sbuild (Debian sbuild) 0.78.1 (09 February 2019) on gcc131.bak.milne.osuosl.org +==============================================================================+ | stacks 2.53+dfsg-1 (armhf) Thu, 07 May 2020 17:29:48 +0000 | +==============================================================================+ Package: stacks Version: 2.53+dfsg-1 Source Version: 2.53+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-98643a0d-4686-49be-89e2-e2b37480b29f' with '<>' I: NOTICE: Log filtering will replace 'build/stacks-BvEd1g/resolver-Mop5DY' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://debian.oregonstate.edu/debian unstable InRelease [146 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 2020-05-07-0804.35.pdiff [5911 B] Get:5 http://debian.oregonstate.edu/debian unstable/main Sources 2020-05-07-1406.38.pdiff [11.6 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main Sources 2020-05-07-1406.38.pdiff [11.6 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-05-07-0804.35.pdiff [4805 B] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-05-07-1406.38.pdiff [5988 B] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-05-07-1406.38.pdiff [5988 B] Get:8 http://debian.oregonstate.edu/debian unstable/main armhf Packages [7954 kB] Fetched 8184 kB in 1s (5982 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: 'stacks' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/stacks.git Please use: git clone https://salsa.debian.org/med-team/stacks.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 331 kB of source archives. Get:1 http://debian.oregonstate.edu/debian unstable/main stacks 2.53+dfsg-1 (dsc) [2044 B] Get:2 http://debian.oregonstate.edu/debian unstable/main stacks 2.53+dfsg-1 (tar) [321 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main stacks 2.53+dfsg-1 (diff) [7560 B] Fetched 331 kB in 0s (20.9 MB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/stacks-BvEd1g/stacks-2.53+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/stacks-BvEd1g' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 12), zlib1g-dev, libbam-dev, libsparsehash-dev, samtools, 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), zlib1g-dev, libbam-dev, libsparsehash-dev, samtools, 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 [429 B] Get:5 copy:/<>/apt_archive ./ Packages [520 B] Fetched 1906 B in 0s (77.7 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 build-essential 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++ g++-9 g++-9-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-10-base:armhf gcc-10-cross-base 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 intltool-debian libarchive-zip-perl libasan5:armhf libasan5-armhf-cross libatomic1:armhf libatomic1-armhf-cross libbam-dev:armhf libbrotli1:armhf libbsd0 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 libelf1 libffi7:armhf libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-9-dev:armhf libgcc-9-dev-armhf-cross 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:armhf libhogweed5:armhf libhts-dev:armhf libhts3:armhf libicu63 libidn2-0:armhf libio-string-perl libk5crypto3:armhf libkeyutils1:armhf libkrb5-3:armhf libkrb5support0:armhf libldap-2.4-2:armhf libldap-common liblocale-gettext-perl liblzma-dev:armhf liblzma5:armhf libmagic-mgc libmagic1 libncurses6:armhf libnettle7:armhf libnghttp2-14:armhf libp11-kit0:armhf libpipeline1 libpsl5:armhf librtmp1:armhf libsasl2-2:armhf libsasl2-modules-db:armhf libsigsegv2 libsparsehash-dev libssh2-1:armhf libssl1.1:armhf libstdc++-9-dev libstdc++-9-dev:armhf libstdc++-9-dev-armhf-cross libstdc++6:armhf libstdc++6-armhf-cross libsub-override-perl libtasn1-6:armhf libtinfo6: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 man-db po-debconf samtools:armhf sensible-utils ucf zlib1g:armhf zlib1g-dev:armhf Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc wamerican | wordlist whois vacation gcc-9-locales cpp-doc dh-make binutils-multiarch g++-multilib g++-9-multilib gcc-9-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 rng-tools:armhf gnutls-bin:armhf krb5-doc:armhf krb5-user:armhf liblzma-doc:armhf libstdc++-9-doc 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 libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libgpg-error-l10n:armhf krb5-locales:armhf libgpm2:armhf publicsuffix:armhf libsasl2-modules:armhf libltdl-dev libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl | libyaml-syck-perl libmail-sendmail-perl python3:armhf cwltool:armhf The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-arm-linux-gnueabihf bsdmainutils build-essential 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++ g++-9 g++-9-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-10-base:armhf gcc-10-cross-base 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 intltool-debian libarchive-zip-perl libasan5:armhf libasan5-armhf-cross libatomic1:armhf libatomic1-armhf-cross libbam-dev:armhf libbrotli1:armhf libbsd0 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 libelf1 libffi7:armhf libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-9-dev:armhf libgcc-9-dev-armhf-cross 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:armhf libhogweed5:armhf libhts-dev:armhf libhts3:armhf libicu63 libidn2-0:armhf libio-string-perl libk5crypto3:armhf libkeyutils1:armhf libkrb5-3:armhf libkrb5support0:armhf libldap-2.4-2:armhf libldap-common liblocale-gettext-perl liblzma-dev:armhf liblzma5:armhf libmagic-mgc libmagic1 libncurses6:armhf libnettle7:armhf libnghttp2-14:armhf libp11-kit0:armhf libpipeline1 libpsl5:armhf librtmp1:armhf libsasl2-2:armhf libsasl2-modules-db:armhf libsigsegv2 libsparsehash-dev libssh2-1:armhf libssl1.1:armhf libstdc++-9-dev libstdc++-9-dev:armhf libstdc++-9-dev-armhf-cross libstdc++6:armhf libstdc++6-armhf-cross libsub-override-perl libtasn1-6:armhf libtinfo6: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 man-db po-debconf samtools:armhf sbuild-build-depends-main-dummy:armhf sensible-utils ucf zlib1g:armhf zlib1g-dev:armhf 0 upgraded, 136 newly installed, 0 to remove and 0 not upgraded. Need to get 91.5 MB of archives. After this operation, 333 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 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 1.22.4-5 [920 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libpipeline1 amd64 1.5.2-2 [33.9 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 man-db amd64 2.9.1-1 [1308 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-10-base armhf 10-20200502-1 [197 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main armhf gcc-9-base armhf 9.3.0-11 [196 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 sensible-utils all 0.0.12+nmu1 [16.0 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic-mgc amd64 1:5.38-4 [262 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic1 amd64 1:5.38-4 [120 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 file amd64 1:5.38-4 [67.9 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 gettext-base amd64 0.19.8.1-10 [123 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 ucf all 3.0038+nmu1 [69.0 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 m4 amd64 1.4.18-4 [203 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 autoconf all 2.69-11.1 [341 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 automake all 1:1.16.2-1 [775 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 autopoint all 0.19.8.1-10 [435 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-arm-linux-gnueabihf amd64 2.34-6 [2750 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 libcrypt-dev amd64 1:4.4.16-1 [104 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev amd64 2.30-7 [2634 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-9-dev amd64 9.3.0-11 [1701 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 g++-9 amd64 9.3.0-11 [10.7 MB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 g++ amd64 4:9.2.1-3.1 [1644 B] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 build-essential amd64 12.8 [7640 B] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-arm-linux-gnueabihf-base amd64 9.3.0-8cross1 [197 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-9-arm-linux-gnueabihf amd64 9.3.0-8cross1 [6817 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-arm-linux-gnueabihf amd64 4:9.2.1-3.1 [16.7 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 cross-config all 2.6.15-3 [39.9 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-cross-base all 9.3.0-8cross1 [192 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-10-cross-base all 10-20200418-1cross1 [192 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-armhf-cross all 2.30-2cross1 [1111 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-s1-armhf-cross all 10-20200418-1cross1 [36.2 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 libgomp1-armhf-cross all 10-20200418-1cross1 [82.3 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libatomic1-armhf-cross all 10-20200418-1cross1 [6644 B] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libasan5-armhf-cross all 9.3.0-8cross1 [363 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++6-armhf-cross all 10-20200418-1cross1 [380 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libubsan1-armhf-cross all 10-20200418-1cross1 [115 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-9-dev-armhf-cross all 9.3.0-8cross1 [661 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-arm-linux-gnueabihf amd64 9.3.0-8cross1 [7173 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-arm-linux-gnueabihf amd64 4:9.2.1-3.1 [1476 B] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 linux-libc-dev-armhf-cross all 5.4.19-1cross1 [1155 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev-armhf-cross all 2.30-2cross1 [2118 kB] Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-9-dev-armhf-cross all 9.3.0-8cross1 [1723 kB] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 g++-9-arm-linux-gnueabihf amd64 9.3.0-8cross1 [7400 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 g++-arm-linux-gnueabihf amd64 4:9.2.1-3.1 [1184 B] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-inifiles-perl all 3.000003-1 [52.1 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 libio-string-perl all 1.08-3 [12.3 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 libicu63 amd64 63.2-3 [8296 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 libxml2 amd64 2.9.10+dfsg-5 [709 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-namespacesupport-perl all 1.12-1 [14.8 kB] Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-base-perl all 1.09-1 [20.4 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-perl all 1.02+dfsg-1 [59.0 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-libxml-perl amd64 2.0134+dfsg-2 [343 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-perl all 1.30-1 [67.7 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-auto-perl all 0.44-1 [19.5 kB] Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-which-perl all 1.23-1 [16.6 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-homedir-perl all 1.004-1 [42.7 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 libdebian-dpkgcross-perl all 2.6.15-3 [38.7 kB] Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-cross all 2.6.15-3 [49.3 kB] Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 crossbuild-essential-armhf all 12.8 [6644 B] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 libtool all 2.4.6-14 [513 kB] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 dh-autoreconf all 19 [16.9 kB] Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 libdebhelper-perl all 13 [184 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.8.0-1 [24.2 kB] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 dh-strip-nondeterminism all 1.8.0-1 [14.8 kB] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 libelf1 amd64 0.176-1.1 [161 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 dwz amd64 0.13-5 [151 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 libglib2.0-0 amd64 2.64.2-1 [1343 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 libcroco3 amd64 0.6.13-1 [146 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 gettext amd64 0.19.8.1-10 [1303 kB] Get:79 http://debian.oregonstate.edu/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get:80 http://debian.oregonstate.edu/debian unstable/main amd64 po-debconf all 1.0.21 [248 kB] Get:81 http://debian.oregonstate.edu/debian unstable/main amd64 debhelper all 13 [1002 kB] Get:82 http://debian.oregonstate.edu/debian unstable/main armhf libgcc-s1 armhf 10-20200502-1 [36.2 kB] Get:83 http://debian.oregonstate.edu/debian unstable/main armhf libcrypt1 armhf 1:4.4.16-1 [101 kB] Get:84 http://debian.oregonstate.edu/debian unstable/main armhf libc6 armhf 2.30-7 [2341 kB] Get:85 http://debian.oregonstate.edu/debian unstable/main armhf libasan5 armhf 9.3.0-11 [369 kB] Get:86 http://debian.oregonstate.edu/debian unstable/main armhf libatomic1 armhf 10-20200502-1 [6880 B] Get:87 http://debian.oregonstate.edu/debian unstable/main armhf libbam-dev armhf 0.1.19-4 [112 kB] Get:88 http://debian.oregonstate.edu/debian unstable/main armhf libbrotli1 armhf 1.0.7-6.1 [268 kB] Get:89 http://debian.oregonstate.edu/debian unstable/main armhf libbz2-1.0 armhf 1.0.8-2 [44.4 kB] Get:90 http://debian.oregonstate.edu/debian unstable/main armhf linux-libc-dev armhf 5.6.7-1 [1080 kB] Get:91 http://debian.oregonstate.edu/debian unstable/main armhf libcrypt-dev armhf 1:4.4.16-1 [120 kB] Get:92 http://debian.oregonstate.edu/debian unstable/main armhf libc6-dev armhf 2.30-7 [2135 kB] Get:93 http://debian.oregonstate.edu/debian unstable/main armhf libcom-err2 armhf 1.45.6-1 [70.9 kB] Get:94 http://debian.oregonstate.edu/debian unstable/main armhf libgmp10 armhf 2:6.2.0+dfsg-4 [206 kB] Get:95 http://debian.oregonstate.edu/debian unstable/main armhf libnettle7 armhf 3.5.1+really3.5.1-2 [237 kB] Get:96 http://debian.oregonstate.edu/debian unstable/main armhf libhogweed5 armhf 3.5.1+really3.5.1-2 [128 kB] Get:97 http://debian.oregonstate.edu/debian unstable/main armhf libunistring2 armhf 0.9.10-2 [371 kB] Get:98 http://debian.oregonstate.edu/debian unstable/main armhf libidn2-0 armhf 2.3.0-1 [83.2 kB] Get:99 http://debian.oregonstate.edu/debian unstable/main armhf libffi7 armhf 3.3-4 [20.0 kB] Get:100 http://debian.oregonstate.edu/debian unstable/main armhf libp11-kit0 armhf 0.23.20-1 [306 kB] Get:101 http://debian.oregonstate.edu/debian unstable/main armhf libtasn1-6 armhf 4.16.0-2 [50.2 kB] Get:102 http://debian.oregonstate.edu/debian unstable/main armhf libgnutls30 armhf 3.6.13-2 [1168 kB] Get:103 http://debian.oregonstate.edu/debian unstable/main armhf libkrb5support0 armhf 1.17-7 [61.5 kB] Get:104 http://debian.oregonstate.edu/debian unstable/main armhf libk5crypto3 armhf 1.17-7 [114 kB] Get:105 http://debian.oregonstate.edu/debian unstable/main armhf libkeyutils1 armhf 1.6.1-2 [14.4 kB] Get:106 http://debian.oregonstate.edu/debian unstable/main armhf libssl1.1 armhf 1.1.1g-1 [1308 kB] Get:107 http://debian.oregonstate.edu/debian unstable/main armhf libkrb5-3 armhf 1.17-7 [323 kB] Get:108 http://debian.oregonstate.edu/debian unstable/main armhf libgssapi-krb5-2 armhf 1.17-7 [136 kB] Get:109 http://debian.oregonstate.edu/debian unstable/main armhf libdb5.3 armhf 5.3.28+dfsg1-0.6 [597 kB] Get:110 http://debian.oregonstate.edu/debian unstable/main armhf libsasl2-modules-db armhf 2.1.27+dfsg-2 [67.5 kB] Get:111 http://debian.oregonstate.edu/debian unstable/main armhf libsasl2-2 armhf 2.1.27+dfsg-2 [99.3 kB] Get:112 http://debian.oregonstate.edu/debian unstable/main amd64 libldap-common all 2.4.50+dfsg-1 [92.9 kB] Get:113 http://debian.oregonstate.edu/debian unstable/main armhf libldap-2.4-2 armhf 2.4.50+dfsg-1 [206 kB] Get:114 http://debian.oregonstate.edu/debian unstable/main armhf libnghttp2-14 armhf 1.40.0-1 [74.3 kB] Get:115 http://debian.oregonstate.edu/debian unstable/main armhf libpsl5 armhf 0.21.0-1 [53.8 kB] Get:116 http://debian.oregonstate.edu/debian unstable/main armhf zlib1g armhf 1:1.2.11.dfsg-2 [85.4 kB] Get:117 http://debian.oregonstate.edu/debian unstable/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b1 [55.1 kB] Get:118 http://debian.oregonstate.edu/debian unstable/main armhf libgpg-error0 armhf 1.37-1 [64.3 kB] Get:119 http://debian.oregonstate.edu/debian unstable/main armhf libgcrypt20 armhf 1.8.5-5 [502 kB] Get:120 http://debian.oregonstate.edu/debian unstable/main armhf libssh2-1 armhf 1.8.0-2.1 [129 kB] Get:121 http://debian.oregonstate.edu/debian unstable/main armhf libcurl3-gnutls armhf 7.68.0-1 [288 kB] Get:122 http://debian.oregonstate.edu/debian unstable/main armhf libdeflate0 armhf 1.5-3 [46.3 kB] Get:123 http://debian.oregonstate.edu/debian unstable/main armhf libgomp1 armhf 10-20200502-1 [84.4 kB] Get:124 http://debian.oregonstate.edu/debian unstable/main armhf libstdc++6 armhf 10-20200502-1 [420 kB] Get:125 http://debian.oregonstate.edu/debian unstable/main armhf libubsan1 armhf 10-20200502-1 [116 kB] Get:126 http://debian.oregonstate.edu/debian unstable/main armhf libgcc-9-dev armhf 9.3.0-11 [663 kB] Get:127 http://debian.oregonstate.edu/debian unstable/main armhf liblzma5 armhf 5.2.4-1+b1 [145 kB] Get:128 http://debian.oregonstate.edu/debian unstable/main armhf libhts3 armhf 1.10.2-3 [328 kB] Get:129 http://debian.oregonstate.edu/debian unstable/main armhf liblzma-dev armhf 5.2.4-1+b1 [204 kB] Get:130 http://debian.oregonstate.edu/debian unstable/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [185 kB] Get:131 http://debian.oregonstate.edu/debian unstable/main armhf libhts-dev armhf 1.10.2-3 [4796 kB] Get:132 http://debian.oregonstate.edu/debian unstable/main armhf libtinfo6 armhf 6.2-1 [322 kB] Get:133 http://debian.oregonstate.edu/debian unstable/main armhf libncurses6 armhf 6.2-1 [80.5 kB] Get:134 http://debian.oregonstate.edu/debian unstable/main amd64 libsparsehash-dev all 2.0.3-2 [76.8 kB] Get:135 http://debian.oregonstate.edu/debian unstable/main armhf libstdc++-9-dev armhf 9.3.0-11 [1757 kB] Get:136 http://debian.oregonstate.edu/debian unstable/main armhf samtools armhf 1.10-3 [494 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 91.5 MB in 1s (114 MB/s) Selecting previously unselected package libbsd0:amd64. (Reading database ... 