I: pbuilder: network access will be disabled during build I: Current time: Mon Aug 10 07:42:55 -12 2020 I: pbuilder-time-stamp: 1597088575 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [khmer_2.1.2+dfsg-6.dsc] I: copying [./khmer_2.1.2+dfsg.orig.tar.gz] I: copying [./khmer_2.1.2+dfsg-6.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/var/lib/jenkins/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Wed Jan 9 03:28:48 2019 -12 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./khmer_2.1.2+dfsg-6.dsc dpkg-source: info: extracting khmer in khmer-2.1.2+dfsg dpkg-source: info: unpacking khmer_2.1.2+dfsg.orig.tar.gz dpkg-source: info: unpacking khmer_2.1.2+dfsg-6.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying update-manifest dpkg-source: info: applying setup-py-py3 dpkg-source: info: applying local-libs dpkg-source: info: applying older-setuptools dpkg-source: info: applying disable_google_analytics dpkg-source: info: applying get_version dpkg-source: info: applying install-prefix dpkg-source: info: applying cpython-bug-empty-exceptions dpkg-source: info: applying amend-skip dpkg-source: info: applying setup.py-py3 dpkg-source: info: applying python3 dpkg-source: info: applying fix_liboxli_test I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/25724/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=8' DISTRIBUTION='' HOME='/var/lib/jenkins' HOST_ARCH='arm64' IFS=' ' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='25724' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.fdtMxYO8zy/pbuilderrc_dOd8 --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.fdtMxYO8zy/b1 --logfile b1/build.log khmer_2.1.2+dfsg-6.dsc' SUDO_GID='117' SUDO_UID='110' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' USERNAME='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.16:3128' I: uname -a Linux codethink-sled10-arm64 4.4.0-186-generic #216-Ubuntu SMP Wed Jul 1 05:35:21 UTC 2020 aarch64 GNU/Linux I: ls -l /bin total 4928 -rwxr-xr-x 1 root root 1216928 Apr 17 2019 bash -rwxr-xr-x 3 root root 34808 Jul 10 2019 bunzip2 -rwxr-xr-x 3 root root 34808 Jul 10 2019 bzcat lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep -rwxr-xr-x 3 root root 34808 Jul 10 2019 bzip2 -rwxr-xr-x 1 root root 14264 Jul 10 2019 bzip2recover lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore -rwxr-xr-x 1 root root 35576 Feb 28 2019 cat -rwxr-xr-x 1 root root 60256 Feb 28 2019 chgrp -rwxr-xr-x 1 root root 56096 Feb 28 2019 chmod -rwxr-xr-x 1 root root 64368 Feb 28 2019 chown -rwxr-xr-x 1 root root 134632 Feb 28 2019 cp -rwxr-xr-x 1 root root 129536 Jan 17 2019 dash -rwxr-xr-x 1 root root 97136 Feb 28 2019 date -rwxr-xr-x 1 root root 76736 Feb 28 2019 dd -rwxr-xr-x 1 root root 93752 Feb 28 2019 df -rwxr-xr-x 1 root root 138848 Feb 28 2019 dir -rwxr-xr-x 1 root root 75984 Jan 9 2019 dmesg lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname -rwxr-xr-x 1 root root 31368 Feb 28 2019 echo -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep -rwxr-xr-x 1 root root 27256 Feb 28 2019 false -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep -rwxr-xr-x 1 root root 68792 Jan 9 2019 findmnt -rwsr-xr-x 1 root root 34824 Apr 22 07:38 fusermount -rwxr-xr-x 1 root root 174304 Jan 7 2019 grep -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe -rwxr-xr-x 1 root root 89656 Jan 5 2019 gzip -rwxr-xr-x 1 root root 18440 Sep 26 2018 hostname -rwxr-xr-x 1 root root 64472 Feb 28 2019 ln -rwxr-xr-x 1 root root 52544 Jul 26 2018 login -rwxr-xr-x 1 root root 138848 Feb 28 2019 ls -rwxr-xr-x 1 root root 108552 Jan 9 2019 lsblk -rwxr-xr-x 1 root root 76840 Feb 28 2019 mkdir -rwxr-xr-x 1 root root 64480 Feb 28 2019 mknod -rwxr-xr-x 1 root root 39736 Feb 28 2019 mktemp -rwxr-xr-x 1 root root 38840 Jan 9 2019 more -rwsr-xr-x 1 root root 47112 Jan 9 2019 mount -rwxr-xr-x 1 root root 14344 Jan 9 2019 mountpoint -rwxr-xr-x 1 root root 138736 Feb 28 2019 mv lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 35560 Feb 28 2019 pwd lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash -rwxr-xr-x 1 root root 43712 Feb 28 2019 readlink -rwxr-xr-x 1 root root 68440 Feb 28 2019 rm -rwxr-xr-x 1 root root 39624 Feb 28 2019 rmdir -rwxr-xr-x 1 root root 19144 Jan 21 2019 run-parts -rwxr-xr-x 1 root root 114016 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Aug 8 20:26 sh -> dash -rwxr-xr-x 1 root root 31384 Feb 28 2019 sleep -rwxr-xr-x 1 root root 72480 Feb 28 2019 stty -rwsr-xr-x 1 root root 59424 Jan 9 2019 su -rwxr-xr-x 1 root root 31416 Feb 28 2019 sync -rwxr-xr-x 1 root root 449416 Apr 23 2019 tar -rwxr-xr-x 1 root root 10560 Jan 21 2019 tempfile -rwxr-xr-x 1 root root 88968 Feb 28 2019 touch -rwxr-xr-x 1 root root 27256 Feb 28 2019 true -rwxr-xr-x 1 root root 14264 Apr 22 07:38 ulockmgr_server -rwsr-xr-x 1 root root 30728 Jan 9 2019 umount -rwxr-xr-x 1 root root 31384 Feb 28 2019 uname -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress -rwxr-xr-x 1 root root 138848 Feb 28 2019 vdir -rwxr-xr-x 1 root root 34824 Jan 9 2019 wdctl -rwxr-xr-x 1 root root 946 Jan 21 2019 which lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew I: user script /srv/workspace/pbuilder/25724/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper (>= 11~), dh-python, dh-exec, python3-guzzle-sphinx-theme, python3 (>= 3.3), python3-dev (>= 3.3), python3-all-dev (>= 3.3), python3-setuptools (>= 3.3), python3-screed (>= 1.0), python3-pytest, python3-pytest-runner, python3-sphinx, python3-sphinxcontrib.autoprogram, cython3 (>= 0.26.1), zlib1g-dev, libbz2-dev, asciidoctor, rdfind dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19168 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper (>= 11~); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on dh-exec; however: Package dh-exec is not installed. pbuilder-satisfydepends-dummy depends on python3-guzzle-sphinx-theme; however: Package python3-guzzle-sphinx-theme is not installed. pbuilder-satisfydepends-dummy depends on python3 (>= 3.3); however: Package python3 is not installed. pbuilder-satisfydepends-dummy depends on python3-dev (>= 3.3); however: Package python3-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev (>= 3.3); however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools (>= 3.3); however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-screed (>= 1.0); however: Package python3-screed is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest; however: Package python3-pytest is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest-runner; however: Package python3-pytest-runner is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx; however: Package python3-sphinx is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinxcontrib.autoprogram; however: Package python3-sphinxcontrib.autoprogram is not installed. pbuilder-satisfydepends-dummy depends on cython3 (>= 0.26.1); however: Package cython3 is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libbz2-dev; however: Package libbz2-dev is not installed. pbuilder-satisfydepends-dummy depends on asciidoctor; however: Package asciidoctor is not installed. pbuilder-satisfydepends-dummy depends on rdfind; however: Package rdfind is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: asciidoctor{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdmainutils{a} ca-certificates{a} cython3{a} debhelper{a} dh-autoreconf{a} dh-exec{a} dh-python{a} dh-strip-nondeterminism{a} docutils-common{a} dwz{a} file{a} fonts-glyphicons-halflings{a} fonts-liberation{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libbsd0{a} libbz2-dev{a} libcroco3{a} libelf1{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libglib2.0-0{a} libicu63{a} libjs-bootstrap{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} libmagic-mgc{a} libmagic1{a} libmpdec2{a} libncurses6{a} libpipeline1{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.7{a} libpython3.7-dev{a} libpython3.7-minimal{a} libpython3.7-stdlib{a} libreadline7{a} libruby2.5{a} libsigsegv2{a} libssl1.1{a} libtool{a} libuchardet0{a} libxml2{a} libyaml-0-2{a} m4{a} man-db{a} mime-support{a} openssl{a} po-debconf{a} python-babel-localedata{a} python3{a} python3-alabaster{a} python3-all{a} python3-all-dev{a} python3-atomicwrites{a} python3-attr{a} python3-babel{a} python3-bz2file{a} python3-certifi{a} python3-chardet{a} python3-dev{a} python3-distutils{a} python3-docutils{a} python3-guzzle-sphinx-theme{a} python3-idna{a} python3-imagesize{a} python3-jinja2{a} python3-lib2to3{a} python3-markupsafe{a} python3-minimal{a} python3-more-itertools{a} python3-packaging{a} python3-pkg-resources{a} python3-pluggy{a} python3-py{a} python3-pygments{a} python3-pyparsing{a} python3-pytest{a} python3-pytest-runner{a} python3-requests{a} python3-roman{a} python3-screed{a} python3-setuptools{a} python3-six{a} python3-sphinx{a} python3-sphinxcontrib.autoprogram{a} python3-tz{a} python3-urllib3{a} python3.7{a} python3.7-dev{a} python3.7-minimal{a} rake{a} rdfind{a} readline-common{a} ruby{a} ruby-asciidoctor{a} ruby-did-you-mean{a} ruby-minitest{a} ruby-net-telnet{a} ruby-power-assert{a} ruby-test-unit{a} ruby-xmlrpc{a} ruby2.5{a} rubygems-integration{a} sensible-utils{a} sgml-base{a} sphinx-common{a} xml-core{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc curl fonts-lato javascript-common libarchive-cpio-perl libglib2.0-data libgpm2 libltdl-dev libmail-sendmail-perl libpaper-utils lynx python3-pil shared-mime-info wget xdg-user-dirs zip 0 packages upgraded, 121 newly installed, 0 to remove and 0 not upgraded. Need to get 47.1 MB of archives. After unpacking 200 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main arm64 libbsd0 arm64 0.9.1-2 [97.4 kB] Get: 2 http://deb.debian.org/debian buster/main arm64 bsdmainutils arm64 11.1.2+b1 [185 kB] Get: 3 http://deb.debian.org/debian buster/main arm64 libuchardet0 arm64 0.0.6-3 [65.0 kB] Get: 4 http://deb.debian.org/debian buster/main arm64 groff-base arm64 1.22.4-3 [869 kB] Get: 5 http://deb.debian.org/debian buster/main arm64 libpipeline1 arm64 1.5.1-2 [29.8 kB] Get: 6 http://deb.debian.org/debian buster/main arm64 man-db arm64 2.8.5-2 [1258 kB] Get: 7 http://deb.debian.org/debian buster/main arm64 libssl1.1 arm64 1.1.1d-0+deb10u3 [1382 kB] Get: 8 http://deb.debian.org/debian buster/main arm64 libpython3.7-minimal arm64 3.7.3-2+deb10u2 [588 kB] Get: 9 http://deb.debian.org/debian buster/main arm64 libexpat1 arm64 2.2.6-2+deb10u1 [85.4 kB] Get: 10 http://deb.debian.org/debian buster/main arm64 python3.7-minimal arm64 3.7.3-2+deb10u2 [1404 kB] Get: 11 http://deb.debian.org/debian buster/main arm64 python3-minimal arm64 3.7.3-1 [36.6 kB] Get: 12 http://deb.debian.org/debian buster/main arm64 mime-support all 3.62 [37.2 kB] Get: 13 http://deb.debian.org/debian buster/main arm64 libmpdec2 arm64 2.4.2-2 [77.7 kB] Get: 14 http://deb.debian.org/debian buster/main arm64 readline-common all 7.0-5 [70.6 kB] Get: 15 http://deb.debian.org/debian buster/main arm64 libreadline7 arm64 7.0-5 [134 kB] Get: 16 http://deb.debian.org/debian buster/main arm64 