sbuild (Debian sbuild) 0.78.1 (09 February 2019) on gcc131.bak.milne.osuosl.org +==============================================================================+ | kallisto 0.46.1+dfsg-1 (armhf) Thu, 19 Dec 2019 21:37:55 +0000 | +==============================================================================+ Package: kallisto Version: 0.46.1+dfsg-1 Source Version: 0.46.1+dfsg-1 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-bb493c32-73f6-452d-ad2a-c9b1b08bc965' with '<>' I: NOTICE: Log filtering will replace 'build/kallisto-9fdRov/resolver-6fOWwx' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://debian.oregonstate.edu/debian unstable InRelease [142 kB] Get:2 http://debian.oregonstate.edu/debian unstable/main Sources.diff/Index [27.9 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 Packages.diff/Index [27.9 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main Sources 2019-12-19-0816.24.pdiff [7093 B] Get:5 http://debian.oregonstate.edu/debian unstable/main Sources 2019-12-19-1413.23.pdiff [8294 B] Get:6 http://debian.oregonstate.edu/debian unstable/main Sources 2019-12-19-2013.54.pdiff [10.5 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main Sources 2019-12-19-2013.54.pdiff [10.5 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2019-12-19-0816.24.pdiff [7215 B] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2019-12-19-1413.23.pdiff [10.1 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2019-12-19-2013.54.pdiff [13.0 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main armhf Packages [7929 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2019-12-19-2013.54.pdiff [13.0 kB] Fetched 8183 kB in 2s (4264 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'kallisto' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/kallisto.git Please use: git clone https://salsa.debian.org/med-team/kallisto.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 855 kB of source archives. Get:1 http://debian.oregonstate.edu/debian unstable/main kallisto 0.46.1+dfsg-1 (dsc) [2112 B] Get:2 http://debian.oregonstate.edu/debian unstable/main kallisto 0.46.1+dfsg-1 (tar) [847 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main kallisto 0.46.1+dfsg-1 (diff) [5124 B] Fetched 855 kB in 0s (34.2 MB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/kallisto-9fdRov/kallisto-0.46.1+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/kallisto-9fdRov' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 12), cmake, libhdf5-dev, libhts-dev, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-armhf:amd64, libc-dev:armhf, libstdc++-dev:armhf Filtered Build-Depends: debhelper-compat (= 12), cmake, libhdf5-dev, libhts-dev, 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 [415 B] Get:5 copy:/<>/apt_archive ./ Packages [506 B] Fetched 1878 B in 0s (98.5 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 bsdmainutils cmake cmake-data cpp-9-arm-linux-gnueabihf cpp-arm-linux-gnueabihf cross-config crossbuild-essential-armhf debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++-9-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-9-arm-linux-gnueabihf gcc-9-arm-linux-gnueabihf-base gcc-9-base:armhf gcc-9-cross-base gcc-arm-linux-gnueabihf gettext gettext-base groff-base hdf5-helpers:armhf intltool-debian libaec-dev:armhf libaec0:armhf libarchive-zip-perl libarchive13 libasan5:armhf libasan5-armhf-cross libatomic1:armhf libatomic1-armhf-cross libbrotli1 libbrotli1:armhf libbsd0 libbz2-1.0:armhf libc6:armhf libc6-armhf-cross libc6-dev:armhf libc6-dev-armhf-cross libcom-err2:armhf libconfig-auto-perl libconfig-inifiles-perl libcroco3 libcrypt1:armhf libcrypt1-dev:armhf libcurl3-gnutls:armhf libcurl4 libdb5.3:armhf libdebhelper-perl libdebian-dpkgcross-perl libdeflate0:armhf libelf1 libexpat1 libffi6:armhf libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-9-dev:armhf libgcc-9-dev-armhf-cross libgcc1:armhf libgcc1-armhf-cross libgcrypt20:armhf libgfortran5:armhf libglib2.0-0 libgmp10:armhf libgnutls30:armhf libgomp1:armhf libgomp1-armhf-cross libgpg-error0:armhf libgssapi-krb5-2 libgssapi-krb5-2:armhf libhdf5-103:armhf libhdf5-cpp-103:armhf libhdf5-dev:armhf libhogweed5:armhf libhts-dev:armhf libhts3:armhf libicu63 libidn2-0:armhf libio-string-perl libjpeg62-turbo:armhf libjpeg62-turbo-dev:armhf libjsoncpp1 libk5crypto3 libk5crypto3:armhf libkeyutils1 libkeyutils1:armhf libkrb5-3 libkrb5-3:armhf libkrb5support0 libkrb5support0:armhf libldap-2.4-2 libldap-2.4-2:armhf libldap-common liblocale-gettext-perl liblzma-dev:armhf liblzma5:armhf libmagic-mgc libmagic1 libncurses6 libnettle7:armhf libnghttp2-14 libnghttp2-14:armhf libp11-kit0:armhf libpipeline1 libprocps7 libpsl5 libpsl5:armhf librhash0 librtmp1 librtmp1:armhf libsasl2-2 libsasl2-2:armhf libsasl2-modules-db libsasl2-modules-db:armhf libsigsegv2 libssh2-1 libssh2-1:armhf libssl1.1 libssl1.1:armhf libstdc++-9-dev:armhf libstdc++-9-dev-armhf-cross libstdc++6:armhf libstdc++6-armhf-cross libsub-override-perl libsz2:armhf libtasn1-6:armhf libtool libubsan1:armhf libubsan1-armhf-cross libuchardet0 libunistring2:armhf libuv1 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 man-db po-debconf procps sensible-utils ucf zlib1g:armhf zlib1g-dev:armhf Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc wamerican | wordlist whois vacation cmake-doc ninja-build gcc-9-locales cpp-doc dh-make binutils-multiarch gcc-9-doc manpages-dev flex bison gdb-arm-linux-gnueabihf gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff lrzip glibc-doc:armhf libc-l10n:armhf locales:armhf manpages-dev:armhf rng-tools:armhf gnutls-bin:armhf krb5-doc krb5-user krb5-doc:armhf krb5-user:armhf libhdf5-doc:armhf liblzma-doc:armhf libstdc++-9-doc:armhf libtool-doc gfortran | fortran95-compiler gcj-jdk libyaml-shell-perl m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx ca-certificates:armhf ca-certificates libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libgpg-error-l10n:armhf krb5-locales krb5-locales:armhf libgpm2 publicsuffix publicsuffix:armhf libsasl2-modules libsasl2-modules:armhf libltdl-dev libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl | libyaml-syck-perl libmail-sendmail-perl psmisc The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-arm-linux-gnueabihf bsdmainutils cmake cmake-data cpp-9-arm-linux-gnueabihf cpp-arm-linux-gnueabihf cross-config crossbuild-essential-armhf debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++-9-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-9-arm-linux-gnueabihf gcc-9-arm-linux-gnueabihf-base gcc-9-base:armhf gcc-9-cross-base gcc-arm-linux-gnueabihf gettext gettext-base groff-base hdf5-helpers:armhf intltool-debian libaec-dev:armhf libaec0:armhf libarchive-zip-perl libarchive13 libasan5:armhf libasan5-armhf-cross libatomic1:armhf libatomic1-armhf-cross libbrotli1 libbrotli1:armhf libbsd0 libbz2-1.0:armhf libc6:armhf libc6-armhf-cross libc6-dev:armhf libc6-dev-armhf-cross libcom-err2:armhf libconfig-auto-perl libconfig-inifiles-perl libcroco3 libcrypt1:armhf libcrypt1-dev:armhf libcurl3-gnutls:armhf libcurl4 libdb5.3:armhf libdebhelper-perl libdebian-dpkgcross-perl libdeflate0:armhf libelf1 libexpat1 libffi6:armhf libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-9-dev:armhf libgcc-9-dev-armhf-cross libgcc1:armhf libgcc1-armhf-cross libgcrypt20:armhf libgfortran5:armhf libglib2.0-0 libgmp10:armhf libgnutls30:armhf libgomp1:armhf libgomp1-armhf-cross libgpg-error0:armhf libgssapi-krb5-2 libgssapi-krb5-2:armhf libhdf5-103:armhf libhdf5-cpp-103:armhf libhdf5-dev:armhf libhogweed5:armhf libhts-dev:armhf libhts3:armhf libicu63 libidn2-0:armhf libio-string-perl libjpeg62-turbo:armhf libjpeg62-turbo-dev:armhf libjsoncpp1 libk5crypto3 libk5crypto3:armhf libkeyutils1 libkeyutils1:armhf libkrb5-3 libkrb5-3:armhf libkrb5support0 libkrb5support0:armhf libldap-2.4-2 libldap-2.4-2:armhf libldap-common liblocale-gettext-perl liblzma-dev:armhf