1+b1), libcap2 (= 1:2.44-1), libcc1-0 (= 12.2.0-3), libcom-err2 (= 1.46.6~rc1-1), libcrypt-dev (= 1:4.4.28-2), libcrypt1 (= 1:4.4.28-2), libctf-nobfd0 (= 2.39-6), libctf0 (= 2.39-6), libcurl3-gnutls (= 7.85.0-1), libcurl4 (= 7.85.0-1), libcurl4-gnutls-dev (= 7.85.0-1), libdb5.3 (= 5.3.28+dfsg1-0.10), libdebconfclient0 (= 0.264), libdebhelper-perl (= 13.9.1), libdeflate-dev (= 1.12-1), libdeflate0 (= 1.12-1), libdpkg-perl (= 1.21.9), libelf1 (= 0.187-4), libexpat1 (= 2.4.9-1), libffi8 (= 3.4.3-2), libfile-find-rule-perl (= 0.34-2), libfile-stripnondeterminism-perl (= 1.13.0-1), libgcc-11-dev (= 11.3.0-6), libgcc-12-dev (= 12.2.0-3), libgcc-s1 (= 12.2.0-3), libgcrypt20 (= 1.10.1-2), libgdbm-compat4 (= 1.23-2), libgdbm6 (= 1.23-2), libgfortran5 (= 12.2.0-3), libglib2.0-0 (= 2.74.0-2), libgmp10 (= 2:6.2.1+dfsg1-1), libgnutls30 (= 3.7.7-2), libgomp1 (= 12.2.0-3), libgpg-error0 (= 1.45-2), libgprofng0 (= 2.39-6), libgssapi-krb5-2 (= 1.20-1), libgtest-dev (= 1.12.1-0.2), libhdf5-103-1 (= 1.10.8+repack-1), libhdf5-cpp-103-1 (= 1.10.8+repack-1), libhdf5-dev (= 1.10.8+repack-1), libhdf5-fortran-102 (= 1.10.8+repack-1), libhdf5-hl-100 (= 1.10.8+repack-1), libhdf5-hl-cpp-100 (= 1.10.8+repack-1), libhdf5-hl-fortran-100 (= 1.10.8+repack-1), libhogweed6 (= 3.8.1-2), libhts-dev (= 1.16+ds-2), libhts3 (= 1.16+ds-2), libhtscodecs2 (= 1.3.0-3), libicu71 (= 71.1-3), libidn2-0 (= 2.3.3-1+b1), libisl23 (= 0.25-1), libitm1 (= 12.2.0-3), libjpeg-dev (= 1:2.1.2-1+b1), libjpeg62-turbo (= 1:2.1.2-1+b1), libjpeg62-turbo-dev (= 1:2.1.2-1+b1), libjsoncpp25 (= 1.9.5-4), libk5crypto3 (= 1.20-1), libkeyutils1 (= 1.6.3-1), libkrb5-3 (= 1.20-1), libkrb5support0 (= 1.20-1), libldap-2.5-0 (= 2.5.13+dfsg-2), liblsan0 (= 12.2.0-3), liblz4-1 (= 1.9.4-1), liblzma-dev (= 5.2.5-2.1), liblzma5 (= 5.2.5-2.1), libmagic-mgc (= 1:5.41-4), libmagic1 (= 1:5.41-4), libmount1 (= 2.38.1-1), libmpc3 (= 1.2.1-2), libmpdec3 (= 2.5.1-2), libmpfr6 (= 4.1.0-3), libncurses6 (= 6.3+20220423-2), libncursesw6 (= 6.3+20220423-2), libnettle8 (= 3.8.1-2), libnghttp2-14 (= 1.50.0-1), libnsl-dev (= 1.3.0-2), libnsl2 (= 1.3.0-2), libnumber-compare-perl (= 0.03-2), libp11-kit0 (= 0.24.1-1), libpam-modules (= 1.5.2-2), libpam-modules-bin (= 1.5.2-2), libpam-runtime (= 1.5.2-2), libpam0g (= 1.5.2-2), libpbbam-dev (= 2.1.0+dfsg-1+b1), libpbbam2.1.0 (= 2.1.0+dfsg-1+b1), libpbcopper-dev (= 2.0.0+dfsg-2), libpbcopper2.0.0 (= 2.0.0+dfsg-2), libpbdata-dev (= 5.3.5+dfsg-4+b2), libpbihdf-dev (= 5.3.5+dfsg-4+b2), libpbseq-dev (= 5.3.5+dfsg-4+b2), libpcre2-8-0 (= 10.40-1), libperl5.34 (= 5.34.0-5), libpipeline1 (= 1.5.6-3), libprocps8 (= 2:3.3.17-7+b1), libpsl5 (= 0.21.0-1.2), libpython3-stdlib (= 3.10.6-1), libpython3.10-minimal (= 3.10.7-2), libpython3.10-stdlib (= 3.10.7-2), libquadmath0 (= 12.2.0-3), libreadline8 (= 8.2-1), librhash0 (= 1.4.3-3), librtmp1 (= 2.4+20151223.gitfa8646d.1-2+b2), libsasl2-2 (= 2.1.28+dfsg-8), libsasl2-modules-db (= 2.1.28+dfsg-8), libseccomp2 (= 2.5.4-1+b1), libselinux1 (= 3.4-1+b2), libsmartcols1 (= 2.38.1-1), libsqlite3-0 (= 3.39.3-1), libssh2-1 (= 1.10.0-3+b1), libssl-dev (= 3.0.5-4), libssl3 (= 3.0.5-4), libstdc++-12-dev (= 12.2.0-3), libstdc++6 (= 12.2.0-3), libsub-override-perl (= 0.09-3), libsystemd0 (= 251.4-3), libsz2 (= 1.0.6-1+b1), libtasn1-6 (= 4.19.0-2), libtext-glob-perl (= 0.11-2), libtinfo6 (= 6.3+20220423-2), libtirpc-common (= 1.3.3+ds-1), libtirpc-dev (= 1.3.3+ds-1), libtirpc3 (= 1.3.3+ds-1), libtool (= 2.4.7-4), libtsan0 (= 11.3.0-6), libtsan2 (= 12.2.0-3), libubsan1 (= 12.2.0-3), libuchardet0 (= 0.0.7-1), libudev1 (= 251.4-3), libunistring2 (= 1.0-1), libuuid1 (= 2.38.1-1), libuv1 (= 1.44.2-1), libxml2 (= 2.9.14+dfsg-1+b1), libzstd1 (= 1.5.2+dfsg-1), linux-libc-dev (= 5.19.11-1), login (= 1:4.11.1+dfsg1-2), m4 (= 1.4.19-1), make (= 4.3-4.1), man-db (= 2.10.2-3), mawk (= 1.3.4.20200120-3.1), media-types (= 8.0.0), meson (= 0.63.2-1), ncurses-base (= 6.3+20220423-2), ncurses-bin (= 6.3+20220423-2), ninja-build (= 1.11.1-1), patch (= 2.7.6-7), perl (= 5.34.0-5), perl-base (= 5.34.0-5), perl-modules-5.34 (= 5.34.0-5), pkg-config (= 0.29.2-1), po-debconf (= 1.0.21+nmu1), procps (= 2:3.3.17-7+b1), python3 (= 3.10.6-1), python3-distutils (= 3.10.7-1), python3-lib2to3 (= 3.10.7-1), python3-minimal (= 3.10.6-1), python3-pkg-resources (= 65.3.0-1.1), python3-setuptools (= 65.3.0-1.1), python3.10 (= 3.10.7-2), python3.10-minimal (= 3.10.7-2), readline-common (= 8.2-1), rpcsvc-proto (= 1.4.2-4), sed (= 4.8-1), sensible-utils (= 0.0.17), sysvinit-utils (= 3.05-6), tar (= 1.34+dfsg-1), usrmerge (= 32), util-linux (= 2.38.1-1), util-linux-extra (= 2.38.1-1), xz-utils (= 5.2.5-2.1), zlib1g (= 1:1.2.11.dfsg-4.1), zlib1g-dev (= 1:1.2.11.dfsg-4.1) Environment: DEB_BUILD_OPTIONS="nocheck parallel=1" DEB_BUILD_PROFILES="cross nocheck" LANG="en_US.UTF-8" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1664464905" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ blasr-dbgsym_5.3.5+dfsg-5_arm64.deb ----------------------------------- new Debian package, version 2.0. size 3108900 bytes: control archive=640 bytes. 