libpython3.7-stdlib arm64 3.7.3-2+deb10u2 [1641 kB] Get: 17 http://deb.debian.org/debian buster/main arm64 python3.7 arm64 3.7.3-2+deb10u2 [330 kB] Get: 18 http://deb.debian.org/debian buster/main arm64 libpython3-stdlib arm64 3.7.3-1 [20.0 kB] Get: 19 http://deb.debian.org/debian buster/main arm64 python3 arm64 3.7.3-1 [61.5 kB] Get: 20 http://deb.debian.org/debian buster/main arm64 sgml-base all 1.29 [14.8 kB] Get: 21 http://deb.debian.org/debian buster/main arm64 sensible-utils all 0.0.12 [15.8 kB] Get: 22 http://deb.debian.org/debian buster/main arm64 libmagic-mgc arm64 1:5.35-4+deb10u1 [242 kB] Get: 23 http://deb.debian.org/debian buster/main arm64 libmagic1 arm64 1:5.35-4+deb10u1 [115 kB] Get: 24 http://deb.debian.org/debian buster/main arm64 file arm64 1:5.35-4+deb10u1 [66.4 kB] Get: 25 http://deb.debian.org/debian buster/main arm64 gettext-base arm64 0.19.8.1-9 [120 kB] Get: 26 http://deb.debian.org/debian buster/main arm64 openssl arm64 1.1.1d-0+deb10u3 [823 kB] Get: 27 http://deb.debian.org/debian buster/main arm64 ca-certificates all 20190110 [157 kB] Get: 28 http://deb.debian.org/debian buster/main arm64 rubygems-integration all 1.11+deb10u1 [5212 B] Get: 29 http://deb.debian.org/debian buster/main arm64 rake all 12.3.1-3+deb10u1 [67.1 kB] Get: 30 http://deb.debian.org/debian buster/main arm64 ruby-did-you-mean all 1.2.1-1 [14.4 kB] Get: 31 http://deb.debian.org/debian buster/main arm64 ruby-minitest all 5.11.3-1 [54.8 kB] Get: 32 http://deb.debian.org/debian buster/main arm64 ruby-net-telnet all 0.1.1-2 [12.5 kB] Get: 33 http://deb.debian.org/debian buster/main arm64 ruby-power-assert all 1.1.1-1 [10.9 kB] Get: 34 http://deb.debian.org/debian buster/main arm64 ruby-test-unit all 3.2.8-1 [72.4 kB] Get: 35 http://deb.debian.org/debian buster/main arm64 ruby-xmlrpc all 0.3.0-2 [23.7 kB] Get: 36 http://deb.debian.org/debian buster/main arm64 libncurses6 arm64 6.1+20181013-2+deb10u2 [92.6 kB] Get: 37 http://deb.debian.org/debian buster/main arm64 libyaml-0-2 arm64 0.2.1-1 [41.4 kB] Get: 38 http://deb.debian.org/debian buster/main arm64 libruby2.5 arm64 2.5.5-3+deb10u2 [3303 kB] Get: 39 http://deb.debian.org/debian buster/main arm64 ruby2.5 arm64 2.5.5-3+deb10u2 [400 kB] Get: 40 http://deb.debian.org/debian buster/main arm64 ruby arm64 1:2.5.1 [11.3 kB] Get: 41 http://deb.debian.org/debian buster/main arm64 ruby-asciidoctor all 1.5.8-1 [188 kB] Get: 42 http://deb.debian.org/debian buster/main arm64 asciidoctor all 1.5.8-1 [75.8 kB] Get: 43 http://deb.debian.org/debian buster/main arm64 libsigsegv2 arm64 2.12-2 [32.3 kB] Get: 44 http://deb.debian.org/debian buster/main arm64 m4 arm64 1.4.18-2 [198 kB] Get: 45 http://deb.debian.org/debian buster/main arm64 autoconf all 2.69-11 [341 kB] Get: 46 http://deb.debian.org/debian buster/main arm64 autotools-dev all 20180224.1 [77.0 kB] Get: 47 http://deb.debian.org/debian buster/main arm64 automake all 1:1.16.1-4 [771 kB] Get: 48 http://deb.debian.org/debian buster/main arm64 autopoint all 0.19.8.1-9 [434 kB] Get: 49 http://deb.debian.org/debian buster/main arm64 cython3 arm64 0.29.2-2 [1259 kB] Get: 50 http://deb.debian.org/debian buster/main arm64 libtool all 2.4.6-9 [547 kB] Get: 51 http://deb.debian.org/debian buster/main arm64 dh-autoreconf all 19 [16.9 kB] Get: 52 http://deb.debian.org/debian buster/main arm64 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 53 http://deb.debian.org/debian buster/main arm64 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 54 http://deb.debian.org/debian buster/main arm64 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 55 http://deb.debian.org/debian buster/main arm64 libelf1 arm64 0.176-1.1 [160 kB] Get: 56 http://deb.debian.org/debian buster/main arm64 dwz arm64 0.12-3 [71.7 kB] Get: 57 http://deb.debian.org/debian buster/main arm64 libglib2.0-0 arm64 2.58.3-2+deb10u2 [1185 kB] Get: 58 http://deb.debian.org/debian buster/main arm64 libicu63 arm64 63.1-6+deb10u1 [8151 kB] Get: 59 http://deb.debian.org/debian buster/main arm64 libxml2 arm64 2.9.4+dfsg1-7+b3 [623 kB] Get: 60 http://deb.debian.org/debian buster/main arm64 libcroco3 arm64 0.6.12-3 [140 kB] Get: 61 http://deb.debian.org/debian buster/main arm64 gettext arm64 0.19.8.1-9 [1261 kB] Get: 62 http://deb.debian.org/debian buster/main arm64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 63 http://deb.debian.org/debian buster/main arm64 po-debconf all 1.0.21 [248 kB] Get: 64 http://deb.debian.org/debian buster/main arm64 debhelper all 12.1.1 [1016 kB] Get: 65 http://deb.debian.org/debian buster/main arm64 dh-exec arm64 0.23.1 [25.9 kB] Get: 66 http://deb.debian.org/debian buster/main arm64 python3-lib2to3 all 3.7.3-1 [76.7 kB] Get: 67 http://deb.debian.org/debian buster/main arm64 python3-distutils all 3.7.3-1 [142 kB] Get: 68 http://deb.debian.org/debian buster/main arm64 dh-python all 3.20190308 [99.3 kB] Get: 69 http://deb.debian.org/debian buster/main arm64 xml-core all 0.18+nmu1 [23.8 kB] Get: 70 http://deb.debian.org/debian buster/main arm64 docutils-common all 0.14+dfsg-4 [167 kB] Get: 71 http://deb.debian.org/debian buster/main arm64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-1 [164 kB] Get: 72 http://deb.debian.org/debian buster/main arm64 fonts-liberation all 1:1.07.4-9 [827 kB] Get: 73 http://deb.debian.org/debian buster/main arm64 libbz2-dev arm64 1.0.6-9.2~deb10u1 [30.9 kB] Get: 74 http://deb.debian.org/debian buster/main arm64 libexpat1-dev arm64 2.2.6-2+deb10u1 [128 kB] Get: 75 http://deb.debian.org/debian buster/main arm64 libjs-bootstrap all 3.4.1+dfsg-1 [173 kB] Get: 76 http://deb.debian.org/debian buster/main arm64 libjs-jquery all 3.3.1~dfsg-3 [332 kB] Get: 77 http://deb.debian.org/debian buster/main arm64 libjs-underscore all 1.9.1~dfsg-1 [99.4 kB] Get: 78 http://deb.debian.org/debian buster/main arm64 libjs-sphinxdoc all 1.8.4-1 [95.9 kB] Get: 79 http://deb.debian.org/debian buster/main arm64 libpython3.7 arm64 3.7.3-2+deb10u2 [1371 kB] Get: 80 http://deb.debian.org/debian buster/main arm64 libpython3.7-dev arm64 3.7.3-2+deb10u2 [2380 kB] Get: 81 http://deb.debian.org/debian buster/main arm64 libpython3-dev arm64 3.7.3-1 [20.1 kB] Get: 82 http://deb.debian.org/debian buster/main arm64 libpython3-all-dev arm64 3.7.3-1 [1068 B] Get: 83 http://deb.debian.org/debian buster/main arm64 python-babel-localedata all 2.6.0+dfsg.1-1 [4083 kB] Get: 84 http://deb.debian.org/debian buster/main arm64 python3-alabaster all 0.7.8-1 [18.4 kB] Get: 85 http://deb.debian.org/debian buster/main arm64 python3-all arm64 3.7.3-1 [1068 B] Get: 86 http://deb.debian.org/debian buster/main arm64 python3.7-dev arm64 3.7.3-2+deb10u2 [509 kB] Get: 87 http://deb.debian.org/debian buster/main arm64 python3-dev arm64 3.7.3-1 [1264 B] Get: 88 http://deb.debian.org/debian buster/main arm64 python3-all-dev arm64 3.7.3-1 [1064 B] Get: 89 http://deb.debian.org/debian buster/main arm64 python3-atomicwrites all 1.1.5-2 [6892 B] Get: 90 http://deb.debian.org/debian buster/main arm64 python3-attr all 18.2.0-1 [37.3 kB] Get: 91 http://deb.debian.org/debian buster/main arm64 python3-pkg-resources all 40.8.0-1 [153 kB] Get: 92 http://deb.debian.org/debian buster/main arm64 python3-tz all 2019.1-1 [27.1 kB] Get: 93 http://deb.debian.org/debian buster/main arm64 python3-babel all 2.6.0+dfsg.1-1 [96.7 kB] Get: 94 http://deb.debian.org/debian buster/main arm64 python3-bz2file all 0.98-2 [7952 B] Get: 95 http://deb.debian.org/debian buster/main arm64 python3-certifi all 2018.8.24-1 [140 kB] Get: 96 http://deb.debian.org/debian buster/main arm64 python3-chardet all 3.0.4-3 [80.5 kB] Get: 97 http://deb.debian.org/debian buster/main arm64 python3-roman all 2.0.0-3 [8768 B] Get: 98 http://deb.debian.org/debian buster/main arm64 python3-docutils all 0.14+dfsg-4 [378 kB] Get: 99 http://deb.debian.org/debian buster/main arm64 sphinx-common all 1.8.4-1 [500 kB] Get: 100 http://deb.debian.org/debian buster/main arm64 python3-imagesize all 1.0.0-1 [4960 B] Get: 101 http://deb.debian.org/debian buster/main arm64 python3-markupsafe arm64 1.1.0-1 [14.8 kB] Get: 102 http://deb.debian.org/debian buster/main arm64 python3-jinja2 all 2.10-2 [106 kB] Get: 103 http://deb.debian.org/debian buster/main arm64 python3-pyparsing all 2.2.0+dfsg1-2 [89.6 kB] Get: 104 http://deb.debian.org/debian buster/main arm64 python3-six all 1.12.0-1 [15.7 kB] Get: 105 http://deb.debian.org/debian buster/main arm64 python3-packaging all 19.0-1 [20.5 kB] Get: 106 http://deb.debian.org/debian buster/main arm64 python3-pygments all 2.3.1+dfsg-1 [594 kB] Get: 107 http://deb.debian.org/debian buster/main arm64 python3-idna all 2.6-1 [34.3 kB] Get: 108 http://deb.debian.org/debian buster/main arm64 python3-urllib3 all 1.24.1-1 [97.1 kB] Get: 109 http://deb.debian.org/debian buster/main arm64 python3-requests all 2.21.0-1 [66.9 kB] Get: 110 http://deb.debian.org/debian buster/main arm64 python3-sphinx all 1.8.4-1 [481 kB] Get: 111 http://deb.debian.org/debian buster/main arm64 python3-guzzle-sphinx-theme all 0.7.11-4 [1346 kB] Get: 112 http://deb.debian.org/debian buster/main arm64 python3-more-itertools all 4.2.0-1 [42.2 kB] Get: 113 http://deb.debian.org/debian buster/main arm64 python3-pluggy all 0.8.0-1 [20.6 kB] Get: 114 http://deb.debian.org/debian buster/main arm64 python3-py all 1.7.0-2 [86.6 kB] Get: 115 http://deb.debian.org/debian buster/main arm64 python3-pytest all 3.10.1-2 [243 kB] Get: 116 http://deb.debian.org/debian buster/main arm64 python3-setuptools all 40.8.0-1 [306 kB] Get: 117 http://deb.debian.org/debian buster/main arm64 python3-pytest-runner all 2.11.1-1.1 [8472 B] Get: 118 http://deb.debian.org/debian buster/main arm64 python3-screed all 1.0-3 [71.8 kB] Get: 119 http://deb.debian.org/debian buster/main arm64 python3-sphinxcontrib.autoprogram all 0.1.5-1 [9628 B] Get: 120 http://deb.debian.org/debian buster/main arm64 rdfind arm64 1.4.1-1 [38.3 kB] Get: 121 http://deb.debian.org/debian buster/main arm64 zlib1g-dev arm64 1:1.2.11.dfsg-1 [210 kB] Fetched 47.1 MB in 4s (12.6 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:arm64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19168 files and directories currently installed.) Preparing to unpack .../0-libbsd0_0.9.1-2_arm64.deb ... Unpacking libbsd0:arm64 (0.9.1-2) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../1-bsdmainutils_11.1.2+b1_arm64.