liblzma5:armhf libmagic-mgc libmagic1 libncurses6 libnettle7:armhf libnghttp2-14 libnghttp2-14:armhf libp11-kit0:armhf libpipeline1 libprocps7 libpsl5 libpsl5:armhf librhash0 librtmp1 librtmp1:armhf libsasl2-2 libsasl2-2:armhf libsasl2-modules-db libsasl2-modules-db:armhf libsigsegv2 libssh2-1 libssh2-1:armhf libssl1.1 libssl1.1:armhf libstdc++-9-dev:armhf libstdc++-9-dev-armhf-cross libstdc++6:armhf libstdc++6-armhf-cross libsub-override-perl libsz2:armhf libtasn1-6:armhf libtool libubsan1:armhf libubsan1-armhf-cross libuchardet0 libunistring2:armhf libuv1 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 man-db po-debconf procps sbuild-build-depends-main-dummy:armhf sensible-utils ucf zlib1g:armhf zlib1g-dev:armhf 0 upgraded, 158 newly installed, 0 to remove and 0 not upgraded. Need to get 89.3 MB of archives. After this operation, 315 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [928 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 libbsd0 amd64 0.10.0-1 [107 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 bsdmainutils amd64 11.1.2+b1 [191 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 libuchardet0 amd64 0.0.6-3 [64.9 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 groff-base amd64 1.22.4-3 [916 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libpipeline1 amd64 1.5.1-3 [32.5 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 man-db amd64 2.9.0-2 [1307 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 liblocale-gettext-perl amd64 1.07-4 [18.8 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main armhf gcc-9-base armhf 9.2.1-21 [194 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 libncurses6 amd64 6.1+20191019-1 [102 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 libprocps7 amd64 2:3.3.15-2+b1 [62.0 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 procps amd64 2:3.3.15-2+b1 [259 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 sensible-utils all 0.0.12+nmu1 [16.0 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic-mgc amd64 1:5.37-6 [253 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic1 amd64 1:5.37-6 [119 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 file amd64 1:5.37-6 [67.2 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 gettext-base amd64 0.19.8.1-10 [123 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 ucf all 3.0038+nmu1 [69.0 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 m4 amd64 1.4.18-4 [203 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 autoconf all 2.69-11 [341 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 automake all 1:1.16.1-4 [771 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 autopoint all 0.19.8.1-10 [435 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-arm-linux-gnueabihf amd64 2.33.1-6 [2721 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 cmake-data all 3.15.4-1 [1580 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 libicu63 amd64 63.2-2 [8301 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 libxml2 amd64 2.9.4+dfsg1-8 [710 kB] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive13 amd64 3.4.0-1+b1 [335 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 libbrotli1 amd64 1.0.7-5+b1 [267 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 libkeyutils1 amd64 1.6-6 [15.0 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 libkrb5support0 amd64 1.17-6 [64.6 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 libk5crypto3 amd64 1.17-6 [116 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 libssl1.1 amd64 1.1.1d-2 [1540 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 libkrb5-3 amd64 1.17-6 [366 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.17-6 [156 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-1 [69.0 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 libsasl2-2 amd64 2.1.27+dfsg-1 [106 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libldap-common all 2.4.48+dfsg-1 [90.8 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libldap-2.4-2 amd64 2.4.48+dfsg-1+b2 [225 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libnghttp2-14 amd64 1.40.0-1 [85.0 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libpsl5 amd64 0.20.2-2 [53.7 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b1 [60.8 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 libssh2-1 amd64 1.8.0-2.1 [140 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 libcurl4 amd64 7.67.0-2 [321 kB] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 libexpat1 amd64 2.2.9-1 [94.3 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 libjsoncpp1 amd64 1.7.4-3+b1 [77.9 kB] Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 librhash0 amd64 1.3.8-1 [122 kB] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 libuv1 amd64 1.33.1-2 [125 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 cmake amd64 3.15.4-1 [3568 kB] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-arm-linux-gnueabihf-base amd64 9.2.1-21cross1 [194 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-9-arm-linux-gnueabihf amd64 9.2.1-21cross1 [6813 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-arm-linux-gnueabihf amd64 4:9.2.1-3.1 [16.7 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 cross-config all 2.6.15-3 [39.9 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-cross-base all 9.2.1-21cross1 [190 kB] Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-armhf-cross all 2.29-1cross7 [1122 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc1-armhf-cross all 1:9.2.1-21cross1 [37.3 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 libgomp1-armhf-cross all 9.2.1-21cross1 [73.2 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 libatomic1-armhf-cross all 9.2.1-21cross1 [6624 B] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 libasan5-armhf-cross all 9.2.1-21cross1 [362 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++6-armhf-cross all 9.2.1-21cross1 [392 kB] Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 libubsan1-armhf-cross all 9.2.1-21cross1 [112 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-9-dev-armhf-cross all 9.2.1-21cross1 [664 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-arm-linux-gnueabihf amd64 9.2.1-21cross1 [7159 kB] Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-arm-linux-gnueabihf amd64 4:9.2.1-3.1 [1476 B] Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 linux-libc-dev-armhf-cross all 5.2.9-2cross7 [1312 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev-armhf-cross all 2.29-1cross7 [2122 kB] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-9-dev-armhf-cross all 9.2.1-21cross1 [1720 kB] Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 g++-9-arm-linux-gnueabihf amd64 9.2.1-21cross1 [7390 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 g++-arm-linux-gnueabihf amd64 4:9.2.1-3.1 [1184 B] Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-inifiles-perl all 3.000002-1 [52.0 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 libio-string-perl all 1.08-3 [12.3 kB] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-namespacesupport-perl all 1.12-1 [14.8 kB] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-base-perl all 1.09-1 [20.4 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-perl all 1.02+dfsg-1 [59.0 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-libxml-perl amd64 2.0134+dfsg-1+b1 [344 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-perl all 1.29-1 [67.4 kB] Get:79 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-auto-perl all 0.44-1 [19.5 kB] Get:80 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-which-perl all 1.23-1 [16.6 kB] Get:81 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-homedir-perl all 1.004-1 [42.7 kB] Get:82 http://debian.oregonstate.edu/debian unstable/main amd64 libdebian-dpkgcross-perl all 2.6.15-3 [38.7 kB] Get:83 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-cross