sbuild (Debian sbuild) 0.78.1 (09 February 2019) on gcc131.bak.milne.osuosl.org +==============================================================================+ | centrifuge 1.0.3-8 (armhf) Mon, 07 Dec 2020 04:24:15 +0000 | +==============================================================================+ Package: centrifuge Version: 1.0.3-8 Source Version: 1.0.3-8 Distribution: unstable Machine Architecture: amd64 Host Architecture: armhf Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/unstable-amd64-sbuild-9e96081f-5dc2-44ff-8300-c714faa0cce4' with '<>' I: NOTICE: Log filtering will replace 'build/centrifuge-dxDz6E/resolver-3Q33BV' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://debian.oregonstate.edu/debian unstable InRelease [153 kB] Get:2 http://debian.oregonstate.edu/debian unstable/main Sources.diff/Index [37.0 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 Packages.diff/Index [37.0 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main Sources 2020-12-06-0801.01.pdiff [10.1 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main Sources 2020-12-06-1400.19.pdiff [36.9 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main Sources 2020-12-06-2001.30.pdiff [33.5 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main Sources 2020-12-07-0202.36.pdiff [13.9 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-12-06-0801.01.pdiff [5555 B] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-12-06-1400.19.pdiff [36.6 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-12-06-2001.30.pdiff [64.5 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main Sources 2020-12-07-0202.36.pdiff [13.9 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-12-07-0202.36.pdiff [44.0 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-12-07-0202.36.pdiff [44.0 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main armhf Packages [8275 kB] Fetched 8746 kB in 2s (5520 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: binutils binutils-common binutils-x86-64-linux-gnu libbinutils libctf-nobfd0 libctf0 6 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 4525 kB of archives. After this operation, 0 B of additional disk space will be used. Get:1 http://debian.oregonstate.edu/debian unstable/main amd64 libctf0 amd64 2.35.1-4 [46.4 kB] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 libctf-nobfd0 amd64 2.35.1-4 [103 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-x86-64-linux-gnu amd64 2.35.1-4 [1623 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 libbinutils amd64 2.35.1-4 [475 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 binutils amd64 2.35.1-4 [60.3 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-common amd64 2.35.1-4 [2217 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 4525 kB in 0s (95.0 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10437 files and directories currently installed.) Preparing to unpack .../0-libctf0_2.35.1-4_amd64.deb ... Unpacking libctf0:amd64 (2.35.1-4) over (2.35.1-3) ... Preparing to unpack .../1-libctf-nobfd0_2.35.1-4_amd64.deb ... Unpacking libctf-nobfd0:amd64 (2.35.1-4) over (2.35.1-3) ... Preparing to unpack .../2-binutils-x86-64-linux-gnu_2.35.1-4_amd64.deb ... Unpacking binutils-x86-64-linux-gnu (2.35.1-4) over (2.35.1-3) ... Preparing to unpack .../3-libbinutils_2.35.1-4_amd64.deb ... Unpacking libbinutils:amd64 (2.35.1-4) over (2.35.1-3) ... Preparing to unpack .../4-binutils_2.35.1-4_amd64.deb ... Unpacking binutils (2.35.1-4) over (2.35.1-3) ... Preparing to unpack .../5-binutils-common_2.35.1-4_amd64.deb ... Unpacking binutils-common:amd64 (2.35.1-4) over (2.35.1-3) ... Setting up binutils-common:amd64 (2.35.1-4) ... Setting up libctf-nobfd0:amd64 (2.35.1-4) ... Setting up libbinutils:amd64 (2.35.1-4) ... Setting up libctf0:amd64 (2.35.1-4) ... Setting up binutils-x86-64-linux-gnu (2.35.1-4) ... Setting up binutils (2.35.1-4) ... Processing triggers for libc-bin (2.31-5) ... +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'centrifuge' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/centrifuge.git Please use: git clone https://salsa.debian.org/med-team/centrifuge.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 716 kB of source archives. Get:1 http://debian.oregonstate.edu/debian unstable/main centrifuge 1.0.3-8 (dsc) [2033 B] Get:2 http://debian.oregonstate.edu/debian unstable/main centrifuge 1.0.3-8 (tar) [701 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main centrifuge 1.0.3-8 (diff) [12.4 kB] Fetched 716 kB in 0s (13.0 MB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/centrifuge-dxDz6E/centrifuge-1.0.3' with '<>' I: NOTICE: Log filtering will replace 'build/centrifuge-dxDz6E' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), dh-python, dh-sequence-python3, jellyfish, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-armhf:amd64, libc-dev:armhf, libstdc++-dev:armhf Filtered Build-Depends: debhelper-compat (= 13), dh-python, dh-sequence-python3, jellyfish, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-armhf:amd64, libc-dev:armhf, libstdc++-dev:armhf 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 [427 B] Get:5 copy:/<>/apt_archive ./ Packages [519 B] Fetched 1903 B in 0s (81.9 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev binutils-arm-linux-gnueabihf bsdextrautils build-essential cpp-10-arm-linux-gnueabihf cpp-arm-linux-gnueabihf cross-config crossbuild-essential-armhf debhelper dh-autoreconf dh-python dh-strip-nondeterminism dpkg-cross dpkg-dev dwz file g++ g++-10 g++-10-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-10-arm-linux-gnueabihf gcc-10-arm-linux-gnueabihf-base gcc-10-base:armhf gcc-10-cross-base gcc-9-base:armhf gcc-arm-linux-gnueabihf gettext gettext-base groff-base intltool-debian jellyfish:armhf libarchive-zip-perl libasan5:armhf libasan6-armhf-cross libatomic1:armhf libatomic1-armhf-cross libbrotli1:armhf libbz2-1.0:armhf libc6:armhf libc6-armhf-cross libc6-dev libc6-dev:armhf libc6-dev-armhf-cross libcom-err2:armhf libconfig-auto-perl libconfig-inifiles-perl libcroco3 libcrypt-dev libcrypt-dev:armhf libcrypt1:armhf libcurl3-gnutls:armhf libdb5.3:armhf libdebhelper-perl libdebian-dpkgcross-perl libdeflate0:armhf libdpkg-perl libelf1 libexpat1 libffi7:armhf libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-10-dev-armhf-cross libgcc-9-dev:armhf libgcc-s1:armhf libgcc-s1-armhf-cross libgcrypt20:armhf libglib2.0-0 libgmp10:armhf libgnutls30:armhf libgomp1:armhf libgomp1-armhf-cross libgpg-error0:armhf libgssapi-krb5-2 libgssapi-krb5-2:armhf libhogweed6:armhf libhts3:armhf libicu67 libidn2-0:armhf libio-string-perl libjellyfish-2.0-2:armhf libk5crypto3 libk5crypto3:armhf libkeyutils1 libkeyutils1:armhf libkrb5-3 libkrb5-3:armhf libkrb5support0 libkrb5support0:armhf libldap-2.4-2:armhf liblocale-gettext-perl liblzma5:armhf libmagic-mgc libmagic1 libnettle8:armhf libnghttp2-14:armhf libnsl-dev libnsl-dev:armhf libnsl2 libnsl2:armhf libp11-kit0:armhf libperl5.32 libpipeline1 libpsl5:armhf libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib libreadline8 librtmp1:armhf libsasl2-2:armhf libsasl2-modules-db:armhf libsigsegv2 libsqlite3-0 libssh2-1:armhf libssl1.1 libssl1.1:armhf libstdc++-10-dev libstdc++-10-dev-armhf-cross libstdc++-9-dev:armhf libstdc++6:armhf libstdc++6-armhf-cross libsub-override-perl libtasn1-6:armhf libtirpc-common libtirpc-dev libtirpc-dev:armhf libtirpc3 libtirpc3:armhf libtool libubsan1:armhf libubsan1-armhf-cross libuchardet0 libunistring2:armhf libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev:armhf linux-libc-dev-armhf-cross m4 mailcap man-db media-types mime-support perl perl-modules-5.32 po-debconf python3 python3-distutils python3-lib2to3 python3-minimal python3.9 python3.9-minimal readline-common sensible-utils ucf zlib1g:armhf Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc gcc-10-locales cpp-doc dh-make binutils-multiarch debian-keyring g++-multilib g++-10-multilib gcc-10-doc manpages-dev flex bison gdb-arm-linux-gnueabihf gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff glibc-doc:armhf libc-l10n:armhf locales:armhf glibc-doc manpages-dev:armhf gnupg git bzr rng-tools:armhf gnutls-bin:armhf krb5-doc krb5-user krb5-doc:armhf krb5-user:armhf libstdc++-10-doc libstdc++-9-doc:armhf libtool-doc gfortran | fortran95-compiler gcj-jdk libyaml-shell-perl m4-doc apparmor less www-browser perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl libtap-harness-archive-perl libmail-box-perl python3-doc python3-tk python3-venv python3.9-venv python3.9-doc binfmt-support readline-doc Recommended packages: gnupg libalgorithm-merge-perl curl | wget | lynx libnss-nis:armhf libnss-nisplus:armhf ca-certificates:armhf libfile-fcntllock-perl libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libgpg-error-l10n:armhf krb5-locales krb5-locales:armhf libldap-common:armhf publicsuffix:armhf ca-certificates libsasl2-modules:armhf libltdl-dev libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl | libyaml-syck-perl netbase libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-arm-linux-gnueabihf bsdextrautils build-essential cpp-10-arm-linux-gnueabihf cpp-arm-linux-gnueabihf cross-config crossbuild-essential-armhf debhelper dh-autoreconf dh-python dh-strip-nondeterminism dpkg-cross dpkg-dev dwz file g++ g++-10 g++-10-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-10-arm-linux-gnueabihf gcc-10-arm-linux-gnueabihf-base gcc-10-base:armhf gcc-10-cross-base gcc-9-base:armhf gcc-arm-linux-gnueabihf gettext gettext-base groff-base intltool-debian jellyfish:armhf libarchive-zip-perl libasan5:armhf libasan6-armhf-cross libatomic1:armhf libatomic1-armhf-cross libbrotli1:armhf libbz2-1.0:armhf libc6:armhf libc6-armhf-cross libc6-dev libc6-dev:armhf libc6-dev-armhf-cross libcom-err2:armhf libconfig-auto-perl libconfig-inifiles-perl libcroco3 libcrypt-dev libcrypt-dev:armhf libcrypt1:armhf libcurl3-gnutls:armhf libdb5.3:armhf libdebhelper-perl libdebian-dpkgcross-perl libdeflate0:armhf libdpkg-perl libelf1 libexpat1 libffi7:armhf libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-10-dev-armhf-cross libgcc-9-dev:armhf libgcc-s1:armhf libgcc-s1-armhf-cross libgcrypt20:armhf libglib2.0-0 libgmp10:armhf libgnutls30:armhf libgomp1:armhf libgomp1-armhf-cross libgpg-error0:armhf libgssapi-krb5-2 libgssapi-krb5-2:armhf libhogweed6:armhf libhts3:armhf libicu67 libidn2-0:armhf libio-string-perl libjellyfish-2.0-2:armhf libk5crypto3 libk5crypto3:armhf libkeyutils1 libkeyutils1:armhf libkrb5-3 libkrb5-3:armhf libkrb5support0 libkrb5support0:armhf libldap-2.4-2:armhf liblocale-gettext-perl liblzma5:armhf libmagic-mgc libmagic1 libnettle8:armhf libnghttp2-14:armhf libnsl-dev libnsl-dev:armhf libnsl2 libnsl2:armhf libp11-kit0:armhf libperl5.32 libpipeline1 libpsl5:armhf libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib libreadline8 librtmp1:armhf libsasl2-2:armhf libsasl2-modules-db:armhf libsigsegv2 libsqlite3-0 libssh2-1:armhf libssl1.1 libssl1.1:armhf libstdc++-10-dev libstdc++-10-dev-armhf-cross libstdc++-9-dev:armhf libstdc++6:armhf libstdc++6-armhf-cross libsub-override-perl libtasn1-6:armhf libtirpc-common libtirpc-dev libtirpc-dev:armhf libtirpc3 libtirpc3:armhf libtool libubsan1:armhf libubsan1-armhf-cross libuchardet0 libunistring2:armhf libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev:armhf linux-libc-dev-armhf-cross m4 mailcap man-db media-types mime-support perl perl-modules-5.32 po-debconf python3 python3-distutils python3-lib2to3 python3-minimal python3.9 python3.9-minimal readline-common sbuild-build-depends-main-dummy:armhf sensible-utils ucf zlib1g:armhf 0 upgraded, 164 newly installed, 0 to remove and 0 not upgraded. Need to get 261 MB of archives. After this operation, 1098 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [944 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 bsdextrautils amd64 2.36.1-2 [140 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 groff-base amd64 1.22.4-5 [920 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 libpipeline1 amd64 1.5.3-1 [34.3 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 man-db amd64 2.9.3-2 [1314 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 perl-modules-5.32 all 5.32.0-5 [2821 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 libperl5.32 amd64 5.32.0-5 [4119 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 perl amd64 5.32.0-5 [293 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 liblocale-gettext-perl amd64 1.07-4+b1 [19.0 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 libssl1.1 amd64 1.1.1h-1 [1550 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 libpython3.9-minimal amd64 3.9.1~rc1-2 [799 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 libexpat1 amd64 2.2.10-1 [96.9 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 python3.9-minimal amd64 3.9.1~rc1-2 [1955 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 python3-minimal amd64 3.9.0-4 [37.8 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 media-types all 1.0.1 [18.2 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 mailcap all 3.67 [31.3 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 mime-support all 3.66 [10.9 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 libkrb5support0 amd64 1.18.3-4 [65.1 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 libk5crypto3 amd64 1.18.3-4 [113 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 libkeyutils1 amd64 1.6.1-2 [15.4 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 libkrb5-3 amd64 1.18.3-4 [362 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.18.3-4 [165 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 libtirpc-common all 1.2.6-3 [13.3 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 libtirpc3 amd64 1.2.6-3 [83.4 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 libnsl2 amd64 1.3.0-2 [39.5 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 readline-common all 8.1~rc3-1 [73.7 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 libreadline8 amd64 8.1~rc3-1 [168 kB] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 libsqlite3-0 amd64 3.34.0-1 [796 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 libpython3.9-stdlib amd64 3.9.1~rc1-2 [1751 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 python3.9 amd64 3.9.1~rc1-2 [460 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 libpython3-stdlib amd64 3.9.0-4 [21.0 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 python3 amd64 3.9.0-4 [64.1 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main armhf gcc-10-base armhf 10.2.0-23 [200 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main armhf gcc-9-base armhf 9.3.0-19 [198 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 sensible-utils all 0.0.12+nmu1 [16.0 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic-mgc amd64 1:5.39-3 [273 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic1 amd64 1:5.39-3 [126 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 file amd64 1:5.39-3 [69.1 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 gettext-base amd64 0.19.8.1-10 [123 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 ucf all 3.0043 [74.0 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 m4 amd64 1.4.18-4 [203 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 autoconf all 2.69-11.1 [341 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 automake all 1:1.16.3-1 [814 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 autopoint all 0.19.8.1-10 [435 kB] Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-arm-linux-gnueabihf amd64 2.35.1-4 [2778 kB] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 libcrypt-dev amd64 1:4.4.17-1 [104 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 libtirpc-dev amd64 1.2.6-3 [190 kB] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 libnsl-dev amd64 1.3.0-2 [66.4 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev amd64 2.31-5 [2342 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-10-dev amd64 10.2.0-23 [1741 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 g++-10 amd64 10.2.0-23 [44.7 MB] Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 g++ amd64 4:10.2.0-1 [1644 B] Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 libdpkg-perl all 1.20.5 [1473 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-dev all 1.20.5 [1909 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 build-essential amd64 12.8 [7640 B] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-10-arm-linux-gnueabihf-base amd64 10.2.0-19cross1 [200 kB] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-10-arm-linux-gnueabihf amd64 10.2.0-19cross1 [44.1 MB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-arm-linux-gnueabihf amd64 4:10.2.0-1 [16.8 kB] Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 