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../2-libuchardet0_0.0.6-3_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../3-groff-base_1.22.4-3_arm64.deb ... Unpacking groff-base (1.22.4-3) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../4-libpipeline1_1.5.1-2_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../5-man-db_2.8.5-2_arm64.deb ... Unpacking man-db (2.8.5-2) ... Selecting previously unselected package libssl1.1:arm64. Preparing to unpack .../6-libssl1.1_1.1.1d-0+deb10u3_arm64.deb ... Unpacking libssl1.1:arm64 (1.1.1d-0+deb10u3) ... Selecting previously unselected package libpython3.7-minimal:arm64. Preparing to unpack .../7-libpython3.7-minimal_3.7.3-2+deb10u2_arm64.deb ... Unpacking libpython3.7-minimal:arm64 (3.7.3-2+deb10u2) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../8-libexpat1_2.2.6-2+deb10u1_arm64.deb ... Unpacking libexpat1:arm64 (2.2.6-2+deb10u1) ... Selecting previously unselected package python3.7-minimal. Preparing to unpack .../9-python3.7-minimal_3.7.3-2+deb10u2_arm64.deb ... Unpacking python3.7-minimal (3.7.3-2+deb10u2) ... Setting up libssl1.1:arm64 (1.1.1d-0+deb10u3) ... Setting up libpython3.7-minimal:arm64 (3.7.3-2+deb10u2) ... Setting up libexpat1:arm64 (2.2.6-2+deb10u1) ... Setting up python3.7-minimal (3.7.3-2+deb10u2) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20063 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.7.3-1_arm64.deb ... Unpacking python3-minimal (3.7.3-1) ... Selecting previously unselected package mime-support. Preparing to unpack .../1-mime-support_3.62_all.deb ... Unpacking mime-support (3.62) ... Selecting previously unselected package libmpdec2:arm64. Preparing to unpack .../2-libmpdec2_2.4.2-2_arm64.deb ... Unpacking libmpdec2:arm64 (2.4.2-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../3-readline-common_7.0-5_all.deb ... Unpacking readline-common (7.0-5) ... Selecting previously unselected package libreadline7:arm64. Preparing to unpack .../4-libreadline7_7.0-5_arm64.deb ... Unpacking libreadline7:arm64 (7.0-5) ... Selecting previously unselected package libpython3.7-stdlib:arm64. Preparing to unpack .../5-libpython3.7-stdlib_3.7.3-2+deb10u2_arm64.deb ... Unpacking libpython3.7-stdlib:arm64 (3.7.3-2+deb10u2) ... Selecting previously unselected package python3.7. Preparing to unpack .../6-python3.7_3.7.3-2+deb10u2_arm64.deb ... Unpacking python3.7 (3.7.3-2+deb10u2) ... Selecting previously unselected package libpython3-stdlib:arm64. Preparing to unpack .../7-libpython3-stdlib_3.7.3-1_arm64.deb ... Unpacking libpython3-stdlib:arm64 (3.7.3-1) ... Setting up python3-minimal (3.7.3-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20524 files and directories currently installed.) Preparing to unpack .../000-python3_3.7.3-1_arm64.deb ... Unpacking python3 (3.7.3-1) ... Selecting previously unselected package sgml-base. Preparing to unpack .../001-sgml-base_1.29_all.deb ... Unpacking sgml-base (1.29) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../002-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../003-libmagic-mgc_1%3a5.35-4+deb10u1_arm64.deb ... Unpacking libmagic-mgc (1:5.35-4+deb10u1) ... Selecting previously unselected package libmagic1:arm64. Preparing to unpack .../004-libmagic1_1%3a5.35-4+deb10u1_arm64.deb ... Unpacking libmagic1:arm64 (1:5.35-4+deb10u1) ... Selecting previously unselected package file. Preparing to unpack .../005-file_1%3a5.35-4+deb10u1_arm64.deb ... Unpacking file (1:5.35-4+deb10u1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../006-gettext-base_0.19.8.1-9_arm64.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package openssl. Preparing to unpack .../007-openssl_1.1.1d-0+deb10u3_arm64.deb ... Unpacking openssl (1.1.1d-0+deb10u3) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../008-ca-certificates_20190110_all.deb ... Unpacking ca-certificates (20190110) ... Selecting previously unselected package rubygems-integration. Preparing to unpack .../009-rubygems-integration_1.11+deb10u1_all.deb ... Unpacking rubygems-integration (1.11+deb10u1) ... Selecting previously unselected package rake. Preparing to unpack .../010-rake_12.3.1-3+deb10u1_all.deb ... Unpacking rake (12.3.1-3+deb10u1) ... Selecting previously unselected package ruby-did-you-mean. Preparing to unpack .../011-ruby-did-you-mean_1.2.1-1_all.deb ... Unpacking ruby-did-you-mean (1.2.1-1) ... Selecting previously unselected package ruby-minitest. Preparing to unpack .../012-ruby-minitest_5.11.3-1_all.deb ... Unpacking ruby-minitest (5.11.3-1) ... Selecting previously unselected package ruby-net-telnet. Preparing to unpack .../013-ruby-net-telnet_0.1.1-2_all.deb ... Unpacking ruby-net-telnet (0.1.1-2) ... Selecting previously unselected package ruby-power-assert. Preparing to unpack .../014-ruby-power-assert_1.1.1-1_all.deb ... Unpacking ruby-power-assert (1.1.1-1) ... Selecting previously unselected package ruby-test-unit. Preparing to unpack .../015-ruby-test-unit_3.2.8-1_all.deb ... Unpacking ruby-test-unit (3.2.8-1) ... Selecting previously unselected package ruby-xmlrpc. Preparing to unpack .../016-ruby-xmlrpc_0.3.0-2_all.deb ... Unpacking ruby-xmlrpc (0.3.0-2) ... Selecting previously unselected package libncurses6:arm64. Preparing to unpack .../017-libncurses6_6.1+20181013-2+deb10u2_arm64.deb ... Unpacking libncurses6:arm64 (6.1+20181013-2+deb10u2) ... Selecting previously unselected package libyaml-0-2:arm64. Preparing to unpack .../018-libyaml-0-2_0.2.1-1_arm64.deb ... Unpacking libyaml-0-2:arm64 (0.2.1-1) ... Selecting previously unselected package libruby2.5:arm64. Preparing to unpack .../019-libruby2.5_2.5.5-3+deb10u2_arm64.deb ... Unpacking libruby2.5:arm64 (2.5.5-3+deb10u2) ... Selecting previously unselected package ruby2.5. Preparing to unpack .../020-ruby2.5_2.5.5-3+deb10u2_arm64.deb ... Unpacking ruby2.5 (2.5.5-3+deb10u2) ... Selecting previously unselected package ruby. Preparing to unpack .../021-ruby_1%3a2.5.1_arm64.deb ... Unpacking ruby (1:2.5.1) ... Selecting previously unselected package ruby-asciidoctor. Preparing to unpack .../022-ruby-asciidoctor_1.5.8-1_all.deb ... Unpacking ruby-asciidoctor (1.5.8-1) ... Selecting previously unselected package asciidoctor. Preparing to unpack .../023-asciidoctor_1.5.8-1_all.deb ... Unpacking asciidoctor (1.5.8-1) ... Selecting previously unselected package libsigsegv2:arm64. Preparing to unpack .../024-libsigsegv2_2.12-2_arm64.deb ... Unpacking libsigsegv2:arm64 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../025-m4_1.4.18-2_arm64.deb ... Unpacking m4 (1.4.18-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../026-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../027-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../028-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../029-autopoint_0.19.8.1-9_all.deb ... Unpacking autopoint (0.19.8.1-9) ... Selecting previously unselected package cython3. Preparing to unpack .../030-cython3_0.29.2-2_arm64.deb ... Unpacking cython3 (0.29.2-2) ... Selecting previously unselected package libtool. Preparing to unpack .../031-libtool_2.4.6-9_all.deb ... Unpacking libtool (2.4.6-9) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../032-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../033-libarchive-zip-perl_1.64-1_all.deb ... Unpacking libarchive-zip-perl (1.64-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../034-libfile-stripnondeterminism-perl_1.1.2-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.1.2-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../035-dh-strip-nondeterminism_1.1.2-1_all.deb ... Unpacking dh-strip-nondeterminism (1.1.2-1) ... Selecting previously unselected package libelf1:arm64. Preparing to unpack .../036-libelf1_0.176-1.1_arm64.deb ... Unpacking libelf1:arm64 (0.176-1.1) ... Selecting previously unselected package dwz. Preparing to unpack .../037-dwz_0.12-3_arm64.deb ... Unpacking dwz (0.12-3) ... Selecting previously unselected package libglib2.0-0:arm64. Preparing to unpack .../038-libglib2.0-0_2.58.3-2+deb10u2_arm64.deb ... Unpacking libglib2.0-0:arm64 (2.58.3-2+deb10u2) ... Selecting previously unselected package libicu63:arm64. Preparing to unpack .../039-libicu63_63.1-6+deb10u1_arm64.deb ... Unpacking libicu63:arm64 (63.1-6+deb10u1) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../040-libxml2_2.9.4+dfsg1-7+b3_arm64.deb ... Unpacking libxml2:arm64 (2.9.4+dfsg1-7+b3) ... Selecting previously unselected package libcroco3:arm64. Preparing to unpack .../041-libcroco3_0.6.12-3_arm64.deb ... Unpacking libcroco3:arm64 (0.6.12-3) ... Selecting previously unselected package gettext. Preparing to unpack .../042-gettext_0.19.8.1-9_arm64.deb ... Unpacking gettext (0.19.8.1-9) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../043-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 .../044-po-debconf_1.0.21_all.deb ... Unpacking po-debconf (1.0.21) ... Selecting previously unselected package debhelper. Preparing to unpack .../045-debhelper_12.1.1_all.deb ... Unpacking debhelper (12.1.1) ... Selecting previously unselected package dh-exec. Preparing to unpack .../046-dh-exec_0.23.1_arm64.deb ... Unpacking dh-exec (0.23.1) ... Selecting previously unselected package python3-lib2to3. Preparing to unpack .../047-python3-lib2to3_3.7.3-1_all.deb ... Unpacking python3-lib2to3 (3.7.3-1) ... Selecting previously unselected package python3-distutils. Preparing to unpack .../048-python3-distutils_3.7.3-1_all.deb ... Unpacking python3-distutils (3.7.3-1) ... Selecting previously unselected package dh-python. Preparing to unpack .../049-dh-python_3.20190308_all.deb ... Unpacking dh-python (3.20190308) ... Selecting previously unselected package xml-core. Preparing to unpack .../050-xml-core_0.18+nmu1_all.deb ... Unpacking xml-core (0.18+nmu1) ... Selecting previously unselected package docutils-common. Preparing to unpack .../051-docutils-common_0.14+dfsg-4_all.deb ... Unpacking docutils-common (0.14+dfsg-4) ... Selecting previously unselected package fonts-glyphicons-halflings. Preparing to unpack .../052-fonts-glyphicons-halflings_1.009~3.4.1+dfsg-1_all.deb ... Unpacking fonts-glyphicons-halflings (1.009~3.4.1+dfsg-1) ... Selecting previously unselected package fonts-liberation. Preparing to unpack .../053-fonts-liberation_1%3a1.07.4-9_all.deb ... Unpacking fonts-liberation (1:1.07.4-9) ... Selecting previously unselected package libbz2-dev:arm64. Preparing to unpack .../054-libbz2-dev_1.0.6-9.2~deb10u1_arm64.deb ... Unpacking libbz2-dev:arm64 (1.0.6-9.2~deb10u1) ... Selecting previously unselected package libexpat1-dev:arm64. Preparing to unpack .../055-libexpat1-dev_2.2.6-2+deb10u1_arm64.deb ... Unpacking libexpat1-dev:arm64 (2.2.6-2+deb10u1) ... Selecting previously unselected package libjs-bootstrap. Preparing to unpack .../056-libjs-bootstrap_3.4.1+dfsg-1_all.deb ... Unpacking libjs-bootstrap (3.4.1+dfsg-1) ... Selecting previously unselected package libjs-jquery. Preparing to unpack .../057-libjs-jquery_3.3.1~dfsg-3_all.deb ... Unpacking libjs-jquery (3.3.1~dfsg-3) ... Selecting previously unselected package libjs-underscore. Preparing to unpack .../058-libjs-underscore_1.9.1~dfsg-1_all.deb ... Unpacking libjs-underscore (1.9.1~dfsg-1) ... Selecting previously unselected package libjs-sphinxdoc. Preparing to unpack .../059-libjs-sphinxdoc_1.8.4-1_all.deb ... Unpacking libjs-sphinxdoc (1.8.4-1) ... Selecting previously unselected package libpython3.7:arm64. Preparing to unpack .../060-libpython3.7_3.7.3-2+deb10u2_arm64.deb ... Unpacking libpython3.7:arm64 (3.7.3-2+deb10u2) ... Selecting previously unselected package libpython3.7-dev:arm64. Preparing to unpack .../061-libpython3.7-dev_3.7.3-2+deb10u2_arm64.deb ... Unpacking libpython3.7-dev:arm64 (3.7.3-2+deb10u2) ... Selecting previously unselected package libpython3-dev:arm64. Preparing to unpack .../062-libpython3-dev_3.7.3-1_arm64.deb ... Unpacking libpython3-dev:arm64 (3.7.3-1) ... Selecting previously unselected package libpython3-all-dev:arm64. 