sbuild (Debian sbuild) 0.85.0 (04 January 2023) on debian-ci-siliconvalley +==============================================================================+ | skesa 2.4.0-6 (arm64) Thu, 20 Jul 2023 00:27:41 +0000 | +==============================================================================+ Package: skesa Version: 2.4.0-6 Source Version: 2.4.0-6 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-403881a1-0ffc-4dd6-8af2-3110996e6fba' with '<>' I: NOTICE: Log filtering will replace 'build/skesa-LnwMFX/resolver-v5Oyxa' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Hit:1 http://localhost:3142/debian sid InRelease Get:2 http://localhost:3142/debian sid/main arm64 Packages [9443 kB] Fetched 9443 kB in 1s (8657 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: 'skesa' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/skesa.git Please use: git clone https://salsa.debian.org/med-team/skesa.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 157 kB of source archives. Get:1 http://localhost:3142/debian sid/main skesa 2.4.0-6 (dsc) [2099 B] Get:2 http://localhost:3142/debian sid/main skesa 2.4.0-6 (tar) [139 kB] Get:3 http://localhost:3142/debian sid/main skesa 2.4.0-6 (diff) [16.2 kB] Fetched 157 kB in 1s (142 kB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/skesa-LnwMFX/skesa-2.4.0' with '<>' I: NOTICE: Log filtering will replace 'build/skesa-LnwMFX' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), libboost-dev, libboost-chrono-dev, libboost-iostreams-dev, libboost-program-options-dev, libboost-regex-dev, libboost-system-dev, libboost-timer-dev, libncbi-vdb-dev (>= 3), libngs-c++-dev, 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), libboost-dev, libboost-chrono-dev, libboost-iostreams-dev, libboost-program-options-dev, libboost-regex-dev, libboost-system-dev, libboost-timer-dev, libncbi-vdb-dev (>= 3), libngs-c++-dev, 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 [609 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [904 B] Get:5 copy:/<>/apt_archive ./ Packages [947 B] Fetched 2460 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... Execute external solver... The following additional packages will be installed: autoconf automake autopoint autotools-dev binutils-aarch64-linux-gnu bsdextrautils cpp-13-aarch64-linux-gnu cpp-aarch64-linux-gnu cross-config crossbuild-essential-arm64 debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++-13-aarch64-linux-gnu g++-aarch64-linux-gnu gcc-12-base:arm64 gcc-13-aarch64-linux-gnu gcc-13-aarch64-linux-gnu-base gcc-13-base:arm64 gcc-13-cross-base gcc-aarch64-linux-gnu gettext gettext-base groff-base icu-devtools intltool-debian libaec-dev:arm64 libaec0:arm64 libarchive-zip-perl libasan8:arm64 libasan8-arm64-cross libatomic1:arm64 libatomic1-arm64-cross libboost-chrono-dev:arm64 libboost-chrono1.74-dev:arm64 libboost-chrono1.74.0:arm64 libboost-dev:arm64 libboost-iostreams-dev:arm64 libboost-iostreams1.74-dev:arm64 libboost-iostreams1.74.0:arm64 libboost-program-options-dev:arm64 libboost-program-options1.74-dev:arm64 libboost-program-options1.74.0:arm64 libboost-regex-dev:arm64 libboost-regex1.74-dev:arm64 libboost-regex1.74.0:arm64 libboost-system-dev:arm64 libboost-system1.74-dev:arm64 libboost-system1.74.0:arm64 libboost-timer-dev:arm64 libboost-timer1.74-dev:arm64 libboost-timer1.74.0:arm64 libboost1.74-dev:arm64 libbz2-1.0:arm64 libbz2-dev: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 libdebhelper-perl libdebian-dpkgcross-perl libelf1 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-12-dev:arm64 libgcc-13-dev-arm64-cross libgcc-s1:arm64 libgcc-s1-arm64-cross libgomp1:arm64 libgomp1-arm64-cross libgssapi-krb5-2:arm64 libhwasan0:arm64 libhwasan0-arm64-cross libicu-dev:arm64 libicu72 libicu72:arm64 libio-string-perl libitm1:arm64 libitm1-arm64-cross libk5crypto3:arm64 libkeyutils1:arm64 libkrb5-3:arm64 libkrb5support0:arm64 liblocale-gettext-perl liblsan0:arm64 liblsan0-arm64-cross liblzma5:arm64 libmagic-mgc libmagic1 libmbedcrypto7:arm64 libmbedtls14:arm64 libmbedx509-1:arm64 libncbi-vdb-dev:arm64 libncbi-vdb3:arm64 libncbi-wvdb-dev:arm64 libncbi-wvdb3:arm64 libngs-c++-dev:arm64 libngs-c++3:arm64 libnsl-dev:arm64 libnsl2:arm64 libpipeline1 libssl3:arm64 libstdc++-12-dev:arm64 libstdc++-13-dev-arm64-cross libstdc++6:arm64 libstdc++6-arm64-cross libsub-override-perl libsz2:arm64 libtirpc-dev:arm64 libtirpc3:arm64 libtool libtsan2:arm64 libtsan2-arm64-cross libubsan1:arm64 libubsan1-arm64-cross libuchardet0 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl libzstd-dev:arm64 libzstd1:arm64 linux-libc-dev:arm64 linux-libc-dev-arm64-cross m4 man-db ncbi-vdb-data po-debconf sensible-utils ucf zlib1g:arm64 zlib1g-dev:arm64 Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc gcc-13-locales cpp-13-doc cpp-doc dh-make binutils-multiarch gcc-13-doc manpages-dev flex bison gdb-aarch64-linux-gnu gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff libboost-doc:arm64 libboost1.74-doc:arm64 libboost-atomic1.74-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-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-python1.74-dev:arm64 libboost-random1.74-dev:arm64 libboost-serialization1.74-dev:arm64 libboost-stacktrace1.74-dev:arm64 libboost-test1.74-dev:arm64 libboost-thread1.74-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 krb5-doc:arm64 krb5-user:arm64 icu-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 Recommended packages: curl | wget | lynx bzip2-doc:arm64 libidn2-0:arm64 libarchive-cpio-perl krb5-locales:arm64 libltdl-dev libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl | libyaml-syck-perl libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-aarch64-linux-gnu bsdextrautils cpp-13-aarch64-linux-gnu cpp-aarch64-linux-gnu cross-config crossbuild-essential-arm64 debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++-13-aarch64-linux-gnu g++-aarch64-linux-gnu gcc-12-base:arm64 gcc-13-aarch64-linux-gnu gcc-13-aarch64-linux-gnu-base gcc-13-base:arm64 gcc-13-cross-base gcc-aarch64-linux-gnu gettext gettext-base groff-base icu-devtools intltool-debian libaec-dev:arm64 libaec0:arm64 libarchive-zip-perl libasan8:arm64 libasan8-arm64-cross libatomic1:arm64 libatomic1-arm64-cross libboost-chrono-dev:arm64 libboost-chrono1.74-dev:arm64 libboost-chrono1.74.0:arm64 libboost-dev:arm64 libboost-iostreams-dev:arm64 libboost-iostreams1.74-dev:arm64 libboost-iostreams1.74.0:arm64 libboost-program-options-dev:arm64 libboost-program-options1.74-dev:arm64 libboost-program-options1.74.0:arm64 libboost-regex-dev:arm64 libboost-regex1.74-dev:arm64 libboost-regex1.74.0:arm64 libboost-system-dev:arm64 libboost-system1.74-dev:arm64 libboost-system1.74.0:arm64 libboost-timer-dev:arm64 libboost-timer1.74-dev:arm64 libboost-timer1.74.0:arm64 libboost1.74-dev:arm64 libbz2-1.0:arm64 libbz2-dev: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 libdebhelper-perl libdebian-dpkgcross-perl libelf1 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-12-dev:arm64 libgcc-13-dev-arm64-cross libgcc-s1:arm64 libgcc-s1-arm64-cross libgomp1:arm64 libgomp1-arm64-cross libgssapi-krb5-2:arm64 libhwasan0:arm64 libhwasan0-arm64-cross libicu-dev:arm64 libicu72 libicu72:arm64 libio-string-perl libitm1:arm64 libitm1-arm64-cross libk5crypto3:arm64 libkeyutils1:arm64 libkrb5-3:arm64 libkrb5support0:arm64 liblocale-gettext-perl liblsan0:arm64 liblsan0-arm64-cross liblzma5:arm64 libmagic-mgc libmagic1 libmbedcrypto7:arm64 libmbedtls14:arm64 libmbedx509-1:arm64 libncbi-vdb-dev:arm64 libncbi-vdb3:arm64 libncbi-wvdb-dev:arm64 libncbi-wvdb3:arm64 libngs-c++-dev:arm64 libngs-c++3:arm64 libnsl-dev:arm64 libnsl2:arm64 libpipeline1 libssl3:arm64 libstdc++-12-dev:arm64 libstdc++-13-dev-arm64-cross libstdc++6:arm64 libstdc++6-arm64-cross libsub-override-perl libsz2:arm64 libtirpc-dev:arm64 libtirpc3:arm64 libtool libtsan2:arm64 libtsan2-arm64-cross libubsan1:arm64 libubsan1-arm64-cross libuchardet0 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl libzstd-dev:arm64 libzstd1:arm64 linux-libc-dev:arm64 linux-libc-dev-arm64-cross m4 man-db ncbi-vdb-data po-debconf sbuild-build-depends-main-dummy:arm64 sensible-utils ucf zlib1g:arm64 zlib1g-dev:arm64 0 upgraded, 145 newly installed, 0 to remove and 0 not upgraded. Need to get 296 MB of archives. After this operation, 1255 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [984 B] Get:2 http://localhost:3142/debian sid/main amd64 liblocale-gettext-perl amd64 1.07-5 [15.4 kB] Get:3 http://localhost:3142/debian sid/main amd64 sensible-utils all 0.0.20 [19.3 kB] Get:4 http://localhost:3142/debian sid/main amd64 libmagic-mgc amd64 1:5.44-3 [305 kB] Get:5 http://localhost:3142/debian sid/main amd64 libmagic1 amd64 1:5.44-3 [104 kB] Get:6 http://localhost:3142/debian sid/main amd64 file amd64 1:5.44-3 [42.5 kB] Get:7 http://localhost:3142/debian sid/main amd64 gettext-base amd64 0.21-13 [160 kB] Get:8 http://localhost:3142/debian sid/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get:9 http://localhost:3142/debian sid/main amd64 groff-base amd64 1.23.0-2 [1176 kB] Get:10 http://localhost:3142/debian sid/main amd64 bsdextrautils amd64 2.38.1-6 [86.5 kB] Get:11 http://localhost:3142/debian sid/main amd64 libpipeline1 amd64 1.5.7-1 [38.5 kB] Get:12 http://localhost:3142/debian sid/main amd64 man-db amd64 2.11.2-2 [1386 kB] Get:13 http://localhost:3142/debian sid/main amd64 ucf all 3.0043+nmu1 [55.2 kB] Get:14 http://localhost:3142/debian sid/main amd64 m4 amd64 1.4.19-3 [287 kB] Get:15 http://localhost:3142/debian