cross-config all 2.6.15-3.1 [39.9 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-10-cross-base all 10.2.0-19cross1 [197 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-armhf-cross all 2.31-1cross2 [1115 kB] Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-s1-armhf-cross all 10.2.0-19cross1 [36.2 kB] Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 libgomp1-armhf-cross all 10.2.0-19cross1 [82.6 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 libatomic1-armhf-cross all 10.2.0-19cross1 [6680 B] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 libasan6-armhf-cross all 10.2.0-19cross1 [303 kB] Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++6-armhf-cross all 10.2.0-19cross1 [381 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 libubsan1-armhf-cross all 10.2.0-19cross1 [115 kB] Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-10-dev-armhf-cross all 10.2.0-19cross1 [695 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-10-arm-linux-gnueabihf amd64 10.2.0-19cross1 [50.3 MB] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-arm-linux-gnueabihf amd64 4:10.2.0-1 [1464 B] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 linux-libc-dev-armhf-cross all 5.7.6-1cross2 [1198 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev-armhf-cross all 2.31-1cross2 [1901 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-10-dev-armhf-cross all 10.2.0-19cross1 [1760 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 g++-10-arm-linux-gnueabihf amd64 10.2.0-19cross1 [47.1 MB] Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 g++-arm-linux-gnueabihf amd64 4:10.2.0-1 [1184 B] Get:79 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-inifiles-perl all 3.000003-1 [52.1 kB] Get:80 http://debian.oregonstate.edu/debian unstable/main amd64 libio-string-perl all 1.08-3 [12.3 kB] Get:81 http://debian.oregonstate.edu/debian unstable/main amd64 libicu67 amd64 67.1-4 [8624 kB] Get:82 http://debian.oregonstate.edu/debian unstable/main amd64 libxml2 amd64 2.9.10+dfsg-6.3 [693 kB] Get:83 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-namespacesupport-perl all 1.12-1 [14.8 kB] Get:84 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-base-perl all 1.09-1 [20.4 kB] Get:85 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-perl all 1.02+dfsg-1 [59.0 kB] Get:86 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-libxml-perl amd64 2.0134+dfsg-2+b1 [337 kB] Get:87 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:88 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-perl all 1.30-1 [67.7 kB] Get:89 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-auto-perl all 0.44-1 [19.5 kB] Get:90 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-which-perl all 1.23-1 [16.6 kB] Get:91 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-homedir-perl all 1.006-1 [43.8 kB] Get:92 http://debian.oregonstate.edu/debian unstable/main amd64 libdebian-dpkgcross-perl all 2.6.15-3.1 [38.9 kB] Get:93 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-cross all 2.6.15-3.1 [49.9 kB] Get:94 http://debian.oregonstate.edu/debian unstable/main amd64 crossbuild-essential-armhf all 12.8 [6644 B] Get:95 http://debian.oregonstate.edu/debian unstable/main amd64 libtool all 2.4.6-14 [513 kB] Get:96 http://debian.oregonstate.edu/debian unstable/main amd64 dh-autoreconf all 19 [16.9 kB] Get:97 http://debian.oregonstate.edu/debian unstable/main amd64 libdebhelper-perl all 13.3 [188 kB] Get:98 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:99 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get:100 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.9.0-1 [25.5 kB] Get:101 http://debian.oregonstate.edu/debian unstable/main amd64 dh-strip-nondeterminism all 1.9.0-1 [15.2 kB] Get:102 http://debian.oregonstate.edu/debian unstable/main amd64 libelf1 amd64 0.182-1 [166 kB] Get:103 http://debian.oregonstate.edu/debian unstable/main amd64 dwz amd64 0.13+20201015-2 [173 kB] Get:104 http://debian.oregonstate.edu/debian unstable/main amd64 libglib2.0-0 amd64 2.66.3-2 [1366 kB] Get:105 http://debian.oregonstate.edu/debian unstable/main amd64 libcroco3 amd64 0.6.13-1 [146 kB] Get:106 http://debian.oregonstate.edu/debian unstable/main amd64 gettext amd64 0.19.8.1-10 [1303 kB] Get:107 http://debian.oregonstate.edu/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get:108 http://debian.oregonstate.edu/debian unstable/main amd64 po-debconf all 1.0.21 [248 kB] Get:109 http://debian.oregonstate.edu/debian unstable/main amd64 debhelper all 13.3 [1009 kB] Get:110 http://debian.oregonstate.edu/debian unstable/main amd64 python3-lib2to3 all 3.8.6-1 [78.4 kB] Get:111 http://debian.oregonstate.edu/debian unstable/main amd64 python3-distutils all 3.8.6-1 [145 kB] Get:112 http://debian.oregonstate.edu/debian unstable/main amd64 dh-python all 4.20201102 [99.3 kB] Get:113 http://debian.oregonstate.edu/debian unstable/main armhf libgcc-s1 armhf 10.2.0-23 [36.2 kB] Get:114 http://debian.oregonstate.edu/debian unstable/main armhf libcrypt1 armhf 1:4.4.17-1 [94.9 kB] Get:115 http://debian.oregonstate.edu/debian unstable/main armhf libc6 armhf 2.31-5 [2329 kB] Get:116 http://debian.oregonstate.edu/debian unstable/main armhf libbz2-1.0 armhf 1.0.8-4 [44.6 kB] Get:117 http://debian.oregonstate.edu/debian unstable/main armhf libbrotli1 armhf 1.0.9-2+b1 [273 kB] Get:118 http://debian.oregonstate.edu/debian unstable/main armhf libgmp10 armhf 2:6.2.1+dfsg-1 [516 kB] Get:119 http://debian.oregonstate.edu/debian unstable/main armhf libnettle8 armhf 3.6-2 [256 kB] Get:120 http://debian.oregonstate.edu/debian unstable/main armhf libhogweed6 armhf 3.6-2 [302 kB] Get:121 http://debian.oregonstate.edu/debian unstable/main armhf libunistring2 armhf 0.9.10-4 [374 kB] Get:122 http://debian.oregonstate.edu/debian unstable/main armhf libidn2-0 armhf 2.3.0-4 [83.4 kB] Get:123 http://debian.oregonstate.edu/debian unstable/main armhf libffi7 armhf 3.3-5 [19.9 kB] Get:124 http://debian.oregonstate.edu/debian unstable/main armhf libp11-kit0 armhf 0.23.21-2 [312 kB] Get:125 http://debian.oregonstate.edu/debian unstable/main armhf libtasn1-6 armhf 4.16.0-2 [50.2 kB] Get:126 http://debian.oregonstate.edu/debian unstable/main armhf libgnutls30 armhf 3.6.15-4 [1131 kB] Get:127 http://debian.oregonstate.edu/debian unstable/main armhf libcom-err2 armhf 1.45.6-1 [70.9 kB] Get:128 http://debian.oregonstate.edu/debian unstable/main armhf libkrb5support0 armhf 1.18.3-4 [62.3 kB] Get:129 http://debian.oregonstate.edu/debian unstable/main armhf libk5crypto3 armhf 1.18.3-4 [110 kB] Get:130 http://debian.oregonstate.edu/debian unstable/main armhf libkeyutils1 armhf 1.6.1-2 [14.4 kB] Get:131 http://debian.oregonstate.edu/debian unstable/main armhf libssl1.1 armhf 1.1.1h-1 [1307 kB] Get:132 http://debian.oregonstate.edu/debian unstable/main armhf libkrb5-3 armhf 1.18.3-4 [319 kB] Get:133 http://debian.oregonstate.edu/debian unstable/main armhf libgssapi-krb5-2 armhf 1.18.3-4 [143 kB] Get:134 http://debian.oregonstate.edu/debian unstable/main armhf libdb5.3 armhf 5.3.28+dfsg1-0.6 [597 kB] Get:135 http://debian.oregonstate.edu/debian unstable/main armhf libsasl2-modules-db armhf 2.1.27+dfsg-2 [67.5 kB] Get:136 http://debian.oregonstate.edu/debian unstable/main armhf libsasl2-2 armhf 2.1.27+dfsg-2 [99.3 kB] Get:137 http://debian.oregonstate.edu/debian unstable/main armhf libldap-2.4-2 armhf 2.4.56+dfsg-1 [210 kB] Get:138 http://debian.oregonstate.edu/debian unstable/main armhf libnghttp2-14 armhf 1.42.0-1 [66.9 kB] Get:139 http://debian.oregonstate.edu/debian unstable/main armhf libpsl5 armhf 0.21.0-1.1 [54.0 kB] Get:140 http://debian.oregonstate.edu/debian unstable/main armhf zlib1g armhf 1:1.2.11.dfsg-2 [85.4 kB] Get:141 http://debian.oregonstate.edu/debian unstable/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [55.2 kB] Get:142 http://debian.oregonstate.edu/debian unstable/main armhf libgpg-error0 armhf 1.38-2 [69.0 kB] Get:143 http://debian.oregonstate.edu/debian unstable/main armhf libgcrypt20 armhf 1.8.7-2 [503 kB] Get:144 http://debian.oregonstate.edu/debian unstable/main armhf libssh2-1 armhf 1.8.0-2.1 [129 kB] Get:145 http://debian.oregonstate.edu/debian unstable/main armhf libcurl3-gnutls armhf 7.72.0-1 [301 kB] Get:146 http://debian.oregonstate.edu/debian unstable/main armhf libdeflate0 armhf 1.6-1 [46.5 kB] Get:147 http://debian.oregonstate.edu/debian unstable/main armhf liblzma5 armhf 5.2.4-1+b1 [145 kB] Get:148 http://debian.oregonstate.edu/debian unstable/main armhf libhts3 armhf 1.11-2 [326 kB] Get:149 http://debian.oregonstate.edu/debian unstable/main armhf libstdc++6 armhf 10.2.0-23 [421 kB] Get:150 http://debian.oregonstate.edu/debian unstable/main armhf libjellyfish-2.0-2 armhf 2.3.0-8 [56.9 kB] Get:151 http://debian.oregonstate.edu/debian unstable/main armhf jellyfish armhf 2.3.0-8 [681 kB] Get:152 http://debian.oregonstate.edu/debian unstable/main armhf libasan5 armhf 9.3.0-19 [370 kB] Get:153 http://debian.oregonstate.edu/debian unstable/main armhf libatomic1 armhf 10.2.0-23 [6924 B] Get:154 http://debian.oregonstate.edu/debian unstable/main armhf linux-libc-dev armhf 5.9.11-1 [1199 kB] Get:155 http://debian.oregonstate.edu/debian unstable/main armhf libcrypt-dev armhf 1:4.4.17-1 [113 kB] Get:156 http://debian.oregonstate.edu/debian unstable/main armhf libtirpc3 armhf 1.2.6-3 [72.1 kB] Get:157 http://debian.oregonstate.edu/debian unstable/main armhf libnsl2 armhf 1.3.0-2 [33.9 kB] Get:158 http://debian.oregonstate.edu/debian unstable/main armhf libtirpc-dev armhf 1.2.6-3 [182 kB] Get:159 http://debian.oregonstate.edu/debian unstable/main armhf libnsl-dev armhf 1.3.0-2 [62.1 kB] Get:160 http://debian.oregonstate.edu/debian unstable/main armhf libc6-dev armhf 2.31-5 [1873 kB] Get:161 http://debian.oregonstate.edu/debian unstable/main armhf libgomp1 armhf 10.2.0-23 [84.7 kB] Get:162 http://debian.oregonstate.edu/debian unstable/main armhf libubsan1 armhf 10.2.0-23 [746 kB] Get:163 http://debian.oregonstate.edu/debian unstable/main armhf libgcc-9-dev armhf 9.3.0-19 [660 kB] Get:164 http://debian.oregonstate.edu/debian unstable/main armhf libstdc++-9-dev armhf 9.3.0-19 [1761 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 261 MB in 3s (103 MB/s) Selecting previously unselected package bsdextrautils. (Reading database ... 10437 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-2_amd64.deb ... Unpacking bsdextrautils (2.36.1-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../01-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-5_amd64.deb ... Unpacking groff-base (1.22.4-5) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../03-libpipeline1_1.5.3-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.3-2_amd64.deb ... Unpacking man-db (2.9.3-2) ... Selecting previously unselected package perl-modules-5.32. Preparing to unpack .../05-perl-modules-5.32_5.32.0-5_all.deb ... Unpacking perl-modules-5.32 (5.32.0-5) ... 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Selecting previously unselected package python3.9-minimal. Preparing to unpack .../12-python3.9-minimal_3.9.1~rc1-2_amd64.deb ... Unpacking python3.9-minimal (3.9.1~rc1-2) ... Setting up libssl1.1:amd64 (1.1.1h-1) ... Setting up libpython3.9-minimal:amd64 (3.9.1~rc1-2) ... Setting up libexpat1:amd64 (2.2.10-1) ... Setting up python3.9-minimal (3.9.1~rc1-2) ... Selecting previously unselected package python3-minimal. (Reading database ... 13264 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.9.0-4_amd64.deb ... Unpacking python3-minimal (3.9.0-4) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_1.0.1_all.deb ... Unpacking media-types (1.0.1) ... Selecting previously unselected package mailcap. Preparing to unpack .../02-mailcap_3.67_all.deb ... Unpacking mailcap (3.67) ... Selecting previously unselected package mime-support. Preparing to unpack .../03-mime-support_3.66_all.deb ... Unpacking mime-support (3.66) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../04-libkrb5support0_1.18.3-4_amd64.deb ... Unpacking libkrb5support0:amd64 (1.18.3-4) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../05-libk5crypto3_1.18.3-4_amd64.deb ... Unpacking libk5crypto3:amd64 (1.18.3-4) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../06-libkeyutils1_1.6.1-2_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.1-2) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../07-libkrb5-3_1.18.3-4_amd64.deb ... Unpacking libkrb5-3:amd64 (1.18.3-4) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../08-libgssapi-krb5-2_1.18.3-4_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.18.3-4) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../09-libtirpc-common_1.2.6-3_all.deb ... Unpacking libtirpc-common (1.2.6-3) ... Selecting previously unselected package libtirpc3:amd64. Preparing to unpack .../10-libtirpc3_1.2.6-3_amd64.deb ... Unpacking libtirpc3:amd64 (1.2.6-3) ... Selecting previously unselected package libnsl2:amd64. Preparing to unpack .../11-libnsl2_1.3.0-2_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../12-readline-common_8.1~rc3-1_all.deb ... Unpacking readline-common (8.1~rc3-1) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../13-libreadline8_8.1~rc3-1_amd64.deb ... Unpacking libreadline8:amd64 (8.1~rc3-1) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../14-libsqlite3-0_3.34.0-1_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.34.0-1) ... Selecting previously unselected package libpython3.9-stdlib:amd64. Preparing to unpack .../15-libpython3.9-stdlib_3.9.1~rc1-2_amd64.deb ... Unpacking libpython3.9-stdlib:amd64 (3.9.1~rc1-2) ... Selecting previously unselected package python3.9. Preparing to unpack .../16-python3.9_3.9.1~rc1-2_amd64.deb ... Unpacking python3.9 (3.9.1~rc1-2) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../17-libpython3-stdlib_3.9.0-4_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.9.0-4) ... Setting up python3-minimal (3.9.0-4) ... Selecting previously unselected package python3. (Reading database ... 13762 files and directories currently installed.) Preparing to unpack .../000-python3_3.9.0-4_amd64.deb ... Unpacking python3 (3.9.0-4) ... Selecting previously unselected package gcc-10-base:armhf. Preparing to unpack .../001-gcc-10-base_10.2.0-23_armhf.deb ... Unpacking gcc-10-base:armhf (10.2.0-23) ... Selecting previously unselected package gcc-9-base:armhf. Preparing to unpack .../002-gcc-9-base_9.3.0-19_armhf.deb ... Unpacking gcc-9-base:armhf (9.3.0-19) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../003-sensible-utils_0.0.12+nmu1_all.deb ... Unpacking sensible-utils (0.0.12+nmu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../004-libmagic-mgc_1%3a5.39-3_amd64.deb ... Unpacking libmagic-mgc (1:5.39-3) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../005-libmagic1_1%3a5.39-3_amd64.deb ... Unpacking libmagic1:amd64 (1:5.39-3) ... Selecting previously unselected package file. Preparing to unpack .../006-file_1%3a5.39-3_amd64.deb ... Unpacking file (1:5.39-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../007-gettext-base_0.19.8.1-10_amd64.deb ... Unpacking gettext-base (0.19.8.1-10) ... Selecting previously unselected package ucf. Preparing to unpack .../008-ucf_3.0043_all.deb ... Moving old data out of the way Unpacking ucf (3.0043) ... Selecting previously unselected package libsigsegv2:amd64. 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Preparing to unpack .../123-libtirpc3_1.2.6-3_armhf.deb ... Unpacking libtirpc3:armhf (1.2.6-3) ... Selecting previously unselected package libnsl2:armhf. Preparing to unpack .../124-libnsl2_1.3.0-2_armhf.deb ... Unpacking libnsl2:armhf (1.3.0-2) ... Selecting previously unselected package libtirpc-dev:armhf. Preparing to unpack .../125-libtirpc-dev_1.2.6-3_armhf.deb ... Unpacking libtirpc-dev:armhf (1.2.6-3) ... Selecting previously unselected package libnsl-dev:armhf. Preparing to unpack .../126-libnsl-dev_1.3.0-2_armhf.deb ... Unpacking libnsl-dev:armhf (1.3.0-2) ... Selecting previously unselected package libc6-dev:armhf. Preparing to unpack .../127-libc6-dev_2.31-5_armhf.deb ... Unpacking libc6-dev:armhf (2.31-5) ... Selecting previously unselected package libgomp1:armhf. Preparing to unpack .../128-libgomp1_10.2.0-23_armhf.deb ... Unpacking libgomp1:armhf (10.2.0-23) ... Selecting previously unselected package libubsan1:armhf. 