414 bytes, 12 lines control 295 bytes, 3 lines md5sums Package: blasr-dbgsym Source: blasr Version: 5.3.5+dfsg-5 Auto-Built-Package: debug-symbols Architecture: arm64 Maintainer: Debian Med Packaging Team Installed-Size: 3172 Depends: blasr (= 5.3.5+dfsg-5) Section: debug Priority: optional Description: debug symbols for blasr Build-Ids: 53bcd2a8b7cdf2c01a7df44f59b2973d735b832f 81133b437b515713f2a9d8dafa2dbcb504b2e4b5 drwxr-xr-x root/root 0 2022-09-29 15:21 ./ drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/ drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/lib/ drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/lib/debug/ drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/lib/debug/.build-id/53/ -rw-r--r-- root/root 3058616 2022-09-29 15:21 ./usr/lib/debug/.build-id/53/bcd2a8b7cdf2c01a7df44f59b2973d735b832f.debug drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/lib/debug/.build-id/81/ -rw-r--r-- root/root 143856 2022-09-29 15:21 ./usr/lib/debug/.build-id/81/133b437b515713f2a9d8dafa2dbcb504b2e4b5.debug drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/lib/debug/.dwz/aarch64-linux-gnu/ -rw-r--r-- root/root 30912 2022-09-29 15:21 ./usr/lib/debug/.dwz/aarch64-linux-gnu/blasr.debug drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/share/ drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/share/doc/ lrwxrwxrwx root/root 0 2022-09-29 15:21 ./usr/share/doc/blasr-dbgsym -> blasr blasr_5.3.5+dfsg-5_arm64.deb ---------------------------- new Debian package, version 2.0. size 195716 bytes: control archive=1192 bytes. 806 bytes, 14 lines control 982 bytes, 15 lines md5sums Package: blasr Version: 5.3.5+dfsg-5 Architecture: arm64 Maintainer: Debian Med Packaging Team Installed-Size: 617 Depends: libblasr5.3.5 (>= 5.3.5+dfsg), libc6 (>= 2.34), libgcc-s1 (>= 3.0), libhdf5-cpp-103-1 (>= 1.10.5), libpbbam2.1.0 (>= 2.1.0+dfsg), libpbcopper2.0.0 (>= 2.0.0+dfsg), libstdc++6 (>= 11), libpbseq (>= 5.3.5+dfsg-4~) 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 2022-09-29 15:21 ./ drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/ drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/bin/ -rwxr-xr-x root/root 530016 2022-09-29 15:21 ./usr/bin/blasr -rwxr-xr-x root/root 68488 2022-09-29 15:21 ./usr/bin/sawriter drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/share/ drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/share/doc/ drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/share/doc/blasr/ -rw-r--r-- root/root 373 2022-09-29 14:49 ./usr/share/doc/blasr/NEWS.Debian.gz -rw-r--r-- root/root 1291 2021-02-18 10:03 ./usr/share/doc/blasr/README.md -rw-r--r-- root/root 208 2022-09-29 14:49 ./usr/share/doc/blasr/README.source -rw-r--r-- root/root 542 2022-09-29 14:49 ./usr/share/doc/blasr/README.test -rw-r--r-- root/root 41 2022-09-29 14:49 ./usr/share/doc/blasr/TODO.Debian -rw-r--r-- root/root 2410 2022-09-29 15:21 ./usr/share/doc/blasr/changelog.Debian.gz -rw-r--r-- root/root 2193 2022-09-29 14:49 ./usr/share/doc/blasr/copyright drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/share/doc/blasr/examples/ -rw-r--r-- root/root 65 2022-09-29 14:49 ./usr/share/doc/blasr/examples/query.fasta -rw-r--r-- root/root 72 2022-09-29 14:49 ./usr/share/doc/blasr/examples/ref.fa -rw-r--r-- root/root 1067 2022-09-29 15:19 ./usr/share/doc/blasr/run-unit-test drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/share/lintian/ drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 163 2022-09-29 14:49 ./usr/share/lintian/overrides/blasr drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/share/man/ drwxr-xr-x root/root 0 2022-09-29 15:21 ./usr/share/man/man1/ -rw-r--r-- root/root 1369 2022-09-29 15:21 ./usr/share/man/man1/blasr.1.gz -rw-r--r-- root/root 872 2022-09-29 15:21 ./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 [624 B] Get:5 copy:/<>/apt_archive ./ Packages [712 B] Fetched 2299 B in 0s (0 B/s) Reading package lists... Reading package lists... Install lintian build dependencies (apt-based resolver) ------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: ca-certificates diffstat gpg gpgconf iso-codes libaliased-perl libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libberkeleydb-perl libcapture-tiny-perl libcgi-pm-perl libclass-data-inheritable-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libconst-fast-perl libcpanel-json-xs-perl libdata-dpath-perl libdata-messagepack-perl libdata-optlist-perl libdata-validate-domain-perl libdata-validate-ip-perl libdata-validate-uri-perl libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libencode-locale-perl libexception-class-perl libexporter-tiny-perl libfile-basedir-perl libfile-listing-perl libfont-ttf-perl libhtml-form-perl libhtml-html5-entities-perl libhtml-parser-perl libhtml-tagset-perl libhtml-tokeparser-simple-perl libhtml-tree-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libimport-into-perl libio-html-perl