all 2.6.15-3 [49.3 kB] Get:84 http://debian.oregonstate.edu/debian unstable/main amd64 crossbuild-essential-armhf all 12.8 [6644 B] Get:85 http://debian.oregonstate.edu/debian unstable/main amd64 libtool all 2.4.6-11 [547 kB] Get:86 http://debian.oregonstate.edu/debian unstable/main amd64 dh-autoreconf all 19 [16.9 kB] Get:87 http://debian.oregonstate.edu/debian unstable/main amd64 libdebhelper-perl all 12.7.2 [174 kB] Get:88 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive-zip-perl all 1.67-1 [104 kB] Get:89 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get:90 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.6.3-1 [23.6 kB] Get:91 http://debian.oregonstate.edu/debian unstable/main amd64 dh-strip-nondeterminism all 1.6.3-1 [14.6 kB] Get:92 http://debian.oregonstate.edu/debian unstable/main amd64 libelf1 amd64 0.176-1.1 [161 kB] Get:93 http://debian.oregonstate.edu/debian unstable/main amd64 dwz amd64 0.13-5 [151 kB] Get:94 http://debian.oregonstate.edu/debian unstable/main amd64 libglib2.0-0 amd64 2.62.3-2 [1320 kB] Get:95 http://debian.oregonstate.edu/debian unstable/main amd64 libcroco3 amd64 0.6.13-1 [146 kB] Get:96 http://debian.oregonstate.edu/debian unstable/main amd64 gettext amd64 0.19.8.1-10 [1303 kB] Get:97 http://debian.oregonstate.edu/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get:98 http://debian.oregonstate.edu/debian unstable/main amd64 po-debconf all 1.0.21 [248 kB] Get:99 http://debian.oregonstate.edu/debian unstable/main amd64 debhelper all 12.7.2 [1018 kB] Get:100 http://debian.oregonstate.edu/debian unstable/main armhf hdf5-helpers armhf 1.10.4+repack-10 [35.2 kB] Get:101 http://debian.oregonstate.edu/debian unstable/main armhf libgcc1 armhf 1:9.2.1-21 [37.3 kB] Get:102 http://debian.oregonstate.edu/debian unstable/main armhf libcrypt1 armhf 1:4.4.10-7 [100 kB] Get:103 http://debian.oregonstate.edu/debian unstable/main armhf libc6 armhf 2.29-6 [2331 kB] Get:104 http://debian.oregonstate.edu/debian unstable/main armhf libaec0 armhf 1.0.4-1 [20.4 kB] Get:105 http://debian.oregonstate.edu/debian unstable/main armhf libsz2 armhf 1.0.4-1 [6616 B] Get:106 http://debian.oregonstate.edu/debian unstable/main armhf libaec-dev armhf 1.0.4-1 [18.3 kB] Get:107 http://debian.oregonstate.edu/debian unstable/main armhf libasan5 armhf 9.2.1-21 [369 kB] Get:108 http://debian.oregonstate.edu/debian unstable/main armhf libatomic1 armhf 9.2.1-21 [6864 B] Get:109 http://debian.oregonstate.edu/debian unstable/main armhf libbrotli1 armhf 1.0.7-5+b1 [259 kB] Get:110 http://debian.oregonstate.edu/debian unstable/main armhf libbz2-1.0 armhf 1.0.8-2 [44.4 kB] Get:111 http://debian.oregonstate.edu/debian unstable/main armhf linux-libc-dev armhf 5.3.15-1 [998 kB] Get:112 http://debian.oregonstate.edu/debian unstable/main armhf libcrypt1-dev armhf 1:4.4.10-7 [120 kB] Get:113 http://debian.oregonstate.edu/debian unstable/main armhf libc6-dev armhf 2.29-6 [2127 kB] Get:114 http://debian.oregonstate.edu/debian unstable/main armhf libcom-err2 armhf 1.45.4-1 [70.0 kB] Get:115 http://debian.oregonstate.edu/debian unstable/main armhf libgmp10 armhf 2:6.1.2+dfsg-4 [205 kB] Get:116 http://debian.oregonstate.edu/debian unstable/main armhf libnettle7 armhf 3.5.1+really3.5.1-2 [237 kB] Get:117 http://debian.oregonstate.edu/debian unstable/main armhf libhogweed5 armhf 3.5.1+really3.5.1-2 [128 kB] Get:118 http://debian.oregonstate.edu/debian unstable/main armhf libunistring2 armhf 0.9.10-2 [371 kB] Get:119 http://debian.oregonstate.edu/debian unstable/main armhf libidn2-0 armhf 2.2.0-2 [80.5 kB] Get:120 http://debian.oregonstate.edu/debian unstable/main armhf libffi6 armhf 3.2.1-9 [18.9 kB] Get:121 http://debian.oregonstate.edu/debian unstable/main armhf libp11-kit0 armhf 0.23.18.1-2 [302 kB] Get:122 http://debian.oregonstate.edu/debian unstable/main armhf libtasn1-6 armhf 4.15.0-2 [49.4 kB] Get:123 http://debian.oregonstate.edu/debian unstable/main armhf libgnutls30 armhf 3.6.11.1-2 [1119 kB] Get:124 http://debian.oregonstate.edu/debian unstable/main armhf libkeyutils1 armhf 1.6-6 [13.9 kB] Get:125 http://debian.oregonstate.edu/debian unstable/main armhf libkrb5support0 armhf 1.17-6 [61.3 kB] Get:126 http://debian.oregonstate.edu/debian unstable/main armhf libk5crypto3 armhf 1.17-6 [114 kB] Get:127 http://debian.oregonstate.edu/debian unstable/main armhf libssl1.1 armhf 1.1.1d-2 [1305 kB] Get:128 http://debian.oregonstate.edu/debian unstable/main armhf libkrb5-3 armhf 1.17-6 [322 kB] Get:129 http://debian.oregonstate.edu/debian unstable/main armhf libgssapi-krb5-2 armhf 1.17-6 [135 kB] Get:130 http://debian.oregonstate.edu/debian unstable/main armhf libdb5.3 armhf 5.3.28+dfsg1-0.6 [597 kB] Get:131 http://debian.oregonstate.edu/debian unstable/main armhf libsasl2-modules-db armhf 2.1.27+dfsg-1 [67.3 kB] Get:132 http://debian.oregonstate.edu/debian unstable/main armhf libsasl2-2 armhf 2.1.27+dfsg-1 [98.7 kB] Get:133 http://debian.oregonstate.edu/debian unstable/main armhf libldap-2.4-2 armhf 2.4.48+dfsg-1+b2 [203 kB] Get:134 http://debian.oregonstate.edu/debian unstable/main armhf libnghttp2-14 armhf 1.40.0-1 [74.3 kB] Get:135 http://debian.oregonstate.edu/debian unstable/main armhf libpsl5 armhf 0.20.2-2 [52.4 kB] Get:136 http://debian.oregonstate.edu/debian unstable/main armhf zlib1g armhf 1:1.2.11.dfsg-1+b1 [85.1 kB] Get:137 http://debian.oregonstate.edu/debian unstable/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b1 [55.1 kB] Get:138 http://debian.oregonstate.edu/debian unstable/main armhf libgpg-error0 armhf 1.36-7 [63.1 kB] Get:139 http://debian.oregonstate.edu/debian unstable/main armhf libgcrypt20 armhf 1.8.5-3 [502 kB] Get:140 http://debian.oregonstate.edu/debian unstable/main armhf libssh2-1 armhf 1.8.0-2.1 [129 kB] Get:141 http://debian.oregonstate.edu/debian unstable/main armhf libcurl3-gnutls armhf 7.67.0-2 [288 kB] Get:142 http://debian.oregonstate.edu/debian unstable/main armhf libdeflate0 armhf 1.3-3 [71.3 kB] Get:143 http://debian.oregonstate.edu/debian unstable/main armhf libgomp1 armhf 9.2.1-21 [75.2 kB] Get:144 http://debian.oregonstate.edu/debian unstable/main armhf libstdc++6 armhf 9.2.1-21 [431 kB] Get:145 http://debian.oregonstate.edu/debian unstable/main armhf libubsan1 armhf 9.2.1-21 [113 kB] Get:146 http://debian.oregonstate.edu/debian unstable/main armhf libgcc-9-dev armhf 9.2.1-21 [664 kB] Get:147 http://debian.oregonstate.edu/debian unstable/main armhf libgfortran5 armhf 9.2.1-21 [239 kB] Get:148 http://debian.oregonstate.edu/debian unstable/main armhf libhdf5-103 armhf 1.10.4+repack-10 [1285 kB] Get:149 http://debian.oregonstate.edu/debian unstable/main armhf libhdf5-cpp-103 armhf 1.10.4+repack-10 [123 kB] Get:150 http://debian.oregonstate.edu/debian unstable/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-1+b1 [204 kB] Get:151 http://debian.oregonstate.edu/debian unstable/main armhf libjpeg62-turbo armhf 1:1.5.2-2+b1 [112 kB] Get:152 http://debian.oregonstate.edu/debian unstable/main armhf libjpeg62-turbo-dev armhf 1:1.5.2-2+b1 [182 kB] Get:153 http://debian.oregonstate.edu/debian unstable/main armhf libhdf5-dev armhf 1.10.4+repack-10 [2515 kB] Get:154 http://debian.oregonstate.edu/debian unstable/main armhf liblzma5 armhf 5.2.4-1+b1 [145 kB] Get:155 http://debian.oregonstate.edu/debian unstable/main armhf libhts3 armhf 1.10.1-2 [337 kB] Get:156 http://debian.oregonstate.edu/debian unstable/main armhf liblzma-dev armhf 5.2.4-1+b1 [204 kB] Get:157 http://debian.oregonstate.edu/debian unstable/main armhf libhts-dev armhf 1.10.1-2 [4787 kB] Get:158 http://debian.oregonstate.edu/debian unstable/main armhf libstdc++-9-dev armhf 9.2.1-21 [1720 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 89.3 MB in 1s (60.0 MB/s) Selecting previously unselected package libbsd0:amd64. (Reading database ... 15014 files and directories currently installed.) Preparing to unpack .../000-libbsd0_0.10.0-1_amd64.deb ... Unpacking libbsd0:amd64 (0.10.0-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../001-bsdmainutils_11.1.2+b1_amd64.