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Setting up libarchive-zip-perl (1.64-1) ... Setting up libyaml-0-2:arm64 (0.2.1-1) ... Setting up libglib2.0-0:arm64 (2.58.3-2+deb10u2) ... No schema files found: doing nothing. Setting up fonts-glyphicons-halflings (1.009~3.4.1+dfsg-1) ... Setting up rdfind (1.4.1-1) ... Setting up libmagic1:arm64 (1:5.35-4+deb10u1) ... Setting up gettext-base (0.19.8.1-9) ... Setting up file (1:5.35-4+deb10u1) ... Setting up libicu63:arm64 (63.1-6+deb10u1) ... Setting up python-babel-localedata (2.6.0+dfsg.1-1) ... Setting up ruby-minitest (5.11.3-1) ... Setting up autotools-dev (20180224.1) ... Setting up libexpat1-dev:arm64 (2.2.6-2+deb10u1) ... Setting up ruby-test-unit (3.2.8-1) ... Setting up libncurses6:arm64 (6.1+20181013-2+deb10u2) ... Setting up ruby-net-telnet (0.1.1-2) ... Setting up libsigsegv2:arm64 (2.12-2) ... Setting up autopoint (0.19.8.1-9) ... Setting up zlib1g-dev:arm64 (1:1.2.11.dfsg-1) ... Setting up sensible-utils (0.0.12) ... Setting up libuchardet0:arm64 (0.0.6-3) ... Setting up fonts-liberation (1:1.07.4-9) ... Setting up sgml-base (1.29) ... Setting up libmpdec2:arm64 (2.4.2-2) ... Setting up libjs-jquery (3.3.1~dfsg-3) ... Setting up ruby-did-you-mean (1.2.1-1) ... Setting up openssl (1.1.1d-0+deb10u3) ... Setting up libbsd0:arm64 (0.9.1-2) ... Setting up libelf1:arm64 (0.176-1.1) ... Setting up readline-common (7.0-5) ... Setting up ruby-xmlrpc (0.3.0-2) ... Setting up libxml2:arm64 (2.9.4+dfsg1-7+b3) ... Setting up libjs-bootstrap (3.4.1+dfsg-1) ... Setting up libreadline7:arm64 (7.0-5) ... Setting up libjs-underscore (1.9.1~dfsg-1) ... Setting up libbz2-dev:arm64 (1.0.6-9.2~deb10u1) ... Setting up libfile-stripnondeterminism-perl (1.1.2-1) ... Setting up libpython3.7-stdlib:arm64 (3.7.3-2+deb10u2) ... Setting up libpython3.7:arm64 (3.7.3-2+deb10u2) ... Setting up libtool (2.4.6-9) ... Setting up libpython3.7-dev:arm64 (3.7.3-2+deb10u2) ... Setting up m4 (1.4.18-2) ... Setting up ca-certificates (20190110) ... Updating certificates in /etc/ssl/certs... 128 added, 0 removed; done. 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:arm64 (0.6.12-3) ... Setting up libjs-sphinxdoc (1.8.4-1) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.12-3) ... Setting up groff-base (1.22.4-3) ... Setting up xml-core (0.18+nmu1) ... Setting up libpython3-stdlib:arm64 (3.7.3-1) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up python3.7 (3.7.3-2+deb10u2) ... Setting up gettext (0.19.8.1-9) ... Setting up libpython3-dev:arm64 (3.7.3-1) ... Setting up python3 (3.7.3-1) ... Setting up rubygems-integration (1.11+deb10u1) ... Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up python3-markupsafe (1.1.0-1) ... Setting up python3.7-dev (3.7.3-2+deb10u2) ... Setting up python3-tz (2019.1-1) ... Setting up python3-atomicwrites (1.1.5-2) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up python3-bz2file (0.98-2) ... Setting up python3-six (1.12.0-1) ... Setting up python3-roman (2.0.0-3) ... Setting up python3-jinja2 (2.10-2) ... Setting up python3-pygments (2.3.1+dfsg-1) ... Setting up python3-pyparsing (2.2.0+dfsg1-2) ... Setting up python3-certifi (2018.8.24-1) ... Setting up libpython3-all-dev:arm64 (3.7.3-1) ... Setting up sphinx-common (1.8.4-1) ... Setting up python3-idna (2.6-1) ... Setting up cython3 (0.29.2-2) ... Setting up python3-urllib3 (1.24.1-1) ... Setting up python3-pluggy (0.8.0-1) ... Setting up python3-lib2to3 (3.7.3-1) ... Setting up python3-imagesize (1.0.0-1) ... Setting up python3-pkg-resources (40.8.0-1) ... Setting up python3-distutils (3.7.3-1) ... Setting up dh-python (3.20190308) ... Setting up python3-more-itertools (4.2.0-1) ... Setting up python3-attr (18.2.0-1) ... Setting up python3-setuptools (40.8.0-1) ... Setting up python3-screed (1.0-3) ... Setting up python3-py (1.7.0-2) ... Setting up python3-babel (2.6.0+dfsg.1-1) ... update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up python3-pytest (3.10.1-2) ... Setting up python3-alabaster (0.7.8-1) ... Setting up po-debconf (1.0.21) ... Setting up python3-all (3.7.3-1) ... Setting up python3-packaging (19.0-1) ... Setting up python3-chardet (3.0.4-3) ... Setting up python3-dev (3.7.3-1) ... Setting up python3-requests (2.21.0-1) ... Setting up python3-pytest-runner (2.11.1-1.1) ... Setting up python3-all-dev (3.7.3-1) ... Setting up dh-autoreconf (19) ... Setting up rake (12.3.1-3+deb10u1) ... Setting up dh-strip-nondeterminism (1.1.2-1) ... Setting up libruby2.5:arm64 (2.5.5-3+deb10u2) ... Setting up debhelper (12.1.1) ... Setting up dh-exec (0.23.1) ... Setting up ruby2.5 (2.5.5-3+deb10u2) ... Setting up ruby (1:2.5.1) ... Setting up ruby-asciidoctor (1.5.8-1) ... Setting up asciidoctor (1.5.8-1) ... Processing triggers for libc-bin (2.28-10) ... Processing triggers for sgml-base (1.29) ... Setting up docutils-common (0.14+dfsg-4) ... Processing triggers for sgml-base (1.29) ... Setting up python3-docutils (0.14+dfsg-4) ... update-alternatives: using /usr/share/docutils/scripts/python3/rst-buildhtml to provide /usr/bin/rst-buildhtml (rst-buildhtml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html to provide /usr/bin/rst2html (rst2html) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html4 to provide /usr/bin/rst2html4 (rst2html4) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html5 to provide /usr/bin/rst2html5 (rst2html5) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2latex to provide /usr/bin/rst2latex (rst2latex) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2man to provide /usr/bin/rst2man (rst2man) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2odt to provide /usr/bin/rst2odt (rst2odt) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2odt_prepstyles to provide /usr/bin/rst2odt_prepstyles (rst2odt_prepstyles) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2pseudoxml to provide /usr/bin/rst2pseudoxml (rst2pseudoxml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2s5 to provide /usr/bin/rst2s5 (rst2s5) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2xetex to provide /usr/bin/rst2xetex (rst2xetex) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2xml to provide /usr/bin/rst2xml (rst2xml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rstpep2html to provide /usr/bin/rstpep2html (rstpep2html) in auto mode Setting up python3-sphinx (1.8.4-1) ... update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-apidoc to provide /usr/bin/sphinx-apidoc (sphinx-apidoc) in auto mode update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-autogen to provide /usr/bin/sphinx-autogen (sphinx-autogen) in auto mode update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-build to provide /usr/bin/sphinx-build (sphinx-build) in auto mode update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-quickstart to provide /usr/bin/sphinx-quickstart (sphinx-quickstart) in auto mode Setting up python3-guzzle-sphinx-theme (0.7.11-4) ... Setting up python3-sphinxcontrib.autoprogram (0.1.5-1) ... Processing triggers for ca-certificates (20190110) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/khmer-2.1.2+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package khmer dpkg-buildpackage: info: source version 2.1.2+dfsg-6 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 fakeroot debian/rules clean dh clean --with python3,sphinxdoc --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/khmer-2.1.2+dfsg' dh_auto_clean || /bin/true pybuild --clean --test-pytest -i python{version} -p 3.7 I: pybuild base:217: python3.7 setup.py clean running clean removing '/build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build' (and everything under it) 'build/bdist.linux-arm64' does not exist -- can't clean it 'build/scripts-3.7' does not exist -- can't clean it rm -rf .pybuild/ find . -name \*.pyc -exec rm {} \; cd src/oxli && /usr/bin/make clean make[2]: Entering directory '/build/khmer-2.1.2+dfsg/src/oxli' rm -f *.o *.a *.so* oxli.pc make[2]: Leaving directory '/build/khmer-2.1.2+dfsg/src/oxli' rm -rf __pycache__ .eggs make[1]: Leaving directory '/build/khmer-2.1.2+dfsg' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/khmer-common.substvars debian/khmer.substvars debian/liboxli1.substvars debian/liboxli-dev.substvars debian/files rm -fr -- debian/khmer-common/ debian/tmp/ debian/khmer/ debian/liboxli1/ debian/liboxli-dev/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \) debian/rules build dh build --with python3,sphinxdoc --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild pybuild --configure --test-pytest -i python{version} -p 3.7 I: pybuild base:217: python3.7 setup.py config running config debian/rules override_dh_auto_build make[1]: Entering directory '/build/khmer-2.1.2+dfsg' dh_auto_build pybuild --build --test-pytest -i python{version} -p 3.7 I: pybuild base:217: /usr/bin/python3 setup.py build running build running build_py creating /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer copying khmer/utils.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer copying khmer/trimming.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer copying khmer/thread_utils.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer copying khmer/khmer_logger.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer copying khmer/khmer_args.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer copying khmer/kfile.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer copying khmer/_version.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer copying khmer/__init__.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer creating /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/khmer_tst_utils.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_read_parsers.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_version.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_threaded_sequence_processor.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_tabletype.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_subset_graph.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_streaming_io.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_sequence_validation.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_scripts.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_script_output.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_script_arguments.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_sandbox_scripts.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_read_handling.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_read_aligner.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_oxli_functions.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_normalize_by_median.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_nodegraph.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_nibblestorage.