sid/main amd64 autoconf all 2.71-3 [332 kB] Get:16 http://localhost:3142/debian sid/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get:17 http://localhost:3142/debian sid/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get:18 http://localhost:3142/debian sid/main amd64 autopoint all 0.21-13 [496 kB] Get:19 http://localhost:3142/debian sid/main amd64 binutils-aarch64-linux-gnu amd64 2.40.90.20230714-2 [3384 kB] Get:20 http://localhost:3142/debian sid/main amd64 gcc-13-aarch64-linux-gnu-base amd64 13.1.0-8cross1 [39.0 kB] Get:21 http://localhost:3142/debian sid/main amd64 cpp-13-aarch64-linux-gnu amd64 13.1.0-8cross1 [60.8 MB] Get:22 http://localhost:3142/debian sid/main amd64 cpp-aarch64-linux-gnu amd64 4:13.1.0-4 [4068 B] Get:23 http://localhost:3142/debian sid/main amd64 cross-config all 2.6.20 [16.3 kB] Get:24 http://localhost:3142/debian sid/main amd64 gcc-13-cross-base all 13.1.0-8cross1 [34.5 kB] Get:25 http://localhost:3142/debian sid/main amd64 libc6-arm64-cross all 2.37-3cross1 [1002 kB] Get:26 http://localhost:3142/debian sid/main amd64 libgcc-s1-arm64-cross all 13.1.0-8cross1 [40.9 kB] Get:27 http://localhost:3142/debian sid/main amd64 libgomp1-arm64-cross all 13.1.0-8cross1 [112 kB] Get:28 http://localhost:3142/debian sid/main amd64 libitm1-arm64-cross all 13.1.0-8cross1 [23.4 kB] Get:29 http://localhost:3142/debian sid/main amd64 libatomic1-arm64-cross all 13.1.0-8cross1 [9912 B] Get:30 http://localhost:3142/debian sid/main amd64 libasan8-arm64-cross all 13.1.0-8cross1 [2407 kB] Get:31 http://localhost:3142/debian sid/main amd64 liblsan0-arm64-cross all 13.1.0-8cross1 [1068 kB] Get:32 http://localhost:3142/debian sid/main amd64 libtsan2-arm64-cross all 13.1.0-8cross1 [2278 kB] Get:33 http://localhost:3142/debian sid/main amd64 libstdc++6-arm64-cross all 13.1.0-8cross1 [575 kB] Get:34 http://localhost:3142/debian sid/main amd64 libubsan1-arm64-cross all 13.1.0-8cross1 [979 kB] Get:35 http://localhost:3142/debian sid/main amd64 libhwasan0-arm64-cross all 13.1.0-8cross1 [1119 kB] Get:36 http://localhost:3142/debian sid/main amd64 libgcc-13-dev-arm64-cross all 13.1.0-8cross1 [2230 kB] Get:37 http://localhost:3142/debian sid/main amd64 gcc-13-aarch64-linux-gnu amd64 13.1.0-8cross1 [68.8 MB] Get:38 http://localhost:3142/debian sid/main amd64 gcc-aarch64-linux-gnu amd64 4:13.1.0-4 [1472 B] Get:39 http://localhost:3142/debian sid/main amd64 linux-libc-dev-arm64-cross all 6.3.7-1cross1 [1894 kB] Get:40 http://localhost:3142/debian sid/main amd64 libc6-dev-arm64-cross all 2.37-3cross1 [1424 kB] Get:41 http://localhost:3142/debian sid/main amd64 libstdc++-13-dev-arm64-cross all 13.1.0-8cross1 [2129 kB] Get:42 http://localhost:3142/debian sid/main amd64 g++-13-aarch64-linux-gnu amd64 13.1.0-8cross1 [65.4 MB] Get:43 http://localhost:3142/debian sid/main amd64 g++-aarch64-linux-gnu amd64 4:13.1.0-4 [1176 B] Get:44 http://localhost:3142/debian sid/main amd64 libconfig-inifiles-perl all 3.000003-2 [45.9 kB] Get:45 http://localhost:3142/debian sid/main amd64 libio-string-perl all 1.08-4 [12.1 kB] Get:46 http://localhost:3142/debian sid/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get:47 http://localhost:3142/debian sid/main amd64 libxml2 amd64 2.9.14+dfsg-1.3 [686 kB] Get:48 http://localhost:3142/debian sid/main amd64 libxml-namespacesupport-perl all 1.12-2 [15.1 kB] Get:49 http://localhost:3142/debian sid/main amd64 libxml-sax-base-perl all 1.09-3 [20.6 kB] Get:50 http://localhost:3142/debian sid/main amd64 libxml-sax-perl all 1.02+dfsg-3 [59.4 kB] Get:51 http://localhost:3142/debian sid/main amd64 libxml-libxml-perl amd64 2.0207+dfsg+really+2.0134-1+b1 [322 kB] Get:52 http://localhost:3142/debian sid/main amd64 libxml-simple-perl all 2.25-2 [69.8 kB] Get:53 http://localhost:3142/debian sid/main amd64 libyaml-perl all 1.30-2 [63.4 kB] Get:54 http://localhost:3142/debian sid/main amd64 libconfig-auto-perl all 0.44-2 [19.2 kB] Get:55 http://localhost:3142/debian sid/main amd64 libfile-which-perl all 1.27-2 [15.1 kB] Get:56 http://localhost:3142/debian sid/main amd64 libfile-homedir-perl all 1.006-2 [42.4 kB] Get:57 http://localhost:3142/debian sid/main amd64 libdebian-dpkgcross-perl all 2.6.20 [15.3 kB] Get:58 http://localhost:3142/debian sid/main amd64 dpkg-cross all 2.6.20 [25.8 kB] Get:59 http://localhost:3142/debian sid/main amd64 crossbuild-essential-arm64 all 12.10 [3484 B] Get:60 http://localhost:3142/debian sid/main amd64 libdebhelper-perl all 13.11.4 [81.2 kB] Get:61 http://localhost:3142/debian sid/main amd64 libtool all 2.4.7-6 [517 kB] Get:62 http://localhost:3142/debian sid/main amd64 dh-autoreconf all 20 [17.1 kB] Get:63 http://localhost:3142/debian sid/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:64 http://localhost:3142/debian sid/main