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../002-libuchardet0_0.0.6-3_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../003-groff-base_1.22.4-3_amd64.deb ... Unpacking groff-base (1.22.4-3) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../004-libpipeline1_1.5.1-3_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.1-3) ... Selecting previously unselected package man-db. Preparing to unpack .../005-man-db_2.9.0-2_amd64.deb ... Unpacking man-db (2.9.0-2) ... Selecting previously unselected package liblocale-gettext-perl. Preparing to unpack .../006-liblocale-gettext-perl_1.07-4_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-4) ... Selecting previously unselected package gcc-9-base:armhf. Preparing to unpack .../007-gcc-9-base_9.2.1-21_armhf.deb ... Unpacking gcc-9-base:armhf (9.2.1-21) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../008-libncurses6_6.1+20191019-1_amd64.deb ... Unpacking libncurses6:amd64 (6.1+20191019-1) ... Selecting previously unselected package libprocps7:amd64. Preparing to unpack .../009-libprocps7_2%3a3.3.15-2+b1_amd64.deb ... Unpacking libprocps7:amd64 (2:3.3.15-2+b1) ... Selecting previously unselected package procps. Preparing to unpack .../010-procps_2%3a3.3.15-2+b1_amd64.deb ... Unpacking procps (2:3.3.15-2+b1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../011-sensible-utils_0.0.12+nmu1_all.deb ... Unpacking sensible-utils (0.0.12+nmu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../012-libmagic-mgc_1%3a5.37-6_amd64.deb ... Unpacking libmagic-mgc (1:5.37-6) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../013-libmagic1_1%3a5.37-6_amd64.deb ... Unpacking libmagic1:amd64 (1:5.37-6) ... Selecting previously unselected package file. Preparing to unpack .../014-file_1%3a5.37-6_amd64.deb ... Unpacking file (1:5.37-6) ... Selecting previously unselected package gettext-base. Preparing to unpack .../015-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 .../016-ucf_3.0038+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0038+nmu1) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../017-libsigsegv2_2.12-2_amd64.deb ... Unpacking libsigsegv2:amd64 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../018-m4_1.4.18-4_amd64.deb ... Unpacking m4 (1.4.18-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../019-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../020-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../021-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../022-autopoint_0.19.8.1-10_all.deb ... Unpacking autopoint (0.19.8.1-10) ... Selecting previously unselected package binutils-arm-linux-gnueabihf. Preparing to unpack .../023-binutils-arm-linux-gnueabihf_2.33.1-6_amd64.deb ... Unpacking binutils-arm-linux-gnueabihf (2.33.1-6) ... Selecting previously unselected package cmake-data. 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Preparing to unpack .../030-libkrb5support0_1.17-6_amd64.deb ... Unpacking libkrb5support0:amd64 (1.17-6) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../031-libk5crypto3_1.17-6_amd64.deb ... Unpacking libk5crypto3:amd64 (1.17-6) ... Selecting previously unselected package libssl1.1:amd64. Preparing to unpack .../032-libssl1.1_1.1.1d-2_amd64.deb ... Unpacking libssl1.1:amd64 (1.1.1d-2) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../033-libkrb5-3_1.17-6_amd64.deb ... Unpacking libkrb5-3:amd64 (1.17-6) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../034-libgssapi-krb5-2_1.17-6_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.17-6) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../035-libsasl2-modules-db_2.1.27+dfsg-1_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.27+dfsg-1) ... 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Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b1) ... Selecting previously unselected package libssh2-1:amd64. Preparing to unpack .../042-libssh2-1_1.8.0-2.1_amd64.deb ... Unpacking libssh2-1:amd64 (1.8.0-2.1) ... Selecting previously unselected package libcurl4:amd64. Preparing to unpack .../043-libcurl4_7.67.0-2_amd64.deb ... Unpacking libcurl4:amd64 (7.67.0-2) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../044-libexpat1_2.2.9-1_amd64.deb ... Unpacking libexpat1:amd64 (2.2.9-1) ... Selecting previously unselected package libjsoncpp1:amd64. Preparing to unpack .../045-libjsoncpp1_1.7.4-3+b1_amd64.deb ... Unpacking libjsoncpp1:amd64 (1.7.4-3+b1) ... Selecting previously unselected package librhash0:amd64. Preparing to unpack .../046-librhash0_1.3.8-1_amd64.deb ... Unpacking librhash0:amd64 (1.3.8-1) ... Selecting previously unselected package libuv1:amd64. Preparing to unpack .../047-libuv1_1.33.1-2_amd64.deb ... Unpacking libuv1:amd64 (1.33.1-2) ... Selecting previously unselected package cmake. Preparing to unpack .../048-cmake_3.15.4-1_amd64.deb ... Unpacking cmake (3.15.4-1) ... Selecting previously unselected package gcc-9-arm-linux-gnueabihf-base:amd64. Preparing to unpack .../049-gcc-9-arm-linux-gnueabihf-base_9.2.1-21cross1_amd64.deb ... Unpacking gcc-9-arm-linux-gnueabihf-base:amd64 (9.2.1-21cross1) ... Selecting previously unselected package cpp-9-arm-linux-gnueabihf. Preparing to unpack .../050-cpp-9-arm-linux-gnueabihf_9.2.1-21cross1_amd64.deb ... Unpacking cpp-9-arm-linux-gnueabihf (9.2.1-21cross1) ... Selecting previously unselected package cpp-arm-linux-gnueabihf. Preparing to unpack .../051-cpp-arm-linux-gnueabihf_4%3a9.2.1-3.1_amd64.deb ... Unpacking cpp-arm-linux-gnueabihf (4:9.2.1-3.1) ... Selecting previously unselected package cross-config. Preparing to unpack .../052-cross-config_2.6.15-3_all.deb ... Unpacking cross-config (2.6.15-3) ... Selecting previously unselected package gcc-9-cross-base. Preparing to unpack .../053-gcc-9-cross-base_9.2.1-21cross1_all.deb ... Unpacking gcc-9-cross-base (9.2.1-21cross1) ... Selecting previously unselected package libc6-armhf-cross. Preparing to unpack .../054-libc6-armhf-cross_2.29-1cross7_all.deb ... Unpacking libc6-armhf-cross (2.29-1cross7) ... Selecting previously unselected package libgcc1-armhf-cross. Preparing to unpack .../055-libgcc1-armhf-cross_1%3a9.2.1-21cross1_all.deb ... Unpacking libgcc1-armhf-cross (1:9.2.1-21cross1) ... Selecting previously unselected package libgomp1-armhf-cross. Preparing to unpack .../056-libgomp1-armhf-cross_9.2.1-21cross1_all.deb ... Unpacking libgomp1-armhf-cross (9.2.1-21cross1) ... Selecting previously unselected package libatomic1-armhf-cross. Preparing to unpack .../057-libatomic1-armhf-cross_9.2.1-21cross1_all.deb ... Unpacking libatomic1-armhf-cross (9.2.1-21cross1) ... Selecting previously unselected package libasan5-armhf-cross. Preparing to unpack .../058-libasan5-armhf-cross_9.2.1-21cross1_all.deb ... Unpacking libasan5-armhf-cross (9.2.1-21cross1) ... Selecting previously unselected package libstdc++6-armhf-cross. Preparing to unpack .../059-libstdc++6-armhf-cross_9.2.1-21cross1_all.deb ... Unpacking libstdc++6-armhf-cross (9.2.1-21cross1) ... Selecting previously unselected package libubsan1-armhf-cross. Preparing to unpack .../060-libubsan1-armhf-cross_9.2.1-21cross1_all.deb ... Unpacking libubsan1-armhf-cross (9.2.1-21cross1) ... Selecting previously unselected package libgcc-9-dev-armhf-cross. Preparing to unpack .../061-libgcc-9-dev-armhf-cross_9.2.1-21cross1_all.deb ... Unpacking libgcc-9-dev-armhf-cross (9.2.1-21cross1) ... Selecting previously unselected package gcc-9-arm-linux-gnueabihf. Preparing to unpack .../062-gcc-9-arm-linux-gnueabihf_9.2.1-21cross1_amd64.deb ... Unpacking gcc-9-arm-linux-gnueabihf (9.2.1-21cross1) ... Selecting previously unselected package gcc-arm-linux-gnueabihf. 