12639 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_1.22.4-5_amd64.deb ... Unpacking groff-base (1.22.4-5) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../004-libpipeline1_1.5.2-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.2-2) ... Selecting previously unselected package man-db. Preparing to unpack .../005-man-db_2.9.1-1_amd64.deb ... Unpacking man-db (2.9.1-1) ... 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-10-base:armhf. Preparing to unpack .../007-gcc-10-base_10-20200502-1_armhf.deb ... Unpacking gcc-10-base:armhf (10-20200502-1) ... Selecting previously unselected package gcc-9-base:armhf. Preparing to unpack .../008-gcc-9-base_9.3.0-11_armhf.deb ... Unpacking gcc-9-base:armhf (9.3.0-11) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../009-sensible-utils_0.0.12+nmu1_all.deb ... Unpacking sensible-utils (0.0.12+nmu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../010-libmagic-mgc_1%3a5.38-4_amd64.deb ... Unpacking libmagic-mgc (1:5.38-4) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../011-libmagic1_1%3a5.38-4_amd64.deb ... Unpacking libmagic1:amd64 (1:5.38-4) ... Selecting previously unselected package file. Preparing to unpack .../012-file_1%3a5.38-4_amd64.deb ... Unpacking file (1:5.38-4) ... Selecting previously unselected package gettext-base. Preparing to unpack .../013-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 .../014-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 .../015-libsigsegv2_2.12-2_amd64.deb ... Unpacking libsigsegv2:amd64 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../016-m4_1.4.18-4_amd64.deb ... Unpacking m4 (1.4.18-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../017-autoconf_2.69-11.1_all.deb ... Unpacking autoconf (2.69-11.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../018-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../019-automake_1%3a1.16.2-1_all.deb ... Unpacking automake (1:1.16.2-1) ... Selecting previously unselected package autopoint. Preparing to unpack .../020-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 .../021-binutils-arm-linux-gnueabihf_2.34-6_amd64.deb ... Unpacking binutils-arm-linux-gnueabihf (2.34-6) ... Selecting previously unselected package libcrypt-dev:amd64. Preparing to unpack .../022-libcrypt-dev_1%3a4.4.16-1_amd64.deb ... Unpacking libcrypt-dev:amd64 (1:4.4.16-1) ... Selecting previously unselected package libc6-dev:amd64. Preparing to unpack .../023-libc6-dev_2.30-7_amd64.deb ... Unpacking libc6-dev:amd64 (2.30-7) ... Selecting previously unselected package libstdc++-9-dev:amd64. Preparing to unpack .../024-libstdc++-9-dev_9.3.0-11_amd64.deb ... Unpacking libstdc++-9-dev:amd64 (9.3.0-11) ... Selecting previously unselected package g++-9. Preparing to unpack .../025-g++-9_9.3.0-11_amd64.deb ... Unpacking g++-9 (9.3.0-11) ... Selecting previously unselected package g++. Preparing to unpack .../026-g++_4%3a9.2.1-3.1_amd64.deb ... Unpacking g++ (4:9.2.1-3.1) ... Selecting previously unselected package build-essential. Preparing to unpack .../027-build-essential_12.8_amd64.deb ... Unpacking build-essential (12.8) ... Selecting previously unselected package gcc-9-arm-linux-gnueabihf-base:amd64. Preparing to unpack .../028-gcc-9-arm-linux-gnueabihf-base_9.3.0-8cross1_amd64.deb ... Unpacking gcc-9-arm-linux-gnueabihf-base:amd64 (9.3.0-8cross1) ... Selecting previously unselected package cpp-9-arm-linux-gnueabihf. Preparing to unpack .../029-cpp-9-arm-linux-gnueabihf_9.3.0-8cross1_amd64.deb ... Unpacking cpp-9-arm-linux-gnueabihf (9.3.0-8cross1) ... Selecting previously unselected package cpp-arm-linux-gnueabihf. Preparing to unpack .../030-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 .../031-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 .../032-gcc-9-cross-base_9.3.0-8cross1_all.deb ... Unpacking gcc-9-cross-base (9.3.0-8cross1) ... Selecting previously unselected package gcc-10-cross-base. Preparing to unpack .../033-gcc-10-cross-base_10-20200418-1cross1_all.deb ... Unpacking gcc-10-cross-base (10-20200418-1cross1) ... Selecting previously unselected package libc6-armhf-cross. Preparing to unpack .../034-libc6-armhf-cross_2.30-2cross1_all.deb ... Unpacking libc6-armhf-cross (2.30-2cross1) ... Selecting previously unselected package libgcc-s1-armhf-cross. Preparing to unpack .../035-libgcc-s1-armhf-cross_10-20200418-1cross1_all.deb ... Unpacking libgcc-s1-armhf-cross (10-20200418-1cross1) ... Selecting previously unselected package libgomp1-armhf-cross. Preparing to unpack .../036-libgomp1-armhf-cross_10-20200418-1cross1_all.deb ... Unpacking libgomp1-armhf-cross (10-20200418-1cross1) ... Selecting previously unselected package libatomic1-armhf-cross. Preparing to unpack .../037-libatomic1-armhf-cross_10-20200418-1cross1_all.deb ... Unpacking libatomic1-armhf-cross (10-20200418-1cross1) ... Selecting previously unselected package libasan5-armhf-cross. Preparing to unpack .../038-libasan5-armhf-cross_9.3.0-8cross1_all.deb ... Unpacking libasan5-armhf-cross (9.3.0-8cross1) ... Selecting previously unselected package libstdc++6-armhf-cross. Preparing to unpack .../039-libstdc++6-armhf-cross_10-20200418-1cross1_all.deb ... Unpacking libstdc++6-armhf-cross (10-20200418-1cross1) ... Selecting previously unselected package libubsan1-armhf-cross. Preparing to unpack .../040-libubsan1-armhf-cross_10-20200418-1cross1_all.deb ... Unpacking libubsan1-armhf-cross (10-20200418-1cross1) ... Selecting previously unselected package libgcc-9-dev-armhf-cross. Preparing to unpack .../041-libgcc-9-dev-armhf-cross_9.3.0-8cross1_all.deb ... Unpacking libgcc-9-dev-armhf-cross (9.3.0-8cross1) ... Selecting previously unselected package gcc-9-arm-linux-gnueabihf. Preparing to unpack .../042-gcc-9-arm-linux-gnueabihf_9.3.0-8cross1_amd64.deb ... Unpacking gcc-9-arm-linux-gnueabihf (9.3.0-8cross1) ... Selecting previously unselected package gcc-arm-linux-gnueabihf. Preparing to unpack .../043-gcc-arm-linux-gnueabihf_4%3a9.2.1-3.1_amd64.deb ... Unpacking gcc-arm-linux-gnueabihf (4:9.2.1-3.1) ... Selecting previously unselected package linux-libc-dev-armhf-cross. Preparing to unpack .../044-linux-libc-dev-armhf-cross_5.4.19-1cross1_all.deb ... Unpacking linux-libc-dev-armhf-cross (5.4.19-1cross1) ... Selecting previously unselected package libc6-dev-armhf-cross. Preparing to unpack .../045-libc6-dev-armhf-cross_2.30-2cross1_all.deb ... Unpacking libc6-dev-armhf-cross (2.30-2cross1) ... Selecting previously unselected package libstdc++-9-dev-armhf-cross. Preparing to unpack .../046-libstdc++-9-dev-armhf-cross_9.3.0-8cross1_all.deb ... Unpacking libstdc++-9-dev-armhf-cross (9.3.0-8cross1) ... Selecting previously unselected package g++-9-arm-linux-gnueabihf. Preparing to unpack .../047-g++-9-arm-linux-gnueabihf_9.3.0-8cross1_amd64.deb ... Unpacking g++-9-arm-linux-gnueabihf (9.3.0-8cross1) ... Selecting previously unselected package g++-arm-linux-gnueabihf. Preparing to unpack .../048-g++-arm-linux-gnueabihf_4%3a9.2.1-3.1_amd64.deb ... Unpacking g++-arm-linux-gnueabihf (4:9.2.1-3.1) ... Selecting previously unselected package libconfig-inifiles-perl. Preparing to unpack .../049-libconfig-inifiles-perl_3.000003-1_all.deb ... Unpacking libconfig-inifiles-perl (3.000003-1) ... Selecting previously unselected package libio-string-perl. Preparing to unpack .../050-libio-string-perl_1.08-3_all.deb ... Unpacking libio-string-perl (1.08-3) ... Selecting previously unselected package libicu63:amd64. Preparing to unpack .../051-libicu63_63.2-3_amd64.deb ... Unpacking libicu63:amd64 (63.2-3) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../052-libxml2_2.9.10+dfsg-5_amd64.deb ... Unpacking libxml2:amd64 (2.9.10+dfsg-5) ... Selecting previously unselected package libxml-namespacesupport-perl. Preparing to unpack .../053-libxml-namespacesupport-perl_1.12-1_all.deb ... Unpacking libxml-namespacesupport-perl (1.12-1) ... Selecting previously unselected package libxml-sax-base-perl. Preparing to unpack .../054-libxml-sax-base-perl_1.09-1_all.deb ... Unpacking libxml-sax-base-perl (1.09-1) ... Selecting previously unselected package libxml-sax-perl. Preparing to unpack .../055-libxml-sax-perl_1.02+dfsg-1_all.deb ... Unpacking libxml-sax-perl (1.02+dfsg-1) ... Selecting previously unselected package libxml-libxml-perl. Preparing to unpack .../056-libxml-libxml-perl_2.0134+dfsg-2_amd64.deb ... Unpacking libxml-libxml-perl (2.0134+dfsg-2) ... Selecting previously unselected package libxml-simple-perl. Preparing to unpack .../057-libxml-simple-perl_2.25-1_all.deb ... Unpacking libxml-simple-perl (2.25-1) ... Selecting previously unselected package libyaml-perl. Preparing to unpack .../058-libyaml-perl_1.30-1_all.deb ... Unpacking libyaml-perl (1.30-1) ... Selecting previously unselected package libconfig-auto-perl. Preparing to unpack .../059-libconfig-auto-perl_0.44-1_all.deb ... Unpacking libconfig-auto-perl (0.44-1) ... Selecting previously unselected package libfile-which-perl. Preparing to unpack .../060-libfile-which-perl_1.23-1_all.deb ... Unpacking libfile-which-perl (1.23-1) ... Selecting previously unselected package libfile-homedir-perl. Preparing to unpack .../061-libfile-homedir-perl_1.004-1_all.deb ... Unpacking libfile-homedir-perl (1.004-1) ... Selecting previously unselected package libdebian-dpkgcross-perl. Preparing to unpack .../062-libdebian-dpkgcross-perl_2.6.15-3_all.deb ... Unpacking libdebian-dpkgcross-perl (2.6.15-3) ... Selecting previously unselected package dpkg-cross. Preparing to unpack .../063-dpkg-cross_2.6.15-3_all.deb ... Unpacking dpkg-cross (2.6.15-3) ... Selecting previously unselected package crossbuild-essential-armhf. Preparing to unpack .../064-crossbuild-essential-armhf_12.8_all.deb ... Unpacking crossbuild-essential-armhf (12.8) ... Selecting previously unselected package libtool. Preparing to unpack .../065-libtool_2.4.6-14_all.deb ... Unpacking libtool (2.4.6-14) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../066-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../067-libdebhelper-perl_13_all.deb ... Unpacking libdebhelper-perl (13) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../068-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../069-libsub-override-perl_0.09-2_all.deb ... Unpacking libsub-override-perl (0.09-2) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../070-libfile-stripnondeterminism-perl_1.8.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.8.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../071-dh-strip-nondeterminism_1.8.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.8.0-1) ... Selecting previously unselected package libelf1:amd64. Preparing to unpack .../072-libelf1_0.176-1.1_amd64.deb ... Unpacking libelf1:amd64 (0.176-1.1) ... Selecting previously unselected package dwz. Preparing to unpack .../073-dwz_0.13-5_amd64.deb ... Unpacking dwz (0.13-5) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../074-libglib2.0-0_2.64.2-1_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.64.2-1) ... Selecting previously unselected package libcroco3:amd64. Preparing to unpack .../075-libcroco3_0.6.13-1_amd64.deb ... Unpacking libcroco3:amd64 (0.6.13-1) ... Selecting previously unselected package gettext. Preparing to unpack .../076-gettext_0.19.8.1-10_amd64.deb ... Unpacking gettext (0.19.8.1-10) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../077-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../078-po-debconf_1.0.21_all.deb ... Unpacking po-debconf (1.0.21) ... Selecting previously unselected package debhelper. Preparing to unpack .../079-debhelper_13_all.deb ... Unpacking debhelper (13) ... Selecting previously unselected package libgcc-s1:armhf. Preparing to unpack .../080-libgcc-s1_10-20200502-1_armhf.deb ... Unpacking libgcc-s1:armhf (10-20200502-1) ... Selecting previously unselected package libcrypt1:armhf. Preparing to unpack .../081-libcrypt1_1%3a4.4.16-1_armhf.deb ... Unpacking libcrypt1:armhf (1:4.4.16-1) ... Selecting previously unselected package libc6:armhf. Preparing to unpack .../082-libc6_2.30-7_armhf.deb ... Unpacking libc6:armhf (2.30-7) ... Selecting previously unselected package libasan5:armhf. Preparing to unpack .../083-libasan5_9.3.0-11_armhf.deb ... Unpacking libasan5:armhf (9.3.0-11) ... Selecting previously unselected package libatomic1:armhf. Preparing to unpack .../084-libatomic1_10-20200502-1_armhf.deb ... Unpacking libatomic1:armhf (10-20200502-1) ... Selecting previously unselected package libbam-dev:armhf. Preparing to unpack .../085-libbam-dev_0.1.19-4_armhf.deb ... Unpacking libbam-dev:armhf (0.1.19-4) ... Selecting previously unselected package libbrotli1:armhf. Preparing to unpack .../086-libbrotli1_1.0.7-6.1_armhf.deb ... Unpacking libbrotli1:armhf (1.0.7-6.1) ... Selecting previously unselected package libbz2-1.0:armhf. Preparing to unpack .../087-libbz2-1.0_1.0.8-2_armhf.deb ... Unpacking libbz2-1.0:armhf (1.0.8-2) ... Selecting previously unselected package linux-libc-dev:armhf. Preparing to unpack .../088-linux-libc-dev_5.6.7-1_armhf.deb ... Unpacking linux-libc-dev:armhf (5.6.7-1) ... Selecting previously unselected package libcrypt-dev:armhf. Preparing to unpack .../089-libcrypt-dev_1%3a4.4.16-1_armhf.deb ... Unpacking libcrypt-dev:armhf (1:4.4.16-1) ... Selecting previously unselected package libc6-dev:armhf. Preparing to unpack .../090-libc6-dev_2.30-7_armhf.deb ... Unpacking libc6-dev:armhf (2.30-7) ... Selecting previously unselected package libcom-err2:armhf. Preparing to unpack .../091-libcom-err2_1.45.6-1_armhf.deb ... Unpacking libcom-err2:armhf (1.45.6-1) ... Selecting previously unselected package libgmp10:armhf. Preparing to unpack .../092-libgmp10_2%3a6.2.0+dfsg-4_armhf.deb ... Unpacking libgmp10:armhf (2:6.2.0+dfsg-4) ... Selecting previously unselected package libnettle7:armhf. Preparing to unpack .../093-libnettle7_3.5.1+really3.5.1-2_armhf.deb ... Unpacking libnettle7:armhf (3.5.1+really3.5.1-2) ... Selecting previously unselected package libhogweed5:armhf. Preparing to unpack .../094-libhogweed5_3.5.1+really3.5.1-2_armhf.deb ... Unpacking libhogweed5:armhf (3.5.1+really3.5.1-2) ... Selecting previously unselected package libunistring2:armhf. Preparing to unpack .../095-libunistring2_0.9.10-2_armhf.deb ... Unpacking libunistring2:armhf (0.9.10-2) ... Selecting previously unselected package libidn2-0:armhf. Preparing to unpack .../096-libidn2-0_2.3.0-1_armhf.deb ... Unpacking libidn2-0:armhf (2.3.0-1) ... Selecting previously unselected package libffi7:armhf. Preparing to unpack .../097-libffi7_3.3-4_armhf.deb ... Unpacking libffi7:armhf (3.3-4) ... Selecting previously unselected package libp11-kit0:armhf. Preparing to unpack .../098-libp11-kit0_0.23.20-1_armhf.deb ... Unpacking libp11-kit0:armhf (0.23.20-1) ... Selecting previously unselected package libtasn1-6:armhf. Preparing to unpack .../099-libtasn1-6_4.16.0-2_armhf.deb ... Unpacking libtasn1-6:armhf (4.16.0-2) ... Selecting previously unselected package libgnutls30:armhf. Preparing to unpack .../100-libgnutls30_3.6.13-2_armhf.deb ... Unpacking libgnutls30:armhf (3.6.13-2) ... Selecting previously unselected package libkrb5support0:armhf. Preparing to unpack .../101-libkrb5support0_1.17-7_armhf.deb ... Unpacking libkrb5support0:armhf (1.17-7) ... Selecting previously unselected package libk5crypto3:armhf. Preparing to unpack .../102-libk5crypto3_1.17-7_armhf.deb ... Unpacking libk5crypto3:armhf (1.17-7) ... Selecting previously unselected package libkeyutils1:armhf. Preparing to unpack .../103-libkeyutils1_1.6.1-2_armhf.deb ... Unpacking libkeyutils1:armhf (1.6.1-2) ... Selecting previously unselected package libssl1.1:armhf. Preparing to unpack .../104-libssl1.1_1.1.1g-1_armhf.deb ... Unpacking libssl1.1:armhf (1.1.1g-1) ... Selecting previously unselected package libkrb5-3:armhf. Preparing to unpack .../105-libkrb5-3_1.17-7_armhf.deb ... Unpacking libkrb5-3:armhf (1.17-7) ... Selecting previously unselected package libgssapi-krb5-2:armhf. Preparing to unpack .../106-libgssapi-krb5-2_1.17-7_armhf.deb ... Unpacking libgssapi-krb5-2:armhf (1.17-7) ... Selecting previously unselected package libdb5.3:armhf. Preparing to unpack .../107-libdb5.3_5.3.28+dfsg1-0.6_armhf.deb ... Unpacking libdb5.3:armhf (5.3.28+dfsg1-0.6) ... Selecting previously unselected package libsasl2-modules-db:armhf. Preparing to unpack .../108-libsasl2-modules-db_2.1.27+dfsg-2_armhf.deb ... Unpacking libsasl2-modules-db:armhf (2.1.27+dfsg-2) ... Selecting previously unselected package libsasl2-2:armhf. Preparing to unpack .../109-libsasl2-2_2.1.27+dfsg-2_armhf.deb ... Unpacking libsasl2-2:armhf (2.1.27+dfsg-2) ... Selecting previously unselected package libldap-common. Preparing to unpack .../110-libldap-common_2.4.50+dfsg-1_all.deb ... Unpacking libldap-common (2.4.50+dfsg-1) ... Selecting previously unselected package libldap-2.4-2:armhf. Preparing to unpack .../111-libldap-2.4-2_2.4.50+dfsg-1_armhf.deb ... Unpacking libldap-2.4-2:armhf (2.4.50+dfsg-1) ... Selecting previously unselected package libnghttp2-14:armhf. Preparing to unpack .../112-libnghttp2-14_1.40.0-1_armhf.deb ... Unpacking libnghttp2-14:armhf (1.40.0-1) ... Selecting previously unselected package libpsl5:armhf. Preparing to unpack .../113-libpsl5_0.21.0-1_armhf.deb ... Unpacking libpsl5:armhf (0.21.0-1) ... Selecting previously unselected package zlib1g:armhf. Preparing to unpack .../114-zlib1g_1%3a1.2.11.dfsg-2_armhf.deb ... Unpacking zlib1g:armhf (1:1.2.11.dfsg-2) ... Selecting previously unselected package librtmp1:armhf. Preparing to unpack .../115-librtmp1_2.4+20151223.gitfa8646d.1-2+b1_armhf.deb ... Unpacking librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b1) ... Selecting previously unselected package libgpg-error0:armhf. Preparing to unpack .../116-libgpg-error0_1.37-1_armhf.deb ... Unpacking libgpg-error0:armhf (1.37-1) ... Selecting previously unselected package libgcrypt20:armhf. Preparing to unpack .../117-libgcrypt20_1.8.5-5_armhf.deb ... Unpacking libgcrypt20:armhf (1.8.5-5) ... Selecting previously unselected package libssh2-1:armhf. Preparing to unpack .../118-libssh2-1_1.8.0-2.1_armhf.deb ... Unpacking libssh2-1:armhf (1.8.0-2.1) ... Selecting previously unselected package libcurl3-gnutls:armhf. Preparing to unpack .../119-libcurl3-gnutls_7.68.0-1_armhf.deb ... Unpacking libcurl3-gnutls:armhf (7.68.0-1) ... Selecting previously unselected package libdeflate0:armhf. Preparing to unpack .../120-libdeflate0_1.5-3_armhf.deb ... Unpacking libdeflate0:armhf (1.5-3) ... Selecting previously unselected package libgomp1:armhf. Preparing to unpack .../121-libgomp1_10-20200502-1_armhf.deb ... Unpacking libgomp1:armhf (10-20200502-1) ... Selecting previously unselected package libstdc++6:armhf. Preparing to unpack .../122-libstdc++6_10-20200502-1_armhf.deb ... Unpacking libstdc++6:armhf (10-20200502-1) ... Selecting previously unselected package libubsan1:armhf. Preparing to unpack .../123-libubsan1_10-20200502-1_armhf.deb ... Unpacking libubsan1:armhf (10-20200502-1) ... Selecting previously unselected package libgcc-9-dev:armhf. Preparing to unpack .../124-libgcc-9-dev_9.3.0-11_armhf.deb ... Unpacking libgcc-9-dev:armhf (9.3.0-11) ... Selecting previously unselected package liblzma5:armhf. Preparing to unpack .../125-liblzma5_5.2.4-1+b1_armhf.deb ... Unpacking liblzma5:armhf (5.2.4-1+b1) ... Selecting previously unselected package libhts3:armhf. Preparing to unpack .../126-libhts3_1.10.2-3_armhf.deb ... Unpacking libhts3:armhf (1.10.2-3) ... Selecting previously unselected package liblzma-dev:armhf. Preparing to unpack .../127-liblzma-dev_5.2.4-1+b1_armhf.deb ... Unpacking liblzma-dev:armhf (5.2.4-1+b1) ... Selecting previously unselected package zlib1g-dev:armhf. Preparing to unpack .../128-zlib1g-dev_1%3a1.2.11.dfsg-2_armhf.deb ... Unpacking zlib1g-dev:armhf (1:1.2.11.dfsg-2) ... Selecting previously unselected package libhts-dev:armhf. Preparing to unpack .../129-libhts-dev_1.10.2-3_armhf.deb ... Unpacking libhts-dev:armhf (1.10.2-3) ... Selecting previously unselected package libtinfo6:armhf. Preparing to unpack .../130-libtinfo6_6.2-1_armhf.deb ... Unpacking libtinfo6:armhf (6.2-1) ... Selecting previously unselected package libncurses6:armhf. Preparing to unpack .../131-libncurses6_6.2-1_armhf.deb ... Unpacking libncurses6:armhf (6.2-1) ... Selecting previously unselected package libsparsehash-dev. Preparing to unpack .../132-libsparsehash-dev_2.0.3-2_all.deb ... Unpacking libsparsehash-dev (2.0.3-2) ... Selecting previously unselected package libstdc++-9-dev:armhf. Preparing to unpack .../133-libstdc++-9-dev_9.3.0-11_armhf.deb ... Unpacking libstdc++-9-dev:armhf (9.3.0-11) ... Selecting previously unselected package samtools:armhf. Preparing to unpack .../134-samtools_1.10-3_armhf.deb ... Unpacking samtools:armhf (1.10-3) ... Selecting previously unselected package sbuild-build-depends-main-dummy:armhf. Preparing to unpack .../135-sbuild-build-depends-main-dummy_0.invalid.0_armhf.deb ... Unpacking sbuild-build-depends-main-dummy:armhf (0.invalid.0) ... Setting up libconfig-inifiles-perl (3.000003-1) ... Setting up libpipeline1:amd64 (1.5.2-2) ... Setting up libfile-which-perl (1.23-1) ... Setting up libc6-armhf-cross (2.30-2cross1) ... Setting up libmagic-mgc (1:5.38-4) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:amd64 (2.64.2-1) ... No schema files found: doing nothing. Setting up libdebhelper-perl (13) ... Setting up libmagic1:amd64 (1:5.38-4) ... Setting up linux-libc-dev:armhf (5.6.7-1) ... Setting up libxml-namespacesupport-perl (1.12-1) ... Setting up gettext-base (0.19.8.1-10) ... Setting up file (1:5.38-4) ... Setting up libldap-common (2.4.50+dfsg-1) ... Setting up libyaml-perl (1.30-1) ... Setting up libsparsehash-dev (2.0.3-2) ... Setting up libicu63:amd64 (63.2-3) ... Setting up gcc-9-arm-linux-gnueabihf-base:amd64 (9.3.0-8cross1) ... Setting up libxml-sax-base-perl (1.09-1) ... Setting up libio-string-perl (1.08-3) ... Setting up gcc-10-base:armhf (10-20200502-1) ... Setting up autotools-dev (20180224.1) ... Setting up cross-config (2.6.15-3) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up linux-libc-dev-armhf-cross (5.4.19-1cross1) ... Setting up autopoint (0.19.8.1-10) ... Setting up libbam-dev:armhf (0.1.19-4) ... Setting up gcc-9-cross-base (9.3.0-8cross1) ... Setting up gcc-10-cross-base (10-20200418-1cross1) ... Setting up sensible-utils (0.0.12+nmu1) ... Setting up libcrypt-dev:amd64 (1:4.4.16-1) ... Setting up libuchardet0:amd64 (0.0.6-3) ... Setting up libsub-override-perl (0.09-2) ... Setting up libc6-dev:amd64 (2.30-7) ... Setting up libfile-homedir-perl (1.004-1) ... Setting up libbsd0:amd64 (0.10.0-1) ... Setting up binutils-arm-linux-gnueabihf (2.34-6) ... Setting up libelf1:amd64 (0.176-1.1) ... Setting up libxml2:amd64 (2.9.10+dfsg-5) ... Setting up liblocale-gettext-perl (1.07-4) ... Setting up gcc-9-base:armhf (9.3.0-11) ... Setting up libgomp1-armhf-cross (10-20200418-1cross1) ... Setting up libfile-stripnondeterminism-perl (1.8.0-1) ... Setting up libstdc++-9-dev:amd64 (9.3.0-11) ... Setting up libtool (2.4.6-14) ... Setting up cpp-9-arm-linux-gnueabihf (9.3.0-8cross1) ... Setting up libgcc-s1-armhf-cross (10-20200418-1cross1) ... Setting up libc6-dev-armhf-cross (2.30-2cross1) ... Setting up m4 (1.4.18-4) ... Setting up libatomic1-armhf-cross (10-20200418-1cross1) ... Setting up libasan5-armhf-cross (9.3.0-8cross1) ... Setting up libstdc++6-armhf-cross (10-20200418-1cross1) ... 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 libcroco3:amd64 (0.6.13-1) ... Setting up libubsan1-armhf-cross (10-20200418-1cross1) ... Setting up ucf (3.0038+nmu1) ... Setting up g++-9 (9.3.0-11) ... Setting up autoconf (2.69-11.1) ... Setting up dh-strip-nondeterminism (1.8.0-1) ... Setting up g++ (4:9.2.1-3.1) ... update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode Setting up dwz (0.13-5) ... Setting up groff-base (1.22.4-5) ... Setting up libgcc-9-dev-armhf-cross (9.3.0-8cross1) ... Setting up build-essential (12.8) ... Setting up cpp-arm-linux-gnueabihf (4:9.2.1-3.1) ... Setting up automake (1:1.16.2-1) ... 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 (2.9.1-1) ... 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 intltool-debian (0.35.0+20060710.5) ... Setting up gcc-9-arm-linux-gnueabihf (9.3.0-8cross1) ... Setting up libxml-libxml-perl (2.0134+dfsg-2) ... 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 libstdc++-9-dev-armhf-cross (9.3.0-8cross1) ... Setting up gcc-arm-linux-gnueabihf (4:9.2.1-3.1) ... Setting up po-debconf (1.0.21) ... Setting up g++-9-arm-linux-gnueabihf (9.3.0-8cross1) ... Setting up libxml-simple-perl (2.25-1) ... Setting up g++-arm-linux-gnueabihf (4:9.2.1-3.1) ... Setting up libconfig-auto-perl (0.44-1) ... Setting up libdebian-dpkgcross-perl (2.6.15-3) ... Setting up dpkg-cross (2.6.15-3) ... Setting up crossbuild-essential-armhf (12.8) ... Setting up libcrypt1:armhf (1:4.4.16-1) ... Setting up libgcc-s1:armhf (10-20200502-1) ... Setting up dh-autoreconf (19) ... Setting up libc6:armhf (2.30-7) ... Setting up libnettle7:armhf (3.5.1+really3.5.1-2) ... Setting up libcrypt-dev:armhf (1:4.4.16-1) ... Setting up libtasn1-6:armhf (4.16.0-2) ... Setting up libc6-dev:armhf (2.30-7) ... Setting up libbz2-1.0:armhf (1.0.8-2) ... Setting up libdb5.3:armhf (5.3.28+dfsg1-0.6) ... Setting up libstdc++6:armhf (10-20200502-1) ... Setting up libtinfo6:armhf (6.2-1) ... Setting up libkeyutils1:armhf (1.6.1-2) ... Setting up liblzma5:armhf (5.2.4-1+b1) ... Setting up libgpg-error0:armhf (1.37-1) ... Setting up libssl1.1:armhf (1.1.1g-1) ... Setting up libbrotli1:armhf (1.0.7-6.1) ... Setting up libffi7:armhf (3.3-4) ... Setting up libnghttp2-14:armhf (1.40.0-1) ... Setting up libunistring2:armhf (0.9.10-2) ... Setting up libdeflate0:armhf (1.5-3) ... Setting up libgcrypt20:armhf (1.8.5-5) ... Setting up debhelper (13) ... Setting up zlib1g:armhf (1:1.2.11.dfsg-2) ... Setting up libidn2-0:armhf (2.3.0-1) ... Setting up libcom-err2:armhf (1.45.6-1) ... Setting up libgomp1:armhf (10-20200502-1) ... Setting up libkrb5support0:armhf (1.17-7) ... Setting up libsasl2-modules-db:armhf (2.1.27+dfsg-2) ... Setting up libasan5:armhf (9.3.0-11) ... Setting up libgmp10:armhf (2:6.2.0+dfsg-4) ... Setting up libncurses6:armhf (6.2-1) ... Setting up libp11-kit0:armhf (0.23.20-1) ... Setting up libatomic1:armhf (10-20200502-1) ... Setting up libk5crypto3:armhf (1.17-7) ... Setting up libsasl2-2:armhf (2.1.27+dfsg-2) ... Setting up liblzma-dev:armhf (5.2.4-1+b1) ... Setting up libubsan1:armhf (10-20200502-1) ... Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-2) ... Setting up libssh2-1:armhf (1.8.0-2.1) ... Setting up libkrb5-3:armhf (1.17-7) ... Setting up libpsl5:armhf (0.21.0-1) ... Setting up libhogweed5:armhf (3.5.1+really3.5.1-2) ... Setting up libgcc-9-dev:armhf (9.3.0-11) ... Setting up libgnutls30:armhf (3.6.13-2) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b1) ... Setting up libgssapi-krb5-2:armhf (1.17-7) ... Setting up libstdc++-9-dev:armhf (9.3.0-11) ... Setting up libldap-2.4-2:armhf (2.4.50+dfsg-1) ... Setting up libcurl3-gnutls:armhf (7.68.0-1) ... Setting up libhts3:armhf (1.10.2-3) ... Setting up libhts-dev:armhf (1.10.2-3) ... Setting up samtools:armhf (1.10-3) ... Setting up sbuild-build-depends-main-dummy:armhf (0.invalid.0) ... Processing triggers for libc-bin (2.30-7) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (armhf included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.19.0-6-amd64 #1 SMP Debian 4.19.67-2+deb10u2 (2019-11-11) amd64 (x86_64) Toolchain package versions: binutils_2.34-6 dpkg-dev_1.19.7 g++-9_9.3.0-11 gcc-9_9.3.0-11 libc6-dev_2.30-7 libstdc++-9-dev_9.3.0-11 libstdc++-9-dev-armhf-cross_9.3.0-8cross1 libstdc++6_10-20200502-1 libstdc++6-armhf-cross_10-20200418-1cross1 linux-libc-dev_5.6.7-1 Package versions: adduser_3.118 apt_2.1.0 autoconf_2.69-11.1 automake_1:1.16.2-1 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11 base-passwd_3.5.47 bash_5.0-6 binutils_2.34-6 binutils-arm-linux-gnueabihf_2.34-6 binutils-common_2.34-6 binutils-x86-64-linux-gnu_2.34-6 bsdmainutils_11.1.2+b1 bsdutils_1:2.35.1-2 build-essential_12.8 bzip2_1.0.8-2 coreutils_8.30-3+b1 cpp_4:9.2.1-3.1 cpp-8_8.4.0-3 cpp-9_9.3.0-11 cpp-9-arm-linux-gnueabihf_9.3.0-8cross1 cpp-arm-linux-gnueabihf_4:9.2.1-3.1 cross-config_2.6.15-3 crossbuild-essential-armhf_12.8 dash_0.5.10.2-7 debconf_1.5.74 debhelper_13 debian-archive-keyring_2019.1 debianutils_4.9.1 dh-autoreconf_19 dh-strip-nondeterminism_1.8.0-1 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_1.45.6-1 fakeroot_1.24-1 fdisk_2.35.1-2 file_1:5.38-4 findutils_4.7.0-1 g++_4:9.2.1-3.1 g++-9_9.3.0-11 g++-9-arm-linux-gnueabihf_9.3.0-8cross1 g++-arm-linux-gnueabihf_4:9.2.1-3.1 gcc_4:9.2.1-3.1 gcc-10-base_10-20200502-1 gcc-10-cross-base_10-20200418-1cross1 gcc-8-base_8.4.0-3 gcc-9_9.3.0-11 gcc-9-arm-linux-gnueabihf_9.3.0-8cross1 gcc-9-arm-linux-gnueabihf-base_9.3.0-8cross1 gcc-9-base_9.3.0-11 gcc-9-cross-base_9.3.0-8cross1 gcc-arm-linux-gnueabihf_4:9.2.1-3.1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gpgv_2.2.20-1 grep_3.4-1 groff-base_1.22.4-5 gzip_1.10-2 hostname_3.23 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-8 libapt-pkg5.0_1.8.4 libapt-pkg6.0_2.1.0 libarchive-zip-perl_1.68-1 libasan5_9.3.0-11 libasan5-armhf-cross_9.3.0-8cross1 libatomic1_10-20200502-1 libatomic1-armhf-cross_10-20200418-1cross1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3 libaudit1_1:2.8.5-3+b1 libbam-dev_0.1.19-4 libbinutils_2.34-6 libblkid1_2.35.1-2 libbrotli1_1.0.7-6.1 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libc-bin_2.30-7 libc-dev-bin_2.30-7 libc6_2.30-7 libc6-armhf-cross_2.30-2cross1 libc6-dev_2.30-7 libc6-dev-armhf-cross_2.30-2cross1 libcap-ng0_0.7.9-2.1+b2 libcc1-0_10-20200502-1 libcom-err2_1.45.6-1 libconfig-auto-perl_0.44-1 libconfig-inifiles-perl_3.000003-1 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.16-1 libcrypt1_1:4.4.16-1 libctf-nobfd0_2.34-6 libctf0_2.34-6 libcurl3-gnutls_7.68.0-1 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.251 libdebhelper-perl_13 libdebian-dpkgcross-perl_2.6.15-3 libdeflate0_1.5-3 libdpkg-perl_1.19.7 libelf1_0.176-1.1 libext2fs2_1.45.6-1 libfakeroot_1.24-1 libfdisk1_2.35.1-2 libffi6_3.2.1-9 libffi7_3.3-4 libfile-homedir-perl_1.004-1 libfile-stripnondeterminism-perl_1.8.0-1 libfile-which-perl_1.23-1 libgcc-9-dev_9.3.0-11 libgcc-9-dev-armhf-cross_9.3.0-8cross1 libgcc-s1_10-20200502-1 libgcc-s1-armhf-cross_10-20200418-1cross1 libgcc1_1:10-20200502-1 libgcrypt20_1.8.5-5 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libglib2.0-0_2.64.2-1 libgmp10_2:6.2.0+dfsg-4 libgnutls30_3.6.13-2 libgomp1_10-20200502-1 libgomp1-armhf-cross_10-20200418-1cross1 libgpg-error0_1.37-1 libgssapi-krb5-2_1.17-7 libhogweed4_3.5.1+really3.4.1-1 libhogweed5_3.5.1+really3.5.1-2 libhts-dev_1.10.2-3 libhts3_1.10.2-3 libicu63_63.2-3 libidn2-0_2.3.0-1 libio-string-perl_1.08-3 libisl19_0.20-2 libisl22_0.22.1-1 libitm1_10-20200502-1 libk5crypto3_1.17-7 libkeyutils1_1.6.1-2 libkrb5-3_1.17-7 libkrb5support0_1.17-7 libldap-2.4-2_2.4.50+dfsg-1 libldap-common_2.4.50+dfsg-1 liblocale-gettext-perl_1.07-4 liblsan0_10-20200502-1 liblz4-1_1.9.2-2 liblzma-dev_5.2.4-1+b1 liblzma5_5.2.4-1+b1 libmagic-mgc_1:5.38-4 libmagic1_1:5.38-4 libmount1_2.35.1-2 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libmpx2_8.4.0-3 libncurses6_6.2-1 libncursesw6_6.2-1 libnettle6_3.5.1+really3.4.1-1 libnettle7_3.5.1+really3.5.1-2 libnghttp2-14_1.40.0-1 libp11-kit0_0.23.20-1 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_5.30.0-10 libpipeline1_1.5.2-2 libpsl5_0.21.0-1 libquadmath0_10-20200502-1 librtmp1_2.4+20151223.gitfa8646d.1-2+b1 libsasl2-2_2.1.27+dfsg-2 libsasl2-modules-db_2.1.27+dfsg-2 libseccomp2_2.4.3-1+b1 libselinux1_3.0-1+b3 libsemanage-common_3.0-1 libsemanage1_3.0-1+b3 libsepol1_3.0-1 libsigsegv2_2.12-2 libsmartcols1_2.35.1-2 libsparsehash-dev_2.0.3-2 libss2_1.45.6-1 libssh2-1_1.8.0-2.1 libssl1.1_1.1.1g-1 libstdc++-9-dev_9.3.0-11 libstdc++-9-dev-armhf-cross_9.3.0-8cross1 libstdc++6_10-20200502-1 libstdc++6-armhf-cross_10-20200418-1cross1 libsub-override-perl_0.09-2 libsystemd0_245.5-2 libtasn1-6_4.16.0-2 libtinfo6_6.2-1 libtool_2.4.6-14 libtsan0_10-20200502-1 libubsan1_10-20200502-1 libubsan1-armhf-cross_10-20200418-1cross1 libuchardet0_0.0.6-3 libudev1_245.5-2 libunistring2_0.9.10-2 libuuid1_2.35.1-2 libxml-libxml-perl_2.0134+dfsg-2 libxml-namespacesupport-perl_1.12-1 libxml-sax-base-perl_1.09-1 libxml-sax-perl_1.02+dfsg-1 libxml-simple-perl_2.25-1 libxml2_2.9.10+dfsg-5 libyaml-perl_1.30-1 libzstd1_1.4.4+dfsg-3 linux-libc-dev_5.6.7-1 linux-libc-dev-armhf-cross_5.4.19-1cross1 login_1:4.8.1-1 logsave_1.45.6-1 lsb-base_11.1.0 m4_1.4.18-4 make_4.2.1-2 man-db_2.9.1-1 mawk_1.3.4.20200120-2 mount_2.35.1-2 ncurses-base_6.2-1 ncurses-bin_6.2-1 passwd_1:4.8.1-1 patch_2.7.6-6 perl_5.30.0-10 perl-base_5.30.0-10 perl-modules-5.28_5.28.1-6 perl-modules-5.30_5.30.0-10 po-debconf_1.0.21 samtools_1.10-3 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 sysvinit-utils_2.96-3 tar_1.30+dfsg-7 tzdata_2020a-1 ucf_3.0038+nmu1 util-linux_2.35.1-2 xz-utils_5.2.4-1+b1 zlib1g_1:1.2.11.dfsg-2 zlib1g-dev_1:1.2.11.dfsg-2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: stacks Binary: stacks Architecture: any Version: 2.53+dfsg-1 Maintainer: Debian Med Packaging Team Uploaders: Tim Booth , Andreas Tille Homepage: https://creskolab.uoregon.edu/stacks/ Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/stacks Vcs-Git: https://salsa.debian.org/med-team/stacks.git Build-Depends: debhelper-compat (= 12), zlib1g-dev, libbam-dev, libsparsehash-dev, samtools, libhts-dev Package-List: stacks deb science optional arch=any Checksums-Sha1: 9076f8acb14a8b62250a6690ec74286732748d27 321268 stacks_2.53+dfsg.orig.tar.xz 76b59db811a3f5099ba1d065f8efe419987cb373 7560 stacks_2.53+dfsg-1.debian.tar.xz Checksums-Sha256: 9e096890618b1d476f371dd92d03b0a09c8c07f696a878826e90487de50bb879 321268 stacks_2.53+dfsg.orig.tar.xz 51c060cd03b636405ac6601a6dc9aaef3205c9b67e104519b08d3f653b730e0f 7560 stacks_2.53+dfsg-1.debian.tar.xz Files: 5f930438163d8a79265e1b3acedb7b4f 321268 stacks_2.53+dfsg.orig.tar.xz 6c72e97fe3e76ceac4893aecb3b60221 7560 stacks_2.53+dfsg-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJHBAEBCAAxFiEEhMGXeonn7+0+XKYuL9i+2sAg7tEFAl6kzvsTHG1vZWxsZXJA ZGViaWFuLm9yZwAKCRAv2L7awCDu0ZzOD/4p+ckLtzcZIWgQHewzHbm1urAazXxt qffd0dFSnVJiURR/37D4fDPzKBWpVNwHFBjEG8lUshbnBDGAaPAF7g4LEkYRF1p0 xPQWsTYPe93ze+t4r/iDkGugffwIMzaNZ6nBxzuLqX+b0ZNVbk7+hw0MZaudQuSw c1BWTtdZYZybP3BUYJ9RDuzZ8etu+tpGQmnUslnD2q/NWR4g9ebsURBZ1Zreqif4 9FzzRBxPsadxKsbWmso2oVsHQniCAzgVZFLtgmaTuygx0FYiVFUPTxZnMSbs+kZ4 0AVh61c1YOpfwrpXhP/NlHPJzSc4PGK3G91DVM0LPBKWdVYCykMfSkixd8G3c31M pzq0eu/DB6F17NtXlQBlUI+7YmUbiDGsH1s6iymv2FhaWi4tbIA1mC5P6FEus92y knVskbH744+TR8T8qYgLWgAtlgaEpZ71P9K5dNvxpQmU1+gF7SA6WwIO19vSeXW9 WN7G2DstCK5lOMh2ykq7Q3ap+bKWIGz+zMSEgoTsjl5glGWEm9cS79/CjGKnP0lR CFQhFZErHbo4HSLrT6D1NdpZ+KSlPyI4EZrJdH9UxKqribydjDP3MzcWT7zlWEa2 pW9gRiVOYZM+cYKzEpQ1zvhbyIrsAzW74DrEFchYp74qaayTTCC7qShnmUqolRkV KoPf0PTlqcPM7A== =NrhF -----END PGP SIGNATURE----- gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Sat Apr 25 23:59:55 2020 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 ./stacks_2.53+dfsg-1.dsc dpkg-source: info: extracting stacks in /<> dpkg-source: info: unpacking stacks_2.53+dfsg.orig.tar.xz dpkg-source: info: unpacking stacks_2.53+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying RisR.patch dpkg-source: info: applying script-exe-paths dpkg-source: info: applying use_debian_packaged_htslib.patch dpkg-source: info: applying 2to3.