amd64 libsub-override-perl all 0.09-4 [9304 B] Get:65 http://localhost:3142/debian sid/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get:66 http://localhost:3142/debian sid/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get:67 http://localhost:3142/debian sid/main amd64 libelf1 amd64 0.189-4 [174 kB] Get:68 http://localhost:3142/debian sid/main amd64 dwz amd64 0.15-1 [109 kB] Get:69 http://localhost:3142/debian sid/main amd64 gettext amd64 0.21-13 [1300 kB] Get:70 http://localhost:3142/debian sid/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:71 http://localhost:3142/debian sid/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get:72 http://localhost:3142/debian sid/main amd64 debhelper all 13.11.4 [942 kB] Get:73 http://localhost:3142/debian sid/main arm64 gcc-12-base arm64 12.3.0-6 [39.8 kB] Get:74 http://localhost:3142/debian sid/main arm64 gcc-13-base arm64 13.1.0-8 [38.8 kB] Get:75 http://localhost:3142/debian sid/main amd64 icu-devtools amd64 72.1-3 [206 kB] Get:76 http://localhost:3142/debian sid/main arm64 libgcc-s1 arm64 13.1.0-8 [40.9 kB] Get:77 http://localhost:3142/debian sid/main arm64 libc6 arm64 2.37-6 [2313 kB] Get:78 http://localhost:3142/debian sid/main arm64 libaec0 arm64 1.0.6-1+b1 [19.9 kB] Get:79 http://localhost:3142/debian sid/main arm64 libsz2 arm64 1.0.6-1+b1 [7740 B] Get:80 http://localhost:3142/debian sid/main arm64 libaec-dev arm64 1.0.6-1+b1 [18.7 kB] Get:81 http://localhost:3142/debian sid/main arm64 libasan8 arm64 13.1.0-8 [2406 kB] Get:82 http://localhost:3142/debian sid/main arm64 libatomic1 arm64 13.1.0-8 [10.2 kB] Get:83 http://localhost:3142/debian sid/main arm64 libgomp1 arm64 13.1.0-8 [114 kB] Get:84 http://localhost:3142/debian sid/main arm64 libitm1 arm64 13.1.0-8 [23.8 kB] Get:85 http://localhost:3142/debian sid/main arm64 liblsan0 arm64 13.1.0-8 [1069 kB] Get:86 http://localhost:3142/debian sid/main arm64 libtsan2 arm64 13.1.0-8 [2275 kB] Get:87 http://localhost:3142/debian sid/main arm64 libstdc++6 arm64 13.1.0-8 [621 kB] Get:88 http://localhost:3142/debian sid/main arm64 libubsan1 arm64 13.1.0-8 [980 kB] Get:89 http://localhost:3142/debian sid/main arm64 libhwasan0 arm64 13.1.0-8 [1120 kB] Get:90 http://localhost:3142/debian sid/main arm64 libgcc-12-dev arm64 12.3.0-6 [956 kB] Get:91 http://localhost:3142/debian sid/main arm64 linux-libc-dev arm64 6.3.11-1 [1765 kB] Get:92 http://localhost:3142/debian sid/main arm64 libcrypt1 arm64 1:4.4.35-1 [90.2 kB] Get:93 http://localhost:3142/debian sid/main arm64 libcrypt-dev arm64 1:4.4.35-1 [121 kB] Get:94 http://localhost:3142/debian sid/main arm64 libcom-err2 arm64 1.47.0-2 [19.6 kB] Get:95 http://localhost:3142/debian sid/main arm64 libkrb5support0 arm64 1.20.1-2 [31.6 kB] Get:96 http://localhost:3142/debian sid/main arm64 libk5crypto3 arm64 1.20.1-2 [78.9 kB] Get:97 http://localhost:3142/debian sid/main arm64 libkeyutils1 arm64 1.6.3-2 [8844 B] Get:98 http://localhost:3142/debian sid/main arm64 libssl3 arm64 3.0.9-1 [1800 kB] Get:99 http://localhost:3142/debian sid/main arm64 libkrb5-3 arm64 1.20.1-2 [313 kB] Get:100 http://localhost:3142/debian sid/main arm64 libgssapi-krb5-2 arm64 1.20.1-2 [124 kB] Get:101 http://localhost:3142/debian sid/main arm64 libtirpc3 arm64 1.3.3+ds-1 [80.9 kB] Get:102 http://localhost:3142/debian sid/main arm64 libnsl2 arm64 1.3.0-2 [36.9 kB] Get:103 http://localhost:3142/debian sid/main arm64 libtirpc-dev arm64 1.3.3+ds-1 [194 kB] Get:104 http://localhost:3142/debian sid/main arm64 libnsl-dev arm64 1.3.0-2 [66.1 kB] Get:105 http://localhost:3142/debian sid/main arm64 libc6-dev arm64 2.37-6 [1428 kB] Get:106 http://localhost:3142/debian sid/main arm64 libstdc++-12-dev arm64 12.3.0-6 [2021 kB] Get:107 http://localhost:3142/debian sid/main arm64 libboost1.74-dev arm64 1.74.0+ds1-21.2 [9509 kB] Get:108 http://localhost:3142/debian sid/main arm64 libboost-chrono1.74.0 arm64 1.74.0+ds1-21.2 [228 kB] Get:109 http://localhost:3142/debian sid/main arm64 libboost-chrono1.74-dev arm64 1.74.0+ds1-21.2 [235 kB] Get:110 http://localhost:3142/debian sid/main arm64 libboost-chrono-dev arm64 1.74.0.3 [4960 B] Get:111 http://localhost:3142/debian sid/main arm64 libboost-dev arm64 1.74.0.3 [4548 B] Get:112 http://localhost:3142/debian sid/main arm64 libicu72 arm64 72.1-3 [9204 kB] Get:113 http://localhost:3142/debian sid/main arm64 libboost-regex1.74.0 arm64 1.74.0+ds1-21.2 [447 kB] Get:114 http://localhost:3142/debian sid/main arm64 libicu-dev arm64 72.1-3 [10.2 MB] Get:115 http://localhost:3142/debian sid/main arm64 libboost-regex1.74-dev arm64 1.74.0+ds1-21.2 [521 kB] Get:116 http://localhost:3142/debian sid/main arm64 libbz2-1.0 arm64 1.0.8-5+b1 [47.5 kB] Get:117 http://localhost:3142/debian sid/main arm64 liblzma5 arm64 5.4.1-0.2 [199 kB] Get:118 