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Setting up libio-string-perl (1.08-3) ... Setting up autotools-dev (20180224.1) ... Setting up cross-config (2.6.15-3) ... Setting up libuv1:amd64 (1.33.1-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b1) ... Setting up libncurses6:amd64 (6.1+20191019-1) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up linux-libc-dev-armhf-cross (5.2.9-2cross7) ... Setting up autopoint (0.19.8.1-10) ... Setting up gcc-9-cross-base (9.2.1-21cross1) ... Setting up libk5crypto3:amd64 (1.17-6) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-1) ... Setting up sensible-utils (0.0.12+nmu1) ... Setting up librhash0:amd64 (1.3.8-1) ... Setting up libuchardet0:amd64 (0.0.6-3) ... Setting up procps (2:3.3.15-2+b1) ... update-alternatives: using /usr/bin/w.procps to provide /usr/bin/w (w) in auto mode Setting up libsub-override-perl (0.09-2) ... Setting up libssh2-1:amd64 (1.8.0-2.1) ... Setting up cmake-data (3.15.4-1) ... Setting up libkrb5-3:amd64 (1.17-6) ... Setting up libfile-homedir-perl (1.004-1) ... Setting up libbsd0:amd64 (0.10.0-1) ... Setting up binutils-arm-linux-gnueabihf (2.33.1-6) ... Setting up libelf1:amd64 (0.176-1.1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-8) ... Setting up liblocale-gettext-perl (1.07-4) ... Setting up libjsoncpp1:amd64 (1.7.4-3+b1) ... Setting up gcc-9-base:armhf (9.2.1-21) ... Setting up libgomp1-armhf-cross (9.2.1-21cross1) ... Setting up libfile-stripnondeterminism-perl (1.6.3-1) ... Setting up libtool (2.4.6-11) ... Setting up cpp-9-arm-linux-gnueabihf (9.2.1-21cross1) ... Setting up libarchive13:amd64 (3.4.0-1+b1) ... Setting up libc6-dev-armhf-cross (2.29-1cross7) ... Setting up libldap-2.4-2:amd64 (2.4.48+dfsg-1+b2) ... Setting up m4 (1.4.18-4) ... Setting up libatomic1-armhf-cross (9.2.1-21cross1) ... Setting up libgcc1-armhf-cross (1:9.2.1-21cross1) ... Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libgssapi-krb5-2:amd64 (1.17-6) ... Setting up libcroco3:amd64 (0.6.13-1) ... Setting up ucf (3.0038+nmu1) ... Setting up autoconf (2.69-11) ... Setting up dh-strip-nondeterminism (1.6.3-1) ... Setting up dwz (0.13-5) ... Setting up groff-base (1.22.4-3) ... Setting up libcurl4:amd64 (7.67.0-2) ... Setting up cpp-arm-linux-gnueabihf (4:9.2.1-3.1) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up gettext (0.19.8.1-10) ... Setting up man-db (2.9.0-2) ... Not building database; man-db/auto-update is not 'true'. 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 libasan5-armhf-cross (9.2.1-21cross1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libstdc++6-armhf-cross (9.2.1-21cross1) ... Setting up libubsan1-armhf-cross (9.2.1-21cross1) ... Setting up libxml-libxml-perl (2.0134+dfsg-1+b1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libgcc-9-dev-armhf-cross (9.2.1-21cross1) ... Setting up cmake (3.15.4-1) ... Setting up po-debconf (1.0.21) ... Setting up libxml-simple-perl (2.25-1) ... Setting up gcc-9-arm-linux-gnueabihf (9.2.1-21cross1) ... Setting up libstdc++-9-dev-armhf-cross (9.2.1-21cross1) ... Setting up gcc-arm-linux-gnueabihf (4:9.2.1-3.1) ... Setting up libconfig-auto-perl (0.44-1) ... Setting up g++-9-arm-linux-gnueabihf (9.2.1-21cross1) ... Setting up libdebian-dpkgcross-perl (2.6.15-3) ... Setting up g++-arm-linux-gnueabihf (4:9.2.1-3.1) ... Setting up dpkg-cross (2.6.15-3) ... Setting up crossbuild-essential-armhf (12.8) ... Setting up libcrypt1:armhf (1:4.4.10-7) ... Setting up dh-autoreconf (19) ... Setting up libcrypt1-dev:armhf (1:4.4.10-7) ... Setting up libc6:armhf (2.29-6) ... Setting up libnettle7:armhf (3.5.1+really3.5.1-2) ... Setting up libtasn1-6:armhf (4.15.0-2) ... Setting up libc6-dev:armhf (2.29-6) ... Setting up libbz2-1.0:armhf (1.0.8-2) ... Setting up libdb5.3:armhf (5.3.28+dfsg1-0.6) ... Setting up libkeyutils1:armhf (1.6-6) ... Setting up liblzma5:armhf (5.2.4-1+b1) ... Setting up libgpg-error0:armhf (1.36-7) ... Setting up libgcc1:armhf (1:9.2.1-21) ... Setting up libssl1.1:armhf (1.1.1d-2) ... Setting up libbrotli1:armhf (1.0.7-5+b1) ... Setting up libnghttp2-14:armhf (1.40.0-1) ... Setting up libunistring2:armhf (0.9.10-2) ... Setting up libdeflate0:armhf (1.3-3) ... Setting up libgcrypt20:armhf (1.8.5-3) ... Setting up debhelper (12.7.2) ... Setting up zlib1g:armhf (1:1.2.11.dfsg-1+b1) ... Setting up libffi6:armhf (3.2.1-9) ... Setting up libidn2-0:armhf (2.2.0-2) ... Setting up libcom-err2:armhf (1.45.4-1) ... Setting up libgomp1:armhf (9.2.1-21) ... Setting up libaec0:armhf (1.0.4-1) ... Setting up libkrb5support0:armhf (1.17-6) ... Setting up libsasl2-modules-db:armhf (2.1.27+dfsg-1) ... Setting up libasan5:armhf (9.2.1-21) ... Setting up libjpeg62-turbo:armhf (1:1.5.2-2+b1) ... Setting up libjpeg62-turbo-dev:armhf (1:1.5.2-2+b1) ... Setting up libgmp10:armhf (2:6.1.2+dfsg-4) ... Setting up libp11-kit0:armhf (0.23.18.1-2) ... Setting up libatomic1:armhf (9.2.1-21) ... Setting up libk5crypto3:armhf (1.17-6) ... Setting up libsasl2-2:armhf (2.1.27+dfsg-1) ... Setting up libgfortran5:armhf (9.2.1-21) ... Setting up liblzma-dev:armhf (5.2.4-1+b1) ... Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-1+b1) ... Setting up libssh2-1:armhf (1.8.0-2.1) ... Setting up libkrb5-3:armhf (1.17-6) ... Setting up libstdc++6:armhf (9.2.1-21) ... Setting up libsz2:armhf (1.0.4-1) ... Setting up libpsl5:armhf (0.20.2-2) ... Setting up libhogweed5:armhf (3.5.1+really3.5.1-2) ... Setting up libaec-dev:armhf (1.0.4-1) ... Setting up libgnutls30:armhf (3.6.11.1-2) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b1) ... Setting up libhdf5-103:armhf (1.10.4+repack-10) ... Setting up libgssapi-krb5-2:armhf (1.17-6) ... Setting up libubsan1:armhf (9.2.1-21) ... Setting up libhdf5-cpp-103:armhf (1.10.4+repack-10) ... Setting up libldap-2.4-2:armhf (2.4.48+dfsg-1+b2) ... Setting up libcurl3-gnutls:armhf (7.67.0-2) ... Setting up libgcc-9-dev:armhf (9.2.1-21) ... Setting up libhdf5-dev:armhf (1.10.4+repack-10) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/pkgconfig/hdf5-serial.pc to provide /usr/lib/arm-linux-gnueabihf/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up libhts3:armhf (1.10.1-2) ... Setting up libstdc++-9-dev:armhf (9.2.1-21) ... Setting up libhts-dev:armhf (1.10.1-2) ... Setting up sbuild-build-depends-main-dummy:armhf (0.invalid.0) ... Processing triggers for libc-bin (2.29-6) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (armhf included in any all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.9.0-8-amd64 #1 SMP Debian 4.9.144-3.1 (2019-02-19) amd64 (x86_64) Toolchain package versions: binutils_2.33.1-6 dpkg-dev_1.19.7 g++-8_8.3.0-26 g++-9_9.2.1-21 gcc-8_8.3.0-26 gcc-9_9.2.1-21 libc6-dev_2.29-6 libstdc++-8-dev_8.3.0-26 libstdc++-9-dev_9.2.1-21 libstdc++-9-dev-armhf-cross_9.2.1-21cross1 libstdc++6_9.2.1-21 libstdc++6-armhf-cross_9.2.1-21cross1 linux-libc-dev_5.3.15-1 Package versions: adduser_3.118 apt_1.8.4 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11 base-passwd_3.5.47 bash_5.0-5 binutils_2.33.1-6 binutils-arm-linux-gnueabihf_2.33.1-6 binutils-common_2.33.1-6 binutils-x86-64-linux-gnu_2.33.1-6 bsdmainutils_11.1.2+b1 bsdutils_1:2.34-0.1 build-essential_12.8 bzip2_1.0.8-2 cmake_3.15.4-1 cmake-data_3.15.4-1 coreutils_8.30-3+b1 cpp_4:9.2.1-3.1 cpp-8_8.3.0-26 cpp-9_9.2.1-21 cpp-9-arm-linux-gnueabihf_9.2.1-21cross1 cpp-arm-linux-gnueabihf_4:9.2.1-3.1 cross-config_2.6.15-3 crossbuild-essential-armhf_12.8 dash_0.5.10.2-6 debconf_1.5.73 debhelper_12.7.2 debian-archive-keyring_2019.1 debianutils_4.9.1 dh-autoreconf_19 dh-strip-nondeterminism_1.6.3-1 diffutils_1:3.7-3 dpkg_1.19.7 dpkg-cross_2.6.15-3 dpkg-dev_1.19.7 dwz_0.13-5 e2fsprogs_1.45.4-1 fakeroot_1.24-1 fdisk_2.34-0.1 file_1:5.37-6 findutils_4.7.0-1 g++_4:9.2.1-3.1 g++-8_8.3.0-26 g++-9_9.2.1-21 g++-9-arm-linux-gnueabihf_9.2.1-21cross1 g++-arm-linux-gnueabihf_4:9.2.1-3.1 gcc_4:9.2.1-3.1 gcc-8_8.3.0-26 gcc-8-base_8.3.0-26 gcc-9_9.2.1-21 gcc-9-arm-linux-gnueabihf_9.2.1-21cross1 gcc-9-arm-linux-gnueabihf-base_9.2.1-21cross1 gcc-9-base_9.2.1-21 gcc-9-cross-base_9.2.1-21cross1 