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_lump.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_labelhash.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_hll.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_hashset.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_graph.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_functions.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_filter_abund.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_cython_parsing.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_cython_assembly.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_cpython_hierarchy.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_counttable.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_counting_single.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_countgraph.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/test_banding.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/graph_features.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests copying tests/__init__.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests creating /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/oxli copying oxli/partition.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/oxli copying oxli/functions.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/oxli copying oxli/build_graph.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/oxli copying oxli/__init__.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/oxli creating /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli copying khmer/_oxli/__init__.py -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli running egg_info creating khmer.egg-info writing khmer.egg-info/PKG-INFO writing dependency_links to khmer.egg-info/dependency_links.txt writing requirements to khmer.egg-info/requires.txt writing top-level names to khmer.egg-info/top_level.txt writing manifest file 'khmer.egg-info/SOURCES.txt' reading manifest file 'khmer.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'ChangeLog' warning: no files found matching 'ez_setup.py' warning: no files found matching 'IDEAS' warning: no files found matching 'README.md' warning: no files found matching 'TODO' warning: no files found matching '.ycm_extra_conf.py' warning: no files found matching '*.hh' under directory 'lib' warning: no files found matching '*.cc' under directory 'lib' warning: no files found matching '[Mm]akefile*' under directory 'lib' warning: no files found matching 'get_version.py' under directory 'lib' warning: no files found matching '*.hh' under directory 'khmer' warning: no files found matching '*.cpp' under directory 'khmer/_oxli' warning: no files found matching '*.1' under directory 'third-party' warning: no files found matching '*.xsl' under directory 'third-party' warning: no files found matching 'sample*' under directory 'third-party' warning: no files found matching 'words*' under directory 'third-party' warning: no files found matching '*.sh' under directory 'third-party' warning: no files found matching '*.c' under directory 'third-party' warning: no files found matching 'manual*' under directory 'third-party' warning: no files found matching '[Mm]akefile*' under directory 'third-party' warning: no files found matching '*.pl' under directory 'third-party' warning: no files found matching '*.dsp' under directory 'third-party' warning: no files found matching 'CHANGES' under directory 'third-party' warning: no files found matching '*.txt' under directory 'third-party' warning: no files found matching 'FAQ' under directory 'third-party' warning: no files found matching 'INDEX' under directory 'third-party' warning: no files found matching 'configure' under directory 'third-party' warning: no files found matching '*.xsl' under directory 'third-party' warning: no files found matching 'bzip.css' under directory 'third-party/bzip2' warning: no files found matching 'entities.xml' under directory 'third-party/bzip2' warning: no files found matching 'libbz2.def' under directory 'third-party/bzip2' warning: no files found matching 'LICENSE' under directory 'third-party/bzip2' warning: no files found matching 'third-party/zlib/zconf.h.in' warning: no files found matching 'third-party/zlib/zlib.pc.in' warning: no previously-included files found matching 'third-party/zlib/Makefile' warning: no previously-included files found matching 'third-party/zlib/zconf.h' warning: no files found matching 'README.txt' under directory 'scripts' warning: no previously-included files matching '*.orig' found anywhere in distribution warning: no previously-included files matching '*.pyc' found anywhere in distribution writing manifest file 'khmer.egg-info/SOURCES.txt' copying tests/.gitignore -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests creating /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/100-reads.fq.bz2 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/100-reads.fq.gz -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/100-reads.fq.truncated.bz2 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/100-reads.fq.truncated.gz -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/README.rst -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/all-A.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/badversion-k12.ct -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/badversion-k12.ht -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/badversion-k32.stoptags -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/badversion-k32.tagset -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/banding-reads.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/biglump-random-20-a.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/bogus.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/casava_18-pe.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/combine_parts_1.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/dn-test-all-paired-all-keep.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/dn-test-none-paired.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/dn-test-some-paired-all-keep.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/empty-file -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/empty-file.bz2 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/empty-file.gz -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/fakelump.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/fakelump.fa.stoptags.txt -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/filter-test-A.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/filter-test-B.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/goodversion-k12.ht -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/goodversion-k12.ht.gz -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/goodversion-k32.stoptags -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/goodversion-k32.tagset -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/multi-output.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/normC20k20.ct -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/old-style-format-w-comments.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-broken.fq.1 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-broken.fq.2 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-broken.fq.badleft -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-broken.fq.badright -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-broken.fq.paired_bad -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-broken2.fq.1 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-broken2.fq.2 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-broken3.fq.1 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-broken3.fq.2 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-broken4.fq.1 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-broken4.fq.2 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-mixed-2.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-mixed-broken.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-mixed-witherror.fa.pe -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-mixed.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-mixed.fa.pe -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-mixed.fa.se -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-mixed.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-mixed.fq.pe -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-mixed.fq.se -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-slash1.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-slash1.fq.1 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired-slash1.fq.2 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired.fa.1 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired.fa.2 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired.fq.1 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired.fq.2 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired.malformat.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired.malformat.fq.2 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/paired_one.base.dif.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/random-20-X2.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/random-20-a.even.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/random-20-a.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/random-20-a.fa.bz2 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/random-20-a.fa.gz -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/random-20-a.fa.part -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/random-20-a.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/random-20-a.fq.bz2 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/random-20-a.fq.gz -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/random-20-a.odd.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/random-20-b.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/random-31-c.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/readaligner-default.json -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/readaligner-k12.json -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/real-partition-small.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/real-partition-tiny.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/simple-genome-reads.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/simple-genome.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/single-read.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/single-read.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-abund-read-2.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-abund-read-2.fa.bz2 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-abund-read-2.fa.gz -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-abund-read-2.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-abund-read-2.paired.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-abund-read-2.paired2.