http://localhost:3142/debian sid/main arm64 libzstd1 arm64 1.5.5+dfsg2-1 [255 kB] Get:119 http://localhost:3142/debian sid/main arm64 zlib1g arm64 1:1.2.13.dfsg-1 [82.7 kB] Get:120 http://localhost:3142/debian sid/main arm64 libboost-iostreams1.74.0 arm64 1.74.0+ds1-21.2 [238 kB] Get:121 http://localhost:3142/debian sid/main arm64 libboost-iostreams1.74-dev arm64 1.74.0+ds1-21.2 [247 kB] Get:122 http://localhost:3142/debian sid/main arm64 libboost-iostreams-dev arm64 1.74.0.3 [4316 B] Get:123 http://localhost:3142/debian sid/main arm64 libboost-program-options1.74.0 arm64 1.74.0+ds1-21.2 [314 kB] Get:124 http://localhost:3142/debian sid/main arm64 libboost-program-options1.74-dev arm64 1.74.0+ds1-21.2 [350 kB] Get:125 http://localhost:3142/debian sid/main arm64 libboost-program-options-dev arm64 1.74.0.3 [4340 B] Get:126 http://localhost:3142/debian sid/main arm64 libboost-regex-dev arm64 1.74.0.3 [4596 B] Get:127 http://localhost:3142/debian sid/main arm64 libboost-system1.74.0 arm64 1.74.0+ds1-21.2 [218 kB] Get:128 http://localhost:3142/debian sid/main arm64 libboost-system1.74-dev arm64 1.74.0+ds1-21.2 [219 kB] Get:129 http://localhost:3142/debian sid/main arm64 libboost-system-dev arm64 1.74.0.3 [4468 B] Get:130 http://localhost:3142/debian sid/main arm64 libboost-timer1.74.0 arm64 1.74.0+ds1-21.2 [226 kB] Get:131 http://localhost:3142/debian sid/main arm64 libboost-timer1.74-dev arm64 1.74.0+ds1-21.2 [230 kB] Get:132 http://localhost:3142/debian sid/main arm64 libboost-timer-dev arm64 1.74.0.3 [4456 B] Get:133 http://localhost:3142/debian sid/main arm64 libbz2-dev arm64 1.0.8-5+b1 [31.5 kB] Get:134 http://localhost:3142/debian sid/main arm64 libmbedcrypto7 arm64 2.28.3-1 [263 kB] Get:135 http://localhost:3142/debian sid/main arm64 libmbedx509-1 arm64 2.28.3-1 [127 kB] Get:136 http://localhost:3142/debian sid/main arm64 libmbedtls14 arm64 2.28.3-1 [156 kB] Get:137 http://localhost:3142/debian sid/main amd64 ncbi-vdb-data all 3.0.2+dfsg-2 [73.3 kB] Get:138 http://localhost:3142/debian sid/main arm64 libncbi-vdb3 arm64 3.0.2+dfsg-2 [977 kB] Get:139 http://localhost:3142/debian sid/main arm64 libncbi-wvdb3 arm64 3.0.2+dfsg-2 [1002 kB] Get:140 http://localhost:3142/debian sid/main arm64 libncbi-wvdb-dev arm64 3.0.2+dfsg-2 [1152 kB] Get:141 http://localhost:3142/debian sid/main arm64 libzstd-dev arm64 1.5.5+dfsg2-1 [322 kB] Get:142 http://localhost:3142/debian sid/main arm64 zlib1g-dev arm64 1:1.2.13.dfsg-1 [913 kB] Get:143 http://localhost:3142/debian sid/main arm64 libncbi-vdb-dev arm64 3.0.2+dfsg-2 [1428 kB] Get:144 http://localhost:3142/debian sid/main arm64 libngs-c++3 arm64 3.0.3+dfsg-6 [122 kB] Get:145 http://localhost:3142/debian sid/main arm64 libngs-c++-dev arm64 3.0.3+dfsg-6 [188 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 296 MB in 3s (91.3 MB/s) Selecting previously unselected package liblocale-gettext-perl. (Reading database ... 14611 files and directories currently installed.) Preparing to unpack .../000-liblocale-gettext-perl_1.07-5_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-5) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../001-sensible-utils_0.0.20_all.deb ... Unpacking sensible-utils (0.0.20) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../002-libmagic-mgc_1%3a5.44-3_amd64.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../003-libmagic1_1%3a5.44-3_amd64.deb ... Unpacking libmagic1:amd64 (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../004-file_1%3a5.44-3_amd64.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../005-gettext-base_0.21-13_amd64.deb ... Unpacking gettext-base (0.21-13) ... 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Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up debhelper (13.11.4) ... Setting up gcc-13-aarch64-linux-gnu (13.1.0-8cross1) ... Setting up libstdc++-13-dev-arm64-cross (13.1.0-8cross1) ... Setting up libxml-simple-perl (2.25-2) ... Setting up g++-13-aarch64-linux-gnu (13.1.0-8cross1) ... Setting up gcc-aarch64-linux-gnu (4:13.1.0-4) ... Setting up libconfig-auto-perl (0.44-2) ... Setting up g++-aarch64-linux-gnu (4:13.1.0-4) ... Setting up libdebian-dpkgcross-perl (2.6.20) ... Setting up dpkg-cross (2.6.20) ... Setting up crossbuild-essential-arm64 (12.10) ... Setting up libgcc-s1:arm64 (13.1.0-8) ... Setting up libc6:arm64 (2.37-6) ... Setting up libhwasan0:arm64 (13.1.0-8) ... Setting up libasan8:arm64 (13.1.0-8) ... Setting up libtsan2:arm64 (13.1.0-8) ... Setting up libbz2-1.0:arm64 (1.0.8-5+b1) ... Setting up libstdc++6:arm64 (13.1.0-8) ... Setting up liblsan0:arm64 (13.1.0-8) ... Setting up libitm1:arm64 (13.1.0-8) ... Setting up libboost-chrono1.74.0:arm64 (1.74.0+ds1-21.2) ... Setting up libzstd1:arm64 (1.5.5+dfsg2-1) ... Setting up libkeyutils1:arm64 (1.6.3-2) ... Setting up libicu72:arm64 (72.1-3) ... Setting up libzstd-dev:arm64 (1.5.5+dfsg2-1) ... Setting up liblzma5:arm64 (5.4.1-0.2) ... Setting up libboost-program-options1.74.0:arm64 (1.74.0+ds1-21.2) ... Setting up libssl3:arm64 (3.0.9-1) ... Setting up zlib1g:arm64 (1:1.2.13.dfsg-1) ... Setting up libcrypt1:arm64 (1:4.4.35-1) ... Setting up libcom-err2:arm64 (1.47.0-2) ... Setting up libgomp1:arm64 (13.1.0-8) ... Setting up libaec0:arm64 (1.0.6-1+b1) ... Setting up libkrb5support0:arm64 (1.20.1-2) ... Setting up libmbedcrypto7:arm64 (2.28.3-1) ... Setting up libboost-regex1.74.0:arm64 (1.74.0+ds1-21.2) ... Setting up libatomic1:arm64 (13.1.0-8) ... Setting up libk5crypto3:arm64 (1.20.1-2) ... Setting up libubsan1:arm64 (13.1.0-8) ... Setting up libngs-c++3:arm64 (3.0.3+dfsg-6) ... Setting up libcrypt-dev:arm64 (1:4.4.35-1) ... Setting up libkrb5-3:arm64 (1.20.1-2) ... Setting up libboost-timer1.74.0:arm64 (1.74.0+ds1-21.2) ... Setting up libsz2:arm64 (1.0.6-1+b1) ... Setting up libmbedx509-1:arm64 (2.28.3-1) ... Setting up libmbedtls14:arm64 (2.28.3-1) ... Setting up libboost-iostreams1.74.0:arm64 (1.74.0+ds1-21.2) ... Setting up libaec-dev:arm64 (1.0.6-1+b1) ... Setting up libncbi-vdb3:arm64 (3.0.2+dfsg-2) ... Setting up libngs-c++-dev:arm64 (3.0.3+dfsg-6) ... Setting up libgcc-12-dev:arm64 (12.3.0-6) ... Setting up libncbi-wvdb3:arm64 (3.0.2+dfsg-2) ... Setting up libgssapi-krb5-2:arm64 (1.20.1-2) ... Setting up libncbi-wvdb-dev:arm64 (3.0.2+dfsg-2) ... Setting up libtirpc3:arm64 (1.3.3+ds-1) ... Setting up libtirpc-dev:arm64 (1.3.3+ds-1) ... Setting up libnsl2:arm64 (1.3.0-2) ... Setting up libnsl-dev:arm64 (1.3.0-2) ... Setting up libc6-dev:arm64 (2.37-6) ... Setting up libicu-dev:arm64 (72.1-3) ... Setting up libbz2-dev:arm64 (1.0.8-5+b1) ... Setting up libstdc++-12-dev:arm64 (12.3.0-6) ... Setting up zlib1g-dev:arm64 (1:1.2.13.dfsg-1) ... Setting up libncbi-vdb-dev:arm64 (3.0.2+dfsg-2) ... Setting up libboost1.74-dev:arm64 (1.74.0+ds1-21.2) ... Setting up libboost-chrono1.74-dev:arm64 (1.74.0+ds1-21.2) ... Setting up libboost-program-options1.74-dev:arm64 (1.74.0+ds1-21.2) ... Setting up libboost-program-options-dev:arm64 (1.74.0.3) ... Setting up libboost-system1.74-dev:arm64 (1.74.0+ds1-21.2) ... Setting up libboost-timer1.74-dev:arm64 (1.74.0+ds1-21.2) ... Setting up libboost-regex1.74-dev:arm64 (1.74.0+ds1-21.2) ... Setting up libboost-dev:arm64 (1.74.0.3) ... Setting up libboost-regex-dev:arm64 (1.74.0.3) ... Setting up libboost-timer-dev:arm64 (1.74.0.3) ... Setting up libboost-chrono-dev:arm64 (1.74.0.3) ... Setting up libboost-system-dev:arm64 (1.74.0.3) ... Setting up libboost-iostreams1.74-dev:arm64 (1.74.0+ds1-21.2) ... Setting up libboost-iostreams-dev:arm64 (1.74.0.3) ... Setting up sbuild-build-depends-main-dummy:arm64 (0.invalid.0) ... Processing triggers for libc-bin (2.37-6) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (arm64 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 6.1.0-9-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.27-1 (2023-05-08) amd64 (x86_64) Toolchain package versions: binutils_2.40.90.20230714-2 dpkg-dev_1.21.22 g++-11_11.4.0-2 g++-13_13.1.0-8 gcc-11_11.4.0-2 gcc-13_13.1.0-8 libc6-dev_2.37-6 libstdc++-11-dev_11.4.0-2 libstdc++-12-dev_12.3.0-6 libstdc++-13-dev_13.1.0-8 libstdc++-13-dev-arm64-cross_13.1.0-8cross1 libstdc++6_13.1.0-8 libstdc++6-arm64-cross_13.1.0-8cross1 linux-libc-dev_6.3.11-1 Package versions: adduser_3.137 apt_2.7.2 autoconf_2.71-3 automake_1:1.16.5-1.3 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Ucko Homepage: https://github.com/ncbi/SKESA Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/skesa Vcs-Git: https://salsa.debian.org/med-team/skesa.git Build-Depends: debhelper-compat (= 13), libboost-dev, libboost-chrono-dev, libboost-iostreams-dev, libboost-program-options-dev, libboost-regex-dev, libboost-system-dev, libboost-timer-dev, libncbi-vdb-dev (>= 3), libngs-c++-dev Package-List: skesa deb science optional arch=any Checksums-Sha1: 5f77c432dbc512571a176f3f77fcc1c1cb691b30 138729 skesa_2.4.0.orig.tar.gz d0de656004183a22dbcc4902d7405e3e91016b49 16224 skesa_2.4.0-6.debian.tar.xz Checksums-Sha256: c07b56dfa394c013e519d5a246b7dee03db41d8ac912ab9ca02cf4d20bf13b15 138729 skesa_2.4.0.orig.tar.gz b3a4bd0102dda32f80096da3477a911dff1c680ee1f87610c7dd8e17f88ea3df 16224 skesa_2.4.0-6.debian.tar.xz Files: 0846b4a906285d34e7e45d08b37ba18f 138729 skesa_2.4.0.orig.tar.gz d199516007e792983d6d7a5f0d06805a 16224 skesa_2.4.0-6.