gcc-arm-linux-gnueabihf_4:9.2.1-3.1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gpgv_2.2.17-3 grep_3.3-1 groff-base_1.22.4-3 gzip_1.9-3+b1 hdf5-helpers_1.10.4+repack-10 hostname_3.23 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-5 libaec-dev_1.0.4-1 libaec0_1.0.4-1 libapt-pkg5.0_1.8.4 libarchive-zip-perl_1.67-1 libarchive13_3.4.0-1+b1 libasan5_9.2.1-21 libasan5-armhf-cross_9.2.1-21cross1 libatomic1_9.2.1-21 libatomic1-armhf-cross_9.2.1-21cross1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-2 libaudit1_1:2.8.5-2+b1 libbinutils_2.33.1-6 libblkid1_2.34-0.1 libbrotli1_1.0.7-5+b1 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libc-bin_2.29-6 libc-dev-bin_2.29-6 libc6_2.29-6 libc6-armhf-cross_2.29-1cross7 libc6-dev_2.29-6 libc6-dev-armhf-cross_2.29-1cross7 libcap-ng0_0.7.9-2.1+b1 libcc1-0_9.2.1-21 libcom-err2_1.45.4-1 libconfig-auto-perl_0.44-1 libconfig-inifiles-perl_3.000002-1 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libhogweed5_3.5.1+really3.5.1-2 libhts-dev_1.10.1-2 libhts3_1.10.1-2 libicu63_63.2-2 libidn2-0_2.2.0-2 libio-string-perl_1.08-3 libisl19_0.20-2 libisl22_0.22-2 libitm1_9.2.1-21 libjpeg62-turbo_1:1.5.2-2+b1 libjpeg62-turbo-dev_1:1.5.2-2+b1 libjsoncpp1_1.7.4-3+b1 libk5crypto3_1.17-6 libkeyutils1_1.6-6 libkrb5-3_1.17-6 libkrb5support0_1.17-6 libldap-2.4-2_2.4.48+dfsg-1+b2 libldap-common_2.4.48+dfsg-1 liblocale-gettext-perl_1.07-4 liblsan0_9.2.1-21 liblz4-1_1.9.2-2 liblzma-dev_5.2.4-1+b1 liblzma5_5.2.4-1+b1 libmagic-mgc_1:5.37-6 libmagic1_1:5.37-6 libmount1_2.34-0.1 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libmpx2_8.3.0-26 libncurses6_6.1+20191019-1 libncursesw6_6.1+20191019-1 libnettle6_3.5.1+really3.4.1-1 libnettle7_3.5.1+really3.5.1-2 libnghttp2-14_1.40.0-1 libp11-kit0_0.23.18.1-2 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_10.34-7 libpcre3_2:8.39-12+b1 libperl5.28_5.28.1-6 libperl5.30_5.30.0-9 libpipeline1_1.5.1-3 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kallisto-examples Architecture: any all Version: 0.46.1+dfsg-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://pachterlab.github.io/kallisto Standards-Version: 4.4.1 Vcs-Browser: https://salsa.debian.org/med-team/kallisto Vcs-Git: https://salsa.debian.org/med-team/kallisto.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 12), cmake, libhdf5-dev, libhts-dev Package-List: kallisto deb science optional arch=any kallisto-examples deb science optional arch=all Checksums-Sha1: 585c325fc92d9a83fc86c928c3c41e8ce369b85f 847436 kallisto_0.46.1+dfsg.orig.tar.xz 67f67d58cdc3a15dd70986e4dc47a75ab2ebaec0 5124 kallisto_0.46.1+dfsg-1.debian.tar.xz Checksums-Sha256: 4d8b0bd6bac52eb714df53e81f4a5248c65ba46b70f0edf61a1dfe3dfde62f52 847436 kallisto_0.46.1+dfsg.orig.tar.xz 4bd3dd23fc930a00dc74897e5d963210754ebf5cf008db2614b3c7c3ce647045 5124 kallisto_0.46.1+dfsg-1.debian.tar.xz Files: 55f7580183f5bc63f4efcef116b6d91d 847436 kallisto_0.46.1+dfsg.orig.tar.xz 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keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Fri Nov 8 22:21:09 2019 UTC gpgv: using RSA key 84C1977A89E7EFED3E5CA62E2FD8BEDAC020EED1 gpgv: issuer "moeller@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./kallisto_0.46.1+dfsg-1.dsc dpkg-source: info: extracting kallisto in /<> dpkg-source: info: unpacking kallisto_0.46.1+dfsg.orig.tar.xz dpkg-source: info: unpacking kallisto_0.46.1+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use_debian_packaged_htslib.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-bb493c32-73f6-452d-ad2a-c9b1b08bc965 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 kallisto dpkg-buildpackage: info: source version 0.46.1+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Steffen Moeller 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 fakeroot debian/rules clean dh clean dh_clean debian/rules build-arch dh build-arch dh_update_autotools_config -a dh_autoreconf -a debian/rules override_dh_auto_configure make[1]: Entering directory '/<>' dh_auto_configure -- -DDEBIAN_BUILD=1 -DLINK=shared cd obj-arm-linux-gnueabihf && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_SYSTEM_NAME=Linux -DCMAKE_SYSTEM_PROCESSOR=armv7l -DCMAKE_C_COMPILER=arm-linux-gnueabihf-gcc -DCMAKE_CXX_COMPILER=arm-linux-gnueabihf-g\+\+ -DPKG_CONFIG_EXECUTABLE=/usr/bin/arm-linux-gnueabihf-pkg-config -DPKGCONFIG_EXECUTABLE=/usr/bin/arm-linux-gnueabihf-pkg-config -DQMAKE_EXECUTABLE=/usr/bin/arm-linux-gnueabihf-qmake -DCMAKE_INSTALL_LIBDIR=lib/arm-linux-gnueabihf -DDEBIAN_BUILD=1 -DLINK=shared .. -- The C compiler identification is GNU 9.2.1 -- The CXX compiler identification is GNU 9.2.1 -- Check for working C compiler: /usr/bin/arm-linux-gnueabihf-gcc -- Check for working C compiler: /usr/bin/arm-linux-gnueabihf-gcc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/arm-linux-gnueabihf-g++ -- Check for working CXX compiler: /usr/bin/arm-linux-gnueabihf-g++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done shared build -- Looking for pthread.h -- Looking for pthread.h - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed -- Looking for pthread_create in pthreads -- Looking for pthread_create in pthreads - not found -- Looking for pthread_create in pthread -- Looking for pthread_create in pthread - found -- Found Threads: TRUE -- HDF5: Using hdf5 compiler wrapper to determine C configuration -- Found HDF5: /usr/lib/arm-linux-gnueabihf/hdf5/serial/libhdf5.so;/usr/lib/arm-linux-gnueabihf/libpthread.so;/usr/lib/arm-linux-gnueabihf/libsz.so;/usr/lib/arm-linux-gnueabihf/libz.so;/usr/lib/arm-linux-gnueabihf/libdl.so;/usr/lib/arm-linux-gnueabihf/libm.so (found version "1.10.4") -- Found ZLIB: /usr/lib/arm-linux-gnueabihf/libz.so (found version "1.2.11") -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY PKGCONFIG_EXECUTABLE PKG_CONFIG_EXECUTABLE QMAKE_EXECUTABLE -- Build files have been written to: /<>/obj-arm-linux-gnueabihf make[1]: Leaving directory '/<>' dh_auto_build -a cd obj-arm-linux-gnueabihf && make -j1 "INSTALL=install --strip-program=true" make[1]: Entering directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/<> -B/<>/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/obj-arm-linux-gnueabihf/CMakeFiles /<>/obj-arm-linux-gnueabihf/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/<>/obj-arm-linux-gnueabihf' make -f src/CMakeFiles/kallisto_core.dir/build.make src/CMakeFiles/kallisto_core.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/src /<>/obj-arm-linux-gnueabihf/src/CMakeFiles/kallisto_core.dir/DependInfo.cmake --color= Scanning dependencies of target kallisto_core make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f src/CMakeFiles/kallisto_core.dir/build.make src/CMakeFiles/kallisto_core.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 4%] Building CXX object src/CMakeFiles/kallisto_core.dir/BUSData.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -I/<>/src -I/usr/include/hdf5/serial -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/kallisto_core.dir/BUSData.cpp.o -c /<>/src/BUSData.cpp [ 9%] Building CXX object src/CMakeFiles/kallisto_core.dir/BUSTools.