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Setting up bsdextrautils (2.36.1-2) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:amd64 (67.1-4) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libglib2.0-0:amd64 (2.66.3-2) ... No schema files found: doing nothing. Setting up libtirpc-common (1.2.6-3) ... Setting up perl-modules-5.32 (5.32.0-5) ... Setting up libsqlite3-0:amd64 (3.34.0-1) ... Setting up libmagic1:amd64 (1:5.39-3) ... Setting up linux-libc-dev:armhf (5.9.11-1) ... Setting up gettext-base (0.19.8.1-10) ... Setting up file (1:5.39-3) ... Setting up libkrb5support0:amd64 (1.18.3-4) ... Setting up gcc-10-base:armhf (10.2.0-23) ... Setting up autotools-dev (20180224.1) ... Setting up cross-config (2.6.15-3.1) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up linux-libc-dev-armhf-cross (5.7.6-1cross2) ... Setting up autopoint (0.19.8.1-10) ... Setting up libk5crypto3:amd64 (1.18.3-4) ... Setting up libperl5.32:amd64 (5.32.0-5) ... Setting up gcc-10-cross-base (10.2.0-19cross1) ... Setting up sensible-utils (0.0.12+nmu1) ... Setting up libcrypt-dev:amd64 (1:4.4.17-1) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libkrb5-3:amd64 (1.18.3-4) ... Setting up binutils-arm-linux-gnueabihf (2.35.1-4) ... Setting up libelf1:amd64 (0.182-1) ... Setting up readline-common (8.1~rc3-1) ... Setting up libxml2:amd64 (2.9.10+dfsg-6.3) ... Setting up liblocale-gettext-perl (1.07-4+b1) ... Setting up gcc-10-arm-linux-gnueabihf-base:amd64 (10.2.0-19cross1) ... Setting up gcc-9-base:armhf (9.3.0-19) ... Setting up libgomp1-armhf-cross (10.2.0-19cross1) ... Setting up libgcc-s1-armhf-cross (10.2.0-19cross1) ... Setting up libreadline8:amd64 (8.1~rc3-1) ... Setting up libc6-dev-armhf-cross (2.31-1cross2) ... Setting up m4 (1.4.18-4) ... Setting up libatomic1-armhf-cross (10.2.0-19cross1) ... Setting up perl (5.32.0-5) ... Setting up libstdc++6-armhf-cross (10.2.0-19cross1) ... Setting up libasan6-armhf-cross (10.2.0-19cross1) ... Setting up libgssapi-krb5-2:amd64 (1.18.3-4) ... Setting up libcroco3:amd64 (0.6.13-1) ... Setting up cpp-10-arm-linux-gnueabihf (10.2.0-19cross1) ... Setting up libubsan1-armhf-cross (10.2.0-19cross1) ... Setting up ucf (3.0043) ... Setting up libdpkg-perl (1.20.5) ... Setting up autoconf (2.69-11.1) ... Setting up dwz (0.13+20201015-2) ... Setting up groff-base (1.22.4-5) ... Setting up libsub-override-perl (0.09-2) ... Setting up libgcc-10-dev-armhf-cross (10.2.0-19cross1) ... Setting up mailcap (3.67) ... Setting up cpp-arm-linux-gnueabihf (4:10.2.0-1) ... Setting up automake (1:1.16.3-1) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libtirpc3:amd64 (1.2.6-3) ... Setting up libfile-which-perl (1.23-1) ... Setting up gettext (0.19.8.1-10) ... Setting up mime-support (3.66) ... Setting up gcc-10-arm-linux-gnueabihf (10.2.0-19cross1) ... Setting up libstdc++-10-dev-armhf-cross (10.2.0-19cross1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.3) ... Setting up libxml-namespacesupport-perl (1.12-1) ... Setting up man-db (2.9.3-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libyaml-perl (1.30-1) ... Setting up dpkg-dev (1.20.5) ... Setting up g++-10-arm-linux-gnueabihf (10.2.0-19cross1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libxml-sax-base-perl (1.09-1) ... Setting up libio-string-perl (1.08-3) ... Setting up libtirpc-dev:amd64 (1.2.6-3) ... Setting up libnsl2:amd64 (1.3.0-2) ... Setting up libfile-homedir-perl (1.006-1) ... Setting up libpython3.9-stdlib:amd64 (3.9.1~rc1-2) ... Setting up libpython3-stdlib:amd64 (3.9.0-4) ... Setting up gcc-arm-linux-gnueabihf (4:10.2.0-1) ... Setting up libfile-stripnondeterminism-perl (1.9.0-1) ... Setting up g++-arm-linux-gnueabihf (4:10.2.0-1) ... Setting up po-debconf (1.0.21) ... Setting up libxml-sax-perl (1.02+dfsg-1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libxml-libxml-perl (2.0134+dfsg-2+b1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up dh-strip-nondeterminism (1.9.0-1) ... Setting up libnsl-dev:amd64 (1.3.0-2) ... Setting up libc6-dev:amd64 (2.31-5) ... Setting up python3.9 (3.9.1~rc1-2) ... Setting up libstdc++-10-dev:amd64 (10.2.0-23) ... Setting up g++-10 (10.2.0-23) ... Setting up libtool (2.4.6-14) ... Setting up python3 (3.9.0-4) ... Setting up libxml-simple-perl (2.25-1) ... Setting up g++ (4:10.2.0-1) ... update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode Setting up build-essential (12.8) ... Setting up python3-lib2to3 (3.8.6-1) ... Setting up python3-distutils (3.8.6-1) ... Setting up dh-python (4.20201102) ... Setting up libconfig-auto-perl (0.44-1) ... Setting up libdebian-dpkgcross-perl (2.6.15-3.1) ... Setting up dpkg-cross (2.6.15-3.1) ... Setting up crossbuild-essential-armhf (12.8) ... Setting up libcrypt1:armhf (1:4.4.17-1) ... Setting up libgcc-s1:armhf (10.2.0-23) ... Setting up dh-autoreconf (19) ... Setting up libc6:armhf (2.31-5) ... Setting up libcrypt-dev:armhf (1:4.4.17-1) ... Setting up libtasn1-6:armhf (4.16.0-2) ... Setting up libbz2-1.0:armhf (1.0.8-4) ... Setting up libdb5.3:armhf (5.3.28+dfsg1-0.6) ... Setting up libstdc++6:armhf (10.2.0-23) ... Setting up libkeyutils1:armhf (1.6.1-2) ... Setting up liblzma5:armhf (5.2.4-1+b1) ... Setting up libgpg-error0:armhf (1.38-2) ... Setting up libssl1.1:armhf (1.1.1h-1) ... Setting up libbrotli1:armhf (1.0.9-2+b1) ... Setting up libffi7:armhf (3.3-5) ... Setting up libnghttp2-14:armhf (1.42.0-1) ... Setting up libunistring2:armhf (0.9.10-4) ... Setting up libdeflate0:armhf (1.6-1) ... Setting up libgcrypt20:armhf (1.8.7-2) ... Setting up debhelper (13.3) ... Setting up zlib1g:armhf (1:1.2.11.dfsg-2) ... Setting up libidn2-0:armhf (2.3.0-4) ... Setting up libcom-err2:armhf (1.45.6-1) ... Setting up libgomp1:armhf (10.2.0-23) ... Setting up libkrb5support0:armhf (1.18.3-4) ... Setting up libsasl2-modules-db:armhf (2.1.27+dfsg-2) ... Setting up libjellyfish-2.0-2:armhf (2.3.0-8) ... Setting up libasan5:armhf (9.3.0-19) ... Setting up libnettle8:armhf (3.6-2) ... Setting up libgmp10:armhf (2:6.2.1+dfsg-1) ... Setting up libp11-kit0:armhf (0.23.21-2) ... Setting up libatomic1:armhf (10.2.0-23) ... Setting up libk5crypto3:armhf (1.18.3-4) ... Setting up libsasl2-2:armhf (2.1.27+dfsg-2) ... Setting up libubsan1:armhf (10.2.0-23) ... Setting up libssh2-1:armhf (1.8.0-2.1) ... Setting up libkrb5-3:armhf (1.18.3-4) ... Setting up libpsl5:armhf (0.21.0-1.1) ... Setting up libhogweed6:armhf (3.6-2) ... Setting up libgcc-9-dev:armhf (9.3.0-19) ... Setting up libgnutls30:armhf (3.6.15-4) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libgssapi-krb5-2:armhf (1.18.3-4) ... Setting up libtirpc3:armhf (1.2.6-3) ... Setting up libldap-2.4-2:armhf (2.4.56+dfsg-1) ... Setting up libcurl3-gnutls:armhf (7.72.0-1) ... Setting up libtirpc-dev:armhf (1.2.6-3) ... Setting up libnsl2:armhf (1.3.0-2) ... Setting up libhts3:armhf (1.11-2) ... Setting up jellyfish:armhf (2.3.0-8) ... Setting up libnsl-dev:armhf (1.3.0-2) ... Setting up libc6-dev:armhf (2.31-5) ... Setting up libstdc++-9-dev:armhf (9.3.0-19) ... Setting up sbuild-build-depends-main-dummy:armhf (0.invalid.0) ... Processing triggers for libc-bin (2.31-5) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (armhf included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.19.0-12-amd64 #1 SMP Debian 4.19.152-1 (2020-10-18) amd64 (x86_64) Toolchain package versions: binutils_2.35.1-4 dpkg-dev_1.20.5 g++-10_10.2.0-23 gcc-10_10.2.0-23 libc6-dev_2.31-5 libstdc++-10-dev_10.2.0-23 libstdc++-10-dev-armhf-cross_10.2.0-19cross1 libstdc++-9-dev_9.3.0-19 libstdc++6_10.2.0-23 libstdc++6-armhf-cross_10.2.0-19cross1 linux-libc-dev_5.9.11-1 Package versions: adduser_3.118 apt_2.1.12 autoconf_2.69-11.1 automake_1:1.16.3-1 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11 base-passwd_3.5.48 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gcc-10-arm-linux-gnueabihf-base_10.2.0-19cross1 gcc-10-base_10.2.0-23 gcc-10-cross-base_10.2.0-19cross1 gcc-8-base_8.4.0-5 gcc-9-base_9.3.0-19 gcc-arm-linux-gnueabihf_4:10.2.0-1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gpgv_2.2.20-1 grep_3.6-1 groff-base_1.22.4-5 gzip_1.10-2 hostname_3.23 init-system-helpers_1.59 intltool-debian_0.35.0+20060710.5 jellyfish_2.3.0-8 libacl1_2.2.53-8 libapt-pkg5.0_1.8.4 libapt-pkg6.0_2.1.12 libarchive-zip-perl_1.68-1 libasan5_9.3.0-19 libasan6_10.2.0-23 libasan6-armhf-cross_10.2.0-19cross1 libatomic1_10.2.0-23 libatomic1-armhf-cross_10.2.0-19cross1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3.1 libaudit1_1:2.8.5-3.1 libbinutils_2.35.1-4 libblkid1_2.36.1-2 libbrotli1_1.0.9-2+b1 libbz2-1.0_1.0.8-4 libc-bin_2.31-5 libc-dev-bin_2.31-5 libc6_2.31-5 libc6-armhf-cross_2.31-1cross2 libc6-dev_2.31-5 libc6-dev-armhf-cross_2.31-1cross2 libcap-ng0_0.7.9-2.2+b1 libcc1-0_10.2.0-23 libcom-err2_1.45.6-1 libconfig-auto-perl_0.44-1 libconfig-inifiles-perl_3.000003-1 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linux-libc-dev-armhf-cross_5.7.6-1cross2 login_1:4.8.1-1 logsave_1.45.6-1 lsb-base_11.1.0 m4_1.4.18-4 mailcap_3.67 make_4.3-4 man-db_2.9.3-2 mawk_1.3.4.20200120-2 media-types_1.0.1 mime-support_3.66 mount_2.36.1-2 ncurses-base_6.2+20201114-1 ncurses-bin_6.2+20201114-1 passwd_1:4.8.1-1 patch_2.7.6-6 perl_5.32.0-5 perl-base_5.32.0-5 perl-modules-5.28_5.28.1-6 perl-modules-5.32_5.32.0-5 po-debconf_1.0.21 python3_3.9.0-4 python3-distutils_3.8.6-1 python3-lib2to3_3.8.6-1 python3-minimal_3.9.0-4 python3.9_3.9.1~rc1-2 python3.9-minimal_3.9.1~rc1-2 readline-common_8.1~rc3-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 sysvinit-utils_2.96-5 tar_1.32+dfsg-1 tzdata_2020d-1 ucf_3.0043 util-linux_2.36.1-2 xz-utils_5.2.4-1+b1 zlib1g_1:1.2.11.dfsg-2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: centrifuge Binary: centrifuge Architecture: any Version: 1.0.3-8 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://ccb.jhu.edu/software/centrifuge/ Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/centrifuge Vcs-Git: https://salsa.debian.org/med-team/centrifuge.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), dh-python, dh-sequence-python3, jellyfish Package-List: centrifuge deb science optional arch=any Checksums-Sha1: c31fc38298b74f5b81f1d3704f7c4311231d6bc0 701273 centrifuge_1.0.3.orig.tar.gz 3949da2c8f50a228eafc15d1dee2983907f708e3 12412 centrifuge_1.0.3-8.debian.tar.xz Checksums-Sha256: 71340f5c0c20dd4f7c4d98ea87f9edcbb1443fff8434e816a5465cbebaca9343 701273 centrifuge_1.0.3.orig.tar.gz 49fd44017d67d746ca8536b6c53b7151ede7edfcbde42238bf0261086d2991e9 12412 centrifuge_1.0.3-8.debian.tar.xz Files: 4ab20730ae43f26a98b754d83213e10c 701273 centrifuge_1.0.3.orig.tar.gz 64aec03e9a602fe1346f905b4b9b9012 12412 centrifuge_1.0.3-8.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl+pdewRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHjqw//S3kJbrDgzQ3Vu7VUrXhQy0gQW41Gsah6 MvmXljTnvzlxckGMw2hM0d59eGxoISZBdusFZ28fISxOy6lTgnITPt7f8zWky3t2 SrbZmpdszTIlLce+gYGdoKdx5C596yRXBsxJoAL6cJzf8ulDlTz/AGRQQKRC8bBN HHR3mTJ5ajUFwdfolPyse+LVPtEaEPapWI1Atl7q/1GkTPWiDmBklZwF0X2Byzvj Yl+t5uLbT3ZSzItvD0Hli5upfo1sKIjRcit0NRs0qOkMrET+lbDdc1aCzJlGFSH0 +ORr4xGMoFd9omQaM17wH1A75h+YxFLnv5MtFZJdUgMEbYLQ83u8ZIUVmw2fkqOh XBX1sBB7mt8cjl3QyCl0SWismCLBHJ8lGDZgd/s9A/ZFV6xtUlAjUBgiMcnTD9XR SfttDLygNegYpGcCdOEVTTPsjlqDT9MEWhCGotiL3jNCyuQWJ4eom79E6sxzkLO1 bFSpc7aCC2SHDzA+RwY9u922X6xzMeegk9eTdjKM6kr91UKBOH1LH97nqF+RKL4O Zbm/p+AtYP4m5dj4m1uBkLXUZuOD6h2D3K8Wuy9VT55UgDFzqHcqawz+nJSKLoiq dL0gnljsJtPLCmk7Oo8TTl9XhBsXB12lt5QegTA7ET8yI3W+IIcEQmd46M2l+2kF /vIxzx2atFs= =CmPY -----END PGP SIGNATURE----- gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.NknmNEBh/trustedkeys.kbx': General error gpgv: Signature made Mon Nov 9 17:01:32 2020 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./centrifuge_1.0.3-8.dsc dpkg-source: info: extracting centrifuge in /<> dpkg-source: info: unpacking centrifuge_1.0.3.orig.tar.gz dpkg-source: info: unpacking centrifuge_1.0.3-8.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fix_auto_ptr_usage_in_gcc-7.patch dpkg-source: info: applying 0002-Fix-build-with-rank.patch dpkg-source: info: applying 0003-Fix-make-install-DESTDIR.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying no_msse2.patch dpkg-source: info: applying 2to3.patch dpkg-source: info: applying fix_arm_build.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.armhf DEB_BUILD_OPTIONS=nocheck HOME=/sbuild-nonexistent LANG=en_US.UTF-8 LC_ALL=C.UTF-8 LOGNAME=helmut PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=unstable-amd64-sbuild SCHROOT_CHROOT_NAME=unstable-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1003 SCHROOT_GROUP=helmut SCHROOT_SESSION_ID=unstable-amd64-sbuild-9e96081f-5dc2-44ff-8300-c714faa0cce4 SCHROOT_UID=1003 SCHROOT_USER=helmut SHELL=/bin/sh USER=helmut dpkg-buildpackage ----------------- Command: dpkg-buildpackage -aarmhf -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package centrifuge dpkg-buildpackage: info: source version 1.0.3-8 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-architecture: warning: specified GNU system type arm-linux-gnueabihf 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 armhf debian/rules clean dh clean --with python3 dh_auto_clean make -j1 clean make[1]: Entering directory '/<>' rm -f centrifuge-build-bin centrifuge-class centrifuge-inspect-bin centrifuge-build-bin-debug centrifuge-class-debug centrifuge-inspect-bin-debug \ centrifuge-build-bin.exe centrifuge-class.exe centrifuge-inspect-bin.exe centrifuge-build-bin-debug.exe centrifuge-class-debug.exe centrifuge-inspect-bin-debug.exe \ centrifuge-src.zip centrifuge-bin.zip rm -f core.* .tmp.head rm -rf *.dSYM make[1]: Leaving directory '/<>' dh_clean debian/rules binary-arch dh binary-arch --with python3 dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a debian/rules override_dh_auto_build make[1]: Entering directory '/<>' dh_auto_build -- BITS=32 BITS_FLAG= make -j1 "INSTALL=install --strip-program=true" PKG_CONFIG=arm-linux-gnueabihf-pkg-config CXX=arm-linux-gnueabihf-g\+\+ CC=arm-linux-gnueabihf-gcc BITS=32 BITS_FLAG= make[2]: Entering directory '/<>' arm-linux-gnueabihf-g++ -O3 -funroll-loops -g3 -DCOMPILER_OPTIONS="\"-O3 -funroll-loops -g3 \"" \ -fno-strict-aliasing -DCENTRIFUGE_VERSION="\"1.0.3-beta\"" -DBUILD_HOST="\"`hostname`\"" -DBUILD_TIME="\"`date`\"" -DCOMPILER_VERSION="\"`arm-linux-gnueabihf-g++ -v 2>&1 | tail -1`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DBOWTIE_MM -Wl,-z,relro -Wl,-z,now -DCENTRIFUGE -DBOWTIE2 -DBOWTIE_64BIT_INDEX -DNDEBUG -Wall \ \ -o centrifuge-build-bin centrifuge_build.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp bt2_idx.cpp reference.cpp ds.cpp limit.cpp random_source.cpp tinythread.cpp diff_sample.cpp centrifuge_build_main.cpp \ -lpthread In file included from blockwise_sa.h:29, from bt2_idx.h:44, from centrifuge_build.cpp:27: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:175:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~ diff_sample.h:175:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~~~~ diff_sample.h:176:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~ diff_sample.h:176:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~~~~ In file included from bt2_idx.h:44, from centrifuge_build.cpp:27: blockwise_sa.h: In function ‘void mkeyQSortSuf(const T&, TIndexOffU*, size_t, int, bool, bool, size_t) [with T = S2bDnaString; TIndexOffU = long long unsigned int; size_t = unsigned int]’: blockwise_sa.h:491:52: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 491 | this->verbose(), this->sanityCheck()); | ^ blockwise_sa.h: In member function ‘void KarkkainenBlockwiseSA::qsort(EList&) [with TStr = S2bDnaString]’: blockwise_sa.h:491:52: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] In file included from ds.h:32, from sequence_io.h:28, from multikey_qsort.h:24, from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from centrifuge_build.cpp:27: multikey_qsort.h: In instantiation of ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’: blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:764:63: note: in expansion of macro ‘OFF_MASK’ 764 | if(sanityCheck) sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK); | ^~~~~~~~ In file included from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from centrifuge_build.cpp:27: multikey_qsort.h:764:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 764 | if(sanityCheck) sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ multikey_qsort.h:764:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] multikey_qsort.h: In instantiation of ‘void mkeyQSortSuf(const T&, TIndexOffU*, size_t, int, bool, bool, size_t) [with T = S2bDnaString; TIndexOffU = long long unsigned int; size_t = unsigned int]’: blockwise_sa.h:491:52: required from here multikey_qsort.h:496:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 496 | if(sanityCheck) sanityCheckOrderedSufs(host, hlen, s, slen, upto); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ds.h:32, from sequence_io.h:28, from multikey_qsort.h:24, from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from centrifuge_build.cpp:27: multikey_qsort.h: In instantiation of ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’: multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1155:49: note: in expansion of macro ‘OFF_MASK’ 1155 