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEfDq5z9IwvTDdAJxZHnCRsfFKZKIFAmPNgfQACgkQHnCRsfFK ZKJ1qw//bPq+nkuQlmlUEj4U88SuWEyH42Befykckye7yXpFyigku1Bg78rViOi1 tyUA9ONjvdtPj60Kz/Z6b7FewFrvtpAWP4WbAkmp/IiVil8YsPGKgrs2NleqUgmJ SYcdTR14UhTEZ5cNuMvkecMfFoDMLvs2WkWUSkjKIm3wVLb4PnYqKLCjzC9qv58R vVqV38+/8gHRvLlQfBnwBg5mPXI/tzUrOb4pj2Kxib+/aeM/DFWBk2oYKjBJ82VZ bkFzd2mx70c6e7XrhmScWjCq08/TexJXzKYvlSwLpi3v7cDMDMSIaukTS7huVDWB meD2X7Z6K4qMzR12tBgdVQGpvV/G74J1czMFPw3WUumvRIlxn1nmCXunAJPS+Eoj z9+O7FNBKqZ/RWeSkhVNxs6i0KHeu1X7OnGwDxvDyZDwjMymkOjvmox/lzBn0UW5 4dOVsvHh52Bh68LxM3oj+H+7CigimCzY4xFI5tOSmFHoboYPhwrgkn+sYe7qwnlQ L0EhoTFp8o9WR5ZR+P4UNYuP5l0eVokacgto/pgSdld4LHj3Oqtqc4BiEHq5YwFK xk6AriE/Ah6V+y5eF+EAU0jfdBVySVYqcZggkR9ur2tXd7ZzIiZzONrUA6ekrORL z7DzMN1mudMoh/+jrAkSHTFwYL2PNmbFepf0ryQ0T5OVd1asT4c= =u/Xz -----END PGP SIGNATURE----- gpgv: Signature made Sun Jan 22 18:35:32 2023 UTC gpgv: using RSA key 7C3AB9CFD230BD30DD009C591E7091B1F14A64A2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./skesa_2.4.0-6.dsc: no acceptable signature found dpkg-source: info: extracting skesa in /<> dpkg-source: info: unpacking skesa_2.4.0.orig.tar.gz dpkg-source: info: unpacking skesa_2.4.0-6.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use_debian_packaged_ngs-sdk.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying link_boost_dynamically.patch dpkg-source: info: applying no_sse4.2.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-403881a1-0ffc-4dd6-8af2-3110996e6fba 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 skesa dpkg-buildpackage: info: source version 2.4.0-6 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Aaron M. Ucko 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 dh_auto_clean make -j1 clean make[1]: Entering directory '/<>' rm -f skesa gfa_connector kmercounter *.o /<>/NGS/ngs.done make[1]: Leaving directory '/<>' dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a dh_auto_build -a make -j1 "INSTALL=install --strip-program=true" PKG_CONFIG=aarch64-linux-gnu-pkg-config CXX=aarch64-linux-gnu-g\+\+ CC=aarch64-linux-gnu-gcc make[1]: Entering directory '/<>' aarch64-linux-gnu-gcc -c -o skesa.o skesa.cpp -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-format-y2k -pthread -fPIC -O3 -finline-functions -fstrict-aliasing -fomit-frame-pointer -I /<>/NGS/ngs_out/include -I /<>/NGS/vdb_out/include In file included from DBGraph.hpp:33, from readsgetter.hpp:36, from skesa.cpp:29: concurrenthash.hpp:149:38: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 149 | class iterator : public std::iterator { | ^~~~~~~~ In file included from /usr/aarch64-linux-gnu/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/aarch64-linux-gnu/include/c++/13/string:47, from /usr/include/boost/program_options/errors.hpp:12, from /usr/include/boost/program_options/options_description.hpp:12, from /usr/include/boost/program_options.hpp:15, from skesa.cpp:27: /usr/aarch64-linux-gnu/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/aarch64-linux-gnu/include/c++/13/string:51: In static member function ‘static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = char; _Up = char; bool _IsMove = false]’, inlined from ‘_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = char*; _OI = char*]’ at /usr/aarch64-linux-gnu/include/c++/13/bits/stl_algobase.h:506:30, inlined from ‘_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = char*; _OI = char*]’ at /usr/aarch64-linux-gnu/include/c++/13/bits/stl_algobase.h:533:42, inlined from ‘_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = __gnu_cxx::__normal_iterator >; _OI = char*]’ at /usr/aarch64-linux-gnu/include/c++/13/bits/stl_algobase.h:540:31, inlined from ‘_OI std::copy(_II, _II, _OI) [with _II = __gnu_cxx::__normal_iterator >; _OI = char*]’ at /usr/aarch64-linux-gnu/include/c++/13/bits/stl_algobase.h:633:7, inlined from ‘static _ForwardIterator std::__uninitialized_copy::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = char*]’ at /usr/aarch64-linux-gnu/include/c++/13/bits/stl_uninitialized.h:147:27, inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = char*]’ at /usr/aarch64-linux-gnu/include/c++/13/bits/stl_uninitialized.h:185:15, inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = char*; _Tp = char]’ at /usr/aarch64-linux-gnu/include/c++/13/bits/stl_uninitialized.h:373:37, inlined from ‘void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = char; _Alloc = std::allocator]’ at /usr/aarch64-linux-gnu/include/c++/13/bits/vector.tcc:781:34: /usr/aarch64-linux-gnu/include/c++/13/bits/stl_algobase.h:437:30: warning: argument 1 null where non-null expected [-Wnonnull] 437 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/aarch64-linux-gnu/include/c++/13/bits/stl_algobase.h:437:30: note: in a call to built-in function ‘void* __builtin_memmove(void*, const void*, long unsigned int)’ In static member function ‘static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]’, inlined from ‘_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]’ at /usr/aarch64-linux-gnu/include/c++/13/bits/stl_algobase.h:506:30, inlined from ‘_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]’ at /usr/aarch64-linux-gnu/include/c++/13/bits/stl_algobase.h:533:42, inlined from ‘_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = __gnu_cxx::__normal_iterator >; _OI = char*]’ at /usr/aarch64-linux-gnu/include/c++/13/bits/stl_algobase.h:540:31, inlined from ‘_OI std::copy(_II, _II, _OI) [with _II = __gnu_cxx::__normal_iterator >; _OI = char*]’ at /usr/aarch64-linux-gnu/include/c++/13/bits/stl_algobase.h:633:7, inlined from ‘static _ForwardIterator std::__uninitialized_copy::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = char*]’ at /usr/aarch64-linux-gnu/include/c++/13/bits/stl_uninitialized.h:147:27, inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = char*]’ at /usr/aarch64-linux-gnu/include/c++/13/bits/stl_uninitialized.h:185:15, inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = char*; _Tp = char]’ at /usr/aarch64-linux-gnu/include/c++/13/bits/stl_uninitialized.h:373:37, inlined from ‘void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = char; _Alloc = std::allocator]’ at /usr/aarch64-linux-gnu/include/c++/13/bits/vector.tcc:781:34: /usr/aarch64-linux-gnu/include/c++/13/bits/stl_algobase.h:437:30: warning: argument 1 null where non-null expected [-Wnonnull] 437 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/aarch64-linux-gnu/include/c++/13/bits/stl_algobase.h:437:30: note: in a call to built-in function ‘void* __builtin_memmove(void*, const void*, long unsigned int)’ aarch64-linux-gnu-gcc -c -o glb_align.o glb_align.cpp -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-format-y2k -pthread -fPIC -O3 -finline-functions -fstrict-aliasing -fomit-frame-pointer -I /<>/NGS/ngs_out/include -I /<>/NGS/vdb_out/include glb_align.cpp: In function ‘DeBruijn::CCigar DeBruijn::GlbAlign(const char*, int, const char*, int, int, int, const char (*)[256])’: glb_align.cpp:399:13: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] 399 | mtrx[0] = 0; | ~~~~~~~~^~~ In constructor ‘DeBruijn::SRawMemory::SRawMemory(size_t, size_t)’, inlined from ‘DeBruijn::CCigar DeBruijn::GlbAlign(const char*, int, const char*, int, int, int, const char (*)[256])’ at glb_align.cpp:380:29: glb_align.cpp:355:39: note: destination object of size 0 allocated by ‘operator new []’ 355 | mtrx = new char[(na+1)*(nb+1)]; | ^ glb_align.cpp: In function ‘DeBruijn::CCigar DeBruijn::LclAlign(const char*, int, const char*, int, int, int, bool, bool, const char (*)[256])’: glb_align.cpp:556:13: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] 556 | mtrx[0] = 0; | ~~~~~~~~^~~ In constructor ‘DeBruijn::SRawMemory::SRawMemory(size_t, size_t)’, inlined from ‘DeBruijn::CCigar DeBruijn::LclAlign(const char*, int, const char*, int, int, int, bool, bool, const char (*)[256])’ at glb_align.cpp:545:29: glb_align.cpp:355:39: note: destination object of size 0 allocated by ‘operator new []’ 355 | mtrx = new char[(na+1)*(nb+1)]; | ^ aarch64-linux-gnu-gcc -o skesa skesa.o glb_align.o -lngs-c++ -lncbi-vdb -lzstd -lboost_program_options -lboost_iostreams -lboost_regex -lboost_timer -lboost_chrono -lboost_system -lrt -ldl -lm -lpthread -lz -Wl,-z,relro -Wl,-z,now /usr/lib/gcc-cross/aarch64-linux-gnu/13/../../../../aarch64-linux-gnu/bin/ld: skesa.o: undefined reference to symbol '_ZNSt15basic_streambufIcSt11char_traitsIcEE8overflowEi@@GLIBCXX_3.4' /usr/lib/gcc-cross/aarch64-linux-gnu/13/../../../../aarch64-linux-gnu/bin/ld: /lib/aarch64-linux-gnu/libstdc++.so.6: error adding symbols: DSO missing from command line collect2: error: ld returned 1 exit status make[1]: *** [Makefile:72: skesa] Error 1 make[1]: Leaving directory '/<>' dh_auto_build: error: make -j1 "INSTALL=install --strip-program=true" PKG_CONFIG=aarch64-linux-gnu-pkg-config CXX=aarch64-linux-gnu-g\+\+ CC=aarch64-linux-gnu-gcc returned exit code 2 make: *** [debian/rules:9: binary-arch] Error 25 dpkg-buildpackage: error: debian/rules binary-arch subprocess returned exit status 2 -------------------------------------------------------------------------------- Build finished at 2023-07-20T00:30:43Z Finished -------- +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use E: Build failure (dpkg-buildpackage died) +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any Build-Space: 106492 Build-Time: 148 Distribution: unstable Fail-Stage: build Foreign Architectures: arm64 Host Architecture: arm64 Install-Time: 20 Job: skesa_2.4.0-6 Machine Architecture: amd64 Package: skesa Package-Time: 182 Source-Version: 2.4.0-6 Space: 106492 Status: attempted Version: 2.4.0-6 -------------------------------------------------------------------------------- Finished at 2023-07-20T00:30:43Z Build needed 00:03:02, 106492k disk space