libio-interactive-perl libio-socket-ssl-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl liblist-compare-perl liblist-moreutils-perl liblist-moreutils-xs-perl liblist-someutils-perl liblist-utilsby-perl liblwp-mediatypes-perl liblwp-protocol-https-perl liblz1 liblzo2-2 libmarkdown2 libmldbm-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnet-http-perl libnet-ipv6addr-perl libnet-netmask-perl libnet-ssleay-perl libnetaddr-ip-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libperlio-utf8-strict-perl libproc-processtable-perl libregexp-ipv6-perl libregexp-wildcards-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 libsyntax-keyword-try-perl libterm-readkey-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libwww-mechanize-perl libwww-perl libwww-robotrules-perl libxs-parse-keyword-perl libyaml-0-2 libyaml-libyaml-perl lintian lzop netbase openssl patchutils perl-openssl-defaults plzip t1utils unzip Suggested packages: isoquery libxml-parser-perl libdata-dump-perl libcrypt-ssleay-perl libscalar-number-perl libbareword-filehandles-perl libindirect-perl libmultidimensional-perl libbusiness-isbn-perl libauthen-ntlm-perl binutils-multiarch libtext-template-perl zip Recommended packages: gnupg libcgi-fast-perl libhtml-format-perl liblist-someutils-xs-perl libfreezethaw-perl libmath-base85-perl libsocket6-perl libpackage-stash-xs-perl libdata-dump-perl libhttp-daemon-perl libmailtools-perl The following NEW packages will be installed: ca-certificates diffstat gpg gpgconf iso-codes libaliased-perl libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libberkeleydb-perl libcapture-tiny-perl libcgi-pm-perl libclass-data-inheritable-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libconst-fast-perl libcpanel-json-xs-perl libdata-dpath-perl libdata-messagepack-perl libdata-optlist-perl libdata-validate-domain-perl libdata-validate-ip-perl libdata-validate-uri-perl libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libencode-locale-perl libexception-class-perl libexporter-tiny-perl libfile-basedir-perl libfile-listing-perl libfont-ttf-perl libhtml-form-perl libhtml-html5-entities-perl libhtml-parser-perl libhtml-tagset-perl libhtml-tokeparser-simple-perl libhtml-tree-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libimport-into-perl libio-html-perl libio-interactive-perl libio-socket-ssl-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl liblist-compare-perl liblist-moreutils-perl liblist-moreutils-xs-perl liblist-someutils-perl liblist-utilsby-perl liblwp-mediatypes-perl liblwp-protocol-https-perl liblz1 liblzo2-2 libmarkdown2 libmldbm-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnet-http-perl libnet-ipv6addr-perl libnet-netmask-perl libnet-ssleay-perl libnetaddr-ip-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libperlio-utf8-strict-perl libproc-processtable-perl libregexp-ipv6-perl libregexp-wildcards-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 libsyntax-keyword-try-perl libterm-readkey-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libwww-mechanize-perl libwww-perl libwww-robotrules-perl libxs-parse-keyword-perl libyaml-0-2 libyaml-libyaml-perl lintian lzop netbase openssl patchutils perl-openssl-defaults plzip sbuild-build-depends-lintian-dummy:arm64 t1utils unzip 0 upgraded, 127 newly installed, 0 to remove and 0 not upgraded. Need to get 13.2 MB of archives. After this operation, 49.6 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-lintian-dummy 0.invalid.0 [848 B] Get:2 http://localhost:3142/debian sid/main amd64 netbase all 6.3 [19.9 kB] Get:3 http://localhost:3142/debian sid/main amd64 openssl amd64 3.0.5-4 [1423 kB] Get:4 http://localhost:3142/debian sid/main amd64 ca-certificates all 20211016 [156 kB] Get:5 http://localhost:3142/debian sid/main amd64 diffstat amd64 1.64-1 [36.6 kB] Get:6 http://localhost:3142/debian sid/main amd64 libassuan0 amd64 2.5.5-4 [51.3 kB] Get:7 http://localhost:3142/debian sid/main amd64 gpgconf amd64 2.2.39-1 [585 kB] Get:8 http://localhost:3142/debian sid/main amd64 gpg amd64 2.2.39-1 [969 kB] Get:9 http://localhost:3142/debian sid/main amd64 iso-codes all 4.11.0-1 [2834 kB] Get:10 http://localhost:3142/debian sid/main amd64 libaliased-perl all 0.34-2 [14.2 kB] Get:11 http://localhost:3142/debian sid/main amd64 libapt-pkg-perl amd64 0.1.40+b1 [72.1 kB] Get:12 http://localhost:3142/debian sid/main amd64 libb-hooks-op-check-perl amd64 0.22-2 [11.2 kB] Get:13 http://localhost:3142/debian sid/main amd64 libdynaloader-functions-perl all 0.003-2 [13.1 kB] Get:14 http://localhost:3142/debian sid/main amd64 libdevel-callchecker-perl amd64 0.008-1+b3 [16.0 kB] Get:15 http://localhost:3142/debian sid/main amd64 libparams-classify-perl amd64 0.015-2 [25.6 kB] Get:16 http://localhost:3142/debian sid/main amd64 libmodule-runtime-perl all 0.016-2 [19.6 kB] Get:17 http://localhost:3142/debian sid/main amd64 libtry-tiny-perl all 0.31-1 [24.2 kB] Get:18 http://localhost:3142/debian sid/main amd64 libmodule-implementation-perl all 