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf CONFIG_SITE=/etc/dpkg-cross/cross-config.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-98643a0d-4686-49be-89e2-e2b37480b29f 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 stacks dpkg-buildpackage: info: source version 2.53+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 debian/rules clean dh clean debian/rules override_dh_clean make[1]: Entering directory '/<>' dh_clean rm -f ./constants.php make[1]: Leaving directory '/<>' debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a configure.ac:33: installing 'config/ar-lib' configure.ac:28: installing 'config/compile' configure.ac:7: installing 'config/install-sh' configure.ac:7: installing 'config/missing' Makefile.am: installing 'config/depcomp' parallel-tests: installing 'config/test-driver' debian/rules override_dh_auto_configure make[1]: Entering directory '/<>' dh_auto_configure -- --enable-sparsehash --enable-bam \ --with-bam-include-path=/usr/include/samtools \ --with-bam-lib-path=/usr/lib ./configure --build=x86_64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/arm-linux-gnueabihf --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --host=arm-linux-gnueabihf --enable-sparsehash --enable-bam --with-bam-include-path=/usr/include/samtools --with-bam-lib-path=/usr/lib configure: WARNING: unrecognized options: --disable-maintainer-mode, --enable-sparsehash, --enable-bam, --with-bam-include-path, --with-bam-lib-path configure: loading site script /etc/dpkg-cross/cross-config.armhf checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for arm-linux-gnueabihf-strip... arm-linux-gnueabihf-strip checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for arm-linux-gnueabihf-g++... arm-linux-gnueabihf-g++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... yes checking for suffix of object files... o checking whether we are using the GNU C++ compiler... yes checking whether arm-linux-gnueabihf-g++ accepts -g... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of arm-linux-gnueabihf-g++... none checking for arm-linux-gnueabihf-gcc... arm-linux-gnueabihf-gcc checking whether we are using the GNU C compiler... yes checking whether arm-linux-gnueabihf-gcc accepts -g... yes checking for arm-linux-gnueabihf-gcc option to accept ISO C89... none needed checking whether arm-linux-gnueabihf-gcc understands -c and -o together... yes checking dependency style of arm-linux-gnueabihf-gcc... none checking whether arm-linux-gnueabihf-g++ supports C++11 features by default... yes checking for arm-linux-gnueabihf-ranlib... arm-linux-gnueabihf-ranlib checking for arm-linux-gnueabihf-ar... arm-linux-gnueabihf-ar checking the archiver (arm-linux-gnueabihf-ar) interface... ar checking for omp_set_num_threads in -lgomp... yes checking for gzread in -lz... yes checking for dirent.h that defines DIR... yes checking for library containing opendir... none required checking how to run the C preprocessor... arm-linux-gnueabihf-gcc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking float.h usability... yes checking float.h presence... yes checking for float.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for unistd.h... (cached) yes checking for arm-linux-gnueabihf-gcc option to support OpenMP... -fopenmp checking for stdbool.h that conforms to C99... yes checking for _Bool... yes checking for an ANSI C-conforming const... yes checking for size_t... yes checking whether closedir returns void... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... (cached) yes checking for stdlib.h... (cached) yes checking for GNU libc compatible realloc... (cached) yes checking for floor... no checking for memset... yes checking for pow... no checking for sqrt... no checking for clock_gettime... yes checking for functional regular expressions... configure: WARNING: Requires g++ 4.9.0 or greater. no checking for gawk... (cached) mawk checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating config.h config.status: executing depfiles commands configure: WARNING: unrecognized options: --disable-maintainer-mode, --enable-sparsehash, --enable-bam, --with-bam-include-path, --with-bam-lib-path make[1]: Leaving directory '/<>' dh_auto_build -a make -j1 make[1]: Entering directory '/<>' make all-recursive make[2]: Entering directory '/<>' make[3]: Entering directory '/<>' arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ustacks.o src/ustacks.cc In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from src/constants.h:40, from src/ustacks.h:24, from src/ustacks.cc:25: /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 = {AlignRes}; _Tp = AlignRes; _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:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {AlignRes}; _Tp = AlignRes; _Alloc = std::allocator]’: /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)...); | ^~~~~~~~~~~~~~~~~ /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 = {Aln}; _Tp = Aln; _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>::emplace_back(_Args&& ...) [with _Args = {Aln}; _Tp = Aln; _Alloc = std::allocator]’: /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/set:60, from src/constants.h:43, from src/ustacks.h:24, from src/ustacks.cc:25: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_tree.h: In member 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 = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from src/constants.h:53, from src/ustacks.h:24, from src/ustacks.cc:25: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1820 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1839 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1820 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1839 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1879:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1879 | __final_insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1879:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1879:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1889 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61, from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from src/constants.h:53, from src/ustacks.h:24, from src/ustacks.cc:25: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = AlignRes; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__make_heap(_RandomAccessIterator, _RandomAccessIterator, _Compare&) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 326 | __make_heap(_RandomAccessIterator __first, _RandomAccessIterator __last, | ^~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from src/constants.h:53, from src/ustacks.h:24, from src/ustacks.cc:25: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1939 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1671:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1671 | std::__make_heap(__first, __middle, __comp); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In member function ‘int GappedAln::trace_local_alignment(const string&, const string&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1889 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In member function ‘int GappedAln::trace_global_alignment(const string&, const string&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1889 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61, from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from src/constants.h:53, from src/ustacks.h:24, from src/ustacks.cc:25: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__push_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare&) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = Aln; _Compare = __gnu_cxx::__ops::_Iter_comp_val]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:128:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 128 | __push_heap(_RandomAccessIterator __first, | ^~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = Aln; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__make_heap(_RandomAccessIterator, _RandomAccessIterator, _Compare&) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 326 | __make_heap(_RandomAccessIterator __first, _RandomAccessIterator __last, | ^~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from src/constants.h:53, from src/ustacks.h:24, from src/ustacks.cc:25: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1939 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1671:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1671 | std::__make_heap(__first, __middle, __comp); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘_Z28search_for_gapped_remaindersRSt3mapIiP11MergedStackSt4lessIiESaISt4pairIKiS1_EEERS_IiP5StackS3_SaIS4_IS5_SB_EEERS_IiP3RemS3_SaIS4_IS5_SH_EEE._omp_fn.0’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1970:31: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1970 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘int merge_gapped_alns(std::map&, std::map&, std::map&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1970:31: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1970 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1970:31: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1970 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/map:61, from src/constants.h:44, from src/ustacks.h:24, from src/ustacks.cc:25: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h: In function ‘int dump_stack_graph(std::string, std::map&, std::map&, std::vector&, std::map >&, std::map >&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/aln_utils.o src/aln_utils.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/BamI.o src/BamI.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/catalog_utils.o src/catalog_utils.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/cmb.o src/cmb.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/constants.o src/constants.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/DNANSeq.o src/DNANSeq.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/DNASeq4.o src/DNASeq4.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/DNASeq.o src/DNASeq.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/gzFasta.o src/gzFasta.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/input.o src/input.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/kmers.o src/kmers.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/locus.o src/locus.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/log_utils.o src/log_utils.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/MetaPopInfo.o src/MetaPopInfo.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/models.o src/models.cc In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from src/constants.h:40, from src/models.h:24, from src/models.cc:30: /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 = {MarukiLowModel::LikData}; _Tp = MarukiLowModel::LikData; _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>::emplace_back(_Args&& ...) [with _Args = {MarukiLowModel::LikData}; _Tp = MarukiLowModel::LikData; _Alloc = std::allocator]’: /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)...); | ^~~~~~~~~~~~~~~~~ arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/mstack.o src/mstack.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/mst.o src/mst.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/nucleotides.o src/nucleotides.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/renz.o src/renz.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/Seq.o src/Seq.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/sql_utilities.o src/sql_utilities.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/stacks.o src/stacks.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/utils.o src/utils.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/Vcf.o src/Vcf.cc rm -f libcore.a arm-linux-gnueabihf-ar cru libcore.a src/aln_utils.o src/BamI.o src/catalog_utils.o src/cmb.o src/constants.o src/DNANSeq.o src/DNASeq4.o src/DNASeq.o src/gzFasta.o src/input.o src/kmers.o src/locus.o src/log_utils.o src/MetaPopInfo.o src/models.o src/mstack.o src/mst.o src/nucleotides.o src/renz.o src/Seq.o src/sql_utilities.o src/stacks.o src/utils.o src/Vcf.o arm-linux-gnueabihf-ar: `u' modifier ignored since `D' is the default (see `U') arm-linux-gnueabihf-ranlib libcore.a arm-linux-gnueabihf-g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-z,relro -Wl,-z,now -o ustacks src/ustacks.o -lhts libcore.a -lz -lgomp arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/cstacks.o src/cstacks.cc In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from src/MetaPopInfo.h:5, from src/cstacks.cc:25: /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 = {AlignRes}; _Tp = AlignRes; _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>::emplace_back(_Args&& ...) [with _Args = {AlignRes}; _Tp = AlignRes; _Alloc = std::allocator]’: /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/algorithm:62, from src/constants.h:53, from src/MetaPopInfo.h:8, from src/cstacks.cc:25: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1820 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1839 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61, from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from src/constants.h:53, from src/MetaPopInfo.h:8, from src/cstacks.cc:25: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = AlignRes; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__make_heap(_RandomAccessIterator, _RandomAccessIterator, _Compare&) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 326 | __make_heap(_RandomAccessIterator __first, _RandomAccessIterator __last, | ^~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from src/constants.h:53, from src/MetaPopInfo.h:8, from src/cstacks.cc:25: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1939 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1671:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1671 | std::__make_heap(__first, __middle, __comp); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In member function ‘int GappedAln::trace_local_alignment(const string&, const string&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1889 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In member function ‘int GappedAln::trace_global_alignment(const string&, const string&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1889 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ arm-linux-gnueabihf-g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-z,relro -Wl,-z,now -o cstacks src/cstacks.o -lhts libcore.a -lz -lgomp arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/sstacks.o src/sstacks.cc In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from /usr/arm-linux-gnueabihf/include/c++/9/regex:38, from src/sstacks.cc:25: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator, AlignRes>*, std::vector, AlignRes> > >; _Compare = __gnu_cxx::__ops::_Val_comp_iter&, QLocus*, std::set&, std::map, std::map, AlignRes> >&, uint&, uint&, uint&, uint&, uint&)::, AlignRes>&, std::pair, AlignRes>&)> >]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator, AlignRes>*, std::vector, AlignRes> > >’ changed in GCC 7.1 1820 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator, AlignRes>*, std::vector, AlignRes> > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, QLocus*, std::set&, std::map, std::map, AlignRes> >&, uint&, uint&, uint&, uint&, uint&)::, AlignRes>&, std::pair, AlignRes>&)> >]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator, AlignRes>*, std::vector, AlignRes> > >’ changed in GCC 7.1 1839 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator, AlignRes>*, std::vector, AlignRes> > >’ changed in GCC 7.1 In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61, from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from /usr/arm-linux-gnueabihf/include/c++/9/regex:38, from