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1164:49: note: in expansion of macro ‘OFF_MASK’ 1164 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ multikey_qsort.h: In instantiation of ‘void bucketSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’: multikey_qsort.h:1161:20: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1066:40: note: in expansion of macro ‘OFF_MASK’ 1066 | OFF_MASK, begin, end); | ^~~~~~~~ multikey_qsort.h: In instantiation of ‘void selectionSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’: multikey_qsort.h:1062:33: required from ‘void bucketSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’ multikey_qsort.h:1161:20: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:914:10: note: in expansion of macro ‘OFF_MASK’ 914 | off = OFF_MASK; | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:923:29: note: in expansion of macro ‘OFF_MASK’ 923 | OFF_MASK, begin, end); | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1007:48: note: in expansion of macro ‘OFF_MASK’ 1007 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ In file included from centrifuge_build.cpp:27: bt2_idx.h: In instantiation of ‘void Ebwt::buildToDisk(InorderBlockwiseSA&, const TStr&, std::ostream&, std::ostream&, std::ostream*, std::ostream*, const EList&, int) [with TStr = SString; index_t = long long unsigned int; std::ostream = std::basic_ostream]’: bt2_idx.h:1492:16: required from ‘void Ebwt::initFromVector(TStr&, EList&, EList&, index_t, const RefReadInParams&, std::ofstream&, std::ofstream&, std::ofstream*, std::ofstream*, int, const string&, const string&, const string&, const string&, const string&, bool, index_t, index_t, index_t, int, int, uint32_t, bool) [with TStr = SString; index_t = long long unsigned int; std::ofstream = std::basic_ofstream; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ bt2_idx.h:881:23: required from ‘Ebwt::Ebwt(TStr&, bool, int, int, int32_t, int32_t, int32_t, const string&, bool, bool, index_t, index_t, index_t, int, int, EList&, EList&, index_t, const string&, const string&, const string&, const string&, const RefReadInParams&, uint32_t, int32_t, bool, bool, int, bool, bool, bool) [with TStr = SString; index_t = long long unsigned int; int32_t = int; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ centrifuge_build.cpp:472:19: required from ‘void driver(const string&, EList >&, const string&, const string&, const string&, const string&, const string&, bool, int) [with TStr = SString; std::string = std::__cxx11::basic_string]’ centrifuge_build.cpp:686:60: required from here bt2_idx.h:3452:41: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 3452 | for(size_t k = 0; k < kmer_size; k++) { | ~~^~~~~~~~~~~ bt2_idx.h:3641:27: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 3641 | for(size_t k = 0; k < kmer_size; k++) { | ~~^~~~~~~~~~~ bt2_idx.h: In instantiation of ‘void Ebwt::buildToDisk(InorderBlockwiseSA&, const TStr&, std::ostream&, std::ostream&, std::ostream*, std::ostream*, const EList&, int) [with TStr = S2bDnaString; index_t = long long unsigned int; std::ostream = std::basic_ostream]’: bt2_idx.h:1492:16: required from ‘void Ebwt::initFromVector(TStr&, EList&, EList&, index_t, const RefReadInParams&, std::ofstream&, std::ofstream&, std::ofstream*, std::ofstream*, int, const string&, const string&, const string&, const string&, const string&, bool, index_t, index_t, index_t, int, int, uint32_t, bool) [with TStr = S2bDnaString; index_t = long long unsigned int; std::ofstream = std::basic_ofstream; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ bt2_idx.h:881:23: required from ‘Ebwt::Ebwt(TStr&, bool, int, int, int32_t, int32_t, int32_t, const string&, bool, bool, index_t, index_t, index_t, int, int, EList&, EList&, index_t, const string&, const string&, const string&, const string&, const RefReadInParams&, uint32_t, int32_t, bool, bool, int, bool, bool, bool) [with TStr = S2bDnaString; index_t = long long unsigned int; int32_t = int; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ centrifuge_build.cpp:472:19: required from ‘void driver(const string&, EList >&, const string&, const string&, const string&, const string&, const string&, bool, int) [with TStr = S2bDnaString; std::string = std::__cxx11::basic_string]’ centrifuge_build.cpp:706:54: required from here bt2_idx.h:3452:41: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 3452 | for(size_t k = 0; k < kmer_size; k++) { | ~~^~~~~~~~~~~ bt2_idx.h:3641:27: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 3641 | for(size_t k = 0; k < kmer_size; k++) { | ~~^~~~~~~~~~~ In file included from blockwise_sa.h:29, from bt2_idx.h:44, from centrifuge_build.cpp:27: diff_sample.h: In instantiation of ‘void DifferenceCoverSample::build(int) [with TStr = SString]’: blockwise_sa.h:383:20: required from ‘void KarkkainenBlockwiseSA::build() [with TStr = SString]’ blockwise_sa.h:362:4: required from ‘void KarkkainenBlockwiseSA::reset() [with TStr = SString]’ blockwise_sa.h:215:29: required from ‘KarkkainenBlockwiseSA::KarkkainenBlockwiseSA(const TStr&, TIndexOffU, int, uint32_t, uint32_t, bool, bool, bool, std::string, std::ostream&) [with TStr = SString; TIndexOffU = long long unsigned int; uint32_t = unsigned int; std::string = std::__cxx11::basic_string; std::ostream = std::basic_ostream]’ bt2_idx.h:1488:33: required from ‘void Ebwt::initFromVector(TStr&, EList&, EList&, index_t, const RefReadInParams&, std::ofstream&, std::ofstream&, std::ofstream*, std::ofstream*, int, const string&, const string&, const string&, const string&, const string&, bool, index_t, index_t, index_t, int, int, uint32_t, bool) [with TStr = SString; index_t = long long unsigned int; std::ofstream = std::basic_ofstream; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ bt2_idx.h:881:23: required from ‘Ebwt::Ebwt(TStr&, bool, int, int, int32_t, int32_t, int32_t, const string&, bool, bool, index_t, index_t, index_t, int, int, EList&, EList&, index_t, const string&, const string&, const string&, const string&, const RefReadInParams&, uint32_t, int32_t, bool, bool, int, bool, bool, bool) [with TStr = SString; index_t = long long unsigned int; int32_t = int; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ centrifuge_build.cpp:472:19: required from ‘void driver(const string&, EList >&, const string&, const string&, const string&, const string&, const string&, bool, int) [with TStr = SString; std::string = std::__cxx11::basic_string]’ centrifuge_build.cpp:686:60: required from here diff_sample.h:813:43: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 813 | sanityCheckOrderedSufs(t, t.length(), sPrimeArr, sPrimeSz, v); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ diff_sample.h:813:43: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] diff_sample.h: In instantiation of ‘void DifferenceCoverSample::build(int) [with TStr = S2bDnaString]’: blockwise_sa.h:383:20: required from ‘void KarkkainenBlockwiseSA::build() [with TStr = S2bDnaString]’ blockwise_sa.h:362:4: required from ‘void KarkkainenBlockwiseSA::reset() [with TStr = S2bDnaString]’ blockwise_sa.h:215:29: required from ‘KarkkainenBlockwiseSA::KarkkainenBlockwiseSA(const TStr&, TIndexOffU, int, uint32_t, uint32_t, bool, bool, bool, std::string, std::ostream&) [with TStr = S2bDnaString; TIndexOffU = long long unsigned int; uint32_t = unsigned int; std::string = std::__cxx11::basic_string; std::ostream = std::basic_ostream]’ bt2_idx.h:1488:33: required from ‘void Ebwt::initFromVector(TStr&, EList&, EList&, index_t, const RefReadInParams&, std::ofstream&, std::ofstream&, std::ofstream*, std::ofstream*, int, const string&, const string&, const string&, const string&, const string&, bool, index_t, index_t, index_t, int, int, uint32_t, bool) [with TStr = S2bDnaString; index_t = long long unsigned int; std::ofstream = std::basic_ofstream; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ bt2_idx.h:881:23: required from ‘Ebwt::Ebwt(TStr&, bool, int, int, int32_t, int32_t, int32_t, const string&, bool, bool, index_t, index_t, index_t, int, int, EList&, EList&, index_t, const string&, const string&, const string&, const string&, const RefReadInParams&, uint32_t, int32_t, bool, bool, int, bool, bool, bool) [with TStr = S2bDnaString; index_t = long long unsigned int; int32_t = int; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ centrifuge_build.cpp:472:19: required from ‘void driver(const string&, EList >&, const string&, const string&, const string&, const string&, const string&, bool, int) [with TStr = S2bDnaString; std::string = std::__cxx11::basic_string]’ centrifuge_build.cpp:706:54: required from here diff_sample.h:813:43: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] In file included from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from centrifuge_build.cpp:27: multikey_qsort.h: In instantiation of ‘void mkeyQSortSuf2(const T&, TIndexOffU*, size_t, TIndexOffU*, int, bool, bool, size_t, EList*) [with T = SString; TIndexOffU = long long unsigned int; size_t = unsigned int]’: diff_sample.h:772:30: required from ‘void DifferenceCoverSample::build(int) [with TStr = SString]’ blockwise_sa.h:383:20: required from ‘void KarkkainenBlockwiseSA::build() [with TStr = SString]’ blockwise_sa.h:362:4: required from ‘void KarkkainenBlockwiseSA::reset() [with TStr = SString]’ blockwise_sa.h:215:29: required from ‘KarkkainenBlockwiseSA::KarkkainenBlockwiseSA(const TStr&, TIndexOffU, int, uint32_t, uint32_t, bool, bool, bool, std::string, std::ostream&) [with TStr = SString; TIndexOffU = long long unsigned int; uint32_t = unsigned int; std::string = std::__cxx11::basic_string; std::ostream = std::basic_ostream]’ bt2_idx.h:1488:33: required from ‘void Ebwt::initFromVector(TStr&, EList&, EList&, index_t, const RefReadInParams&, std::ofstream&, std::ofstream&, std::ofstream*, std::ofstream*, int, const string&, const string&, const string&, const string&, const string&, bool, index_t, index_t, index_t, int, int, uint32_t, bool) [with TStr = SString; index_t = long long unsigned int; std::ofstream = std::basic_ofstream; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ bt2_idx.h:881:23: required from ‘Ebwt::Ebwt(TStr&, bool, int, int, int32_t, int32_t, int32_t, const string&, bool, bool, index_t, index_t, index_t, int, int, EList&, EList&, index_t, const string&, const string&, const string&, const string&, const RefReadInParams&, uint32_t, int32_t, bool, bool, int, bool, bool, bool) [with TStr = SString; index_t = long long unsigned int; int32_t = int; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ centrifuge_build.cpp:472:19: required from ‘void driver(const string&, EList >&, const string&, const string&, const string&, const string&, const string&, bool, int) [with TStr = SString; std::string = std::__cxx11::basic_string]’ centrifuge_build.cpp:686:60: required from here multikey_qsort.h:661:25: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 661 | sanityCheckOrderedSufs(host, hlen, s, slen, upto); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from bt2_idx.h:44, from centrifuge_build.cpp:27: blockwise_sa.h: In instantiation of ‘void KarkkainenBlockwiseSA::qsort(EList&) [with TStr = SString]’: blockwise_sa.h:607:9: required from ‘void KarkkainenBlockwiseSA::buildSamples() [with TStr = SString]’ blockwise_sa.h:388:4: required from ‘void KarkkainenBlockwiseSA::build() [with TStr = SString]’ blockwise_sa.h:362:4: required from ‘void KarkkainenBlockwiseSA::reset() [with TStr = SString]’ blockwise_sa.h:215:29: required from ‘KarkkainenBlockwiseSA::KarkkainenBlockwiseSA(const TStr&, TIndexOffU, int, uint32_t, uint32_t, bool, bool, bool, std::string, std::ostream&) [with TStr = SString; TIndexOffU = long long unsigned int; uint32_t = unsigned int; std::string = std::__cxx11::basic_string; std::ostream = std::basic_ostream]’ bt2_idx.h:1488:33: required from ‘void Ebwt::initFromVector(TStr&, EList&, EList&, index_t, const RefReadInParams&, std::ofstream&, std::ofstream&, std::ofstream*, std::ofstream*, int, const string&, const string&, const string&, const string&, const string&, bool, index_t, index_t, index_t, int, int, uint32_t, bool) [with TStr = SString; index_t = long long unsigned int; std::ofstream = std::basic_ofstream; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ bt2_idx.h:881:23: required from ‘Ebwt::Ebwt(TStr&, bool, int, int, int32_t, int32_t, int32_t, const string&, bool, bool, index_t, index_t, index_t, int, int, EList&, EList&, index_t, const string&, const string&, const string&, const string&, const RefReadInParams&, uint32_t, int32_t, bool, bool, int, bool, bool, bool) [with TStr = SString; index_t = long long unsigned int; int32_t = int; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ centrifuge_build.cpp:472:19: required from ‘void driver(const string&, EList >&, const string&, const string&, const string&, const string&, const string&, bool, int) [with TStr = SString; std::string = std::__cxx11::basic_string]’ centrifuge_build.cpp:686:60: required from here blockwise_sa.h:460:15: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 460 | mkeyQSortSuf(t, s, slen, 4, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~ 461 | this->verbose(), this->sanityCheck()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ blockwise_sa.h:460:15: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] In file included from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from centrifuge_build.cpp:27: multikey_qsort.h: In instantiation of ‘void mkeyQSortSuf2(const T&, TIndexOffU*, size_t, TIndexOffU*, int, bool, bool, size_t, EList*) [with T = S2bDnaString; TIndexOffU = long long unsigned int; size_t = unsigned int]’: diff_sample.h:772:30: required from ‘void DifferenceCoverSample::build(int) [with TStr = S2bDnaString]’ blockwise_sa.h:383:20: required from ‘void KarkkainenBlockwiseSA::build() [with TStr = S2bDnaString]’ blockwise_sa.h:362:4: required from ‘void KarkkainenBlockwiseSA::reset() [with TStr = S2bDnaString]’ blockwise_sa.h:215:29: required from ‘KarkkainenBlockwiseSA::KarkkainenBlockwiseSA(const TStr&, TIndexOffU, int, uint32_t, uint32_t, bool, bool, bool, std::string, std::ostream&) [with TStr = S2bDnaString; TIndexOffU = long long unsigned int; uint32_t = unsigned int; std::string = std::__cxx11::basic_string; std::ostream = std::basic_ostream]’ bt2_idx.h:1488:33: required from ‘void Ebwt::initFromVector(TStr&, EList&, EList&, index_t, const RefReadInParams&, std::ofstream&, std::ofstream&, std::ofstream*, std::ofstream*, int, const string&, const string&, const string&, const string&, const string&, bool, index_t, index_t, index_t, int, int, uint32_t, bool) [with TStr = S2bDnaString; index_t = long long unsigned int; std::ofstream = std::basic_ofstream; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ bt2_idx.h:881:23: required from ‘Ebwt::Ebwt(TStr&, bool, int, int, int32_t, int32_t, int32_t, const string&, bool, bool, index_t, index_t, index_t, int, int, EList&, EList&, index_t, const string&, const string&, const string&, const string&, const RefReadInParams&, uint32_t, int32_t, bool, bool, int, bool, bool, bool) [with TStr = S2bDnaString; index_t = long long unsigned int; int32_t = int; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ centrifuge_build.cpp:472:19: required from ‘void driver(const string&, EList >&, const string&, const string&, const string&, const string&, const string&, bool, int) [with TStr = S2bDnaString; std::string = std::__cxx11::basic_string]’ centrifuge_build.cpp:706:54: required from here multikey_qsort.h:661:25: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 661 | sanityCheckOrderedSufs(host, hlen, s, slen, upto); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ds.h:32, from sequence_io.h:28, from multikey_qsort.h:24, from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from centrifuge_build.cpp:27: multikey_qsort.h: In instantiation of ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = SString; T2 = const unsigned char*; size_t = unsigned int; TIndexOffU = long long unsigned int]’: blockwise_sa.h:454:19: required from ‘void KarkkainenBlockwiseSA::qsort(EList&) [with TStr = SString]’ blockwise_sa.h:607:9: required from ‘void KarkkainenBlockwiseSA::buildSamples() [with TStr = SString]’ blockwise_sa.h:388:4: required from ‘void KarkkainenBlockwiseSA::build() [with TStr = SString]’ blockwise_sa.h:362:4: required from ‘void KarkkainenBlockwiseSA::reset() [with TStr = SString]’ blockwise_sa.h:215:29: required from ‘KarkkainenBlockwiseSA::KarkkainenBlockwiseSA(const TStr&, TIndexOffU, int, uint32_t, uint32_t, bool, bool, bool, std::string, std::ostream&) [with TStr = SString; TIndexOffU = long long unsigned int; uint32_t = unsigned int; std::string = std::__cxx11::basic_string; std::ostream = std::basic_ostream]’ bt2_idx.h:1488:33: required from ‘void Ebwt::initFromVector(TStr&, EList&, EList&, index_t, const RefReadInParams&, std::ofstream&, std::ofstream&, std::ofstream*, std::ofstream*, int, const string&, const string&, const string&, const string&, const string&, bool, index_t, index_t, index_t, int, int, uint32_t, bool) [with TStr = SString; index_t = long long unsigned int; std::ofstream = std::basic_ofstream; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ bt2_idx.h:881:23: required from ‘Ebwt::Ebwt(TStr&, bool, int, int, int32_t, int32_t, int32_t, const string&, bool, bool, index_t, index_t, index_t, int, int, EList&, EList&, index_t, const string&, const string&, const string&, const string&, const RefReadInParams&, uint32_t, int32_t, bool, bool, int, bool, bool, bool) [with TStr = SString; index_t = long long unsigned int; int32_t = int; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ centrifuge_build.cpp:472:19: required from ‘void driver(const string&, EList >&, const string&, const string&, const string&, const string&, const string&, bool, int) [with TStr = SString; std::string = std::__cxx11::basic_string]’ centrifuge_build.cpp:686:60: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:764:63: note: in expansion of macro ‘OFF_MASK’ 764 | if(sanityCheck) sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK); | ^~~~~~~~ In file included from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from centrifuge_build.cpp:27: multikey_qsort.h:764:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 764 | if(sanityCheck) sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ multikey_qsort.h: In instantiation of ‘void mkeyQSortSuf(const T&, TIndexOffU*, size_t, int, bool, bool, size_t) [with T = SString; TIndexOffU = long long unsigned int; size_t = unsigned int]’: blockwise_sa.h:460:15: required from ‘void KarkkainenBlockwiseSA::qsort(EList&) [with TStr = SString]’ blockwise_sa.h:607:9: required from ‘void KarkkainenBlockwiseSA::buildSamples() [with TStr = SString]’ blockwise_sa.h:388:4: required from ‘void KarkkainenBlockwiseSA::build() [with TStr = SString]’ blockwise_sa.h:362:4: required from ‘void KarkkainenBlockwiseSA::reset() [with TStr = SString]’ blockwise_sa.h:215:29: required from ‘KarkkainenBlockwiseSA::KarkkainenBlockwiseSA(const TStr&, TIndexOffU, int, uint32_t, uint32_t, bool, bool, bool, std::string, std::ostream&) [with TStr = SString; TIndexOffU = long long unsigned int; uint32_t = unsigned int; std::string = std::__cxx11::basic_string; std::ostream = std::basic_ostream]’ bt2_idx.h:1488:33: required from ‘void Ebwt::initFromVector(TStr&, EList&, EList&, index_t, const RefReadInParams&, std::ofstream&, std::ofstream&, std::ofstream*, std::ofstream*, int, const string&, const string&, const string&, const string&, const string&, bool, index_t, index_t, index_t, int, int, uint32_t, bool) [with TStr = SString; index_t = long long unsigned int; std::ofstream = std::basic_ofstream; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ bt2_idx.h:881:23: required from ‘Ebwt::Ebwt(TStr&, bool, int, int, int32_t, int32_t, int32_t, const string&, bool, bool, index_t, index_t, index_t, int, int, EList&, EList&, index_t, const string&, const string&, const string&, const string&, const RefReadInParams&, uint32_t, int32_t, bool, bool, int, bool, bool, bool) [with TStr = SString; index_t = long long unsigned int; int32_t = int; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ centrifuge_build.cpp:472:19: required from ‘void driver(const string&, EList >&, const string&, const string&, const string&, const string&, const string&, bool, int) [with TStr = SString; std::string = std::__cxx11::basic_string]’ centrifuge_build.cpp:686:60: required from here multikey_qsort.h:496:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 496 | if(sanityCheck) sanityCheckOrderedSufs(host, hlen, s, slen, upto); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ds.h:32, from sequence_io.h:28, from multikey_qsort.h:24, from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from centrifuge_build.cpp:27: multikey_qsort.h: In instantiation of ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = SString; T2 = const unsigned char*; size_t = unsigned int; TIndexOffU = long long unsigned int]’: multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = SString; T2 = const unsigned char*; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:454:19: required from ‘void KarkkainenBlockwiseSA::qsort(EList&) [with TStr = SString]’ blockwise_sa.h:607:9: required from ‘void KarkkainenBlockwiseSA::buildSamples() [with TStr = SString]’ blockwise_sa.h:388:4: required from ‘void KarkkainenBlockwiseSA::build() [with TStr = SString]’ blockwise_sa.h:362:4: required from ‘void KarkkainenBlockwiseSA::reset() [with TStr = SString]’ blockwise_sa.h:215:29: required from ‘KarkkainenBlockwiseSA::KarkkainenBlockwiseSA(const TStr&, TIndexOffU, int, uint32_t, uint32_t, bool, bool, bool, std::string, std::ostream&) [with TStr = SString; TIndexOffU = long long unsigned int; uint32_t = unsigned int; std::string = std::__cxx11::basic_string; std::ostream = std::basic_ostream]’ bt2_idx.h:1488:33: required from ‘void Ebwt::initFromVector(TStr&, EList&, EList&, index_t, const RefReadInParams&, std::ofstream&, std::ofstream&, std::ofstream*, std::ofstream*, int, const string&, const string&, const string&, const string&, const string&, bool, index_t, index_t, index_t, int, int, uint32_t, bool) [with TStr = SString; index_t = long long unsigned int; std::ofstream = std::basic_ofstream; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ bt2_idx.h:881:23: required from ‘Ebwt::Ebwt(TStr&, bool, int, int, int32_t, int32_t, int32_t, const string&, bool, bool, index_t, index_t, index_t, int, int, EList&, EList&, index_t, const string&, const string&, const string&, const string&, const RefReadInParams&, uint32_t, int32_t, bool, bool, int, bool, bool, bool) [with TStr = SString; index_t = long long unsigned int; int32_t = int; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ centrifuge_build.cpp:472:19: required from ‘void driver(const string&, EList >&, const string&, const string&, const string&, const string&, const string&, bool, int) [with TStr = SString; std::string = std::__cxx11::basic_string]’ centrifuge_build.cpp:686:60: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1155:49: note: in expansion of macro ‘OFF_MASK’ 1155 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1164:49: note: in expansion of macro ‘OFF_MASK’ 1164 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ multikey_qsort.h: In instantiation of ‘void bucketSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = SString; T2 = const unsigned char*; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’: multikey_qsort.h:1161:20: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = SString; T2 = const unsigned char*; size_t = unsigned int; TIndexOffU = long long unsigned int]’ multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = SString; T2 = const unsigned char*; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:454:19: required from ‘void KarkkainenBlockwiseSA::qsort(EList&) [with TStr = SString]’ blockwise_sa.h:607:9: required from ‘void KarkkainenBlockwiseSA::buildSamples() [with TStr = SString]’ blockwise_sa.h:388:4: required from ‘void KarkkainenBlockwiseSA::build() [with TStr = SString]’ blockwise_sa.h:362:4: required from ‘void KarkkainenBlockwiseSA::reset() [with TStr = SString]’ blockwise_sa.h:215:29: required from ‘KarkkainenBlockwiseSA::KarkkainenBlockwiseSA(const TStr&, TIndexOffU, int, uint32_t, uint32_t, bool, bool, bool, std::string, std::ostream&) [with TStr = SString; TIndexOffU = long long unsigned int; uint32_t = unsigned int; std::string = std::__cxx11::basic_string; std::ostream = std::basic_ostream]’ bt2_idx.h:1488:33: required from ‘void Ebwt::initFromVector(TStr&, EList&, EList&, index_t, const RefReadInParams&, std::ofstream&, std::ofstream&, std::ofstream*, std::ofstream*, int, const string&, const string&, const string&, const string&, const string&, bool, index_t, index_t, index_t, int, int, uint32_t, bool) [with TStr = SString; index_t = long long unsigned int; std::ofstream = std::basic_ofstream; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ bt2_idx.h:881:23: required from ‘Ebwt::Ebwt(TStr&, bool, int, int, int32_t, int32_t, int32_t, const string&, bool, bool, index_t, index_t, index_t, int, int, EList&, EList&, index_t, const string&, const string&, const string&, const string&, const RefReadInParams&, uint32_t, int32_t, bool, bool, int, bool, bool, bool) [with TStr = SString; index_t = long long unsigned int; int32_t = int; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ centrifuge_build.cpp:472:19: required from ‘void driver(const string&, EList >&, const string&, const string&, const string&, const string&, const string&, bool, int) [with TStr = SString; std::string = std::__cxx11::basic_string]’ centrifuge_build.cpp:686:60: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1066:40: note: in expansion of macro ‘OFF_MASK’ 1066 | OFF_MASK, begin, end); | ^~~~~~~~ multikey_qsort.h: In instantiation of ‘void selectionSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = SString; T2 = const unsigned char*; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’: multikey_qsort.h:1062:33: required from ‘void bucketSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = SString; T2 = const unsigned char*; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’ multikey_qsort.h:1161:20: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = SString; T2 = const unsigned char*; size_t = unsigned int; TIndexOffU = long long unsigned int]’ multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = SString; T2 = const unsigned char*; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:454:19: required from ‘void KarkkainenBlockwiseSA::qsort(EList&) [with TStr = SString]’ blockwise_sa.h:607:9: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] blockwise_sa.h:362:4: required from ‘void KarkkainenBlockwiseSA::reset() [with TStr = SString]’ blockwise_sa.h:215:29: required from ‘KarkkainenBlockwiseSA::KarkkainenBlockwiseSA(const TStr&, TIndexOffU, int, uint32_t, uint32_t, bool, bool, bool, std::string, std::ostream&) [with TStr = SString; TIndexOffU = long long unsigned int; uint32_t = unsigned int; std::string = std::__cxx11::basic_string; std::ostream = std::basic_ostream]’ bt2_idx.h:1488:33: required from ‘void Ebwt::initFromVector(TStr&, EList&, EList&, index_t, const RefReadInParams&, std::ofstream&, std::ofstream&, std::ofstream*, std::ofstream*, int, const string&, const string&, const string&, const string&, const string&, bool, index_t, index_t, index_t, int, int, uint32_t, bool) [with TStr = SString; index_t = long long unsigned int; std::ofstream = std::basic_ofstream; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ bt2_idx.h:881:23: required from ‘Ebwt::Ebwt(TStr&, bool, int, int, int32_t, int32_t, int32_t, const string&, bool, bool, index_t, index_t, index_t, int, int, EList&, EList&, index_t, const string&, const string&, const string&, const string&, const RefReadInParams&, uint32_t, int32_t, bool, bool, int, bool, bool, bool) [with TStr = SString; index_t = long long unsigned int; int32_t = int; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ centrifuge_build.cpp:472:19: required from ‘void driver(const string&, EList >&, const string&, const string&, const string&, const string&, const string&, bool, int) [with TStr = SString; std::string = std::__cxx11::basic_string]’ centrifuge_build.cpp:686:60: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:914:10: note: in expansion of macro ‘OFF_MASK’ 914 | off = OFF_MASK; | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:923:29: note: in expansion of macro ‘OFF_MASK’ 923 | OFF_MASK, begin, end); | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1007:48: note: in expansion of macro ‘OFF_MASK’ 1007 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/10/map:60, from bt2_idx.h:34, from centrifuge_build.cpp:27: /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_tree.h: In member function ‘std::pair std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_get_insert_hint_unique_pos(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, const key_type&) [with _Key = std::__cxx11::basic_string; _Val = std::pair, long long unsigned int>; _KeyOfValue = std::_Select1st, long long unsigned int> >; _Compare = std::less >; _Alloc = std::allocator, long long unsigned int> >]’: /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_tree.h:2193:5: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, long long unsigned int>, std::_Select1st, long long unsigned int> >, std::less >, std::allocator, long long unsigned int> > >::const_iterator’ changed in GCC 7.1 2193 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from blockwise_sa.h:29, from bt2_idx.h:44, from bt2_idx.cpp:25: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:175:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~ diff_sample.h:175:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~~~~ diff_sample.h:176:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~ diff_sample.h:176:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~~~~ In file included from bt2_idx.h:44, from bt2_idx.cpp:25: blockwise_sa.h: In function ‘void mkeyQSortSuf(const T&, TIndexOffU*, size_t, int, bool, bool, size_t) [with T = S2bDnaString; TIndexOffU = long long unsigned int; size_t = unsigned int]’: blockwise_sa.h:491:52: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 491 | this->verbose(), this->sanityCheck()); | ^ blockwise_sa.h: In member function ‘void KarkkainenBlockwiseSA::qsort(EList&) [with TStr = S2bDnaString]’: blockwise_sa.h:491:52: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] In file included from ds.h:32, from sequence_io.h:28, from multikey_qsort.h:24, from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from bt2_idx.cpp:25: multikey_qsort.h: In instantiation of ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’: blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:764:63: note: in expansion of macro ‘OFF_MASK’ 764 | if(sanityCheck) sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK); | ^~~~~~~~ In file included from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from bt2_idx.cpp:25: multikey_qsort.h:764:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 764 | if(sanityCheck) sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ multikey_qsort.h:764:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] multikey_qsort.h: In instantiation of ‘void mkeyQSortSuf(const T&, TIndexOffU*, size_t, int, bool, bool, size_t) [with T = S2bDnaString; TIndexOffU = long long unsigned int; size_t = unsigned int]’: blockwise_sa.h:491:52: required from here multikey_qsort.h:496:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 496 | if(sanityCheck) sanityCheckOrderedSufs(host, hlen, s, slen, upto); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ds.h:32, from sequence_io.h:28, from multikey_qsort.h:24, from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from bt2_idx.cpp:25: multikey_qsort.h: In instantiation of ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’: multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1155:49: note: in expansion of macro ‘OFF_MASK’ 1155 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1164:49: note: in expansion of macro ‘OFF_MASK’ 1164 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ multikey_qsort.h: In instantiation of ‘void bucketSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’: multikey_qsort.h:1161:20: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1066:40: note: in expansion of macro ‘OFF_MASK’ 1066 | OFF_MASK, begin, end); | ^~~~~~~~ multikey_qsort.h: In instantiation of ‘void selectionSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’: multikey_qsort.h:1062:33: required from ‘void bucketSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’ multikey_qsort.h:1161:20: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:914:10: note: in expansion of macro ‘OFF_MASK’ 914 | off = OFF_MASK; | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:923:29: note: in expansion of macro ‘OFF_MASK’ 923 | OFF_MASK, begin, end); | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1007:48: note: in expansion of macro ‘OFF_MASK’ 1007 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ In file included from diff_sample.cpp:20: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:175:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~ diff_sample.h:175:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~~~~ diff_sample.h:176:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~ diff_sample.h:176:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~~~~ arm-linux-gnueabihf-g++ -O3 -funroll-loops -g3 -DCOMPILER_OPTIONS="\"-O3 -funroll-loops -g3 \"" \ -fno-strict-aliasing -DCENTRIFUGE_VERSION="\"1.0.3-beta\"" -DBUILD_HOST="\"`hostname`\"" -DBUILD_TIME="\"`date`\"" -DCOMPILER_VERSION="\"`arm-linux-gnueabihf-g++ -v 2>&1 | tail -1`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DBOWTIE_MM -Wl,-z,relro -Wl,-z,now -DCENTRIFUGE -DBOWTIE2 -DBOWTIE_64BIT_INDEX -DNDEBUG -Wall \ \ -o centrifuge-class centrifuge.