0.09-2 [12.6 kB] Get:19 http://localhost:3142/debian sid/main amd64 libsub-exporter-progressive-perl all 0.001013-2 [8044 B] Get:20 http://localhost:3142/debian sid/main amd64 libvariable-magic-perl amd64 0.63-1 [45.7 kB] Get:21 http://localhost:3142/debian sid/main amd64 libb-hooks-endofscope-perl all 0.26-1 [19.6 kB] Get:22 http://localhost:3142/debian sid/main amd64 libberkeleydb-perl amd64 0.64-1+b2 [124 kB] Get:23 http://localhost:3142/debian sid/main amd64 libcapture-tiny-perl all 0.48-1 [26.0 kB] Get:24 http://localhost:3142/debian sid/main amd64 libhtml-tagset-perl all 3.20-5 [13.1 kB] Get:25 http://localhost:3142/debian sid/main amd64 libregexp-ipv6-perl all 0.03-3 [5212 B] Get:26 http://localhost:3142/debian sid/main amd64 liburi-perl all 5.12-1 [93.7 kB] Get:27 http://localhost:3142/debian sid/main amd64 libhtml-parser-perl amd64 3.78-1 [105 kB] Get:28 http://localhost:3142/debian sid/main amd64 libcgi-pm-perl all 4.54-1 [224 kB] Get:29 http://localhost:3142/debian sid/main amd64 libclass-data-inheritable-perl all 0.08-3 [8588 B] Get:30 http://localhost:3142/debian sid/main amd64 libclass-method-modifiers-perl all 2.13-2 [19.4 kB] Get:31 http://localhost:3142/debian sid/main amd64 libclass-xsaccessor-perl amd64 1.19-4 [37.5 kB] Get:32 http://localhost:3142/debian sid/main amd64 libclone-perl amd64 0.45-1+b2 [15.5 kB] Get:33 http://localhost:3142/debian sid/main amd64 libconfig-tiny-perl all 2.28-1 [17.3 kB] Get:34 http://localhost:3142/debian sid/main amd64 libparams-util-perl amd64 1.102-1+b2 [25.7 kB] Get:35 http://localhost:3142/debian sid/main amd64 libsub-install-perl all 0.928-2 [11.0 kB] Get:36 http://localhost:3142/debian sid/main amd64 libdata-optlist-perl all 0.112-1 [11.8 kB] Get:37 http://localhost:3142/debian sid/main amd64 libsub-exporter-perl all 0.988-1 [51.9 kB] Get:38 http://localhost:3142/debian sid/main amd64 libconst-fast-perl all 0.014-2 [8792 B] Get:39 http://localhost:3142/debian sid/main amd64 libcpanel-json-xs-perl amd64 4.32-1 [130 kB] Get:40 http://localhost:3142/debian sid/main amd64 libdevel-stacktrace-perl all 2.0400-1 [28.6 kB] Get:41 http://localhost:3142/debian sid/main amd64 libexception-class-perl all 1.45-1 [34.6 kB] Get:42 http://localhost:3142/debian sid/main amd64 libiterator-perl all 0.03+ds1-2 [18.8 kB] Get:43 http://localhost:3142/debian sid/main amd64 libiterator-util-perl all 0.02+ds1-2 [14.0 kB] Get:44 http://localhost:3142/debian sid/main amd64 libexporter-tiny-perl all 1.004002-1 [38.9 kB] Get:45 http://localhost:3142/debian sid/main amd64 liblist-moreutils-xs-perl amd64 0.430-3 [40.3 kB] Get:46 http://localhost:3142/debian sid/main amd64 liblist-moreutils-perl all 0.430-2 [46.9 kB] Get:47 http://localhost:3142/debian sid/main amd64 libdata-dpath-perl all 0.58-1 [43.5 kB] Get:48 http://localhost:3142/debian sid/main amd64 libdata-messagepack-perl amd64 1.02-1 [35.7 kB] Get:49 http://localhost:3142/debian sid/main amd64 libnet-domain-tld-perl all 1.75-2 [33.7 kB] Get:50 http://localhost:3142/debian sid/main amd64 libdata-validate-domain-perl all 0.10-1.1 [11.1 kB] Get:51 http://localhost:3142/debian sid/main amd64 libnet-ipv6addr-perl all 1.02-1 [21.7 kB] Get:52 http://localhost:3142/debian sid/main amd64 libnet-netmask-perl all 2.0002-1 [32.3 kB] Get:53 http://localhost:3142/debian sid/main amd64 libnetaddr-ip-perl amd64 4.079+dfsg-2 [104 kB] Get:54 http://localhost:3142/debian sid/main amd64 libdata-validate-ip-perl all 0.30-1 [21.0 kB] Get:55 http://localhost:3142/debian sid/main amd64 libdata-validate-uri-perl all 0.07-2 [11.2 kB] Get:56 http://localhost:3142/debian sid/main amd64 libdevel-size-perl amd64 0.83-2 [25.8 kB] Get:57 http://localhost:3142/debian sid/main amd64 libemail-address-xs-perl amd64 1.05-1 [29.1 kB] Get:58 http://localhost:3142/debian sid/main amd64 libencode-locale-perl all 1.05-2 [13.5 kB] Get:59 http://localhost:3142/debian sid/main amd64 libipc-system-simple-perl all 1.30-1 [28.2 kB] Get:60 http://localhost:3142/debian sid/main amd64 libfile-basedir-perl all 0.09-1 [16.4 kB] Get:61 http://localhost:3142/debian sid/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get:62 http://localhost:3142/debian sid/main amd64 libhttp-date-perl all 6.05-2 [10.5 kB] Get:63 http://localhost:3142/debian sid/main amd64 libfile-listing-perl all 6.15-1 [12.6 kB] Get:64 http://localhost:3142/debian sid/main amd64 libfont-ttf-perl all 1.06-2 [318 kB] Get:65 http://localhost:3142/debian sid/main amd64 libio-html-perl all 1.004-3 [16.2 kB] Get:66 http://localhost:3142/debian sid/main amd64 liblwp-mediatypes-perl all 6.04-1 [19.9 kB] Get:67 http://localhost:3142/debian sid/main amd64 libhttp-message-perl all 6.37-1 [80.9 kB] Get:68 http://localhost:3142/debian sid/main amd64 libhtml-form-perl all 6.10-1 [24.0 kB] Get:69 http://localhost:3142/debian sid/main amd64 libhtml-html5-entities-perl all 0.004-2 [21.6 kB] Get:70 http://localhost:3142/debian sid/main amd64 libhtml-tree-perl all 5.07-2 [213 kB] Get:71 http://localhost:3142/debian sid/main