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-abund-read-3.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-abund-read-impaired.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-abund-read-paired.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-abund-read-paired.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-abund-read.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-empty.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-empty.fa.bz2 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-error-reads.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-fastq-n-reads.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-fastq-reads.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-fastq-reads.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-filter-abund-Ns.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-graph.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-graph2.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-graph5.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-labels.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-large.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-multi.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-output-partitions.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-overlap1.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-overlap2.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-reads.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-reads.fq.bz2 -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-reads.fq.gz -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-short.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-sweep-contigs.fp -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-sweep-reads.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-sweep-reads.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/test-transcript.fa -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/truncated.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/unclean-reads.fastq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying tests/test-data/valid-read-testing.fq -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data copying khmer/_oxli/assembly.pxd -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli copying khmer/_oxli/assembly.pyx -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli copying khmer/_oxli/graphs.pxd -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli copying khmer/_oxli/graphs.pyx -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli copying khmer/_oxli/hashing.pxd -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli copying khmer/_oxli/hashing.pyx -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli copying khmer/_oxli/hllcounter.pxd -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli copying khmer/_oxli/oxli_types.pxd -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli copying khmer/_oxli/parsing.pxd -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli copying khmer/_oxli/parsing.pyx -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli copying khmer/_oxli/traversal.pxd -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli copying khmer/_oxli/utils.pxd -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli copying khmer/_oxli/utils.pyx -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli UPDATING /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_version.py set /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_version.py to '2.1.2' running build_ext building 'khmer._khmer' extension creating build creating build/temp.linux-arm64-3.7 creating build/temp.linux-arm64-3.7/src creating build/temp.linux-arm64-3.7/src/khmer creating build/temp.linux-arm64-3.7/src/oxli creating build/temp.linux-arm64-3.7/third-party creating build/temp.linux-arm64-3.7/third-party/smhasher aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_utils.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_utils.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_subsetpartition.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_subsetpartition.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_smallcounttable.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcounttable.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_smallcountgraph.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcountgraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_readparsers.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_readparsers.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_readaligner.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_readaligner.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_nodetable.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodetable.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_nodegraph.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodegraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_khmer.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_khmer.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_hllcounter.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_hllcounter.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_hashtable.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashtable.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_hashset.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashset.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_hashgraph.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashgraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_graphlabels.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_graphlabels.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_counttable.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_counttable.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_countgraph.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_countgraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/read_parsers.cc -o build/temp.linux-arm64-3.7/src/oxli/read_parsers.o -O3 -std=c++11 -pedantic -fopenmp In file included from third-party/seqan/core/include/seqan/basic.h:62, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/basic/test_system.h:92:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr instance; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:105:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > _gzStream; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:108:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > _bz2Stream; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:110:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > > _mmapString; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:111:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr _plainStream; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:116:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr, SinglePass<> > > _gzReader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:119:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr, SinglePass<> > > _bz2Reader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:121:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr >, SinglePass > > _mmapReaderSinglePass; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:122:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr >, DoublePass > > _mmapReaderDoublePass; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:123:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > > _istreamReader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:124:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > > _ifstreamReader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/align.h:116, from third-party/seqan/core/include/seqan/store.h:38, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/align/dp_cell_affine.h: In member function 'seqan::DPCell_ >& seqan::DPCell_ >::operator=(const seqan::DPCell_ >&)': third-party/seqan/core/include/seqan/align/dp_cell_affine.h:84:9: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (this != &other) ^~ third-party/seqan/core/include/seqan/align/dp_cell_affine.h:86:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' _horizontalScore = other._horizontalScore; ^~~~~~~~~~~~~~~~ In file included from third-party/seqan/core/include/seqan/align.h:166, from third-party/seqan/core/include/seqan/store.h:38, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/align/global_alignment_myers_impl.h: In function 'int seqan::_globalAlignmentScore(const seqan::String&, const seqan::String&, const MyersBitVector&)': third-party/seqan/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (length(seqH) < length(seqV)) ^~ third-party/seqan/core/include/seqan/align/global_alignment_myers_impl.h:74:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; ^~~~~ In file included from third-party/seqan/core/include/seqan/align.h:174, from third-party/seqan/core/include/seqan/store.h:38, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function 'seqan::Pair > seqan::_alignBandedSmithWatermanTrace(seqan::LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)': third-party/seqan/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if ((actualCol == 0) || (actualRow == 0)) ^~ third-party/seqan/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); ^~ In file included from third-party/seqan/core/include/seqan/bam_io.h:107, from third-party/seqan/core/include/seqan/store.h:41, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/bam_io/bam_stream.h: At global scope: third-party/seqan/core/include/seqan/bam_io/bam_stream.h:180:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr _writer; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/bam_io.h:107, from third-party/seqan/core/include/seqan/store.h:41, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/bam_io/bam_stream.h:182:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr _reader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/store.h:61, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/store/store_all.h: In function 'void seqan::convertMatchesToGlobalAlignment(seqan::FragmentStore&, const TScore&, const TShrinkMatches&)': third-party/seqan/core/include/seqan/store/store_all.h:1733:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (alignQualityStoreLengthPre == 0u) ^~ third-party/seqan/core/include/seqan/store/store_all.h:1737:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' sortAlignedReads(store.alignedReadStore, SortBeginPos()); ^~~~~~~~~~~~~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/kmer_hash.cc -o build/temp.linux-arm64-3.7/src/oxli/kmer_hash.