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp bt2_idx.cpp reference.cpp ds.cpp limit.cpp random_source.cpp tinythread.cpp qual.cpp pat.cpp read_qseq.cpp ref_coord.cpp mask.cpp pe.cpp aligner_seed_policy.cpp scoring.cpp presets.cpp simple_func.cpp random_util.cpp outq.cpp centrifuge_main.cpp \ -lpthread In file included from blockwise_sa.h:29, from bt2_idx.h:44, from centrifuge.cpp:34: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:175:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~ diff_sample.h:175:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~~~~ diff_sample.h:176:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~ diff_sample.h:176:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~~~~ In file included from bt2_idx.h:44, from centrifuge.cpp:34: blockwise_sa.h: In function ‘void mkeyQSortSuf(const T&, TIndexOffU*, size_t, int, bool, bool, size_t) [with T = S2bDnaString; TIndexOffU = long long unsigned int; size_t = unsigned int]’: blockwise_sa.h:491:52: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 491 | this->verbose(), this->sanityCheck()); | ^ blockwise_sa.h: In member function ‘void KarkkainenBlockwiseSA::qsort(EList&) [with TStr = S2bDnaString]’: blockwise_sa.h:491:52: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] In file included from ds.h:32, from sequence_io.h:28, from multikey_qsort.h:24, from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from centrifuge.cpp:34: multikey_qsort.h: In instantiation of ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’: blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:764:63: note: in expansion of macro ‘OFF_MASK’ 764 | if(sanityCheck) sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK); | ^~~~~~~~ In file included from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from centrifuge.cpp:34: multikey_qsort.h:764:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 764 | if(sanityCheck) sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ multikey_qsort.h:764:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] multikey_qsort.h: In instantiation of ‘void mkeyQSortSuf(const T&, TIndexOffU*, size_t, int, bool, bool, size_t) [with T = S2bDnaString; TIndexOffU = long long unsigned int; size_t = unsigned int]’: blockwise_sa.h:491:52: required from here multikey_qsort.h:496:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 496 | if(sanityCheck) sanityCheckOrderedSufs(host, hlen, s, slen, upto); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from centrifuge.cpp:47: classifier.h: In instantiation of ‘int Classifier::go(const Scoring&, const Ebwt&, const Ebwt&, const BitPairReference&, WalkMetrics&, PerReadMetrics&, HIMetrics&, SpeciesMetrics&, RandomSource&, AlnSinkWrap&) [with index_t = long long unsigned int; local_index_t = short unsigned int]’: centrifuge.cpp:2660:94: required from here classifier.h:411:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 411 | if(i + 1 < _hitMap.size()) { | ~~~~~~^~~~~~~~~~~~~~~~ classifier.h:432:48: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 432 | if(_hitMap[i].rank + 1 >= _hitMap[i].path.size()) { | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ classifier.h:442:55: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 442 | uint64_t parent_taxID = (rank + 1 >= _hitMap[i].path.size() ? 1 : _hitMap[i].path[rank + 1]); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ classifier.h:475:63: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 475 | uint64_t cur_parent_taxID = (rank + 1 >= _hitMap[i].path.size() ? 1 : _hitMap[i].path[rank + 1]); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ds.h:32, from sequence_io.h:28, from multikey_qsort.h:24, from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from centrifuge.cpp:34: multikey_qsort.h: In instantiation of ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’: multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1155:49: note: in expansion of macro ‘OFF_MASK’ 1155 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1164:49: note: in expansion of macro ‘OFF_MASK’ 1164 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ In file included from centrifuge.cpp:47: classifier.h: In instantiation of ‘void Classifier::searchForwardAndReverse(index_t, const Ebwt&, const Scoring&, RandomSource&, const ReportingParams&, index_t) [with index_t = long long unsigned int; local_index_t = short unsigned int]’: classifier.h:238:13: required from ‘int Classifier::go(const Scoring&, const Ebwt&, const Ebwt&, const BitPairReference&, WalkMetrics&, PerReadMetrics&, HIMetrics&, SpeciesMetrics&, RandomSource&, AlnSinkWrap&) [with index_t = long long unsigned int; local_index_t = short unsigned int]’ centrifuge.cpp:2660:94: required from here classifier.h:850:50: warning: comparison of integer expressions of different signedness: ‘long long unsigned int’ and ‘const THitInt’ {aka ‘const long long int’} [-Wsign-compare] 850 | hit.size() + rchit.size() > rp.ihits) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ classifier.h:647:16: warning: variable ‘cur’ set but not used [-Wunused-but-set-variable] 647 | size_t cur[2] = {0, 0} ; | ^~~ In file included from ds.h:32, from sequence_io.h:28, from multikey_qsort.h:24, from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from centrifuge.cpp:34: multikey_qsort.h: In instantiation of ‘void bucketSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’: multikey_qsort.h:1161:20: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1066:40: note: in expansion of macro ‘OFF_MASK’ 1066 | OFF_MASK, begin, end); | ^~~~~~~~ multikey_qsort.h: In instantiation of ‘void selectionSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’: multikey_qsort.h:1062:33: required from ‘void bucketSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’ multikey_qsort.h:1161:20: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:914:10: note: in expansion of macro ‘OFF_MASK’ 914 | off = OFF_MASK; | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:923:29: note: in expansion of macro ‘OFF_MASK’ 923 | OFF_MASK, begin, end); | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1007:48: note: in expansion of macro ‘OFF_MASK’ 1007 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ In file included from centrifuge.cpp:41: aln_sink.h: In instantiation of ‘void AlnSinkSam::appendMate(Ebwt&, BTString&, const Read&, const Read*, TReadId, AlnRes*, AlnRes*, const AlnSetSumm&, const PerReadMetrics&, SpeciesMetrics&, size_t) [with index_t = long long unsigned int; BTString = SStringExpandable; TReadId = long long unsigned int; size_t = unsigned int]’: aln_sink.h:1407:9: required from ‘void AlnSinkSam::append(BTString&, size_t, const Read*, const Read*, TReadId, AlnRes*, AlnRes*, const AlnSetSumm&, const PerReadMetrics&, SpeciesMetrics&, bool, size_t) [with index_t = long long unsigned int; BTString = SStringExpandable; size_t = unsigned int; TReadId = long long unsigned int]’ aln_sink.h:1392:15: required from here aln_sink.h:2302:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2302 | for (int i=0; i < this->tab_fmt_cols_.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from blockwise_sa.h:29, from bt2_idx.h:44, from bt2_idx.cpp:25: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:175:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~ diff_sample.h:175:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~~~~ diff_sample.h:176:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~ diff_sample.h:176:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~~~~ In file included from bt2_idx.h:44, from bt2_idx.cpp:25: blockwise_sa.h: In function ‘void mkeyQSortSuf(const T&, TIndexOffU*, size_t, int, bool, bool, size_t) [with T = S2bDnaString; TIndexOffU = long long unsigned int; size_t = unsigned int]’: blockwise_sa.h:491:52: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 491 | this->verbose(), this->sanityCheck()); | ^ blockwise_sa.h: In member function ‘void KarkkainenBlockwiseSA::qsort(EList&) [with TStr = S2bDnaString]’: blockwise_sa.h:491:52: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] In file included from ds.h:32, from sequence_io.h:28, from multikey_qsort.h:24, from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from bt2_idx.cpp:25: multikey_qsort.h: In instantiation of ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’: blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:764:63: note: in expansion of macro ‘OFF_MASK’ 764 | if(sanityCheck) sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK); | ^~~~~~~~ In file included from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from bt2_idx.cpp:25: multikey_qsort.h:764:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 764 | if(sanityCheck) sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ multikey_qsort.h:764:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] multikey_qsort.h: In instantiation of ‘void mkeyQSortSuf(const T&, TIndexOffU*, size_t, int, bool, bool, size_t) [with T = S2bDnaString; TIndexOffU = long long unsigned int; size_t = unsigned int]’: blockwise_sa.h:491:52: required from here multikey_qsort.h:496:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 496 | if(sanityCheck) sanityCheckOrderedSufs(host, hlen, s, slen, upto); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ds.h:32, from sequence_io.h:28, from multikey_qsort.h:24, from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from bt2_idx.cpp:25: multikey_qsort.h: In instantiation of ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’: multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1155:49: note: in expansion of macro ‘OFF_MASK’ 1155 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1164:49: note: in expansion of macro ‘OFF_MASK’ 1164 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ multikey_qsort.h: In instantiation of ‘void bucketSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’: multikey_qsort.h:1161:20: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1066:40: note: in expansion of macro ‘OFF_MASK’ 1066 | OFF_MASK, begin, end); | ^~~~~~~~ multikey_qsort.h: In instantiation of ‘void selectionSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’: multikey_qsort.h:1062:33: required from ‘void bucketSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’ multikey_qsort.h:1161:20: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:914:10: note: in expansion of macro ‘OFF_MASK’ 914 | off = OFF_MASK; | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:923:29: note: in expansion of macro ‘OFF_MASK’ 923 | OFF_MASK, begin, end); | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1007:48: note: in expansion of macro ‘OFF_MASK’ 1007 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ arm-linux-gnueabihf-g++ -O3 -funroll-loops -g3 \ -DCOMPILER_OPTIONS="\"-O3 -funroll-loops -g3 \"" \ -fno-strict-aliasing -DCENTRIFUGE_VERSION="\"1.0.3-beta\"" -DBUILD_HOST="\"`hostname`\"" -DBUILD_TIME="\"`date`\"" -DCOMPILER_VERSION="\"`arm-linux-gnueabihf-g++ -v 2>&1 | tail -1`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DBOWTIE_MM -Wl,-z,relro -Wl,-z,now -DCENTRIFUGE -DBOWTIE2 -DBOWTIE_64BIT_INDEX -Wall \ -I . \ -o centrifuge-inspect-bin centrifuge_inspect.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp bt2_idx.cpp reference.cpp ds.cpp limit.cpp random_source.cpp tinythread.cpp \ -lpthread In file included from blockwise_sa.h:29, from bt2_idx.h:44, from hier_idx.h:24, from centrifuge_inspect.cpp:28: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:175:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~ diff_sample.h:175:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~~~~ diff_sample.h:176:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~ diff_sample.h:176:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~~~~ In file included from bt2_idx.h:44, from hier_idx.h:24, from centrifuge_inspect.cpp:28: blockwise_sa.h: In function ‘void mkeyQSortSuf(const T&, TIndexOffU*, size_t, int, bool, bool, size_t) [with T = S2bDnaString; TIndexOffU = long long unsigned int; size_t = unsigned int]’: blockwise_sa.h:491:52: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 491 | this->verbose(), this->sanityCheck()); | ^ blockwise_sa.h: In member function ‘void KarkkainenBlockwiseSA::qsort(EList&) [with TStr = S2bDnaString]’: blockwise_sa.h:491:52: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] In file included from ds.h:32, from sequence_io.h:28, from multikey_qsort.h:24, from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from hier_idx.h:24, from centrifuge_inspect.cpp:28: multikey_qsort.h: In instantiation of ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’: blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:764:63: note: in expansion of macro ‘OFF_MASK’ 764 | if(sanityCheck) sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK); | ^~~~~~~~ In file included from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from hier_idx.h:24, from centrifuge_inspect.cpp:28: multikey_qsort.h:764:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 764 | if(sanityCheck) sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ multikey_qsort.h:764:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] multikey_qsort.h: In instantiation of ‘void mkeyQSortSuf(const T&, TIndexOffU*, size_t, int, bool, bool, size_t) [with T = S2bDnaString; TIndexOffU = long long unsigned int; size_t = unsigned int]’: blockwise_sa.h:491:52: required from here multikey_qsort.h:496:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 496 | if(sanityCheck) sanityCheckOrderedSufs(host, hlen, s, slen, upto); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ds.h:32, from sequence_io.h:28, from multikey_qsort.h:24, from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from hier_idx.h:24, from centrifuge_inspect.cpp:28: multikey_qsort.h: In instantiation of ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’: multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1155:49: note: in expansion of macro ‘OFF_MASK’ 1155 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1164:49: note: in expansion of macro ‘OFF_MASK’ 1164 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ multikey_qsort.h: In instantiation of ‘void bucketSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’: multikey_qsort.h:1161:20: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1066:40: note: in expansion of macro ‘OFF_MASK’ 1066 | OFF_MASK, begin, end); | ^~~~~~~~ multikey_qsort.h: In instantiation of ‘void selectionSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’: multikey_qsort.h:1062:33: required from ‘void bucketSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’ multikey_qsort.h:1161:20: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:914:10: note: in expansion of macro ‘OFF_MASK’ 914 | off = OFF_MASK; | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:923:29: note: in expansion of macro ‘OFF_MASK’ 923 | OFF_MASK, begin, end); | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1007:48: note: in expansion of macro ‘OFF_MASK’ 1007 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/10/set:60, from centrifuge_inspect.cpp:24: /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = long long unsigned int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/10/map:61, from bt2_idx.h:34, from hier_idx.h:24, from centrifuge_inspect.cpp:28: /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_map.h: In constructor ‘Ebwt::Ebwt(const string&, int, int, bool, int32_t, int32_t, bool, bool, bool, bool, bool, bool, bool, bool, bool, bool, bool, bool) [with index_t = long long unsigned int]’: /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 502 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 503 | std::tuple<>()); | ~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 502 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 503 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In file included from blockwise_sa.h:29, from bt2_idx.h:44, from bt2_idx.cpp:25: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:175:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~ diff_sample.h:175:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~~~~ diff_sample.h:176:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~ diff_sample.h:176:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~~~~ In file included from bt2_idx.h:44, from bt2_idx.cpp:25: blockwise_sa.h: In function ‘void mkeyQSortSuf(const T&, TIndexOffU*, size_t, int, bool, bool, size_t) [with T = S2bDnaString; TIndexOffU = long long unsigned int; size_t = unsigned int]’: blockwise_sa.h:491:52: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 491 | this->verbose(), this->sanityCheck()); | ^ blockwise_sa.h: In member function ‘void KarkkainenBlockwiseSA::qsort(EList&) [with TStr = S2bDnaString]’: blockwise_sa.h:491:52: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] In file included from ds.h:32, from sequence_io.h:28, from multikey_qsort.h:24, from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from bt2_idx.cpp:25: multikey_qsort.h: In instantiation of ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’: blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:764:63: note: in expansion of macro ‘OFF_MASK’ 764 | if(sanityCheck) sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK); | ^~~~~~~~ In file included from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from bt2_idx.cpp:25: multikey_qsort.h:764:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 764 | if(sanityCheck) sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ multikey_qsort.h:764:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] multikey_qsort.h: In instantiation of ‘void mkeyQSortSuf(const T&, TIndexOffU*, size_t, int, bool, bool, size_t) [with T = S2bDnaString; TIndexOffU = long long unsigned int; size_t = unsigned int]’: blockwise_sa.h:491:52: required from here multikey_qsort.h:496:40: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 496 | if(sanityCheck) sanityCheckOrderedSufs(host, hlen, s, slen, upto); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ds.h:32, from sequence_io.h:28, from multikey_qsort.h:24, from diff_sample.h:26, from blockwise_sa.h:29, from bt2_idx.h:44, from bt2_idx.cpp:25: multikey_qsort.h: In instantiation of ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’: multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1155:49: note: in expansion of macro ‘OFF_MASK’ 1155 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1164:49: note: in expansion of macro ‘OFF_MASK’ 1164 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ multikey_qsort.h: In instantiation of ‘void bucketSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’: multikey_qsort.h:1161:20: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1066:40: note: in expansion of macro ‘OFF_MASK’ 1066 | OFF_MASK, begin, end); | ^~~~~~~~ multikey_qsort.h: In instantiation of ‘void selectionSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’: multikey_qsort.h:1062:33: required from ‘void bucketSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, uint8_t, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int; uint8_t = unsigned char]’ multikey_qsort.h:1161:20: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, size_t, size_t, size_t, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ multikey_qsort.h:763:18: required from ‘void mkeyQSortSufDcU8(const T1&, const T2&, size_t, TIndexOffU*, size_t, const DifferenceCoverSample&, int, bool, bool) [with T1 = S2bDnaString; T2 = S2bDnaString; size_t = unsigned int; TIndexOffU = long long unsigned int]’ blockwise_sa.h:485:56: required from here btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:914:10: note: in expansion of macro ‘OFF_MASK’ 914 | off = OFF_MASK; | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:923:29: note: in expansion of macro ‘OFF_MASK’ 923 | OFF_MASK, begin, end); | ^~~~~~~~ btypes.h:25:18: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘18446744073709551615’ to ‘4294967295’ [-Woverflow] 25 | #define OFF_MASK 0xffffffffffffffff | ^~~~~~~~~~~~~~~~~~ multikey_qsort.h:1007:48: note: in expansion of macro ‘OFF_MASK’ 1007 | sanityCheckOrderedSufs(host1, hlen, s, slen, OFF_MASK, begin, end); | ^~~~~~~~ make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh: command-omitted: The call to "dh_auto_test -a" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_prep -a debian/rules override_dh_auto_install make[1]: Entering directory '/<>' dh_auto_install -- prefix=/usr/lib/centrifuge make -j1 install DESTDIR=/<>/debian/centrifuge AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" prefix=/usr/lib/centrifuge make[2]: Entering directory '/<>' mkdir -p /<>/debian/centrifuge/usr/lib/centrifuge/bin mkdir -p /<>/debian/centrifuge/usr/lib/centrifuge/share/centrifuge/indices install -m 0644 indices/Makefile /<>/debian/centrifuge/usr/lib/centrifuge/share/centrifuge/indices install -d -m 0755 /<>/debian/centrifuge/usr/lib/centrifuge/share/centrifuge/doc install -m 0644 doc/* /<>/debian/centrifuge/usr/lib/centrifuge/share/centrifuge/doc for file in centrifuge-build-bin centrifuge-class centrifuge-inspect-bin centrifuge centrifuge-build centrifuge-inspect centrifuge-download centrifuge-kreport centrifuge-BuildSharedSequence.pl centrifuge-RemoveEmptySequence.pl centrifuge-RemoveN.pl centrifuge-compress.pl centrifuge-sort-nt.pl; do \ install -m 0755 $file /<>/debian/centrifuge/usr/lib/centrifuge/bin ; \ done make[2]: Leaving directory '/<>' mv debian/centrifuge/usr/lib/centrifuge/bin/* debian/centrifuge/usr/lib/centrifuge/ rmdir debian/centrifuge/usr/lib/centrifuge/bin # move documentation to correct location mkdir -p debian/centrifuge/usr/share/doc/centrifuge/html mv debian/centrifuge/usr/lib/centrifuge/share/centrifuge/doc/*html \ debian/centrifuge/usr/lib/centrifuge/share/centrifuge/doc/*css \ debian/centrifuge/usr/share/doc/centrifuge/html # remove useless stuff in documentation dir rm -rf debian/centrifuge/usr/lib/centrifuge/share/doc/ make[1]: Leaving directory '/<>' debian/rules override_dh_install make[1]: Entering directory '/<>' dh_install for pl in `grep -Rl '#![[:space:]]*/usr/bin/env[[:space:]]\+perl' debian/*/usr/*` ; do \ sed -i '1s?^#![[:space:]]*/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' ${pl} ; \ done rm -rf debian/*/usr/lib/centrifuge/share/centrifuge/doc find debian -name manual.inc.html | xargs rm -rf make[1]: Leaving directory '/<>' dh_installdocs -a dh_installchangelogs -a dh_installman -a dh_python3 -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a -a dh_strip -a -a dh_makeshlibs -a -a dh_shlibdeps -a -a dpkg-shlibdeps: warning: debian/centrifuge/usr/lib/centrifuge/centrifuge-build-bin contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/centrifuge/usr/lib/centrifuge/centrifuge-inspect-bin contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/centrifuge/usr/lib/centrifuge/centrifuge-class contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: Depends field of package centrifuge: substitution variable ${python3:Depends} used, but is not defined dpkg-gencontrol: warning: package centrifuge: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: Depends field of package centrifuge: substitution variable ${python3:Depends} used, but is not defined dpkg-gencontrol: warning: package centrifuge: substitution variable ${perl:Depends} unused, but is defined dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'centrifuge' in '../centrifuge_1.0.3-8_armhf.deb'. dpkg-deb: building package 'centrifuge-dbgsym' in '../centrifuge-dbgsym_1.0.3-8_armhf.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../centrifuge_1.0.3-8_armhf.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 2020-12-07T04:27:05Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ centrifuge_1.0.3-8_armhf.changes: --------------------------------- Format: 1.8 Date: Mon, 09 Nov 2020 17:36:30 +0100 Source: centrifuge Binary: centrifuge centrifuge-dbgsym Built-For-Profiles: cross nocheck Architecture: armhf Version: 1.0.3-8 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: centrifuge - rapid and memory-efficient system for classification of DNA seque Closes: 973977 Changes: centrifuge (1.0.3-8) unstable; urgency=medium . [ Helmut Grohne ] * Improve cross building: Don't detect -m64 from uname. Closes: #973977 . [ Andreas Tille ] * Revert the patch from 1.0.3-6 in favour of above change Checksums-Sha1: 997949311d9621059e1a635786a70f9873b96d97 3422188 centrifuge-dbgsym_1.0.3-8_armhf.deb 8c02d5773ca5368a554e25a61067431de261f91b 6049 centrifuge_1.0.3-8_armhf.buildinfo 32c5044d53515c128c38c433b2b3cf7acc99ca68 494700 centrifuge_1.0.3-8_armhf.deb Checksums-Sha256: de83c0fe87cfe0e037e1411e20dad54f4339ccd4dad22acaf52472c6ca595d30 3422188 centrifuge-dbgsym_1.0.3-8_armhf.deb 16d71ab2d810579b15ebd71449c251b446a701b083c7a72e471c3556dd4cd7b0 6049 centrifuge_1.0.3-8_armhf.buildinfo 654cf80c9c4f8d476535b4c8a2899a84839998cf12ed57c869a93f8ebebb722f 494700 centrifuge_1.0.3-8_armhf.deb Files: 0a0a390dd5b10a6e439cd35007de516d 3422188 debug optional centrifuge-dbgsym_1.0.3-8_armhf.deb 718b9129521232b205e609126ea11a9f 6049 science optional centrifuge_1.0.3-8_armhf.buildinfo 3005d550edb0fc305a66b881a06aa545 494700 science optional centrifuge_1.0.3-8_armhf.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: centrifuge Binary: centrifuge centrifuge-dbgsym Architecture: armhf Version: 1.0.3-8 Checksums-Md5: 0a0a390dd5b10a6e439cd35007de516d 3422188 centrifuge-dbgsym_1.0.3-8_armhf.deb 3005d550edb0fc305a66b881a06aa545 494700 centrifuge_1.0.3-8_armhf.deb Checksums-Sha1: 997949311d9621059e1a635786a70f9873b96d97 3422188 centrifuge-dbgsym_1.0.3-8_armhf.deb 32c5044d53515c128c38c433b2b3cf7acc99ca68 494700 centrifuge_1.0.3-8_armhf.deb Checksums-Sha256: de83c0fe87cfe0e037e1411e20dad54f4339ccd4dad22acaf52472c6ca595d30 3422188 centrifuge-dbgsym_1.0.3-8_armhf.deb 654cf80c9c4f8d476535b4c8a2899a84839998cf12ed57c869a93f8ebebb722f 494700 centrifuge_1.0.3-8_armhf.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Mon, 07 Dec 2020 04:27:05 +0000 Build-Path: /<> Installed-Build-Depends: autoconf (= 2.69-11.1), automake (= 1:1.16.3-1), autopoint (= 0.19.8.1-10), autotools-dev (= 20180224.1), base-files (= 11), base-passwd (= 3.5.48), bash (= 5.1~rc3-1), binutils (= 2.35.1-4), binutils-common (= 2.35.1-4), binutils-x86-64-linux-gnu (= 2.35.1-4), bsdextrautils (= 2.36.1-2), bsdutils (= 1:2.36.1-2), build-essential (= 12.8), bzip2 (= 1.0.8-4), coreutils (= 8.32-4+b1), cpp (= 4:10.2.0-1), cpp-10 (= 10.2.0-23), dash (= 0.5.11+git20200708+dd9ef66-2), debconf (= 1.5.74), debhelper (= 13.3), debianutils (= 4.11.2), dh-autoreconf (= 19), dh-python (= 4.20201102), dh-strip-nondeterminism (= 1.9.0-1), diffutils (= 1:3.7-3), dpkg (= 1.20.5), dpkg-dev (= 1.20.5), dwz (= 0.13+20201015-2), file (= 1:5.39-3), findutils (= 4.7.0+git20201010-2), g++ (= 4:10.2.0-1), g++-10 (= 10.2.0-23), gcc (= 4:10.2.0-1), gcc-10 (= 10.2.0-23), gcc-10-base (= 10.2.0-23), gettext (= 0.19.8.1-10), gettext-base (= 0.19.8.1-10), grep (= 3.6-1), groff-base (= 1.22.4-5), gzip (= 1.10-2), hostname (= 3.23), init-system-helpers (= 1.59), intltool-debian (= 0.35.0+20060710.5), jellyfish (= 2.3.0-8), libacl1 (= 2.2.53-8), libarchive-zip-perl (= 1.68-1), libasan6 (= 10.2.0-23), libatomic1 (= 10.2.0-23), libattr1 (= 1:2.4.48-5), libaudit-common (= 1:2.8.5-3.1), libaudit1 (= 1:2.8.5-3.1), libbinutils (= 2.35.1-4), libblkid1 (= 2.36.1-2), libbrotli1 (= 1.0.9-2+b1), libbz2-1.0 (= 1.0.8-4), libc-bin (= 2.31-5), libc-dev-bin (= 2.31-5), libc6 (= 2.31-5), libc6-dev (= 2.31-5), libcap-ng0 (= 0.7.9-2.2+b1), libcc1-0 (= 10.2.0-23), libcom-err2 (= 1.45.6-1), libcroco3 (= 0.6.13-1), libcrypt-dev (= 1:4.4.17-1), libcrypt1 (= 1:4.4.17-1), libctf-nobfd0 (= 2.35.1-4), libctf0 (= 2.35.1-4), libcurl3-gnutls (= 7.72.0-1), libdb5.3 (= 5.3.28+dfsg1-0.6), libdebconfclient0 (= 0.255), libdebhelper-perl (= 13.3), libdeflate0 (= 1.6-1), libdpkg-perl (= 1.20.5), libelf1 (= 0.182-1), libexpat1 (= 2.2.10-1), libffi7 (= 3.3-5), libfile-stripnondeterminism-perl (= 1.9.0-1), libgcc-10-dev (= 10.2.0-23), libgcc-s1 (= 10.2.0-23), libgcrypt20 (= 1.8.7-2), libgdbm-compat4 (= 1.18.1-5.1), libgdbm6 (= 1.18.1-5.1), libglib2.0-0 (= 2.66.3-2), libgmp10 (= 2:6.2.1+dfsg-1), libgnutls30 (= 3.6.15-4), libgomp1 (= 10.2.0-23), libgpg-error0 (= 1.38-2), libgssapi-krb5-2 (= 1.18.3-4), libhogweed6 (= 3.6-2), libhts3 (= 1.11-2), libicu67 (= 67.1-4), libidn2-0 (= 2.3.0-4), libisl23 (= 0.23-1), libitm1 (= 10.2.0-23), libjellyfish-2.0-2 (= 2.3.0-8), libk5crypto3 (= 1.18.3-4), libkeyutils1 (= 1.6.1-2), libkrb5-3 (= 1.18.3-4), libkrb5support0 (= 1.18.3-4), libldap-2.4-2 (= 2.4.56+dfsg-1), liblsan0 (= 10.2.0-23), liblz4-1 (= 1.9.2-2), liblzma5 (= 5.2.4-1+b1), libmagic-mgc (= 1:5.39-3), libmagic1 (= 1:5.39-3), libmount1 (= 2.36.1-2), libmpc3 (= 1.2.0-1), libmpfr6 (= 4.1.0-3), libncursesw6 (= 6.2+20201114-1), libnettle8 (= 3.6-2), libnghttp2-14 (= 1.42.0-1), libnsl-dev (= 1.3.0-2), libnsl2 (= 1.3.0-2), libp11-kit0 (= 0.23.21-2), libpam-modules (= 1.3.1-5), libpam-modules-bin (= 1.3.1-5), libpam-runtime (= 1.3.1-5), libpam0g (= 1.3.1-5), libpcre2-8-0 (= 10.35-2), libpcre3 (= 2:8.39-13), libperl5.32 (= 5.32.0-5), libpipeline1 (= 1.5.3-1), libpsl5 (= 0.21.0-1.1), libpython3-stdlib (= 3.9.0-4), libpython3.9-minimal (= 3.9.1~rc1-2), libpython3.9-stdlib (= 3.9.1~rc1-2), libquadmath0 (= 10.2.0-23), libreadline8 (= 8.1~rc3-1), librtmp1 (= 2.4+20151223.gitfa8646d.1-2+b2), libsasl2-2 (= 2.1.27+dfsg-2), libsasl2-modules-db (= 2.1.27+dfsg-2), libseccomp2 (= 2.5.0-3), libselinux1 (= 3.1-2+b1), libsigsegv2 (= 2.12-2), libsmartcols1 (= 2.36.1-2), libsqlite3-0 (= 3.34.0-1), libssh2-1 (= 1.8.0-2.1), libssl1.1 (= 1.1.1h-1), libstdc++-10-dev (= 10.2.0-23), libstdc++6 (= 10.2.0-23), libsub-override-perl (= 0.09-2), libsystemd0 (= 247.1-3), libtasn1-6 (= 4.16.0-2), libtinfo6 (= 6.2+20201114-1), libtirpc-common (= 1.2.6-3), libtirpc-dev (= 1.2.6-3), libtirpc3 (= 1.2.6-3), libtool (= 2.4.6-14), libtsan0 (= 10.2.0-23), libubsan1 (= 10.2.0-23), libuchardet0 (= 0.0.7-1), libudev1 (= 247.1-3), libunistring2 (= 0.9.10-4), libuuid1 (= 2.36.1-2), libxml2 (= 2.9.10+dfsg-6.3), libzstd1 (= 1.4.5+dfsg-4), linux-libc-dev (= 5.9.11-1), login (= 1:4.8.1-1), lsb-base (= 11.1.0), m4 (= 1.4.18-4), mailcap (= 3.67), make (= 4.3-4), man-db (= 2.9.3-2), mawk (= 1.3.4.20200120-2), media-types (= 1.0.1), mime-support (= 3.66), ncurses-base (= 6.2+20201114-1), ncurses-bin (= 6.2+20201114-1), patch (= 2.7.6-6), perl (= 5.32.0-5), perl-base (= 5.32.0-5), perl-modules-5.32 (= 5.32.0-5), po-debconf (= 1.0.21), python3 (= 3.9.0-4), python3-distutils (= 3.8.6-1), python3-lib2to3 (= 3.8.6-1), python3-minimal (= 3.9.0-4), python3.9 (= 3.9.1~rc1-2), python3.9-minimal (= 3.9.1~rc1-2), readline-common (= 8.1~rc3-1), sed (= 4.7-1), sensible-utils (= 0.0.12+nmu1), sysvinit-utils (= 2.96-5), tar (= 1.32+dfsg-1), tzdata (= 2020d-1), util-linux (= 2.36.1-2), xz-utils (= 5.2.4-1+b1), zlib1g (= 1:1.2.11.dfsg-2) Environment: DEB_BUILD_OPTIONS="nocheck parallel=1" DEB_BUILD_PROFILES="cross nocheck" LANG="en_US.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1604939790" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ centrifuge-dbgsym_1.0.3-8_armhf.deb ----------------------------------- new Debian package, version 2.0. size 3422188 bytes: control archive=696 bytes. 465 bytes, 12 lines control 408 bytes, 4 lines md5sums Package: centrifuge-dbgsym Source: centrifuge Version: 1.0.3-8 Auto-Built-Package: debug-symbols Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 3523 Depends: centrifuge (= 1.0.3-8) Section: debug Priority: optional Description: debug symbols for centrifuge Build-Ids: 488245c3dbd52a612b7c50b914e7886822f2da95 c5d68248960e940b4e36777a32187b6759b68b83 cbf021e9ad47ba269d447bfe40d2e9aa84fa4d80 drwxr-xr-x root/root 0 2020-11-09 16:36 ./ drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/ drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/lib/ drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/lib/debug/ drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/lib/debug/.build-id/48/ -rw-r--r-- root/root 1565736 2020-11-09 16:36 ./usr/lib/debug/.build-id/48/8245c3dbd52a612b7c50b914e7886822f2da95.debug drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/lib/debug/.build-id/c5/ -rw-r--r-- root/root 817696 2020-11-09 16:36 ./usr/lib/debug/.build-id/c5/d68248960e940b4e36777a32187b6759b68b83.debug drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/lib/debug/.build-id/cb/ -rw-r--r-- root/root 1006284 2020-11-09 16:36 ./usr/lib/debug/.build-id/cb/f021e9ad47ba269d447bfe40d2e9aa84fa4d80.debug drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/ -rw-r--r-- root/root 200764 2020-11-09 16:36 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/centrifuge.debug drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/share/ drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/share/doc/ lrwxrwxrwx root/root 0 2020-11-09 16:36 ./usr/share/doc/centrifuge-dbgsym -> centrifuge centrifuge_1.0.3-8_armhf.deb ---------------------------- new Debian package, version 2.0. size 494700 bytes: control archive=1788 bytes. 