src/sstacks.cc:25: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator, AlignRes>*, std::vector, AlignRes> > >; _Distance = int; _Tp = std::pair, AlignRes>; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, QLocus*, std::set&, std::map, std::map, AlignRes> >&, uint&, uint&, uint&, uint&, uint&)::, AlignRes>&, std::pair, AlignRes>&)> >]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator, AlignRes>*, std::vector, AlignRes> > >’ changed in GCC 7.1 214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /usr/arm-linux-gnueabihf/include/c++/9/regex:51, from src/sstacks.cc:25: /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 = {AlignRes}; _Tp = AlignRes; _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>::emplace_back(_Args&& ...) [with _Args = {AlignRes}; _Tp = AlignRes; _Alloc = std::allocator]’: /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)...); | ^~~~~~~~~~~~~~~~~ /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 = {std::pair, std::allocator >, AlignRes>}; _Tp = std::pair, AlignRes>; _Alloc = std::allocator, AlignRes> >]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector, AlignRes> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator, AlignRes>*, std::vector, AlignRes> > >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/map:60, from /usr/arm-linux-gnueabihf/include/c++/9/regex:52, from src/sstacks.cc:25: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_tree.h: In member 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::allocator >&>, std::tuple<>}; _Key = std::__cxx11::basic_string; _Val = std::pair, AlignRes>; _KeyOfValue = std::_Select1st, AlignRes> >; _Compare = std::less >; _Alloc = std::allocator, AlignRes> >]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, AlignRes>, std::_Select1st, AlignRes> >, std::less >, std::allocator, AlignRes> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, AlignRes> >’} changed in GCC 7.1 2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from /usr/arm-linux-gnueabihf/include/c++/9/regex:38, from src/sstacks.cc:25: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1820 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1839 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61, from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from /usr/arm-linux-gnueabihf/include/c++/9/regex:38, from src/sstacks.cc:25: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = AlignRes; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__make_heap(_RandomAccessIterator, _RandomAccessIterator, _Compare&) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 326 | __make_heap(_RandomAccessIterator __first, _RandomAccessIterator __last, | ^~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from /usr/arm-linux-gnueabihf/include/c++/9/regex:38, from src/sstacks.cc:25: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1939 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1671:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1671 | std::__make_heap(__first, __middle, __comp); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In member function ‘int GappedAln::trace_local_alignment(const string&, const string&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1889 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In member function ‘int GappedAln::trace_global_alignment(const string&, const string&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1889 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator, AlignRes>*, std::vector, AlignRes> > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, QLocus*, std::set&, std::map, std::map, AlignRes> >&, uint&, uint&, uint&, uint&, uint&)::, AlignRes>&, std::pair, AlignRes>&)> >]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator, AlignRes>*, std::vector, AlignRes> > >’ changed in GCC 7.1 1939 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator, AlignRes>*, std::vector, AlignRes> > >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator, AlignRes>*, std::vector, AlignRes> > >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator, AlignRes>*, std::vector, AlignRes> > >’ changed in GCC 7.1 1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /usr/arm-linux-gnueabihf/include/c++/9/regex:51, from src/sstacks.cc:25: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In function ‘bool verify_gapped_match(std::map&, QLocus*, std::set&, std::map, std::map, AlignRes> >&, uint&, uint&, uint&, uint&, uint&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator, AlignRes>*, std::vector, AlignRes> > >’ 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/algorithm:62, from /usr/arm-linux-gnueabihf/include/c++/9/regex:38, from src/sstacks.cc:25: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator, AlignRes>*, std::vector, AlignRes> > >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator, AlignRes>*, std::vector, AlignRes> > >’ changed in GCC 7.1 1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator, AlignRes>*, std::vector, AlignRes> > >’ changed in GCC 7.1 1889 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/map:61, from /usr/arm-linux-gnueabihf/include/c++/9/regex:52, from src/sstacks.cc:25: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h: In function ‘_Z15search_for_gapsRSt3mapIiP5LocusSt4lessIiESaISt4pairIKiS1_EEERS_IiP6QLocusS3_SaIS4_IS5_SB_EEERSt13unordered_mapIPKcSt6vectorIiSaIiEE12hash_charptr5eqstrSaIS4_IKSI_SL_EEERS_IiS4_INSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEiES3_SaIS4_IS5_SZ_EEEd._omp_fn.0’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, AlignRes>, std::_Select1st, AlignRes> >, std::less >, std::allocator, AlignRes> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, AlignRes> >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, arm-linux-gnueabihf-g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-z,relro -Wl,-z,now -o sstacks src/sstacks.o -lhts libcore.a -lz -lgomp arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/process_radtags.o src/process_radtags.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/clean.o src/clean.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/file_io.o src/file_io.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/write.o src/write.cc rm -f libclean.a arm-linux-gnueabihf-ar cru libclean.a src/clean.o src/file_io.o src/write.o arm-linux-gnueabihf-ar: `u' modifier ignored since `D' is the default (see `U') arm-linux-gnueabihf-ranlib libclean.a arm-linux-gnueabihf-g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-z,relro -Wl,-z,now -o process_radtags src/process_radtags.o -lhts libcore.a libclean.a -lz -lgomp arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/process_shortreads.o src/process_shortreads.cc arm-linux-gnueabihf-g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-z,relro -Wl,-z,now -o process_shortreads src/process_shortreads.o -lhts libcore.a libclean.a -lz -lgomp arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/kmer_filter.o src/kmer_filter.cc arm-linux-gnueabihf-g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-z,relro -Wl,-z,now -o kmer_filter src/kmer_filter.o -lhts libcore.a libclean.a -lz -lgomp arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/clone_filter.o src/clone_filter.cc arm-linux-gnueabihf-g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-z,relro -Wl,-z,now -o clone_filter src/clone_filter.o -lhts libcore.a libclean.a -lz -lgomp arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/populations.o src/populations.cc In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from src/populations.h:40, from src/populations.cc:29: /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 = {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>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /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/algorithm:62, from src/constants.h:53, from src/populations.h:44, from src/populations.cc:29: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1839 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1879:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1879 | __final_insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1879:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1889 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61, from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from src/constants.h:53, from src/populations.h:44, from src/populations.cc:29: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from src/constants.h:53, from src/populations.h:44, from src/populations.cc:29: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1939 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘int bootstrap_fst_approximate_dist(std::vector&, std::vector&, double*, int*, std::map >&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1970:31: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1970 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘int bootstrap_popstats_approximate_dist(std::vector&, std::vector&, std::vector&, double*, int*, int, std::map >&, std::map >&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1970:31: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1970 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1970:31: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1970 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/export_formats.o src/export_formats.cc src/export_formats.cc: In member function ‘virtual int PhylipVarAllExport::post_processing()’: src/export_formats.cc:2319:21: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 3 has type ‘std::size_t’ {aka ‘unsigned int’} [-Wformat=] 2319 | sprintf(s, "%11lu", this->_seq_len); | ~~~~^ ~~~~~~~~~~~~~~ | | | | | std::size_t {aka unsigned int} | long unsigned int | %11u arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/mapping_utils.o src/mapping_utils.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/genotype_dictionaries.o src/genotype_dictionaries.cc arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/PopSum.o src/PopSum.cc In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from src/PopSum.h:26, from src/PopSum.cc:21: /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 = {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>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /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/map:60, from src/PopSum.h:27, from src/PopSum.cc:21: /usr/arm-linux-gnueabihf/include/c++/9/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, double>; _KeyOfValue = std::_Select1st, double> >; _Compare = std::less >; _Alloc = std::allocator, double> >]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_tree.h:2187:5: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 2187 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_tree.h: In member 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::allocator >&>, std::tuple<>}; _Key = std::__cxx11::basic_string; _Val = std::pair, double>; _KeyOfValue = std::_Select1st, double> >; _Compare = std::less >; _Alloc = std::allocator, double> >]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/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::allocator >&&>, std::tuple<>}; _Key = std::__cxx11::basic_string; _Val = std::pair, double>; _KeyOfValue = std::_Select1st, double> >; _Compare = std::less >; _Alloc = std::allocator, double> >]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 In file included from /usr/arm-linux-gnueabihf/include/c++/9/map:61, from src/PopSum.h:27, from src/PopSum.cc:21: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h: In function ‘double count_haplotypes_at_locus(int, int, const Datum* const*, std::map, double>&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h: In member function ‘LocStat* LocPopSum::haplotype_diversity(int, int, const Datum* const*)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h: In member function ‘double LocusDivergence::haplotype_d_est(const Datum**, const LocSum**, std::vector&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h: In member function ‘double LocusDivergence::haplotype_dxy(const Datum**, std::size_t, std::vector&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, double> >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/Hwp.o src/Hwp.cc src/Hwp.cc: In member function ‘void HWMatrix::dump_matrix()’: src/Hwp.cc:383:43: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 5 has type ‘std::size_t’ {aka ‘unsigned int’} [-Wformat=] 383 | snprintf(buf, id_len, "%*lu ", padding, this->_g[i][j]); | ~~~^ ~~~~~~~~~~~~~~ | | | | long unsigned int std::size_t {aka unsigned int} | %*u rm -f libpop.a arm-linux-gnueabihf-ar cru libpop.a src/export_formats.o src/mapping_utils.o src/genotype_dictionaries.o src/PopSum.o src/Hwp.o arm-linux-gnueabihf-ar: `u' modifier ignored since `D' is the default (see `U') arm-linux-gnueabihf-ranlib libpop.a arm-linux-gnueabihf-g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-z,relro -Wl,-z,now -o populations src/populations.o -lhts libcore.a libpop.a -lz -lgomp arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/phasedstacks.o src/phasedstacks.cc In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from src/phasedstacks.h:39, from src/phasedstacks.cc:25: /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 = {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>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /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)...); | ^~~~~~~~~~~~~~~~~ arm-linux-gnueabihf-g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-z,relro -Wl,-z,now -o phasedstacks src/phasedstacks.o -lhts libcore.a -lz -lgomp arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/tsv2bam.o src/tsv2bam.cc arm-linux-gnueabihf-g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-z,relro -Wl,-z,now -o tsv2bam src/tsv2bam.o -lhts libcore.a -lz -lgomp arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/gstacks.o src/gstacks.cc src/gstacks.cc: In member function ‘bool LocusProcessor::align_reads_to_contig(SuffixTree*, GappedAln*, DNASeq4&, AlignRes&) const’: src/gstacks.cc:1319:32: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wformat=] 1319 | snprintf(c, id_len, "%luM", query.length()); | ~~^ ~~~~~~~~~~~~~~ | | | | | std::__cxx11::basic_string::size_type {aka unsigned int} | long unsigned int | %u src/gstacks.cc: In member function ‘std::size_t LocusProcessor::find_locus_overlap(SuffixTree*, GappedAln*, const DNASeq4&, std::string&) const’: src/gstacks.cc:1505:38: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::size_t’ {aka ‘unsigned int’} [-Wformat=] 1505 | snprintf(buf, id_len, "%luM", alns.front().aln_len); | ~~^ ~~~~~~~~~~~~~~~~~~~~ | | | | long unsigned int std::size_t {aka unsigned int} | %u In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from src/constants.h:53, from src/gstacks.h:23, from src/gstacks.cc:23: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter&, std::vector&) const:: >]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1820 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61, from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from src/constants.h:53, from src/gstacks.h:23, from src/gstacks.cc:23: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = STAln; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, std::vector&) const:: >]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from src/constants.h:53, from src/gstacks.h:23, from src/gstacks.cc:23: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, std::vector&) const:: >]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1839 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, std::vector&) const:: >]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1939 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from src/constants.h:40, from src/gstacks.h:23, from src/gstacks.cc:23: /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 STAln&}; _Tp = STAln; _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 = {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 /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 = {AlignRes}; _Tp = AlignRes; _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 /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {AlignRes}; _Tp = AlignRes; _Alloc = std::allocator]’: /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)...); | ^~~~~~~~~~~~~~~~~ /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 = {STAln}; _Tp = STAln; _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>::emplace_back(_Args&& ...) [with _Args = {STAln}; _Tp = STAln; _Alloc = std::allocator]’: /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)...); | ^~~~~~~~~~~~~~~~~ /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 = {STLink}; _Tp = STLink; _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/algorithm:62, from src/constants.h:53, from src/gstacks.h:23, from src/gstacks.cc:23: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In member function ‘int LocusProcessor::suffix_tree_hits_to_dag(std::size_t, std::vector&, std::vector&) const’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1889 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from src/constants.h:40, from src/gstacks.h:23, from src/gstacks.cc:23: /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/constants.h:40, from src/gstacks.h:23, from src/gstacks.cc:23: /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/constants.h:40, from src/gstacks.h:23, from src/gstacks.cc:23: /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 = {std::pair}; _Tp = std::pair; _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*, std::vector > >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from src/constants.h:53, from src/gstacks.h:23, from src/gstacks.cc:23: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1820 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1839 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61, from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from src/constants.h:53, from src/gstacks.h:23, from src/gstacks.cc:23: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = AlignRes; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__make_heap(_RandomAccessIterator, _RandomAccessIterator, _Compare&) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 326 | __make_heap(_RandomAccessIterator __first, _RandomAccessIterator __last, | ^~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62, from src/constants.h:53, from src/gstacks.h:23, from src/gstacks.cc:23: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1939 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1671:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1671 | std::__make_heap(__first, __middle, __comp); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In member function ‘int GappedAln::trace_local_alignment(const string&, const string&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1889 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In member function ‘int GappedAln::trace_global_alignment(const string&, const string&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1889 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from src/constants.h:40, from src/gstacks.h:23, from src/gstacks.cc:23: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void LocusProcessor::write_one_locus(const CLocAlnSet&, const std::vector&, const std::vector&, const std::vector >&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ 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/constants.h:40, from src/gstacks.h:23, from src/gstacks.cc:23: /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); | ^~~~~~~~~~~~~~~~~ arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/debruijn.o src/debruijn.cc In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from src/constants.h:40, from src/debruijn.cc: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 = {Node}; _Tp = Node; _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 Graph::rebuild(const std::vector&, std::size_t)’: /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)...); | ^~~~~~~~~~~~~~~~~ arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/SuffixTree.o src/SuffixTree.cc arm-linux-gnueabihf-g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-z,relro -Wl,-z,now -o gstacks src/gstacks.o src/debruijn.o src/SuffixTree.o -lhts libcore.a -lz -lgomp make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp dh_testroot -a dh_prep -a debian/rules override_dh_auto_install make[1]: Entering directory '/<>' dh_auto_install --no-parallel make -j1 install DESTDIR=/<>/stacks-2.53\+dfsg/debian/stacks AM_UPDATE_INFO_DIR=no make[2]: Entering directory '/<>' make[3]: Entering directory '/<>' make[4]: Entering directory '/<>' /bin/mkdir -p '/<>/debian/stacks/usr/bin' /usr/bin/install -c ustacks cstacks sstacks process_radtags process_shortreads kmer_filter clone_filter populations phasedstacks tsv2bam gstacks '/<>/debian/stacks/usr/bin' /bin/mkdir -p '/<>/debian/stacks/usr/bin' /usr/bin/install -c scripts/denovo_map.pl scripts/ref_map.pl scripts/integrate_alignments.py scripts/count_fixed_catalog_snps.py scripts/stacks-integrate-alignments scripts/stacks-dist-extract scripts/stacks-gdb scripts/stacks-samtools-tview scripts/stacks-count-reads-per-sample-per-locus scripts/stacks-hist2d-loci-samples-coverage '/<>/debian/stacks/usr/bin' make install-data-hook make[5]: Entering directory '/<>' sed -e 's,_VERSION_,2.53,' -e 's,_BINDIR_,/usr/lib/stacks/bin/,g' -e 's,_PKGDATADIR_,/usr/share/stacks/,g' /<>/debian/stacks/usr/bin/denovo_map.pl > /<>/debian/stacks/usr/bin/denovo_map.pl.subst mv /<>/debian/stacks/usr/bin/denovo_map.pl.subst /<>/debian/stacks/usr/bin/denovo_map.pl chmod +x /<>/debian/stacks/usr/bin/denovo_map.pl sed -e 's,_VERSION_,2.53,' -e 's,_BINDIR_,/usr/lib/stacks/bin/,g' -e 's,_PKGDATADIR_,/usr/share/stacks/,g' /<>/debian/stacks/usr/bin/ref_map.pl > /<>/debian/stacks/usr/bin/ref_map.pl.subst mv /<>/debian/stacks/usr/bin/ref_map.pl.subst /<>/debian/stacks/usr/bin/ref_map.pl chmod +x /<>/debian/stacks/usr/bin/ref_map.pl sed -i.bkp -e 's,_VERSION_,2.53,' /<>/debian/stacks/usr/bin/stacks-integrate-alignments sed -i.bkp -e 's,_VERSION_,2.53,' /<>/debian/stacks/usr/bin/stacks-samtools-tview rm -f /<>/debian/stacks/usr/bin/stacks-integrate-alignments.bkp rm -f /<>/debian/stacks/usr/bin/stacks-samtools-tview.bkp chmod +x /<>/debian/stacks/usr/bin/stacks-integrate-alignments chmod +x /<>/debian/stacks/usr/bin/stacks-dist-extract chmod +x /<>/debian/stacks/usr/bin/stacks-gdb make[5]: Leaving directory '/<>' make[4]: Leaving directory '/<>' make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' debian/rules override_dh_install make[1]: Entering directory '/<>' mkdir -p debian/stacks/usr/lib/stacks mv debian/stacks/usr/bin debian/stacks/usr/lib/stacks cd debian/stacks/usr/lib/stacks/bin && \ for f in *.pl ; do \ ln -s "$f" "`basename $f .pl`" ; \ sed -i '1s?^#!/usr/bin/env.*perl?#!/usr/bin/perl?' $f ; \ done dh_install make[1]: Leaving directory '/<>' dh_installdocs -a dh_installchangelogs -a dh_perl -a debian/rules override_dh_link make[1]: Entering directory '/<>' dh_link mkdir -p debian/stacks/usr/lib/debian-med/bin cd debian/stacks/usr/lib/debian-med/bin && \ for f in `ls /<>/debian/stacks/usr/lib/stacks/bin` ; do \ ln -s ../../stacks/bin/$f ; \ done make[1]: Leaving directory '/<>' dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: debian/stacks/usr/lib/stacks/bin/cstacks contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/stacks/usr/lib/stacks/bin/phasedstacks contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/stacks/usr/lib/stacks/bin/process_radtags contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/stacks/usr/lib/stacks/bin/gstacks contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/stacks/usr/lib/stacks/bin/clone_filter contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/stacks/usr/lib/stacks/bin/process_shortreads contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/stacks/usr/lib/stacks/bin/tsv2bam contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/stacks/usr/lib/stacks/bin/ustacks contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/stacks/usr/lib/stacks/bin/sstacks contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/stacks/usr/lib/stacks/bin/kmer_filter contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/stacks/usr/lib/stacks/bin/populations 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: package stacks: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: package stacks: substitution variable ${perl:Depends} unused, but is defined dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'stacks' in '../stacks_2.53+dfsg-1_armhf.deb'. dpkg-deb: building package 'stacks-dbgsym' in '../stacks-dbgsym_2.53+dfsg-1_armhf.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../stacks_2.53+dfsg-1_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 2020-05-07T17:35:46Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ stacks_2.53+dfsg-1_armhf.changes: --------------------------------- Format: 1.8 Date: Sun, 26 Apr 2020 01:41:49 +0200 Source: stacks Binary: stacks stacks-dbgsym Built-For-Profiles: cross nocheck Architecture: armhf Version: 2.53+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Steffen Moeller Description: stacks - pipeline for building loci from short-read DNA sequences Changes: stacks (2.53+dfsg-1) unstable; urgency=medium . * Team upload. * New upstream version * Updated bio.tools entry to lower-case * Added dependency on littler to allow execution of R script Checksums-Sha1: 4fe9f903fa90b82ca33022d2addf5b949ce0c1d9 26717248 stacks-dbgsym_2.53+dfsg-1_armhf.deb 0a97d75c5e7db3e97643722f471b402234f135ca 5545 stacks_2.53+dfsg-1_armhf.buildinfo 06e7ab5da1cdc96f15081505374d4b189679afea 920708 stacks_2.53+dfsg-1_armhf.deb Checksums-Sha256: a99d0bc6e5693422454dab0fe22c1eab3f12e327652c54ca89ea32cf6db65fab 26717248 stacks-dbgsym_2.53+dfsg-1_armhf.deb 48c72e6b927e60276f0eb13ba3632f662eae624a098b7dc830c6369b7a8ca310 5545 stacks_2.53+dfsg-1_armhf.buildinfo 54a593119d9314ec922c8df2f967e05b52eb712f0a6a33a6e4d529c7b57079c6 920708 stacks_2.53+dfsg-1_armhf.deb Files: 3dee91ff99f906838a237640cb715594 26717248 debug optional stacks-dbgsym_2.53+dfsg-1_armhf.deb 0fe0260a3bc5776dae6b1e45df5115d7 5545 science optional stacks_2.53+dfsg-1_armhf.buildinfo 6943bedd76d8d5c00abfc58a29fc8a94 920708 science optional stacks_2.53+dfsg-1_armhf.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: stacks Binary: stacks Architecture: armhf Version: 2.53+dfsg-1 Checksums-Md5: 3dee91ff99f906838a237640cb715594 26717248 stacks-dbgsym_2.53+dfsg-1_armhf.deb 6943bedd76d8d5c00abfc58a29fc8a94 920708 stacks_2.53+dfsg-1_armhf.deb Checksums-Sha1: 4fe9f903fa90b82ca33022d2addf5b949ce0c1d9 26717248 stacks-dbgsym_2.53+dfsg-1_armhf.deb 06e7ab5da1cdc96f15081505374d4b189679afea 920708 stacks_2.53+dfsg-1_armhf.deb Checksums-Sha256: a99d0bc6e5693422454dab0fe22c1eab3f12e327652c54ca89ea32cf6db65fab 26717248 stacks-dbgsym_2.53+dfsg-1_armhf.deb 54a593119d9314ec922c8df2f967e05b52eb712f0a6a33a6e4d529c7b57079c6 920708 stacks_2.53+dfsg-1_armhf.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Thu, 07 May 2020 17:35:45 +0000 Build-Path: /<> Installed-Build-Depends: autoconf (= 2.69-11.1), automake (= 1:1.16.2-1), autopoint (= 0.19.8.1-10), autotools-dev (= 20180224.1), base-files (= 11), base-passwd (= 3.5.47), bash (= 5.0-6), binutils (= 2.34-6), binutils-common (= 2.34-6), binutils-x86-64-linux-gnu (= 2.34-6), bsdmainutils (= 11.1.2+b1), bsdutils (= 1:2.35.1-2), build-essential (= 12.8), bzip2 (= 1.0.8-2), coreutils (= 8.30-3+b1), cpp (= 4:9.2.1-3.1), cpp-9 (= 9.3.0-11), dash (= 0.5.10.2-7), debconf (= 1.5.74), debhelper (= 13), debianutils (= 4.9.1), dh-autoreconf (= 19), dh-strip-nondeterminism (= 1.8.0-1), diffutils (= 1:3.7-3), dpkg (= 1.19.7), dpkg-dev (= 1.19.7), dwz (= 0.13-5), file (= 1:5.38-4), findutils (= 4.7.0-1), g++ (= 4:9.2.1-3.1), g++-9 (= 9.3.0-11), gcc (= 4:9.2.1-3.1), gcc-10-base (= 10-20200502-1), gcc-9 (= 9.3.0-11), gcc-9-base (= 9.3.0-11), gettext (= 0.19.8.1-10), gettext-base (= 0.19.8.1-10), grep (= 3.4-1), groff-base (= 1.22.4-5), gzip (= 1.10-2), hostname (= 3.23), init-system-helpers (= 1.57), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.2.53-8), libarchive-zip-perl (= 1.68-1), libasan5 (= 9.3.0-11), libatomic1 (= 10-20200502-1), libattr1 (= 1:2.4.48-5), libaudit-common (= 1:2.8.5-3), libaudit1 (= 1:2.8.5-3+b1), libbam-dev (= 0.1.19-4), libbinutils (= 2.34-6), libblkid1 (= 2.35.1-2), libbrotli1 (= 1.0.7-6.1), libbsd0 (= 0.10.0-1), libbz2-1.0 (= 1.0.8-2), libc-bin (= 2.30-7), libc-dev-bin (= 2.30-7), libc6 (= 2.30-7), libc6-dev (= 2.30-7), libcap-ng0 (= 0.7.9-2.1+b2), libcc1-0 (= 10-20200502-1), libcom-err2 (= 1.45.6-1), libcroco3 (= 0.6.13-1), libcrypt-dev (= 1:4.4.16-1), libcrypt1 (= 1:4.4.16-1), libctf-nobfd0 (= 2.34-6), libctf0 (= 2.34-6), libcurl3-gnutls (= 7.68.0-1), libdb5.3 (= 5.3.28+dfsg1-0.6), libdebconfclient0 (= 0.251), libdebhelper-perl (= 13), libdeflate0 (= 1.5-3), libdpkg-perl (= 1.19.7), libelf1 (= 0.176-1.1), libffi7 (= 3.3-4), libfile-stripnondeterminism-perl (= 1.8.0-1), libgcc-9-dev (= 9.3.0-11), libgcc-s1 (= 10-20200502-1), libgcc1 (= 1:10-20200502-1), libgcrypt20 (= 1.8.5-5), libgdbm-compat4 (= 1.18.1-5), libgdbm6 (= 1.18.1-5), libglib2.0-0 (= 2.64.2-1), libgmp10 (= 2:6.2.0+dfsg-4), libgnutls30 (= 3.6.13-2), libgomp1 (= 10-20200502-1), libgpg-error0 (= 1.37-1), libgssapi-krb5-2 (= 1.17-7), libhogweed5 (= 3.5.1+really3.5.1-2), libhts-dev (= 1.10.2-3), libhts3 (= 1.10.2-3), libicu63 (= 63.2-3), libidn2-0 (= 2.3.0-1), libisl22 (= 0.22.1-1), libitm1 (= 10-20200502-1), libk5crypto3 (= 1.17-7), libkeyutils1 (= 1.6.1-2), libkrb5-3 (= 1.17-7), libkrb5support0 (= 1.17-7), libldap-2.4-2 (= 2.4.50+dfsg-1), libldap-common (= 2.4.50+dfsg-1), liblsan0 (= 10-20200502-1), liblz4-1 (= 1.9.2-2), liblzma-dev (= 5.2.4-1+b1), liblzma5 (= 5.2.4-1+b1), libmagic-mgc (= 1:5.38-4), libmagic1 (= 1:5.38-4), libmount1 (= 2.35.1-2), libmpc3 (= 1.1.0-1), libmpfr6 (= 4.0.2-1), libncurses6 (= 6.2-1), libnettle7 (= 3.5.1+really3.5.1-2), libnghttp2-14 (= 1.40.0-1), libp11-kit0 (= 0.23.20-1), 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), libperl5.30 (= 5.30.0-10), libpipeline1 (= 1.5.2-2), libpsl5 (= 0.21.0-1), libquadmath0 (= 10-20200502-1), librtmp1 (= 2.4+20151223.gitfa8646d.1-2+b1), libsasl2-2 (= 2.1.27+dfsg-2), libsasl2-modules-db (= 2.1.27+dfsg-2), libseccomp2 (= 2.4.3-1+b1), libselinux1 (= 3.0-1+b3), libsigsegv2 (= 2.12-2), libsmartcols1 (= 2.35.1-2), libsparsehash-dev (= 2.0.3-2), libssh2-1 (= 1.8.0-2.1), libssl1.1 (= 1.1.1g-1), libstdc++-9-dev (= 9.3.0-11), libstdc++6 (= 10-20200502-1), libsub-override-perl (= 0.09-2), libsystemd0 (= 245.5-2), libtasn1-6 (= 4.16.0-2), libtinfo6 (= 6.2-1), libtool (= 2.4.6-14), libtsan0 (= 10-20200502-1), libubsan1 (= 10-20200502-1), libuchardet0 (= 0.0.6-3), libudev1 (= 245.5-2), libunistring2 (= 0.9.10-2), libuuid1 (= 2.35.1-2), libxml2 (= 2.9.10+dfsg-5), linux-libc-dev (= 5.6.7-1), login (= 1:4.8.1-1), lsb-base (= 11.1.0), m4 (= 1.4.18-4), make (= 4.2.1-2), man-db (= 2.9.1-1), mawk (= 1.3.4.20200120-2), ncurses-base (= 6.2-1), ncurses-bin (= 6.2-1), patch (= 2.7.6-6), perl (= 5.30.0-10), perl-base (= 5.30.0-10), perl-modules-5.30 (= 5.30.0-10), po-debconf (= 1.0.21), samtools (= 1.10-3), sed (= 4.7-1), sensible-utils (= 0.0.12+nmu1), sysvinit-utils (= 2.96-3), tar (= 1.30+dfsg-7), util-linux (= 2.35.1-2), xz-utils (= 5.2.4-1+b1), zlib1g (= 1:1.2.11.dfsg-2), zlib1g-dev (= 1:1.2.11.dfsg-2) Environment: DEB_BUILD_OPTIONS="nocheck parallel=1" DEB_BUILD_PROFILES="cross nocheck" LANG="en_US.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1587858109" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ stacks-dbgsym_2.53+dfsg-1_armhf.deb ----------------------------------- new Debian package, version 2.0. size 26717248 bytes: control archive=1096 bytes. 786 bytes, 12 lines control 1252 bytes, 12 lines md5sums Package: stacks-dbgsym Source: stacks Version: 2.53+dfsg-1 Auto-Built-Package: debug-symbols Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 27487 Depends: stacks (= 2.53+dfsg-1) Section: debug Priority: optional Description: debug symbols for stacks Build-Ids: 11e1c7524657eb7b58a93030edd99bcb07377518 25c34bc3039faa8b12b7b25ec912b383690a9b49 40a5f79e9536cc633d3f06cdd48987613541762f 4249b95e8fc41a346276eba481d81a14011e7f53 49cad58c5ca93fc179d8fc4fbe8cb05683f8780e a449adb4ae006f8463b7a2ef6559f142a8ab751c ac6d7241a7e4210920110ed5b7f51c8d306d3101 bc903b0c98d31a3b67aa65eed61ff237965fba98 e138d802e2119960bcfc90e4490f8c1073108ea3 e68c0649f01838dd6966769b45eee321e1d3b96d f6a3a1da20da612f38a78d89c896c53f53b11f18 drwxr-xr-x root/root 0 2020-04-25 23:41 ./ drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/ drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/ drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/debug/ drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/debug/.build-id/11/ -rw-r--r-- root/root 1982232 2020-04-25 23:41 ./usr/lib/debug/.build-id/11/e1c7524657eb7b58a93030edd99bcb07377518.debug drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/debug/.build-id/25/ -rw-r--r-- root/root 5050736 2020-04-25 23:41 ./usr/lib/debug/.build-id/25/c34bc3039faa8b12b7b25ec912b383690a9b49.debug drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/debug/.build-id/40/ -rw-r--r-- root/root 1444936 2020-04-25 23:41 ./usr/lib/debug/.build-id/40/a5f79e9536cc633d3f06cdd48987613541762f.debug drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/debug/.build-id/42/ -rw-r--r-- root/root 1082512 2020-04-25 23:41 ./usr/lib/debug/.build-id/42/49b95e8fc41a346276eba481d81a14011e7f53.debug drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/debug/.build-id/49/ -rw-r--r-- root/root 2078472 2020-04-25 23:41 ./usr/lib/debug/.build-id/49/cad58c5ca93fc179d8fc4fbe8cb05683f8780e.debug drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/debug/.build-id/a4/ -rw-r--r-- root/root 2032168 2020-04-25 23:41 ./usr/lib/debug/.build-id/a4/49adb4ae006f8463b7a2ef6559f142a8ab751c.debug drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/debug/.build-id/ac/ -rw-r--r-- root/root 2274128 2020-04-25 23:41 ./usr/lib/debug/.build-id/ac/6d7241a7e4210920110ed5b7f51c8d306d3101.debug drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/debug/.build-id/bc/ -rw-r--r-- root/root 2019812 2020-04-25 23:41 ./usr/lib/debug/.build-id/bc/903b0c98d31a3b67aa65eed61ff237965fba98.debug drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/debug/.build-id/e1/ -rw-r--r-- root/root 4422200 2020-04-25 23:41 ./usr/lib/debug/.build-id/e1/38d802e2119960bcfc90e4490f8c1073108ea3.debug drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/debug/.build-id/e6/ -rw-r--r-- root/root 2793072 2020-04-25 23:41 ./usr/lib/debug/.build-id/e6/8c0649f01838dd6966769b45eee321e1d3b96d.debug drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/debug/.build-id/f6/ -rw-r--r-- root/root 1730780 2020-04-25 23:41 ./usr/lib/debug/.build-id/f6/a3a1da20da612f38a78d89c896c53f53b11f18.debug drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/ -rw-r--r-- root/root 1207260 2020-04-25 23:41 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/stacks.debug drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/share/ drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/share/doc/ lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/share/doc/stacks-dbgsym -> stacks stacks_2.53+dfsg-1_armhf.deb ---------------------------- new Debian package, version 2.0. size 920708 bytes: control archive=1632 bytes. 