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -I/<>/src -I/usr/include/hdf5/serial -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/kallisto_core.dir/BUSTools.cpp.o -c /<>/src/BUSTools.cpp [ 14%] Building CXX object src/CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -I/<>/src -I/usr/include/hdf5/serial -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o -c /<>/src/Bootstrap.cpp In file included from /<>/src/KmerIndex.h:18, from /<>/src/Bootstrap.h:7, from /<>/src/Bootstrap.cpp:1: /<>/src/KmerHashTable.h: In member function ‘size_t KmerHashTable::rndup(size_t)’: /<>/src/KmerHashTable.h:240:15: warning: right shift count >= width of type [-Wshift-count-overflow] 240 | v |= v >> 32; | ^~ In file included from /<>/src/PlaintextWriter.h:13, from /<>/src/H5Writer.h:7, from /<>/src/Bootstrap.h:12, from /<>/src/Bootstrap.cpp:1: /<>/src/GeneModel.h: In member function ‘std::size_t std::hash >::operator()(const std::pair&) const’: /<>/src/GeneModel.h:66:107: warning: left shift count >= width of type [-Wshift-count-overflow] 66 | return std::hash()(x.first) ^ (std::hash()(x.second)<<32); | ^~ In file included from /<>/src/KmerIndex.h:18, from /<>/src/Bootstrap.h:7, from /<>/src/Bootstrap.cpp:1: /<>/src/KmerHashTable.h: In instantiation of ‘size_t KmerHashTable::rndup(size_t) [with T = KmerEntry; Hash = KmerHash; size_t = unsigned int]’: /<>/src/KmerHashTable.h:125:13: required from ‘void KmerHashTable::init_table(size_t) [with T = KmerEntry; Hash = KmerHash; size_t = unsigned int]’ /<>/src/KmerHashTable.h:92:5: required from ‘KmerHashTable::KmerHashTable(const Hash&) [with T = KmerEntry; Hash = KmerHash]’ /<>/src/KmerIndex.h:96:106: required from here /<>/src/KmerHashTable.h:240:12: warning: right shift count >= width of type [-Wshift-count-overflow] 240 | v |= v >> 32; | ~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /<>/src/KmerIndex.h:7, from /<>/src/Bootstrap.h:7, from /<>/src/Bootstrap.cpp:1: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67, from /<>/src/KmerIndex.h:7, from /<>/src/Bootstrap.h:7, from /<>/src/Bootstrap.cpp:1: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void std::discrete_distribution<_IntType>::param_type::_M_initialize() [with _IntType = int]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 19%] Building CXX object src/CMakeFiles/kallisto_core.dir/GeneModel.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -I/<>/src -I/usr/include/hdf5/serial -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/kallisto_core.dir/GeneModel.cpp.o -c /<>/src/GeneModel.cpp In file included from /<>/src/KmerIndex.h:18, from /<>/src/GeneModel.h:10, from /<>/src/GeneModel.cpp:1: /<>/src/KmerHashTable.h: In member function ‘size_t KmerHashTable::rndup(size_t)’: /<>/src/KmerHashTable.h:240:15: warning: right shift count >= width of type [-Wshift-count-overflow] 240 | v |= v >> 32; | ^~ In file included from /<>/src/GeneModel.cpp:1: /<>/src/GeneModel.h: In member function ‘std::size_t std::hash >::operator()(const std::pair&) const’: /<>/src/GeneModel.h:66:107: warning: left shift count >= width of type [-Wshift-count-overflow] 66 | return std::hash()(x.first) ^ (std::hash()(x.second)<<32); | ^~ In file included from /<>/src/KmerIndex.h:18, from /<>/src/GeneModel.h:10, from /<>/src/GeneModel.cpp:1: /<>/src/KmerHashTable.h: In instantiation of ‘size_t KmerHashTable::rndup(size_t) [with T = KmerEntry; Hash = KmerHash; size_t = unsigned int]’: /<>/src/KmerHashTable.h:125:13: required from ‘void KmerHashTable::init_table(size_t) [with T = KmerEntry; Hash = KmerHash; size_t = unsigned int]’ /<>/src/KmerHashTable.h:92:5: required from ‘KmerHashTable::KmerHashTable(const Hash&) [with T = KmerEntry; Hash = KmerHash]’ /<>/src/KmerIndex.h:96:106: required from here /<>/src/KmerHashTable.h:240:12: warning: right shift count >= width of type [-Wshift-count-overflow] 240 | v |= v >> 32; | ~~^~~~~ [ 23%] Building CXX object src/CMakeFiles/kallisto_core.dir/H5Writer.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -I/<>/src -I/usr/include/hdf5/serial -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/kallisto_core.dir/H5Writer.cpp.o -c /<>/src/H5Writer.cpp In file included from /<>/src/KmerIndex.h:18, from /<>/src/EMAlgorithm.h:5, from /<>/src/H5Writer.h:4, from /<>/src/H5Writer.cpp:1: /<>/src/KmerHashTable.h: In member function ‘size_t KmerHashTable::rndup(size_t)’: /<>/src/KmerHashTable.h:240:15: warning: right shift count >= width of type [-Wshift-count-overflow] 240 | v |= v >> 32; | ^~ In file included from /<>/src/PlaintextWriter.h:13, from /<>/src/H5Writer.h:7, from /<>/src/H5Writer.cpp:1: /<>/src/GeneModel.h: In member function ‘std::size_t std::hash >::operator()(const std::pair&) const’: /<>/src/GeneModel.h:66:107: warning: left shift count >= width of type [-Wshift-count-overflow] 66 | return std::hash()(x.first) ^ (std::hash()(x.second)<<32); | ^~ In file included from /<>/src/KmerIndex.h:18, from /<>/src/EMAlgorithm.h:5, from /<>/src/H5Writer.h:4, from /<>/src/H5Writer.cpp:1: /<>/src/KmerHashTable.h: In instantiation of ‘size_t KmerHashTable::rndup(size_t) [with T = KmerEntry; Hash = KmerHash; size_t = unsigned int]’: /<>/src/KmerHashTable.h:125:13: required from ‘void KmerHashTable::init_table(size_t) [with T = KmerEntry; Hash = KmerHash; size_t = unsigned int]’ /<>/src/KmerHashTable.h:92:5: required from ‘KmerHashTable::KmerHashTable(const Hash&) [with T = KmerEntry; Hash = KmerHash]’ /<>/src/KmerIndex.h:96:106: required from here /<>/src/KmerHashTable.h:240:12: warning: right shift count >= width of type [-Wshift-count-overflow] 240 | v |= v >> 32; | ~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /<>/src/common.h:7, from /<>/src/EMAlgorithm.h:4, from /<>/src/H5Writer.h:4, from /<>/src/H5Writer.cpp:1: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67, from /<>/src/common.h:7, from /<>/src/EMAlgorithm.h:4, from /<>/src/H5Writer.h:4, from /<>/src/H5Writer.cpp:1: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In constructor ‘H5Converter::H5Converter(const string&, const string&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 28%] Building CXX object src/CMakeFiles/kallisto_core.dir/Kmer.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -I/<>/src -I/usr/include/hdf5/serial -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/kallisto_core.dir/Kmer.cpp.o -c /<>/src/Kmer.cpp [ 33%] Building CXX object src/CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -I/<>/src -I/usr/include/hdf5/serial -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o -c /<>/src/KmerIndex.cpp In file included from /<>/src/KmerIndex.h:18, from /<>/src/KmerIndex.cpp:1: /<>/src/KmerHashTable.h: In member function ‘size_t KmerHashTable::rndup(size_t)’: /<>/src/KmerHashTable.h:240:15: warning: right shift count >= width of type [-Wshift-count-overflow] 240 | v |= v >> 32; | ^~ /<>/src/KmerHashTable.h: In instantiation of ‘size_t KmerHashTable::rndup(size_t) [with T = KmerEntry; Hash = KmerHash; size_t = unsigned int]’: /<>/src/KmerHashTable.h:218:13: required from ‘void KmerHashTable::reserve(size_t, bool) [with T = KmerEntry; Hash = KmerHash; size_t = unsigned int]’ /<>/src/KmerIndex.cpp:848:32: required from here /<>/src/KmerHashTable.h:240:12: warning: right shift count >= width of type [-Wshift-count-overflow] 240 | v |= v >> 32; | ~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /<>/src/KmerIndex.h:7, from /<>/src/KmerIndex.cpp:1: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const Kmer&}; _Tp = Kmer; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {Kmer}; _Tp = Kmer; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67, from /<>/src/KmerIndex.h:7, from /<>/src/KmerIndex.cpp:1: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void KmerIndex::BuildDeBruijnGraph(const ProgramOptions&, const std::vector >&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /<>/src/KmerIndex.h:7, from /<>/src/KmerIndex.cpp:1: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67, from /<>/src/KmerIndex.h:7, from /<>/src/KmerIndex.cpp:1: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 38%] Building CXX object src/CMakeFiles/kallisto_core.dir/KmerIterator.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -I/<>/src -I/usr/include/hdf5/serial -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/kallisto_core.dir/KmerIterator.cpp.o -c /<>/src/KmerIterator.cpp [ 42%] Building CXX object src/CMakeFiles/kallisto_core.dir/Merge.