1153 bytes, 21 lines control 2253 bytes, 30 lines md5sums Package: centrifuge Version: 1.0.3-8 Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 1171 Depends: libc6 (>= 2.29), libgcc-s1 (>= 3.5), libstdc++6 (>= 9), python3, hisat2, jellyfish Section: science Priority: optional Homepage: https://ccb.jhu.edu/software/centrifuge/ Description: rapid and memory-efficient system for classification of DNA sequences Centrifuge is a very rapid and memory-efficient system for the classification of DNA sequences from microbial samples, with better sensitivity than and comparable accuracy to other leading systems. The system uses a novel indexing scheme based on the Burrows-Wheeler transform (BWT) and the Ferragina-Manzini (FM) index, optimized specifically for the metagenomic classification problem. Centrifuge requires a relatively small index (e.g., 4.3 GB for ~4,100 bacterial genomes) yet provides very fast classification speed, allowing it to process a typical DNA sequencing run within an hour. Together these advances enable timely and accurate analysis of large metagenomics data sets on conventional desktop computers. drwxr-xr-x root/root 0 2020-11-09 16:36 ./ drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/ drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/bin/ -rwxr-xr-x root/root 312 2020-11-09 16:36 ./usr/bin/centrifuge lrwxrwxrwx root/root 0 2020-11-09 16:36 ./usr/bin/centrifuge-build -> centrifuge lrwxrwxrwx root/root 0 2020-11-09 16:36 ./usr/bin/centrifuge-compress -> centrifuge lrwxrwxrwx root/root 0 2020-11-09 16:36 ./usr/bin/centrifuge-download -> centrifuge lrwxrwxrwx root/root 0 2020-11-09 16:36 ./usr/bin/centrifuge-inspect -> centrifuge drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/lib/ drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/lib/centrifuge/ -rwxr-xr-x root/root 19883 2020-11-09 16:36 ./usr/lib/centrifuge/centrifuge -rwxr-xr-x root/root 12126 2020-11-09 16:36 ./usr/lib/centrifuge/centrifuge-BuildSharedSequence.pl -rwxr-xr-x root/root 407 2020-11-09 16:36 ./usr/lib/centrifuge/centrifuge-RemoveEmptySequence.pl -rwxr-xr-x root/root 1007 2020-11-09 16:36 ./usr/lib/centrifuge/centrifuge-RemoveN.pl -rwxr-xr-x root/root 2312 2020-11-09 16:36 ./usr/lib/centrifuge/centrifuge-build -rwxr-xr-x root/root 303744 2020-11-09 16:36 ./usr/lib/centrifuge/centrifuge-build-bin -rwxr-xr-x root/root 402156 2020-11-09 16:36 ./usr/lib/centrifuge/centrifuge-class -rwxr-xr-x root/root 13305 2020-11-09 16:36 ./usr/lib/centrifuge/centrifuge-compress.pl -rwxr-xr-x root/root 11670 2020-11-09 16:36 ./usr/lib/centrifuge/centrifuge-download -rwxr-xr-x root/root 1868 2020-11-09 16:36 ./usr/lib/centrifuge/centrifuge-inspect -rwxr-xr-x root/root 268040 2020-11-09 16:36 ./usr/lib/centrifuge/centrifuge-inspect-bin -rwxr-xr-x root/root 5231 2020-11-09 16:36 ./usr/lib/centrifuge/centrifuge-kreport -rwxr-xr-x root/root 3214 2020-11-09 16:36 ./usr/lib/centrifuge/centrifuge-sort-nt.pl drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/lib/centrifuge/share/ drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/lib/centrifuge/share/centrifuge/ drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/lib/centrifuge/share/centrifuge/indices/ -rw-r--r-- root/root 12887 2020-11-09 16:36 ./usr/lib/centrifuge/share/centrifuge/indices/Makefile drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/share/ drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/share/doc/ drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/share/doc/centrifuge/ -rw-r--r-- root/root 1133 2020-11-09 16:36 ./usr/share/doc/centrifuge/changelog.Debian.gz -rw-r--r-- root/root 1054 2020-11-09 16:36 ./usr/share/doc/centrifuge/copyright drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/share/doc/centrifuge/html/ -rw-r--r-- root/root 1234 2020-11-09 16:36 ./usr/share/doc/centrifuge/html/add.css -rw-r--r-- root/root 1158 2020-11-09 16:36 ./usr/share/doc/centrifuge/html/faq.shtml -rw-r--r-- root/root 423 2020-11-09 16:36 ./usr/share/doc/centrifuge/html/footer.inc.html -rw-r--r-- root/root 2388 2020-11-09 16:36 ./usr/share/doc/centrifuge/html/index.shtml.gz -rw-r--r-- root/root 84288 2020-11-09 16:36 ./usr/share/doc/centrifuge/html/manual.html -rw-r--r-- root/root 1068 2020-11-09 16:36 ./usr/share/doc/centrifuge/html/manual.shtml -rw-r--r-- root/root 1348 2020-11-09 16:36 ./usr/share/doc/centrifuge/html/sidebar.inc.shtml.gz -rw-r--r-- root/root 7942 2020-11-09 16:36 ./usr/share/doc/centrifuge/html/style.css drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/share/man/ drwxr-xr-x root/root 0 2020-11-09 16:36 ./usr/share/man/man1/ -rw-r--r-- root/root 440 2020-11-09 16:36 ./usr/share/man/man1/centrifuge-build.1.gz -rw-r--r-- root/root 404 2020-11-09 16:36 ./usr/share/man/man1/centrifuge-compress.1.gz -rw-r--r-- root/root 847 2020-11-09 16:36 ./usr/share/man/man1/centrifuge-download.1.gz -rw-r--r-- root/root 422 2020-11-09 16:36 ./usr/share/man/man1/centrifuge-inspect.1.gz -rw-r--r-- root/root 398 2020-11-09 16:36 ./usr/share/man/man1/centrifuge.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 [559 B] Get:5 copy:/<>/apt_archive ./ Packages [647 B] Fetched 2169 B in 0s (87.0 kB/s) Reading package lists... Reading package lists... Install lintian build dependencies (apt-based resolver) ------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: diffstat gpg gpgconf libaliased-perl libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libcapture-tiny-perl libclass-data-inheritable-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libcpanel-json-xs-perl libdata-dpath-perl libdata-messagepack-perl libdata-optlist-perl libdata-validate-domain-perl libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libexception-class-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libhtml-html5-entities-perl libimport-into-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl liblist-compare-perl liblist-moreutils-perl liblist-utilsby-perl liblzo2-2 libmarkdown2 libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libproc-processtable-perl librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libtext-glob-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libyaml-0-2 libyaml-libyaml-perl lintian lzip lzop patchutils t1utils unzip Suggested packages: libxml-parser-perl libscalar-number-perl libbareword-filehandles-perl libindirect-perl libmultidimensional-perl libdevel-lexalias-perl libwww-perl binutils-multiarch libtext-template-perl zip Recommended packages: gnupg libpackage-stash-xs-perl libref-util-perl libtype-tiny-xs-perl The following NEW packages will be installed: diffstat gpg gpgconf libaliased-perl libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libcapture-tiny-perl libclass-data-inheritable-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libcpanel-json-xs-perl libdata-dpath-perl libdata-messagepack-perl libdata-optlist-perl libdata-validate-domain-perl libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libexception-class-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libhtml-html5-entities-perl libimport-into-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl liblist-compare-perl liblist-moreutils-perl liblist-utilsby-perl liblzo2-2 libmarkdown2 libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libproc-processtable-perl librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libtext-glob-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libyaml-0-2 libyaml-libyaml-perl lintian lzip lzop patchutils sbuild-build-depends-lintian-dummy:armhf t1utils unzip 0 upgraded, 86 newly installed, 0 to remove and 0 not upgraded. Need to get 6507 kB of archives. After this operation, 19.7 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-lintian-dummy 0.invalid.0 [852 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 diffstat amd64 1.63-1 [35.6 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 libassuan0 amd64 2.5.3-7.1 [50.5 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 gpgconf amd64 2.2.20-1 [532 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 gpg amd64 2.2.20-1 [894 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libaliased-perl all 0.34-1 [13.8 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 libapt-pkg-perl amd64 0.1.36+b4 [71.9 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 libb-hooks-op-check-perl amd64 0.22-1+b3 [11.3 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 libdynaloader-functions-perl all 0.003-1 [12.6 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 libdevel-callchecker-perl amd64 0.008-1+b2 [15.9 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 libparams-classify-perl amd64 0.015-1+b3 [25.7 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 libmodule-runtime-perl all 0.016-1 [19.4 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 libtry-tiny-perl all 0.30-1 [23.3 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 libmodule-implementation-perl all 0.09-1 [12.9 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-exporter-progressive-perl all 0.001013-1 [7588 B] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libvariable-magic-perl amd64 0.62-1+b3 [45.7 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 libb-hooks-endofscope-perl all 0.24-1 [18.6 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 libcapture-tiny-perl all 0.48-1 [26.0 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 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1.06-1 [317 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 libhtml-html5-entities-perl all 0.004-1 [21.8 kB] Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 libimport-into-perl all 1.002005-1 [11.6 kB] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 libipc-run3-perl all 0.048-2 [34.2 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 libjson-maybexs-perl all 1.004003-1 [13.1 kB] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-compare-perl all 0.55-1 [66.9 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-utilsby-perl all 0.11-1 [15.4 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 liblzo2-2 amd64 2.10-2 [56.9 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 libmarkdown2 amd64 2.2.6-1 [36.8 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 librole-tiny-perl all 2.001004-1 [20.8 kB] Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 libstrictures-perl all 2.000006-1 [18.6 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-quote-perl all 2.006006-1 [21.0 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 libmoo-perl all 2.004004-1 [59.9 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 libmoox-aliases-perl all 0.001006-1 [10.2 kB] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 libmouse-perl amd64 2.5.10-1+b1 [172 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 libpackage-stash-perl all 0.39-1 [21.9 kB] Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-identify-perl amd64 0.14-1+b3 [12.0 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-name-perl amd64 0.26-1+b1 [13.8 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 libnamespace-clean-perl all 0.27-1 [17.3 kB] Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 libpath-tiny-perl all 0.114-1 [53.6 kB] Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 libperlio-gzip-perl amd64 0.19-1+b7 [17.4 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 libproc-processtable-perl amd64 0.59-2+b1 [45.9 kB] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 libsereal-decoder-perl amd64 4.018+ds-1+b1 [99.3 kB] Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 libsereal-encoder-perl amd64 4.018+ds-1+b1 [103 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-levenshteinxs-perl amd64 0.03-4+b8 [8724 B] Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-markdown-discount-perl amd64 0.12-1+b1 [13.0 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-xslate-perl amd64 3.5.8-1+b1 [197 kB] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 libtime-duration-perl all 1.21-1 [13.7 kB] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 libtime-moment-perl amd64 0.44-1+b3 [75.8 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 libtimedate-perl all 2.3300-1 [39.2 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 libtype-tiny-perl all 1.012000-1 [348 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 libunicode-utf8-perl amd64 0.62-1+b2 [20.3 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 liburi-perl all 5.05-1 [90.3 kB] Get:79 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-0-2 amd64 0.2.2-1 [49.6 kB] Get:80 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-libyaml-perl amd64 0.82+repack-1+b1 [35.8 kB] Get:81 http://debian.oregonstate.edu/debian unstable/main amd64 lzip amd64 1.21-8 [84.3 kB] Get:82 http://debian.oregonstate.edu/debian unstable/main amd64 lzop amd64 1.04-2 [84.2 kB] Get:83 http://debian.oregonstate.edu/debian unstable/main amd64 patchutils amd64 0.4.2-1 [77.5 kB] Get:84 http://debian.oregonstate.edu/debian unstable/main amd64 t1utils amd64 1.41-4 [62.1 kB] Get:85 http://debian.oregonstate.edu/debian unstable/main amd64 unzip amd64 6.0-25 [172 kB] Get:86 http://debian.oregonstate.edu/debian unstable/main amd64 lintian all 2.104.0 [1265 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 6507 kB in 0s (30.5 MB/s) Selecting previously unselected package diffstat. (Reading database ... 22247 files and directories currently installed.) Preparing to unpack .../00-diffstat_1.63-1_amd64.deb ... Unpacking diffstat (1.63-1) ... Selecting previously unselected package libassuan0:amd64. Preparing to unpack .../01-libassuan0_2.5.3-7.1_amd64.deb ... Unpacking libassuan0:amd64 (2.5.3-7.1) ... Selecting previously unselected package gpgconf. Preparing to unpack .../02-gpgconf_2.2.20-1_amd64.deb ... Unpacking gpgconf (2.2.20-1) ... Selecting previously unselected package gpg. Preparing to unpack .../03-gpg_2.2.20-1_amd64.deb ... Unpacking gpg (2.2.20-1) ... Selecting previously unselected package libaliased-perl. Preparing to unpack .../04-libaliased-perl_0.34-1_all.deb ... Unpacking libaliased-perl (0.34-1) ... Selecting previously unselected package libapt-pkg-perl. Preparing to unpack .../05-libapt-pkg-perl_0.1.36+b4_amd64.deb ... Unpacking libapt-pkg-perl (0.1.36+b4) ... Selecting previously unselected package libb-hooks-op-check-perl. 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Setting up libaliased-perl (0.34-1) ... 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 (1.19-3+b6) ... Setting up libexporter-tiny-perl (1.002002-1) ... Setting up libfont-ttf-perl (1.06-1) ... Setting up libtext-levenshteinxs-perl (0.03-4+b8) ... Setting up libperlio-gzip-perl (0.19-1+b7) ... Setting up libhtml-html5-entities-perl (0.004-1) ... Setting up libsereal-decoder-perl (4.018+ds-1+b1) ... Setting up libmarkdown2:amd64 (2.2.6-1) ... Setting up liburi-perl (5.05-1) ... Setting up gpg (2.2.20-1) ... Setting up libemail-address-xs-perl (1.04-1+b3) ... Setting up libfile-basedir-perl (0.08-1) ... Setting up liblist-moreutils-perl (0.416-1+b6) ... Setting up libtype-tiny-perl (1.012000-1) ... Setting up libtext-markdown-discount-perl:amd64 (0.12-1+b1) ... Setting up libexception-class-perl (1.44-1) ... Setting up libdevel-callchecker-perl (0.008-1+b2) ... Setting up libdata-optlist-perl (0.110-1) ... Setting up libsub-exporter-perl (0.987-1) ... Setting up libiterator-perl (0.03+ds1-1) ... Setting up libiterator-util-perl (0.02+ds1-1) ... Setting up libparams-classify-perl (0.015-1+b3) ... Setting up libmodule-runtime-perl (0.016-1) ... Setting up libdata-dpath-perl (0.58-1) ... Setting up libmodule-implementation-perl (0.09-1) ... Setting up libpackage-stash-perl (0.39-1) ... Setting up libimport-into-perl (1.002005-1) ... Setting up libmoo-perl (2.004004-1) ... Setting up libmoox-aliases-perl (0.001006-1) ... Setting up libb-hooks-endofscope-perl (0.24-1) ... Setting up libnamespace-clean-perl (0.27-1) ... Setting up lintian (2.104.0) ... Setting up sbuild-build-depends-lintian-dummy:armhf (0.invalid.0) ... Processing triggers for libc-bin (2.31-5) ... Processing triggers for man-db (2.9.3-2) ... Not building database; man-db/auto-update is not 'true'. 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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: 33796 Build-Time: 112 Distribution: unstable Foreign Architectures: armhf Host Architecture: armhf Install-Time: 45 Job: centrifuge_1.0.3-8 Lintian: pass Machine Architecture: amd64 Package: centrifuge Package-Time: 170 Source-Version: 1.0.3-8 Space: 33796 Status: successful Version: 1.0.3-8 -------------------------------------------------------------------------------- Finished at 2020-12-07T04:27:05Z Build needed 00:02:50, 33796k disk space