amd64 libhttp-cookies-perl all 6.10-1 [19.6 kB] Get:72 http://localhost:3142/debian sid/main amd64 libhttp-negotiate-perl all 6.01-1 [12.8 kB] Get:73 http://localhost:3142/debian sid/main amd64 perl-openssl-defaults amd64 7+b1 [7924 B] Get:74 http://localhost:3142/debian sid/main amd64 libnet-ssleay-perl amd64 1.92-2 [343 kB] Get:75 http://localhost:3142/debian sid/main amd64 libio-socket-ssl-perl all 2.075-1 [220 kB] Get:76 http://localhost:3142/debian sid/main amd64 libnet-http-perl all 6.22-1 [25.3 kB] Get:77 http://localhost:3142/debian sid/main amd64 liblwp-protocol-https-perl all 6.10-1 [12.2 kB] Get:78 http://localhost:3142/debian sid/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get:79 http://localhost:3142/debian sid/main amd64 libwww-perl all 6.67-1 [194 kB] Get:80 http://localhost:3142/debian sid/main amd64 libhtml-tokeparser-simple-perl all 3.16-4 [39.1 kB] Get:81 http://localhost:3142/debian sid/main amd64 libimport-into-perl all 1.002005-2 [11.3 kB] Get:82 http://localhost:3142/debian sid/main amd64 libio-interactive-perl all 1.023-1 [11.5 kB] Get:83 http://localhost:3142/debian sid/main amd64 libipc-run3-perl all 0.048-2 [34.2 kB] Get:84 http://localhost:3142/debian sid/main amd64 libjson-maybexs-perl all 1.004004-1 [13.3 kB] Get:85 http://localhost:3142/debian sid/main amd64 liblist-compare-perl all 0.55-1 [66.9 kB] Get:86 http://localhost:3142/debian sid/main amd64 liblist-someutils-perl all 0.58-1 [36.5 kB] Get:87 http://localhost:3142/debian sid/main amd64 liblist-utilsby-perl all 0.12-1 [16.1 kB] Get:88 http://localhost:3142/debian sid/main amd64 liblz1 amd64 1.13-4 [42.0 kB] Get:89 http://localhost:3142/debian sid/main amd64 liblzo2-2 amd64 2.10-2 [56.9 kB] Get:90 http://localhost:3142/debian sid/main amd64 libmarkdown2 amd64 2.2.7-2 [37.0 kB] Get:91 http://localhost:3142/debian sid/main amd64 libmldbm-perl all 2.05-3 [18.8 kB] Get:92 http://localhost:3142/debian sid/main amd64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get:93 http://localhost:3142/debian sid/main amd64 libsub-quote-perl all 2.006006-1 [21.0 kB] Get:94 http://localhost:3142/debian sid/main amd64 libmoo-perl all 2.005004-3 [60.5 kB] Get:95 http://localhost:3142/debian sid/main amd64 libstrictures-perl all 2.000006-1 [18.6 kB] Get:96 http://localhost:3142/debian sid/main amd64 libmoox-aliases-perl all 0.001006-2 [7156 B] Get:97 http://localhost:3142/debian sid/main amd64 libmouse-perl amd64 2.5.10-1+b2 [173 kB] Get:98 http://localhost:3142/debian sid/main amd64 libpackage-stash-perl all 0.40-1 [22.0 kB] Get:99 http://localhost:3142/debian sid/main amd64 libsub-identify-perl amd64 0.14-2 [11.9 kB] Get:100 http://localhost:3142/debian sid/main amd64 libsub-name-perl amd64 0.26-2 [13.7 kB] Get:101 http://localhost:3142/debian sid/main amd64 libnamespace-clean-perl all 0.27-2 [17.8 kB] Get:102 http://localhost:3142/debian sid/main amd64 libpath-tiny-perl all 0.124-1 [56.1 kB] Get:103 http://localhost:3142/debian sid/main amd64 libperlio-gzip-perl amd64 0.20-1 [17.5 kB] Get:104 http://localhost:3142/debian sid/main amd64 libperlio-utf8-strict-perl amd64 0.009-1+b1 [12.2 kB] Get:105 http://localhost:3142/debian sid/main amd64 libproc-processtable-perl amd64 0.634-1+b1 [46.9 kB] Get:106 http://localhost:3142/debian sid/main amd64 libregexp-wildcards-perl all 1.05-3 [14.1 kB] Get:107 http://localhost:3142/debian sid/main amd64 libsereal-decoder-perl amd64 5.001+ds-1 [103 kB] Get:108 http://localhost:3142/debian sid/main amd64 libsereal-encoder-perl amd64 5.001+ds-1 [106 kB] Get:109 http://localhost:3142/debian sid/main amd64 libsort-versions-perl all 1.62-2 [10.7 kB] Get:110 http://localhost:3142/debian sid/main amd64 libxs-parse-keyword-perl amd64 0.25-1 [53.3 kB] Get:111 http://localhost:3142/debian sid/main amd64 libsyntax-keyword-try-perl amd64 0.27-1 [28.5 kB] Get:112 http://localhost:3142/debian sid/main amd64 libterm-readkey-perl amd64 2.38-2 [27.2 kB] Get:113 http://localhost:3142/debian sid/main amd64 libtext-levenshteinxs-perl amd64 0.03-5 [8656 B] Get:114 http://localhost:3142/debian sid/main amd64 libtext-markdown-discount-perl amd64 0.13-1+b1 [13.6 kB] Get:115 http://localhost:3142/debian sid/main amd64 libtext-xslate-perl amd64 3.5.9-1+b1 [197 kB] Get:116 http://localhost:3142/debian sid/main amd64 libtime-duration-perl all 1.21-1 [13.7 kB] Get:117 http://localhost:3142/debian sid/main amd64 libtime-moment-perl amd64 0.44-2 [73.0 kB] Get:118 http://localhost:3142/debian sid/main amd64 libunicode-utf8-perl amd64 0.62-1+b3 [20.3 kB] Get:119 http://localhost:3142/debian sid/main amd64 libwww-mechanize-perl all 2.15-1 [120 kB] Get:120 http://localhost:3142/debian sid/main amd64 libyaml-0-2 amd64 0.2.5-1 [53.6 kB] Get:121 http://localhost:3142/debian sid/main amd64 libyaml-libyaml-perl amd64 0.84+ds-1 [36.1 kB] Get:122 http://localhost:3142/debian sid/main amd64 plzip amd64 1.10-4 [64.0 kB] Get:123 http://localhost:3142/debian sid/main amd64 lzop amd64 1.04-2 [84.2 kB] Get:124 http://localhost:3142/debian sid/main amd64 patchutils amd64 0.4.2-1 [77.5 kB] Get:125 http://localhost:3142/debian sid/main amd64 t1utils amd64 1.41-4 [62.1 kB] Get:126 http://localhost:3142/debian sid/main amd64 unzip amd64 6.0-27 [172 kB] Get:127 http://localhost:3142/debian sid/main amd64 lintian all 2.115.3 [1417 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 13.2 MB in 0s (105 MB/s) Selecting previously unselected package netbase. (Reading database ... 