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -I/<>/src -I/usr/include/hdf5/serial -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/kallisto_core.dir/Merge.cpp.o -c /<>/src/Merge.cpp In file included from /<>/src/KmerIndex.h:18, from /<>/src/Merge.cpp:11: /<>/src/KmerHashTable.h: In member function ‘size_t KmerHashTable::rndup(size_t)’: /<>/src/KmerHashTable.h:240:15: warning: right shift count >= width of type [-Wshift-count-overflow] 240 | v |= v >> 32; | ^~ /<>/src/KmerHashTable.h: In instantiation of ‘size_t KmerHashTable::rndup(size_t) [with T = KmerEntry; Hash = KmerHash; size_t = unsigned int]’: /<>/src/KmerHashTable.h:125:13: required from ‘void KmerHashTable::init_table(size_t) [with T = KmerEntry; Hash = KmerHash; size_t = unsigned int]’ /<>/src/KmerHashTable.h:92:5: required from ‘KmerHashTable::KmerHashTable(const Hash&) [with T = KmerEntry; Hash = KmerHash]’ /<>/src/KmerIndex.h:96:106: required from here /<>/src/KmerHashTable.h:240:12: warning: right shift count >= width of type [-Wshift-count-overflow] 240 | v |= v >> 32; | ~~^~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /<>/src/Merge.cpp:5: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67, from /<>/src/Merge.cpp:5: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In function ‘bool MergeBatchDirectories(const ProgramOptions&, int&, int64_t&, int64_t&, int64_t&, int&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 47%] Building CXX object src/CMakeFiles/kallisto_core.dir/MinCollector.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -I/<>/src -I/usr/include/hdf5/serial -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/kallisto_core.dir/MinCollector.cpp.o -c /<>/src/MinCollector.cpp In file included from /<>/src/KmerIndex.h:18, from /<>/src/MinCollector.h:11, from /<>/src/MinCollector.cpp:1: /<>/src/KmerHashTable.h: In member function ‘size_t KmerHashTable::rndup(size_t)’: /<>/src/KmerHashTable.h:240:15: warning: right shift count >= width of type [-Wshift-count-overflow] 240 | v |= v >> 32; | ^~ /<>/src/KmerHashTable.h: In instantiation of ‘size_t KmerHashTable::rndup(size_t) [with T = KmerEntry; Hash = KmerHash; size_t = unsigned int]’: /<>/src/KmerHashTable.h:125:13: required from ‘void KmerHashTable::init_table(size_t) [with T = KmerEntry; Hash = KmerHash; size_t = unsigned int]’ /<>/src/KmerHashTable.h:92:5: required from ‘KmerHashTable::KmerHashTable(const Hash&) [with T = KmerEntry; Hash = KmerHash]’ /<>/src/KmerIndex.h:96:106: required from here /<>/src/KmerHashTable.h:240:12: warning: right shift count >= width of type [-Wshift-count-overflow] 240 | v |= v >> 32; | ~~^~~~~ [ 52%] Building CXX object src/CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -I/<>/src -I/usr/include/hdf5/serial -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o -c /<>/src/PlaintextWriter.cpp In file included from /<>/src/KmerIndex.h:18, from /<>/src/PlaintextWriter.h:12, from /<>/src/PlaintextWriter.cpp:1: /<>/src/KmerHashTable.h: In member function ‘size_t KmerHashTable::rndup(size_t)’: /<>/src/KmerHashTable.h:240:15: warning: right shift count >= width of type [-Wshift-count-overflow] 240 | v |= v >> 32; | ^~ In file included from /<>/src/PlaintextWriter.h:13, from /<>/src/PlaintextWriter.cpp:1: /<>/src/GeneModel.h: In member function ‘std::size_t std::hash >::operator()(const std::pair&) const’: /<>/src/GeneModel.h:66:107: warning: left shift count >= width of type [-Wshift-count-overflow] 66 | return std::hash()(x.first) ^ (std::hash()(x.second)<<32); | ^~ In file included from /<>/src/KmerIndex.h:18, from /<>/src/PlaintextWriter.h:12, from /<>/src/PlaintextWriter.cpp:1: /<>/src/KmerHashTable.h: In instantiation of ‘size_t KmerHashTable::rndup(size_t) [with T = KmerEntry; Hash = KmerHash; size_t = unsigned int]’: /<>/src/KmerHashTable.h:125:13: required from ‘void KmerHashTable::init_table(size_t) [with T = KmerEntry; Hash = KmerHash; size_t = unsigned int]’ /<>/src/KmerHashTable.h:92:5: required from ‘KmerHashTable::KmerHashTable(const Hash&) [with T = KmerEntry; Hash = KmerHash]’ /<>/src/KmerIndex.h:96:106: required from here /<>/src/KmerHashTable.h:240:12: warning: right shift count >= width of type [-Wshift-count-overflow] 240 | v |= v >> 32; | ~~^~~~~ [ 57%] Building CXX object src/CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -I/<>/src -I/usr/include/hdf5/serial -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o -c /<>/src/ProcessReads.cpp In file included from /<>/src/KmerIndex.h:18, from /<>/src/MinCollector.h:11, from /<>/src/ProcessReads.h:18, from /<>/src/ProcessReads.cpp:22: /<>/src/KmerHashTable.h: In member function ‘size_t KmerHashTable::rndup(size_t)’: /<>/src/KmerHashTable.h:240:15: warning: right shift count >= width of type [-Wshift-count-overflow] 240 | v |= v >> 32; | ^~ In file included from /<>/src/PseudoBam.h:10, from /<>/src/ProcessReads.h:21, from /<>/src/ProcessReads.cpp:22: /usr/include/htslib/bgzf.h: At global scope: /usr/include/htslib/bgzf.h:55:8: error: using typedef-name ‘kstring_t’ after ‘struct’ 55 | struct kstring_t; | ^~~~~~~~~ In file included from /<>/src/ProcessReads.h:5, from /<>/src/ProcessReads.cpp:22: /<>/src/kseq.h:86:3: note: ‘kstring_t’ has a previous declaration here 86 | } kstring_t; | ^~~~~~~~~ In file included from /<>/src/PseudoBam.h:10, from /<>/src/ProcessReads.h:21, from /<>/src/ProcessReads.cpp:22: /usr/include/htslib/bgzf.h:303:50: error: using typedef-name ‘kstring_t’ after ‘struct’ 303 | int bgzf_getline(BGZF *fp, int delim, struct kstring_t *str); | ^~~~~~~~~ In file included from /<>/src/ProcessReads.h:5, from /<>/src/ProcessReads.cpp:22: /<>/src/kseq.h:86:3: note: ‘kstring_t’ has a previous declaration here 86 | } kstring_t; | ^~~~~~~~~ In file included from /<>/src/PseudoBam.h:13, from /<>/src/ProcessReads.h:21, from /<>/src/ProcessReads.cpp:22: /<>/src/GeneModel.h: In member function ‘std::size_t std::hash >::operator()(const std::pair&) const’: /<>/src/GeneModel.h:66:107: warning: left shift count >= width of type [-Wshift-count-overflow] 66 | return std::hash()(x.first) ^ (std::hash()(x.second)<<32); | ^~ In file included from /<>/src/KmerIndex.h:18, from /<>/src/MinCollector.h:11, from /<>/src/ProcessReads.h:18, from /<>/src/ProcessReads.cpp:22: /<>/src/KmerHashTable.h: In instantiation of ‘size_t KmerHashTable::rndup(size_t) [with T = KmerEntry; Hash = KmerHash; size_t = unsigned int]’: /<>/src/KmerHashTable.h:125:13: required from ‘void KmerHashTable::init_table(size_t) [with T = KmerEntry; Hash = KmerHash; size_t = unsigned int]’ /<>/src/KmerHashTable.h:92:5: required from ‘KmerHashTable::KmerHashTable(const Hash&) [with T = KmerEntry; Hash = KmerHash]’ /<>/src/KmerIndex.h:96:106: required from here /<>/src/KmerHashTable.h:240:12: warning: right shift count >= width of type [-Wshift-count-overflow] 240 | v |= v >> 32; | ~~^~~~~ make[3]: *** [src/CMakeFiles/kallisto_core.dir/build.make:209: src/CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o] Error 1 make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[2]: *** [CMakeFiles/Makefile2:131: src/CMakeFiles/kallisto_core.dir/all] Error 2 make[2]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[1]: *** [Makefile:133: all] Error 2 make[1]: Leaving directory '/<>/obj-arm-linux-gnueabihf' dh_auto_build: cd obj-arm-linux-gnueabihf && make -j1 "INSTALL=install --strip-program=true" returned exit code 2 make: *** [debian/rules:14: build-arch] Error 255 dpkg-buildpackage: error: debian/rules build-arch subprocess returned exit status 2 -------------------------------------------------------------------------------- Build finished at 2019-12-19T21:39:09Z Finished -------- +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use E: Build failure (dpkg-buildpackage died) +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any Build-Space: 17124 Build-Time: 38 Distribution: unstable Fail-Stage: build Foreign Architectures: armhf Host Architecture: armhf Install-Time: 24 Job: kallisto_0.46.1+dfsg-1 Machine Architecture: amd64 Package: kallisto Package-Time: 74 Source-Version: 0.46.1+dfsg-1 Space: 17124 Status: attempted Version: 0.46.1+dfsg-1 -------------------------------------------------------------------------------- Finished at 2019-12-19T21:39:09Z Build needed 00:01:14, 17124k disk space