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/hashtable.cc -o build/temp.linux-arm64-3.7/src/oxli/hashtable.o -O3 -std=c++11 -pedantic -fopenmp src/oxli/hashtable.cc: In instantiation of 'void oxli::Hashtable::consume_seqfile(oxli::read_parsers::ReadParserPtr&, unsigned int&, long long unsigned int&) [with SeqIO = oxli::read_parsers::FastxReader; oxli::read_parsers::ReadParserPtr = std::unique_ptr >]': src/oxli/hashtable.cc:512:1: required from here src/oxli/hashtable.cc:103:11: warning: catching polymorphic type 'struct oxli::read_parsers::NoMoreReadsAvailable' by value [-Wcatch-value=] } catch (NoMoreReadsAvailable) { ^~~~~ src/oxli/hashtable.cc: In instantiation of 'void oxli::Hashtable::consume_seqfile_banding(oxli::read_parsers::ReadParserPtr&, unsigned int, unsigned int, unsigned int&, long long unsigned int&) [with SeqIO = oxli::read_parsers::FastxReader; oxli::read_parsers::ReadParserPtr = std::unique_ptr >]': src/oxli/hashtable.cc:529:1: required from here src/oxli/hashtable.cc:133:11: warning: catching polymorphic type 'struct oxli::read_parsers::NoMoreReadsAvailable' by value [-Wcatch-value=] } catch (NoMoreReadsAvailable) { ^~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/hashgraph.cc -o build/temp.linux-arm64-3.7/src/oxli/hashgraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/labelhash.cc -o build/temp.linux-arm64-3.7/src/oxli/labelhash.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/subset.cc -o build/temp.linux-arm64-3.7/src/oxli/subset.o -O3 -std=c++11 -pedantic -fopenmp src/oxli/subset.cc: In member function 'size_t oxli::SubsetPartition::output_partitioned_file(const string&, const string&, bool, oxli::CallbackFn, void*)': src/oxli/subset.cc:136:24: warning: unused variable 'ksize' [-Wunused-variable] const unsigned int ksize = _ht->ksize(); ^~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/read_aligner.cc -o build/temp.linux-arm64-3.7/src/oxli/read_aligner.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/hllcounter.cc -o build/temp.linux-arm64-3.7/src/oxli/hllcounter.o -O3 -std=c++11 -pedantic -fopenmp src/oxli/hllcounter.cc: In instantiation of 'void oxli::HLLCounter::consume_seqfile(oxli::read_parsers::ReadParserPtr&, bool, unsigned int&, long long unsigned int&) [with SeqIO = oxli::read_parsers::FastxReader; oxli::read_parsers::ReadParserPtr = std::unique_ptr >]': src/oxli/hllcounter.cc:524:1: required from here src/oxli/hllcounter.cc:428:19: warning: catching polymorphic type 'struct oxli::read_parsers::NoMoreReadsAvailable' by value [-Wcatch-value=] } catch (read_parsers::NoMoreReadsAvailable) { ^~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/traversal.cc -o build/temp.linux-arm64-3.7/src/oxli/traversal.o -O3 -std=c++11 -pedantic -fopenmp In file included from src/oxli/traversal.cc:39: src/oxli/traversal.cc: In instantiation of 'oxli::NodeGatherer::NodeGatherer(const oxli::Hashgraph*, oxli::KmerFilterList) [with bool direction = false; oxli::KmerFilterList = std::__cxx11::list >]': src/oxli/traversal.cc:203:31: required from here include/oxli/traversal.hh:79:23: warning: 'oxli::NodeGatherer::graph' will be initialized after [-Wreorder] const Hashgraph * graph; ^~~~~ include/oxli/traversal.hh:76:20: warning: 'oxli::KmerFilterList oxli::NodeGatherer::filters' [-Wreorder] KmerFilterList filters; ^~~~~~~ src/oxli/traversal.cc:53:1: warning: when initialized here [-Wreorder] NodeGatherer::NodeGatherer(const Hashgraph * ht, ^~~~~~~~~~~~~~~~~~~~~~~ In file included from src/oxli/traversal.cc:39: src/oxli/traversal.cc: In instantiation of 'oxli::NodeGatherer::NodeGatherer(const oxli::Hashgraph*, oxli::KmerFilterList) [with bool direction = true; oxli::KmerFilterList = std::__cxx11::list >]': src/oxli/traversal.cc:203:31: required from here include/oxli/traversal.hh:79:23: warning: 'oxli::NodeGatherer::graph' will be initialized after [-Wreorder] const Hashgraph * graph; ^~~~~ include/oxli/traversal.hh:76:20: warning: 'oxli::KmerFilterList oxli::NodeGatherer::filters' [-Wreorder] KmerFilterList filters; ^~~~~~~ src/oxli/traversal.cc:53:1: warning: when initialized here [-Wreorder] NodeGatherer::NodeGatherer(const Hashgraph * ht, ^~~~~~~~~~~~~~~~~~~~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/kmer_filters.cc -o build/temp.linux-arm64-3.7/src/oxli/kmer_filters.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/assembler.cc -o build/temp.linux-arm64-3.7/src/oxli/assembler.o -O3 -std=c++11 -pedantic -fopenmp In file included from src/oxli/assembler.cc:38: include/oxli/assembler.hh: In constructor 'oxli::LinearAssembler::LinearAssembler(const oxli::Hashgraph*)': include/oxli/assembler.hh:80:23: warning: 'oxli::LinearAssembler::graph' will be initialized after [-Wreorder] const Hashgraph * graph; ^~~~~ include/oxli/assembler.hh:79:16: warning: 'oxli::WordLength oxli::LinearAssembler::_ksize' [-Wreorder] WordLength _ksize; ^~~~~~ src/oxli/assembler.cc:52:1: warning: when initialized here [-Wreorder] LinearAssembler::LinearAssembler(const Hashgraph * ht) : ^~~~~~~~~~~~~~~ src/oxli/assembler.cc: In destructor 'oxli::SimpleLabeledAssembler::~SimpleLabeledAssembler()': src/oxli/assembler.cc:189:18: warning: deleting object of polymorphic class type 'oxli::LinearAssembler' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] delete this->linear_asm; ^~~~~~~~~~ In file included from src/oxli/assembler.cc:38: include/oxli/assembler.hh: In constructor 'oxli::JunctionCountAssembler::JunctionCountAssembler(oxli::Hashgraph*)': include/oxli/assembler.hh:158:16: warning: 'oxli::JunctionCountAssembler::_ksize' will be initialized after [-Wreorder] WordLength _ksize; ^~~~~~ include/oxli/assembler.hh:153:15: warning: 'oxli::Traverser oxli::JunctionCountAssembler::traverser' [-Wreorder] Traverser traverser; ^~~~~~~~~ src/oxli/assembler.cc:346:1: warning: when initialized here [-Wreorder] JunctionCountAssembler::JunctionCountAssembler(Hashgraph * ht) : ^~~~~~~~~~~~~~~~~~~~~~ In file included from src/oxli/assembler.cc:38: include/oxli/assembler.hh:153:15: warning: 'oxli::JunctionCountAssembler::traverser' will be initialized after [-Wreorder] Traverser traverser; ^~~~~~~~~ include/oxli/assembler.hh:151:21: warning: 'oxli::LinearAssembler oxli::JunctionCountAssembler::linear_asm' [-Wreorder] LinearAssembler linear_asm; ^~~~~~~~~~ src/oxli/assembler.cc:346:1: warning: when initialized here [-Wreorder] JunctionCountAssembler::JunctionCountAssembler(Hashgraph * ht) : ^~~~~~~~~~~~~~~~~~~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/alphabets.cc -o build/temp.linux-arm64-3.7/src/oxli/alphabets.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/storage.cc -o build/temp.linux-arm64-3.7/src/oxli/storage.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c third-party/smhasher/MurmurHash3.cc -o build/temp.linux-arm64-3.7/third-party/smhasher/MurmurHash3.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-arm64-3.7/src/khmer/_cpy_utils.o build/temp.linux-arm64-3.7/src/khmer/_cpy_subsetpartition.o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcounttable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcountgraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_readparsers.o build/temp.linux-arm64-3.7/src/khmer/_cpy_readaligner.o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodetable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodegraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_khmer.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hllcounter.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashtable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashset.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashgraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_graphlabels.o build/temp.linux-arm64-3.7/src/khmer/_cpy_counttable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_countgraph.o build/temp.linux-arm64-3.7/src/oxli/read_parsers.o build/temp.linux-arm64-3.7/src/oxli/kmer_hash.o build/temp.linux-arm64-3.7/src/oxli/hashtable.o build/temp.linux-arm64-3.7/src/oxli/hashgraph.o build/temp.linux-arm64-3.7/src/oxli/labelhash.o build/temp.linux-arm64-3.7/src/oxli/subset.o build/temp.linux-arm64-3.7/src/oxli/read_aligner.o build/temp.linux-arm64-3.7/src/oxli/hllcounter.o build/temp.linux-arm64-3.7/src/oxli/traversal.o build/temp.linux-arm64-3.7/src/oxli/kmer_filters.o build/temp.linux-arm64-3.7/src/oxli/assembler.o build/temp.linux-arm64-3.7/src/oxli/alphabets.o build/temp.linux-arm64-3.7/src/oxli/storage.o build/temp.linux-arm64-3.7/third-party/smhasher/MurmurHash3.o -lz -lbz2 -o /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_khmer.cpython-37m-aarch64-linux-gnu.so -fopenmp cythoning khmer/_oxli/utils.pyx to khmer/_oxli/utils.cpp building 'khmer._oxli.utils' extension creating build/temp.linux-arm64-3.7/khmer creating build/temp.linux-arm64-3.7/khmer/_oxli aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c khmer/_oxli/utils.cpp -o build/temp.linux-arm64-3.7/khmer/_oxli/utils.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-arm64-3.7/khmer/_oxli/utils.o build/temp.linux-arm64-3.7/src/khmer/_cpy_utils.o build/temp.linux-arm64-3.7/src/khmer/_cpy_subsetpartition.o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcounttable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcountgraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_readparsers.o build/temp.linux-arm64-3.7/src/khmer/_cpy_readaligner.o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodetable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodegraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_khmer.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hllcounter.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashtable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashset.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashgraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_graphlabels.o build/temp.linux-arm64-3.7/src/khmer/_cpy_counttable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_countgraph.o build/temp.linux-arm64-3.7/src/oxli/read_parsers.o build/temp.linux-arm64-3.7/src/oxli/kmer_hash.o build/temp.linux-arm64-3.7/src/oxli/hashtable.o build/temp.linux-arm64-3.7/src/oxli/hashgraph.o build/temp.linux-arm64-3.7/src/oxli/labelhash.o build/temp.linux-arm64-3.7/src/oxli/subset.o build/temp.linux-arm64-3.7/src/oxli/read_aligner.o build/temp.linux-arm64-3.7/src/oxli/hllcounter.o build/temp.linux-arm64-3.7/src/oxli/traversal.o build/temp.linux-arm64-3.7/src/oxli/kmer_filters.o build/temp.linux-arm64-3.7/src/oxli/assembler.o build/temp.linux-arm64-3.7/src/oxli/alphabets.o build/temp.linux-arm64-3.7/src/oxli/storage.o build/temp.linux-arm64-3.7/third-party/smhasher/MurmurHash3.o -lz -lbz2 -o /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/utils.cpython-37m-aarch64-linux-gnu.so -fopenmp cythoning khmer/_oxli/parsing.pyx to khmer/_oxli/parsing.cpp building 'khmer._oxli.parsing' extension aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c khmer/_oxli/parsing.cpp -o build/temp.linux-arm64-3.7/khmer/_oxli/parsing.o -O3 -std=c++11 -pedantic -fopenmp khmer/_oxli/parsing.cpp: In function 'bool __pyx_f_5khmer_5_oxli_7parsing_sanitize_sequence(std::__cxx11::string&, std::__cxx11::string&, bool)': khmer/_oxli/parsing.cpp:5590:33: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { ~~~~~~~~~~^~~~~~~~~~~ aarch64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-arm64-3.7/khmer/_oxli/parsing.o build/temp.linux-arm64-3.7/src/khmer/_cpy_utils.o build/temp.linux-arm64-3.7/src/khmer/_cpy_subsetpartition.o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcounttable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcountgraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_readparsers.o build/temp.linux-arm64-3.7/src/khmer/_cpy_readaligner.o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodetable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodegraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_khmer.