42277 files and directories currently installed.) Preparing to unpack .../000-netbase_6.3_all.deb ... Unpacking netbase (6.3) ... Selecting previously unselected package openssl. Preparing to unpack .../001-openssl_3.0.5-4_amd64.deb ... Unpacking openssl (3.0.5-4) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../002-ca-certificates_20211016_all.deb ... Unpacking ca-certificates (20211016) ... Selecting previously unselected package diffstat. Preparing to unpack .../003-diffstat_1.64-1_amd64.deb ... Unpacking diffstat (1.64-1) ... Selecting previously unselected package libassuan0:amd64. Preparing to unpack .../004-libassuan0_2.5.5-4_amd64.deb ... Unpacking libassuan0:amd64 (2.5.5-4) ... Selecting previously unselected package gpgconf. Preparing to unpack .../005-gpgconf_2.2.39-1_amd64.deb ... Unpacking gpgconf (2.2.39-1) ... Selecting previously unselected package gpg. Preparing to unpack .../006-gpg_2.2.39-1_amd64.deb ... Unpacking gpg (2.2.39-1) ... Selecting previously unselected package iso-codes. Preparing to unpack .../007-iso-codes_4.11.0-1_all.deb ... Unpacking iso-codes (4.11.0-1) ... Selecting previously unselected package libaliased-perl. Preparing to unpack .../008-libaliased-perl_0.34-2_all.deb ... Unpacking libaliased-perl (0.34-2) ... Selecting previously unselected package libapt-pkg-perl. Preparing to unpack .../009-libapt-pkg-perl_0.1.40+b1_amd64.deb ... Unpacking libapt-pkg-perl (0.1.40+b1) ... Selecting previously unselected package libb-hooks-op-check-perl:amd64. Preparing to unpack .../010-libb-hooks-op-check-perl_0.22-2_amd64.deb ... Unpacking libb-hooks-op-check-perl:amd64 (0.22-2) ... Selecting previously unselected package libdynaloader-functions-perl. Preparing to unpack .../011-libdynaloader-functions-perl_0.003-2_all.deb ... Unpacking libdynaloader-functions-perl (0.003-2) ... Selecting previously unselected package libdevel-callchecker-perl. 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Preparing to unpack .../017-libsub-exporter-progressive-perl_0.001013-2_all.deb ... Unpacking libsub-exporter-progressive-perl (0.001013-2) ... Selecting previously unselected package libvariable-magic-perl. Preparing to unpack .../018-libvariable-magic-perl_0.63-1_amd64.deb ... Unpacking libvariable-magic-perl (0.63-1) ... Selecting previously unselected package libb-hooks-endofscope-perl. Preparing to unpack .../019-libb-hooks-endofscope-perl_0.26-1_all.deb ... Unpacking libb-hooks-endofscope-perl (0.26-1) ... Selecting previously unselected package libberkeleydb-perl:amd64. Preparing to unpack .../020-libberkeleydb-perl_0.64-1+b2_amd64.deb ... Unpacking libberkeleydb-perl:amd64 (0.64-1+b2) ... Selecting previously unselected package libcapture-tiny-perl. Preparing to unpack .../021-libcapture-tiny-perl_0.48-1_all.deb ... Unpacking libcapture-tiny-perl (0.48-1) ... Selecting previously unselected package libhtml-tagset-perl. 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Selecting previously unselected package libclass-method-modifiers-perl. Preparing to unpack .../028-libclass-method-modifiers-perl_2.13-2_all.deb ... Unpacking libclass-method-modifiers-perl (2.13-2) ... Selecting previously unselected package libclass-xsaccessor-perl. Preparing to unpack .../029-libclass-xsaccessor-perl_1.19-4_amd64.deb ... Unpacking libclass-xsaccessor-perl (1.19-4) ... Selecting previously unselected package libclone-perl. Preparing to unpack .../030-libclone-perl_0.45-1+b2_amd64.deb ... Unpacking libclone-perl (0.45-1+b2) ... Selecting previously unselected package libconfig-tiny-perl. Preparing to unpack .../031-libconfig-tiny-perl_2.28-1_all.deb ... Unpacking libconfig-tiny-perl (2.28-1) ... Selecting previously unselected package libparams-util-perl. Preparing to unpack .../032-libparams-util-perl_1.102-1+b2_amd64.deb ... Unpacking libparams-util-perl (1.102-1+b2) ... Selecting previously unselected package libsub-install-perl. Preparing to unpack .../033-libsub-install-perl_0.928-2_all.deb ... Unpacking libsub-install-perl (0.928-2) ... Selecting previously unselected package libdata-optlist-perl. Preparing to unpack .../034-libdata-optlist-perl_0.112-1_all.deb ... Unpacking libdata-optlist-perl (0.112-1) ... Selecting previously unselected package libsub-exporter-perl. Preparing to unpack .../035-libsub-exporter-perl_0.988-1_all.deb ... Unpacking libsub-exporter-perl (0.988-1) ... Selecting previously unselected package libconst-fast-perl. Preparing to unpack .../036-libconst-fast-perl_0.014-2_all.deb ... Unpacking libconst-fast-perl (0.014-2) ... Selecting