1002 bytes, 21 lines control 1798 bytes, 26 lines md5sums Package: stacks Version: 2.53+dfsg-1 Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 3277 Depends: libc6 (>= 2.29), libgcc-s1 (>= 3.5), libgomp1 (>= 6), libhts3 (>= 1.10), libstdc++6 (>= 9), zlib1g (>= 1:1.2.6), samtools, libdbi-perl Recommends: libspreadsheet-writeexcel-perl, python3, littler Conflicts: stacks-web Replaces: stacks-web Provides: stacks-web Section: science Priority: optional Homepage: https://creskolab.uoregon.edu/stacks/ Description: pipeline for building loci from short-read DNA sequences Stacks is a software pipeline for building loci from short-read sequences, such as those generated on the Illumina platform. Stacks was developed to work with restriction enzyme-based data, such as RAD-seq, for the purpose of building genetic maps and conducting population genomics and phylogeography. . Note that this package installs Stacks such that all commands must be run as: $ stacks drwxr-xr-x root/root 0 2020-04-25 23:41 ./ drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/ drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/bin/ -rwxr-xr-x root/root 771 2020-03-26 01:24 ./usr/bin/stacks drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/ drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/ drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/ lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/clone_filter -> ../../stacks/bin/clone_filter lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/count_fixed_catalog_snps.py -> ../../stacks/bin/count_fixed_catalog_snps.py lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/cstacks -> ../../stacks/bin/cstacks lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/denovo_map -> ../../stacks/bin/denovo_map lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/denovo_map.pl -> ../../stacks/bin/denovo_map.pl lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/gstacks -> ../../stacks/bin/gstacks lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/integrate_alignments.py -> ../../stacks/bin/integrate_alignments.py lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/kmer_filter -> ../../stacks/bin/kmer_filter lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/phasedstacks -> ../../stacks/bin/phasedstacks lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/populations -> ../../stacks/bin/populations lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/process_radtags -> ../../stacks/bin/process_radtags lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/process_shortreads -> ../../stacks/bin/process_shortreads lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/ref_map -> ../../stacks/bin/ref_map lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/ref_map.pl -> ../../stacks/bin/ref_map.pl lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/sstacks -> ../../stacks/bin/sstacks lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/stacks-count-reads-per-sample-per-locus -> ../../stacks/bin/stacks-count-reads-per-sample-per-locus lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/stacks-dist-extract -> ../../stacks/bin/stacks-dist-extract lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/stacks-gdb -> ../../stacks/bin/stacks-gdb lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/stacks-hist2d-loci-samples-coverage -> ../../stacks/bin/stacks-hist2d-loci-samples-coverage lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/stacks-integrate-alignments -> ../../stacks/bin/stacks-integrate-alignments lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/stacks-samtools-tview -> ../../stacks/bin/stacks-samtools-tview lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/tsv2bam -> ../../stacks/bin/tsv2bam lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/debian-med/bin/ustacks -> ../../stacks/bin/ustacks drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/stacks/ drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/lib/stacks/bin/ -rwxr-xr-x root/root 211696 2020-04-25 23:41 ./usr/lib/stacks/bin/clone_filter -rwxr-xr-x root/root 8652 2020-04-25 23:41 ./usr/lib/stacks/bin/count_fixed_catalog_snps.py -rwxr-xr-x root/root 264772 2020-04-25 23:41 ./usr/lib/stacks/bin/cstacks lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/stacks/bin/denovo_map -> denovo_map.pl -rwxr-xr-x root/root 30259 2020-04-25 23:41 ./usr/lib/stacks/bin/denovo_map.pl -rwxr-xr-x root/root 456976 2020-04-25 23:41 ./usr/lib/stacks/bin/gstacks -rwxr-xr-x root/root 10879 2020-04-25 23:41 ./usr/lib/stacks/bin/integrate_alignments.py -rwxr-xr-x root/root 174808 2020-04-25 23:41 ./usr/lib/stacks/bin/kmer_filter -rwxr-xr-x root/root 215648 2020-04-25 23:41 ./usr/lib/stacks/bin/phasedstacks -rwxr-xr-x root/root 606256 2020-04-25 23:41 ./usr/lib/stacks/bin/populations -rwxr-xr-x root/root 253920 2020-04-25 23:41 ./usr/lib/stacks/bin/process_radtags -rwxr-xr-x root/root 224428 2020-04-25 23:41 ./usr/lib/stacks/bin/process_shortreads lrwxrwxrwx root/root 0 2020-04-25 23:41 ./usr/lib/stacks/bin/ref_map -> ref_map.pl -rwxr-xr-x root/root 15168 2020-04-25 23:41 ./usr/lib/stacks/bin/ref_map.pl -rwxr-xr-x root/root 256480 2020-04-25 23:41 ./usr/lib/stacks/bin/sstacks -rwxr-xr-x root/root 757 2020-04-25 23:41 ./usr/lib/stacks/bin/stacks-count-reads-per-sample-per-locus -rwxr-xr-x root/root 773 2020-04-25 23:41 ./usr/lib/stacks/bin/stacks-dist-extract -rwxr-xr-x root/root 1207 2020-04-25 23:41 ./usr/lib/stacks/bin/stacks-gdb -rwxr-xr-x root/root 1773 2020-04-25 23:41 ./usr/lib/stacks/bin/stacks-hist2d-loci-samples-coverage -rwxr-xr-x root/root 5752 2020-04-25 23:41 ./usr/lib/stacks/bin/stacks-integrate-alignments -rwxr-xr-x root/root 3037 2020-04-25 23:41 ./usr/lib/stacks/bin/stacks-samtools-tview -rwxr-xr-x root/root 256148 2020-04-25 23:41 ./usr/lib/stacks/bin/tsv2bam -rwxr-xr-x root/root 273400 2020-04-25 23:41 ./usr/lib/stacks/bin/ustacks drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/share/ drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/share/doc/ drwxr-xr-x root/root 0 2020-04-25 23:41 ./usr/share/doc/stacks/ -rw-r--r-- root/root 1451 2020-03-26 01:24 ./usr/share/doc/stacks/README.Debian -rw-r--r-- root/root 1749 2020-04-25 23:41 ./usr/share/doc/stacks/changelog.Debian.gz -rw-r--r-- root/root 28518 2020-03-28 23:10 ./usr/share/doc/stacks/changelog.gz -rw-r--r-- root/root 1684 2020-04-25 23:41 ./usr/share/doc/stacks/copyright 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 [562 B] Get:5 copy:/<>/apt_archive ./ Packages [647 B] Fetched 2172 B in 0s (89.2 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 libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libcapture-tiny-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libcpanel-json-xs-perl libdevel-callchecker-perl libdevel-size-perl libdigest-hmac-perl libdynaloader-functions-perl libemail-valid-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libfuture-perl libhtml-parser-perl libhtml-tagset-perl libimport-into-perl libio-async-loop-epoll-perl libio-async-perl libio-socket-ssl-perl libipc-system-simple-perl libjson-maybexs-perl liblinux-epoll-perl liblist-compare-perl liblist-moreutils-perl libmailtools-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libnamespace-clean-perl libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libpath-tiny-perl libreadline8 librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsqlite3-0 libssl1.1 libstrictures-perl libstruct-dumb-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-name-perl libsub-quote-perl libtext-glob-perl libtext-levenshtein-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libxml-writer-perl libyaml-0-2 libyaml-libyaml-perl lintian netbase patchutils perl-openssl-defaults readline-common t1utils Suggested packages: libxml-parser-perl libdata-dump-perl ca-certificates libscalar-number-perl libbareword-filehandles-perl libindirect-perl libmultidimensional-perl libdevel-lexalias-perl libdevel-stacktrace-perl libwww-perl binutils-multiarch libtext-template-perl readline-doc Recommended packages: gnupg libhttp-message-perl libasync-mergepoint-perl libsereal-perl libtest-fatal-perl libtest-refcount-perl libdigest-bubblebabble-perl libnet-dns-sec-perl libnet-libidn-perl libperl4-corelibs-perl libauthen-sasl-perl libpackage-stash-xs-perl libref-util-perl libtype-tiny-xs-perl libperlio-gzip-perl The following NEW packages will be installed: diffstat gpg gpgconf libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libcapture-tiny-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libcpanel-json-xs-perl libdevel-callchecker-perl libdevel-size-perl libdigest-hmac-perl libdynaloader-functions-perl libemail-valid-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libfuture-perl libhtml-parser-perl libhtml-tagset-perl libimport-into-perl libio-async-loop-epoll-perl libio-async-perl libio-socket-ssl-perl libipc-system-simple-perl libjson-maybexs-perl liblinux-epoll-perl liblist-compare-perl liblist-moreutils-perl libmailtools-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libnamespace-clean-perl libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libpath-tiny-perl libreadline8 librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsqlite3-0 libssl1.1 libstrictures-perl libstruct-dumb-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-name-perl libsub-quote-perl libtext-glob-perl libtext-levenshtein-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libxml-writer-perl libyaml-0-2 libyaml-libyaml-perl lintian netbase patchutils perl-openssl-defaults readline-common sbuild-build-depends-lintian-dummy:armhf t1utils 0 upgraded, 78 newly installed, 0 to remove and 0 not upgraded. Need to get 9224 kB of archives. After this operation, 26.3 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 readline-common all 8.0-4 [72.5 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 libreadline8 amd64 8.0-4 [160 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 netbase all 6.1 [19.9 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 diffstat amd64 1.63-1 [35.6 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libassuan0 amd64 2.5.3-7 [50.4 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 gpgconf amd64 2.2.20-1 [532 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 libsqlite3-0 amd64 3.31.1-5 [661 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 gpg amd64 2.2.20-1 [894 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 libapt-pkg-perl amd64 0.1.36+b3 [71.0 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 libb-hooks-op-check-perl amd64 0.22-1+b2 [11.3 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 libdynaloader-functions-perl all 0.003-1 [12.6 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 libdevel-callchecker-perl amd64 0.008-1+b1 [15.9 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 libparams-classify-perl amd64 0.015-1+b2 [25.6 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 libmodule-runtime-perl all 0.016-1 [19.4 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libtry-tiny-perl all 0.30-1 [23.3 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 libmodule-implementation-perl all 0.09-1 [12.9 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-exporter-progressive-perl all 0.001013-1 [7588 B] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 libvariable-magic-perl amd64 0.62-1+b2 [46.0 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 libb-hooks-endofscope-perl all 0.24-1 [18.6 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 libcapture-tiny-perl all 0.48-1 [26.0 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 libclass-method-modifiers-perl all 2.13-1 [19.2 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 libclass-xsaccessor-perl amd64 1.19-3+b3 [38.4 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 libclone-perl amd64 0.45-1 [15.1 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 libcpanel-json-xs-perl amd64 4.19-1 [126 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 libdevel-size-perl amd64 0.83-1+b1 [26.0 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 libdigest-hmac-perl all 1.03+dfsg-2 [10.6 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 libssl1.1 amd64 1.1.1g-1 [1543 kB] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 perl-openssl-defaults amd64 4 [7148 B] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-ssleay-perl amd64 1.88-3 [320 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 libio-socket-ssl-perl all 2.067-1 [212 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-smtp-ssl-perl all 1.04-1 [6184 B] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 libtimedate-perl all 2.3200-1 [39.1 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 libmailtools-perl all 2.21-1 [95.5 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-ip-perl all 1.26-2 [29.0 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-dns-perl all 1.23-1 [369 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-domain-tld-perl all 1.75-1 [33.3 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 libemail-valid-perl all 1.202-1 [23.0 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libexporter-tiny-perl all 1.002001-1 [36.9 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libipc-system-simple-perl all 1.30-1 [28.2 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-basedir-perl all 0.08-1 [17.7 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libnumber-compare-perl all 0.03-1 [7642 B] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-glob-perl all 0.10-1 [8362 B] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-find-rule-perl all 0.34-1 [30.6 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 libfont-ttf-perl all 1.06-1 [317 kB] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 libfuture-perl all 0.45-1 [84.4 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 libhtml-tagset-perl all 3.20-4 [13.0 kB] Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 liburi-perl all 1.76-2 [90.2 kB] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 libhtml-parser-perl amd64 3.72-5 [105 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 libimport-into-perl all 1.002005-1 [11.6 kB] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 libstruct-dumb-perl all 0.12-1 [12.9 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 libio-async-perl all 0.75-1 [269 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 liblinux-epoll-perl amd64 0.017-1 [16.8 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 libio-async-loop-epoll-perl all 0.20-1 [11.9 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 libjson-maybexs-perl all 1.004001-1 [13.0 kB] Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-compare-perl all 0.53-1 [68.9 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-moreutils-perl amd64 0.416-1+b5 [63.6 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 librole-tiny-perl all 2.001004-1 [20.8 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 libstrictures-perl all 2.000006-1 [18.6 kB] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-quote-perl all 2.006006-1 [21.0 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 libmoo-perl all 2.004000-1 [59.4 kB] Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 libmoox-aliases-perl all 0.001006-1 [10.2 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 libpackage-stash-perl all 0.38-1 [21.7 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-identify-perl amd64 0.14-1+b2 [12.0 kB] Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-name-perl amd64 0.26-1 [13.5 kB] Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 libnamespace-clean-perl all 0.27-1 [17.3 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 libpath-tiny-perl all 0.112-1 [53.5 kB] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 libsereal-decoder-perl amd64 4.011+ds-1 [106 kB] Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 libsereal-encoder-perl amd64 4.011+ds-1 [108 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-levenshtein-perl all 0.13-1 [11.1 kB] Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 libtype-tiny-perl all 1.010001-1 [338 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 libunicode-utf8-perl amd64 0.62-1+b1 [20.2 kB] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-writer-perl all 0.625-1 [29.7 kB] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-0-2 amd64 0.2.2-1 [49.6 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-libyaml-perl amd64 0.82+repack-1 [35.6 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 patchutils amd64 0.3.4-2+b1 [91.4 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 t1utils amd64 1.41-4 [62.1 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 lintian all 2.71.0 [1287 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 9224 kB in 0s (47.3 MB/s) Selecting previously unselected package readline-common. (Reading database ... 