previously unselected package libcpanel-json-xs-perl:amd64. Preparing to unpack .../037-libcpanel-json-xs-perl_4.32-1_amd64.deb ... Unpacking libcpanel-json-xs-perl:amd64 (4.32-1) ... Selecting previously unselected package libdevel-stacktrace-perl. Preparing to unpack .../038-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 .../039-libexception-class-perl_1.45-1_all.deb ... Unpacking libexception-class-perl (1.45-1) ... Selecting previously unselected package libiterator-perl. Preparing to unpack .../040-libiterator-perl_0.03+ds1-2_all.deb ... Unpacking libiterator-perl (0.03+ds1-2) ... Selecting previously unselected package libiterator-util-perl. Preparing to unpack .../041-libiterator-util-perl_0.02+ds1-2_all.deb ... Unpacking libiterator-util-perl (0.02+ds1-2) ... Selecting previously unselected package libexporter-tiny-perl. Preparing to unpack .../042-libexporter-tiny-perl_1.004002-1_all.deb ... Unpacking libexporter-tiny-perl (1.004002-1) ... Selecting previously unselected package liblist-moreutils-xs-perl. Preparing to unpack .../043-liblist-moreutils-xs-perl_0.430-3_amd64.deb ... Unpacking liblist-moreutils-xs-perl (0.430-3) ... Selecting previously unselected package liblist-moreutils-perl. Preparing to unpack .../044-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 .../045-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 .../046-libdata-messagepack-perl_1.02-1_amd64.deb ... Unpacking libdata-messagepack-perl (1.02-1) ... Selecting previously unselected package libnet-domain-tld-perl. Preparing to unpack .../047-libnet-domain-tld-perl_1.75-2_all.deb ... Unpacking libnet-domain-tld-perl (1.75-2) ... Selecting previously unselected package libdata-validate-domain-perl. Preparing to unpack .../048-libdata-validate-domain-perl_0.10-1.1_all.deb ... Unpacking libdata-validate-domain-perl (0.10-1.1) ... Selecting previously unselected package libnet-ipv6addr-perl. Preparing to unpack .../049-libnet-ipv6addr-perl_1.02-1_all.deb ... Unpacking libnet-ipv6addr-perl (1.02-1) ... Selecting previously unselected package libnet-netmask-perl. Preparing to unpack .../050-libnet-netmask-perl_2.0002-1_all.deb ... Unpacking libnet-netmask-perl (2.0002-1) ... Selecting previously unselected package libnetaddr-ip-perl. Preparing to unpack .../051-libnetaddr-ip-perl_4.079+dfsg-2_amd64.deb ... Unpacking libnetaddr-ip-perl (4.079+dfsg-2) ... Selecting previously unselected package libdata-validate-ip-perl. Preparing to unpack .../052-libdata-validate-ip-perl_0.30-1_all.deb ... Unpacking libdata-validate-ip-perl (0.30-1) ... Selecting previously unselected package libdata-validate-uri-perl. Preparing to unpack .../053-libdata-validate-uri-perl_0.07-2_all.deb ... Unpacking libdata-validate-uri-perl (0.07-2) ... Selecting previously unselected package libdevel-size-perl. Preparing to unpack .../054-libdevel-size-perl_0.83-2_amd64.deb ... 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Unpacking sbuild-build-depends-lintian-dummy:arm64 (0.invalid.0) ... Setting up libapt-pkg-perl (0.1.40+b1) ... Setting up liblz1:amd64 (1.13-4) ... Setting up libberkeleydb-perl:amd64 (0.64-1+b2) ... Setting up plzip (1.10-4) ... update-alternatives: using /usr/bin/lzip.plzip to provide /usr/bin/lzip (lzip) in auto mode update-alternatives: using /usr/bin/lzip.plzip to provide /usr/bin/lzip-compressor (lzip-compressor) in auto mode update-alternatives: using /usr/bin/lzip.plzip to provide /usr/bin/lzip-decompressor (lzip-decompressor) in auto mode Setting up libunicode-utf8-perl (0.62-1+b3) ... Setting up libmouse-perl (2.5.10-1+b2) ... Setting up libdata-messagepack-perl (1.02-1) ... Setting up libdynaloader-functions-perl (0.003-2) ... Setting up libclass-method-modifiers-perl (2.13-2) ... Setting up liblist-compare-perl (0.55-1) ... Setting up libclone-perl (0.45-1+b2) ... Setting up libyaml-0-2:amd64 (0.2.5-1) ... Setting up libsub-identify-perl (0.14-2) ... Setting up libcpanel-json-xs-perl:amd64 (4.32-1) ... Setting up libhtml-tagset-perl (3.20-5) ... Setting up libdevel-size-perl (0.83-2) ... Setting up unzip (6.0-27) ... Setting up liblwp-mediatypes-perl (6.04-1) ... Setting up libyaml-libyaml-perl (0.84+ds-1) ... Setting up libio-interactive-perl (1.023-1) ... Setting up libtry-tiny-perl (0.31-1) ... Setting up perl-openssl-defaults:amd64 (7+b1) ... Setting up libmldbm-perl (2.05-3) ... Setting up liblzo2-2:amd64 (2.10-2) ... Setting up libtime-moment-perl (0.44-2) ... Setting up libencode-locale-perl (1.05-2) ... Setting up libassuan0:amd64 (2.5.5-4) ... Setting up libconfig-tiny-perl (2.28-1) ... Setting up libsereal-encoder-perl:amd64 (5.001+ds-1) ... Setting up liblist-utilsby-perl (0.12-1) ... Setting up libnet-netmask-perl (2.0002-1) ... Setting up libsub-install-perl (0.928-2) ... Setting up patchutils (0.4.2-1) ... Setting up libjson-maybexs-perl (1.004004-1) ... Setting up libnetaddr-ip-perl (4.079+dfsg-2) ... Setting up libclass-data-inheritable-perl (0.08-3) ... Setting up libxs-parse-keyword-perl (0.25-1) ... Setting up libipc-system-simple-perl (1.30-1) ... Setting up libnet-domain-tld-perl (1.75-2) ... Setting up libperlio-utf8-strict-perl (0.009-1+b1) ... Setting up t1utils (1.41-4) ... Setting up diffstat (1.64-1) ... Setting up libvariable-magic-perl (0.63-1) ... Setting up libio-html-perl (1.004-3) ... Setting up libb-hooks-op-check-perl:amd64 (0.22-2) ... Setting up liblist-moreutils-xs-perl (0.430-3) ... Setting up libparams-util-perl (1.102-1+b2) ... Setting up libtime-duration-perl (1.21-1) ... Setting up libtext-xslate-perl:amd64 (3.5.9-1+b1) ... Setting up libsub-exporter-progressive-perl (0.001013-2) ... Setting up libcapture-tiny-perl (0.48-1) ... Setting up libtimedate-perl (2.3300-2) ... Setting up libregexp-ipv6-perl (0.03-3) ... Setting up libsub-name-perl:amd64 (0.26-2) ... Setting up libsyntax-keyword-try-perl (0.27-1) ... Setting up libdata-validate-domain-perl (0.10-1.1) ... Setting up libproc-processtable-perl:amd64 (0.634-1+b1) ... Setting up libpath-tiny-perl (0.124-1) ... Setting up lzop (1.04-2) ... Setting up gpgconf (2.2.39-1) ... Setting up librole-tiny-perl (2.002004-1) ... Setting up libipc-run3-perl (0.048-2) ... Setting up libregexp-wildcards-perl (1.05-3) ... Setting up libaliased-perl (0.34-2) ... Setting up netbase (6.3) ... Setting up libstrictures-perl (2.000006-1) ... Setting up libsub-quote-perl (2.006006-1) ... Setting up libdevel-stacktrace-perl (2.0400-1) ... Setting up libclass-xsaccessor-perl (1.19-4) ... Setting up libsort-versions-perl (1.62-2) ... Setting up libexporter-tiny-perl (1.004002-1) ... Setting up libterm-readkey-perl (2.38-2) ... Setting up libfont-ttf-perl (1.06-2) ... Setting up openssl (3.0.5-4) ... Setting up libtext-levenshteinxs-perl (0.03-5) ... Setting up libperlio-gzip-perl (0.20-1) ... Setting up libhtml-html5-entities-perl (0.004-2) ... Setting up libsereal-decoder-perl (5.001+ds-1) ... Setting up libmarkdown2:amd64 (2.2.7-2) ... Setting up liburi-perl (5.12-1) ... Setting up iso-codes (4.11.0-1) ... Setting up libnet-ipv6addr-perl (1.02-1) ... Setting up gpg (2.2.39-1) ... Setting up libdata-validate-ip-perl (0.30-1) ... Setting up libemail-address-xs-perl (1.05-1) ... Setting up libnet-ssleay-perl:amd64 (1.92-2) ... Setting up libhttp-date-perl (6.05-2) ... Setting up libfile-basedir-perl (0.09-1) ... Setting up libfile-listing-perl (6.15-1) ... Setting up liblist-moreutils-perl (0.430-2) ... Setting up libnet-http-perl (6.22-1) ... Setting up libtext-markdown-discount-perl:amd64 (0.13-1+b1) ... Setting up libexception-class-perl (1.45-1) ... Setting up libdevel-callchecker-perl (0.008-1+b3) ... Setting up ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... 127 added, 0 removed; done. Setting up libdata-validate-uri-perl (0.07-2) ... Setting up libdata-optlist-perl (0.112-1) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libhtml-parser-perl:amd64 (3.78-1) ... Setting up libio-socket-ssl-perl (2.075-1) ... Setting up libsub-exporter-perl (0.988-1) ... Setting up libhttp-message-perl (6.37-1) ... Setting up libhtml-form-perl (6.10-1) ... Setting up libiterator-perl (0.03+ds1-2) ... Setting up libhttp-negotiate-perl (6.01-1) ... Setting up libiterator-util-perl (0.02+ds1-2) ... Setting up libhttp-cookies-perl (6.10-1) ... Setting up libhtml-tree-perl (5.07-2) ... Setting up libparams-classify-perl:amd64 (0.015-2) ... Setting up libcgi-pm-perl (4.54-1) ... Setting up libmodule-runtime-perl (0.016-2) ... Setting up libconst-fast-perl (0.014-2) ... Setting up libdata-dpath-perl (0.58-1) ... Setting up libmodule-implementation-perl (0.09-2) ... Setting up libpackage-stash-perl (0.40-1) ... Setting up libimport-into-perl (1.002005-2) ... Setting up libmoo-perl (2.005004-3) ... Setting up liblist-someutils-perl (0.58-1) ... Setting up libmoox-aliases-perl (0.001006-2) ... Setting up libb-hooks-endofscope-perl (0.26-1) ... Setting up libnamespace-clean-perl (0.27-2) ... Setting up libwww-perl (6.67-1) ... Setting up libhtml-tokeparser-simple-perl (3.16-4) ... Setting up libwww-mechanize-perl (2.15-1) ... Setting up liblwp-protocol-https-perl (6.10-1) ... Setting up lintian (2.115.3) ... Setting up sbuild-build-depends-lintian-dummy:arm64 (0.invalid.0) ... Processing triggers for libc-bin (2.35-1) ... Processing triggers for man-db (2.10.2-3) ... Not building database; man-db/auto-update is not 'true'. Processing triggers for ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Running lintian... I: Lintian run was successful. +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any Build-Space: 78744 Build-Time: 137 Distribution: unstable Foreign Architectures: arm64 Host Architecture: arm64 Install-Time: 27 Job: blasr_5.3.5+dfsg-5 Lintian: pass Machine Architecture: amd64 Package: blasr Package-Time: 176 Source-Version: 5.3.5+dfsg-5 Space: 78744 Status: successful Version: 5.3.5+dfsg-5 -------------------------------------------------------------------------------- Finished at 2022-10-02T08:34:11Z Build needed 00:02:56, 78744k disk space