20419 files and directories currently installed.) Preparing to unpack .../00-readline-common_8.0-4_all.deb ... Unpacking readline-common (8.0-4) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../01-libreadline8_8.0-4_amd64.deb ... Unpacking libreadline8:amd64 (8.0-4) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.1_all.deb ... Unpacking netbase (6.1) ... Selecting previously unselected package diffstat. Preparing to unpack .../03-diffstat_1.63-1_amd64.deb ... Unpacking diffstat (1.63-1) ... Selecting previously unselected package libassuan0:amd64. Preparing to unpack .../04-libassuan0_2.5.3-7_amd64.deb ... Unpacking libassuan0:amd64 (2.5.3-7) ... Selecting previously unselected package gpgconf. Preparing to unpack .../05-gpgconf_2.2.20-1_amd64.deb ... Unpacking gpgconf (2.2.20-1) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../06-libsqlite3-0_3.31.1-5_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.31.1-5) ... Selecting previously unselected package gpg. Preparing to unpack .../07-gpg_2.2.20-1_amd64.deb ... Unpacking gpg (2.2.20-1) ... Selecting previously unselected package libapt-pkg-perl. Preparing to unpack .../08-libapt-pkg-perl_0.1.36+b3_amd64.deb ... Unpacking libapt-pkg-perl (0.1.36+b3) ... Selecting previously unselected package libb-hooks-op-check-perl. Preparing to unpack .../09-libb-hooks-op-check-perl_0.22-1+b2_amd64.deb ... Unpacking libb-hooks-op-check-perl (0.22-1+b2) ... Selecting previously unselected package libdynaloader-functions-perl. Preparing to unpack .../10-libdynaloader-functions-perl_0.003-1_all.deb ... Unpacking libdynaloader-functions-perl (0.003-1) ... Selecting previously unselected package libdevel-callchecker-perl. Preparing to unpack .../11-libdevel-callchecker-perl_0.008-1+b1_amd64.deb ... Unpacking libdevel-callchecker-perl (0.008-1+b1) ... Selecting previously unselected package libparams-classify-perl. Preparing to unpack .../12-libparams-classify-perl_0.015-1+b2_amd64.deb ... Unpacking libparams-classify-perl (0.015-1+b2) ... Selecting previously unselected package libmodule-runtime-perl. Preparing to unpack .../13-libmodule-runtime-perl_0.016-1_all.deb ... Unpacking libmodule-runtime-perl (0.016-1) ... Selecting previously unselected package libtry-tiny-perl. Preparing to unpack .../14-libtry-tiny-perl_0.30-1_all.deb ... Unpacking libtry-tiny-perl (0.30-1) ... Selecting previously unselected package libmodule-implementation-perl. Preparing to unpack .../15-libmodule-implementation-perl_0.09-1_all.deb ... Unpacking libmodule-implementation-perl (0.09-1) ... Selecting previously unselected package libsub-exporter-progressive-perl. Preparing to unpack .../16-libsub-exporter-progressive-perl_0.001013-1_all.deb ... Unpacking libsub-exporter-progressive-perl (0.001013-1) ... Selecting previously unselected package libvariable-magic-perl. Preparing to unpack .../17-libvariable-magic-perl_0.62-1+b2_amd64.deb ... Unpacking libvariable-magic-perl (0.62-1+b2) ... Selecting previously unselected package libb-hooks-endofscope-perl. Preparing to unpack .../18-libb-hooks-endofscope-perl_0.24-1_all.deb ... Unpacking libb-hooks-endofscope-perl (0.24-1) ... Selecting previously unselected package libcapture-tiny-perl. Preparing to unpack .../19-libcapture-tiny-perl_0.48-1_all.deb ... Unpacking libcapture-tiny-perl (0.48-1) ... Selecting previously unselected package libclass-method-modifiers-perl. Preparing to unpack .../20-libclass-method-modifiers-perl_2.13-1_all.deb ... Unpacking libclass-method-modifiers-perl (2.13-1) ... Selecting previously unselected package libclass-xsaccessor-perl. Preparing to unpack .../21-libclass-xsaccessor-perl_1.19-3+b3_amd64.deb ... Unpacking libclass-xsaccessor-perl (1.19-3+b3) ... Selecting previously unselected package libclone-perl. Preparing to unpack .../22-libclone-perl_0.45-1_amd64.deb ... Unpacking libclone-perl (0.45-1) ... Selecting previously unselected package libcpanel-json-xs-perl. Preparing to unpack .../23-libcpanel-json-xs-perl_4.19-1_amd64.deb ... Unpacking libcpanel-json-xs-perl (4.19-1) ... Selecting previously unselected package libdevel-size-perl. Preparing to unpack .../24-libdevel-size-perl_0.83-1+b1_amd64.deb ... Unpacking libdevel-size-perl (0.83-1+b1) ... Selecting previously unselected package libdigest-hmac-perl. Preparing to unpack .../25-libdigest-hmac-perl_1.03+dfsg-2_all.deb ... Unpacking libdigest-hmac-perl (1.03+dfsg-2) ... Selecting previously unselected package libssl1.1:amd64. Preparing to unpack .../26-libssl1.1_1.1.1g-1_amd64.deb ... Unpacking libssl1.1:amd64 (1.1.1g-1) ... Selecting previously unselected package perl-openssl-defaults:amd64. Preparing to unpack .../27-perl-openssl-defaults_4_amd64.deb ... Unpacking perl-openssl-defaults:amd64 (4) ... Selecting previously unselected package libnet-ssleay-perl. Preparing to unpack .../28-libnet-ssleay-perl_1.88-3_amd64.deb ... Unpacking libnet-ssleay-perl (1.88-3) ... Selecting previously unselected package libio-socket-ssl-perl. Preparing to unpack .../29-libio-socket-ssl-perl_2.067-1_all.deb ... Unpacking libio-socket-ssl-perl (2.067-1) ... Selecting previously unselected package libnet-smtp-ssl-perl. Preparing to unpack .../30-libnet-smtp-ssl-perl_1.04-1_all.deb ... Unpacking libnet-smtp-ssl-perl (1.04-1) ... Selecting previously unselected package libtimedate-perl. Preparing to unpack .../31-libtimedate-perl_2.3200-1_all.deb ... Unpacking libtimedate-perl (2.3200-1) ... Selecting previously unselected package libmailtools-perl. Preparing to unpack .../32-libmailtools-perl_2.21-1_all.deb ... Unpacking libmailtools-perl (2.21-1) ... Selecting previously unselected package libnet-ip-perl. Preparing to unpack .../33-libnet-ip-perl_1.26-2_all.deb ... Unpacking libnet-ip-perl (1.26-2) ... Selecting previously unselected package libnet-dns-perl. Preparing to unpack .../34-libnet-dns-perl_1.23-1_all.deb ... Unpacking libnet-dns-perl (1.23-1) ... Selecting previously unselected package libnet-domain-tld-perl. Preparing to unpack .../35-libnet-domain-tld-perl_1.75-1_all.deb ... Unpacking libnet-domain-tld-perl (1.75-1) ... Selecting previously unselected package libemail-valid-perl. Preparing to unpack .../36-libemail-valid-perl_1.202-1_all.deb ... Unpacking libemail-valid-perl (1.202-1) ... Selecting previously unselected package libexporter-tiny-perl. Preparing to unpack .../37-libexporter-tiny-perl_1.002001-1_all.deb ... Unpacking libexporter-tiny-perl (1.002001-1) ... Selecting previously unselected package libipc-system-simple-perl. Preparing to unpack .../38-libipc-system-simple-perl_1.30-1_all.deb ... Unpacking libipc-system-simple-perl (1.30-1) ... Selecting previously unselected package libfile-basedir-perl. Preparing to unpack .../39-libfile-basedir-perl_0.08-1_all.deb ... Unpacking libfile-basedir-perl (0.08-1) ... Selecting previously unselected package libnumber-compare-perl. Preparing to unpack .../40-libnumber-compare-perl_0.03-1_all.deb ... Unpacking libnumber-compare-perl (0.03-1) ... Selecting previously unselected package libtext-glob-perl. Preparing to unpack .../41-libtext-glob-perl_0.10-1_all.deb ... Unpacking libtext-glob-perl (0.10-1) ... Selecting previously unselected package libfile-find-rule-perl. Preparing to unpack .../42-libfile-find-rule-perl_0.34-1_all.deb ... Unpacking libfile-find-rule-perl (0.34-1) ... Selecting previously unselected package libfont-ttf-perl. Preparing to unpack .../43-libfont-ttf-perl_1.06-1_all.deb ... Unpacking libfont-ttf-perl (1.06-1) ... Selecting previously unselected package libfuture-perl. Preparing to unpack .../44-libfuture-perl_0.45-1_all.deb ... Unpacking libfuture-perl (0.45-1) ... Selecting previously unselected package libhtml-tagset-perl. Preparing to unpack .../45-libhtml-tagset-perl_3.20-4_all.deb ... Unpacking libhtml-tagset-perl (3.20-4) ... Selecting previously unselected package liburi-perl. Preparing to unpack .../46-liburi-perl_1.76-2_all.deb ... Unpacking liburi-perl (1.76-2) ... Selecting previously unselected package libhtml-parser-perl. Preparing to unpack .../47-libhtml-parser-perl_3.72-5_amd64.deb ... Unpacking libhtml-parser-perl (3.72-5) ... Selecting previously unselected package libimport-into-perl. Preparing to unpack .../48-libimport-into-perl_1.002005-1_all.deb ... Unpacking libimport-into-perl (1.002005-1) ... Selecting previously unselected package libstruct-dumb-perl. Preparing to unpack .../49-libstruct-dumb-perl_0.12-1_all.deb ... Unpacking libstruct-dumb-perl (0.12-1) ... Selecting previously unselected package libio-async-perl. Preparing to unpack .../50-libio-async-perl_0.75-1_all.deb ... Unpacking libio-async-perl (0.75-1) ... Selecting previously unselected package liblinux-epoll-perl. Preparing to unpack .../51-liblinux-epoll-perl_0.017-1_amd64.deb ... Unpacking liblinux-epoll-perl (0.017-1) ... Selecting previously unselected package libio-async-loop-epoll-perl. Preparing to unpack .../52-libio-async-loop-epoll-perl_0.20-1_all.deb ... Unpacking libio-async-loop-epoll-perl (0.20-1) ... Selecting previously unselected package libjson-maybexs-perl. Preparing to unpack .../53-libjson-maybexs-perl_1.004001-1_all.deb ... Unpacking libjson-maybexs-perl (1.004001-1) ... Selecting previously unselected package liblist-compare-perl. Preparing to unpack .../54-liblist-compare-perl_0.53-1_all.deb ... Unpacking liblist-compare-perl (0.53-1) ... Selecting previously unselected package liblist-moreutils-perl. Preparing to unpack .../55-liblist-moreutils-perl_0.416-1+b5_amd64.deb ... Unpacking liblist-moreutils-perl (0.416-1+b5) ... Selecting previously unselected package librole-tiny-perl. Preparing to unpack .../56-librole-tiny-perl_2.001004-1_all.deb ... Unpacking librole-tiny-perl (2.001004-1) ... Selecting previously unselected package libstrictures-perl. Preparing to unpack .../57-libstrictures-perl_2.000006-1_all.deb ... Unpacking libstrictures-perl (2.000006-1) ... Selecting previously unselected package libsub-quote-perl. Preparing to unpack .../58-libsub-quote-perl_2.006006-1_all.deb ... Unpacking libsub-quote-perl (2.006006-1) ... Selecting previously unselected package libmoo-perl. Preparing to unpack .../59-libmoo-perl_2.004000-1_all.deb ... Unpacking libmoo-perl (2.004000-1) ... Selecting previously unselected package libmoox-aliases-perl. Preparing to unpack .../60-libmoox-aliases-perl_0.001006-1_all.deb ... Unpacking libmoox-aliases-perl (0.001006-1) ... Selecting previously unselected package libpackage-stash-perl. Preparing to unpack .../61-libpackage-stash-perl_0.38-1_all.deb ... Unpacking libpackage-stash-perl (0.38-1) ... Selecting previously unselected package libsub-identify-perl. Preparing to unpack .../62-libsub-identify-perl_0.14-1+b2_amd64.deb ... Unpacking libsub-identify-perl (0.14-1+b2) ... Selecting previously unselected package libsub-name-perl. Preparing to unpack .../63-libsub-name-perl_0.26-1_amd64.deb ... Unpacking libsub-name-perl (0.26-1) ... Selecting previously unselected package libnamespace-clean-perl. Preparing to unpack .../64-libnamespace-clean-perl_0.27-1_all.deb ... Unpacking libnamespace-clean-perl (0.27-1) ... Selecting previously unselected package libpath-tiny-perl. Preparing to unpack .../65-libpath-tiny-perl_0.112-1_all.deb ... Unpacking libpath-tiny-perl (0.112-1) ... Selecting previously unselected package libsereal-decoder-perl. Preparing to unpack .../66-libsereal-decoder-perl_4.011+ds-1_amd64.deb ... Unpacking libsereal-decoder-perl (4.011+ds-1) ... Selecting previously unselected package libsereal-encoder-perl. Preparing to unpack .../67-libsereal-encoder-perl_4.011+ds-1_amd64.deb ... Unpacking libsereal-encoder-perl (4.011+ds-1) ... Selecting previously unselected package libtext-levenshtein-perl. Preparing to unpack .../68-libtext-levenshtein-perl_0.13-1_all.deb ... Unpacking libtext-levenshtein-perl (0.13-1) ... Selecting previously unselected package libtype-tiny-perl. Preparing to unpack .../69-libtype-tiny-perl_1.010001-1_all.deb ... Unpacking libtype-tiny-perl (1.010001-1) ... Selecting previously unselected package libunicode-utf8-perl. Preparing to unpack .../70-libunicode-utf8-perl_0.62-1+b1_amd64.deb ... Unpacking libunicode-utf8-perl (0.62-1+b1) ... Selecting previously unselected package libxml-writer-perl. Preparing to unpack .../71-libxml-writer-perl_0.625-1_all.deb ... Unpacking libxml-writer-perl (0.625-1) ... Selecting previously unselected package libyaml-0-2:amd64. Preparing to unpack .../72-libyaml-0-2_0.2.2-1_amd64.deb ... Unpacking libyaml-0-2:amd64 (0.2.2-1) ... Selecting previously unselected package libyaml-libyaml-perl. Preparing to unpack .../73-libyaml-libyaml-perl_0.82+repack-1_amd64.deb ... Unpacking libyaml-libyaml-perl (0.82+repack-1) ... Selecting previously unselected package patchutils. Preparing to unpack .../74-patchutils_0.3.4-2+b1_amd64.deb ... Unpacking patchutils (0.3.4-2+b1) ... Selecting previously unselected package t1utils. Preparing to unpack .../75-t1utils_1.41-4_amd64.deb ... Unpacking t1utils (1.41-4) ... Selecting previously unselected package lintian. Preparing to unpack .../76-lintian_2.71.0_all.deb ... Unpacking lintian (2.71.0) ... Selecting previously unselected package sbuild-build-depends-lintian-dummy:armhf. Preparing to unpack .../77-sbuild-build-depends-lintian-dummy_0.invalid.0_armhf.deb ... Unpacking sbuild-build-depends-lintian-dummy:armhf (0.invalid.0) ... Setting up libapt-pkg-perl (0.1.36+b3) ... Setting up libunicode-utf8-perl (0.62-1+b1) ... Setting up libstruct-dumb-perl (0.12-1) ... Setting up libdynaloader-functions-perl (0.003-1) ... Setting up libtext-glob-perl (0.10-1) ... Setting up libclass-method-modifiers-perl (2.13-1) ... Setting up liblist-compare-perl (0.53-1) ... Setting up libclone-perl (0.45-1) ... Setting up libyaml-0-2:amd64 (0.2.2-1) ... Setting up libsub-identify-perl (0.14-1+b2) ... Setting up libcpanel-json-xs-perl (4.19-1) ... Setting up libssl1.1:amd64 (1.1.1g-1) ... Setting up libhtml-tagset-perl (3.20-4) ... Setting up libdevel-size-perl (0.83-1+b1) ... Setting up libsqlite3-0:amd64 (3.31.1-5) ... Setting up libfuture-perl (0.45-1) ... Setting up libyaml-libyaml-perl (0.82+repack-1) ... Setting up libtry-tiny-perl (0.30-1) ... Setting up perl-openssl-defaults:amd64 (4) ... Setting up libtext-levenshtein-perl (0.13-1) ... Setting up libassuan0:amd64 (2.5.3-7) ... Setting up libsereal-encoder-perl (4.011+ds-1) ... Setting up libnumber-compare-perl (0.03-1) ... Setting up libio-async-perl (0.75-1) ... Setting up patchutils (0.3.4-2+b1) ... Setting up libjson-maybexs-perl (1.004001-1) ... Setting up libfile-find-rule-perl (0.34-1) ... Setting up libdigest-hmac-perl (1.03+dfsg-2) ... Setting up libipc-system-simple-perl (1.30-1) ... Setting up libnet-domain-tld-perl (1.75-1) ... Setting up libxml-writer-perl (0.625-1) ... Setting up t1utils (1.41-4) ... Setting up liblinux-epoll-perl (0.017-1) ... Setting up diffstat (1.63-1) ... Setting up libvariable-magic-perl (0.62-1+b2) ... Setting up libb-hooks-op-check-perl (0.22-1+b2) ... Setting up libsub-exporter-progressive-perl (0.001013-1) ... Setting up libcapture-tiny-perl (0.48-1) ... Setting up libtimedate-perl (2.3200-1) ... Setting up libsub-name-perl (0.26-1) ... Setting up libpath-tiny-perl (0.112-1) ... Setting up librole-tiny-perl (2.001004-1) ... Setting up netbase (6.1) ... Setting up libstrictures-perl (2.000006-1) ... Setting up libsub-quote-perl (2.006006-1) ... Setting up libclass-xsaccessor-perl (1.19-3+b3) ... Setting up libexporter-tiny-perl (1.002001-1) ... Setting up libfont-ttf-perl (1.06-1) ... Setting up libnet-ip-perl (1.26-2) ... Setting up readline-common (8.0-4) ... Setting up libsereal-decoder-perl (4.011+ds-1) ... Setting up liburi-perl (1.76-2) ... Setting up libnet-ssleay-perl (1.88-3) ... Setting up libfile-basedir-perl (0.08-1) ... Setting up liblist-moreutils-perl (0.416-1+b5) ... Setting up libreadline8:amd64 (8.0-4) ... Setting up libtype-tiny-perl (1.010001-1) ... Setting up libnet-dns-perl (1.23-1) ... Setting up libdevel-callchecker-perl (0.008-1+b1) ... Setting up libio-async-loop-epoll-perl (0.20-1) ... Setting up libhtml-parser-perl (3.72-5) ... Setting up gpgconf (2.2.20-1) ... Setting up libio-socket-ssl-perl (2.067-1) ... Setting up gpg (2.2.20-1) ... Setting up libparams-classify-perl (0.015-1+b2) ... Setting up libnet-smtp-ssl-perl (1.04-1) ... Setting up libmodule-runtime-perl (0.016-1) ... Setting up libmailtools-perl (2.21-1) ... Setting up libmodule-implementation-perl (0.09-1) ... Setting up libemail-valid-perl (1.202-1) ... Setting up libpackage-stash-perl (0.38-1) ... Setting up libimport-into-perl (1.002005-1) ... Setting up libmoo-perl (2.004000-1) ... 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 (2.71.0) ... Setting up sbuild-build-depends-lintian-dummy:armhf (0.invalid.0) ... Processing triggers for man-db (2.9.1-1) ... Not building database; man-db/auto-update is not 'true'. Processing triggers for libc-bin (2.30-7) ... 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: 325312 Build-Time: 330 Distribution: unstable Foreign Architectures: armhf Host Architecture: armhf Install-Time: 19 Job: stacks_2.53+dfsg-1 Lintian: pass Machine Architecture: amd64 Package: stacks Package-Time: 358 Source-Version: 2.53+dfsg-1 Space: 325312 Status: successful Version: 2.53+dfsg-1 -------------------------------------------------------------------------------- Finished at 2020-05-07T17:35:46Z Build needed 00:05:58, 325312k disk space