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hllcounter.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashtable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashset.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashgraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_graphlabels.o build/temp.linux-arm64-3.7/src/khmer/_cpy_counttable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_countgraph.o build/temp.linux-arm64-3.7/src/oxli/read_parsers.o build/temp.linux-arm64-3.7/src/oxli/kmer_hash.o build/temp.linux-arm64-3.7/src/oxli/hashtable.o build/temp.linux-arm64-3.7/src/oxli/hashgraph.o build/temp.linux-arm64-3.7/src/oxli/labelhash.o build/temp.linux-arm64-3.7/src/oxli/subset.o build/temp.linux-arm64-3.7/src/oxli/read_aligner.o build/temp.linux-arm64-3.7/src/oxli/hllcounter.o build/temp.linux-arm64-3.7/src/oxli/traversal.o build/temp.linux-arm64-3.7/src/oxli/kmer_filters.o build/temp.linux-arm64-3.7/src/oxli/assembler.o build/temp.linux-arm64-3.7/src/oxli/alphabets.o build/temp.linux-arm64-3.7/src/oxli/storage.o build/temp.linux-arm64-3.7/third-party/smhasher/MurmurHash3.o -lz -lbz2 -o /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/parsing.cpython-37m-aarch64-linux-gnu.so -fopenmp cythoning khmer/_oxli/hashing.pyx to khmer/_oxli/hashing.cpp building 'khmer._oxli.hashing' extension aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c khmer/_oxli/hashing.cpp -o build/temp.linux-arm64-3.7/khmer/_oxli/hashing.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-arm64-3.7/khmer/_oxli/hashing.o build/temp.linux-arm64-3.7/src/khmer/_cpy_utils.o build/temp.linux-arm64-3.7/src/khmer/_cpy_subsetpartition.o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcounttable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcountgraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_readparsers.o build/temp.linux-arm64-3.7/src/khmer/_cpy_readaligner.o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodetable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodegraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_khmer.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hllcounter.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashtable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashset.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashgraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_graphlabels.o build/temp.linux-arm64-3.7/src/khmer/_cpy_counttable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_countgraph.o build/temp.linux-arm64-3.7/src/oxli/read_parsers.o build/temp.linux-arm64-3.7/src/oxli/kmer_hash.o build/temp.linux-arm64-3.7/src/oxli/hashtable.o build/temp.linux-arm64-3.7/src/oxli/hashgraph.o build/temp.linux-arm64-3.7/src/oxli/labelhash.o build/temp.linux-arm64-3.7/src/oxli/subset.o build/temp.linux-arm64-3.7/src/oxli/read_aligner.o build/temp.linux-arm64-3.7/src/oxli/hllcounter.o build/temp.linux-arm64-3.7/src/oxli/traversal.o build/temp.linux-arm64-3.7/src/oxli/kmer_filters.o build/temp.linux-arm64-3.7/src/oxli/assembler.o build/temp.linux-arm64-3.7/src/oxli/alphabets.o build/temp.linux-arm64-3.7/src/oxli/storage.o build/temp.linux-arm64-3.7/third-party/smhasher/MurmurHash3.o -lz -lbz2 -o /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/hashing.cpython-37m-aarch64-linux-gnu.so -fopenmp cythoning khmer/_oxli/graphs.pyx to khmer/_oxli/graphs.cpp building 'khmer._oxli.graphs' extension aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c khmer/_oxli/graphs.cpp -o build/temp.linux-arm64-3.7/khmer/_oxli/graphs.o -O3 -std=c++11 -pedantic -fopenmp In file included from include/khmer/_cpy_khmer.hh:49, from khmer/_oxli/graphs.cpp:643: include/khmer/_cpy_utils.hh:17: warning: "PyInt_Check" redefined #define PyInt_Check(arg) PyLong_Check(arg) khmer/_oxli/graphs.cpp:536: note: this is the location of the previous definition #define PyInt_Check(op) PyLong_Check(op) In file included from include/khmer/_cpy_khmer.hh:49, from khmer/_oxli/graphs.cpp:643: include/khmer/_cpy_utils.hh:18: warning: "PyInt_AsLong" redefined #define PyInt_AsLong(arg) PyLong_AsLong(arg) khmer/_oxli/graphs.cpp:543: note: this is the location of the previous definition #define PyInt_AsLong PyLong_AsLong In file included from include/khmer/_cpy_khmer.hh:49, from khmer/_oxli/graphs.cpp:643: include/khmer/_cpy_utils.hh:19: warning: "PyInt_FromLong" redefined #define PyInt_FromLong(arg) PyLong_FromLong(arg) khmer/_oxli/graphs.cpp:540: note: this is the location of the previous definition #define PyInt_FromLong PyLong_FromLong aarch64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-arm64-3.7/khmer/_oxli/graphs.o build/temp.linux-arm64-3.7/src/khmer/_cpy_utils.o build/temp.linux-arm64-3.7/src/khmer/_cpy_subsetpartition.o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcounttable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcountgraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_readparsers.o build/temp.linux-arm64-3.7/src/khmer/_cpy_readaligner.o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodetable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodegraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_khmer.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hllcounter.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashtable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashset.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashgraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_graphlabels.o build/temp.linux-arm64-3.7/src/khmer/_cpy_counttable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_countgraph.o build/temp.linux-arm64-3.7/src/oxli/read_parsers.o build/temp.linux-arm64-3.7/src/oxli/kmer_hash.o build/temp.linux-arm64-3.7/src/oxli/hashtable.o build/temp.linux-arm64-3.7/src/oxli/hashgraph.o build/temp.linux-arm64-3.7/src/oxli/labelhash.o build/temp.linux-arm64-3.7/src/oxli/subset.o build/temp.linux-arm64-3.7/src/oxli/read_aligner.o build/temp.linux-arm64-3.7/src/oxli/hllcounter.o build/temp.linux-arm64-3.7/src/oxli/traversal.o build/temp.linux-arm64-3.7/src/oxli/kmer_filters.o build/temp.linux-arm64-3.7/src/oxli/assembler.o build/temp.linux-arm64-3.7/src/oxli/alphabets.o build/temp.linux-arm64-3.7/src/oxli/storage.o build/temp.linux-arm64-3.7/third-party/smhasher/MurmurHash3.o -lz -lbz2 -o /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/graphs.cpython-37m-aarch64-linux-gnu.so -fopenmp cythoning khmer/_oxli/assembly.pyx to khmer/_oxli/assembly.cpp building 'khmer._oxli.assembly' extension aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c khmer/_oxli/assembly.cpp -o build/temp.linux-arm64-3.7/khmer/_oxli/assembly.o -O3 -std=c++11 -pedantic -fopenmp In file included from include/khmer/_cpy_khmer.hh:49, from khmer/_oxli/assembly.cpp:643: include/khmer/_cpy_utils.hh:17: warning: "PyInt_Check" redefined #define PyInt_Check(arg) PyLong_Check(arg) khmer/_oxli/assembly.cpp:536: note: this is the location of the previous definition #define PyInt_Check(op) PyLong_Check(op) In file included from include/khmer/_cpy_khmer.hh:49, from khmer/_oxli/assembly.cpp:643: include/khmer/_cpy_utils.hh:18: warning: "PyInt_AsLong" redefined #define PyInt_AsLong(arg) PyLong_AsLong(arg) khmer/_oxli/assembly.cpp:543: note: this is the location of the previous definition #define PyInt_AsLong PyLong_AsLong In file included from include/khmer/_cpy_khmer.hh:49, from khmer/_oxli/assembly.cpp:643: include/khmer/_cpy_utils.hh:19: warning: "PyInt_FromLong" redefined #define PyInt_FromLong(arg) PyLong_FromLong(arg) khmer/_oxli/assembly.cpp:540: note: this is the location of the previous definition #define PyInt_FromLong PyLong_FromLong aarch64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-arm64-3.7/khmer/_oxli/assembly.o build/temp.linux-arm64-3.7/src/khmer/_cpy_utils.o build/temp.linux-arm64-3.7/src/khmer/_cpy_subsetpartition.o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcounttable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcountgraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_readparsers.o build/temp.linux-arm64-3.7/src/khmer/_cpy_readaligner.o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodetable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodegraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_khmer.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hllcounter.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashtable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashset.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashgraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_graphlabels.o build/temp.linux-arm64-3.7/src/khmer/_cpy_counttable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_countgraph.o build/temp.linux-arm64-3.7/src/oxli/read_parsers.o build/temp.linux-arm64-3.7/src/oxli/kmer_hash.o build/temp.linux-arm64-3.7/src/oxli/hashtable.o build/temp.linux-arm64-3.7/src/oxli/hashgraph.o build/temp.linux-arm64-3.7/src/oxli/labelhash.o build/temp.linux-arm64-3.7/src/oxli/subset.o build/temp.linux-arm64-3.7/src/oxli/read_aligner.o build/temp.linux-arm64-3.7/src/oxli/hllcounter.o build/temp.linux-arm64-3.7/src/oxli/traversal.o build/temp.linux-arm64-3.7/src/oxli/kmer_filters.o build/temp.linux-arm64-3.7/src/oxli/assembler.o build/temp.linux-arm64-3.7/src/oxli/alphabets.o build/temp.linux-arm64-3.7/src/oxli/storage.o build/temp.linux-arm64-3.7/third-party/smhasher/MurmurHash3.o -lz -lbz2 -o /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/assembly.cpython-37m-aarch64-linux-gnu.so -fopenmp running build_scripts creating build/scripts-3.7 copying and adjusting scripts/extract-paired-reads.py -> build/scripts-3.7 copying and adjusting scripts/unique-kmers.py -> build/scripts-3.7 copying and adjusting scripts/trim-low-abund.py -> build/scripts-3.7 copying and adjusting scripts/split-paired-reads.py -> build/scripts-3.7 copying and adjusting scripts/sample-reads-randomly.py -> build/scripts-3.7 copying and adjusting scripts/readstats.py -> build/scripts-3.7 copying and adjusting scripts/partition-graph.py -> build/scripts-3.7 copying and adjusting scripts/normalize-by-median.py -> build/scripts-3.7 copying and adjusting scripts/merge-partitions.py -> build/scripts-3.7 copying and adjusting scripts/make-initial-stoptags.py -> build/scripts-3.7 copying and adjusting scripts/load-into-counting.py -> build/scripts-3.7 copying and adjusting scripts/load-graph.py -> build/scripts-3.7 copying and adjusting scripts/interleave-reads.py -> build/scripts-3.7 copying and adjusting scripts/find-knots.py -> build/scripts-3.7 copying and adjusting scripts/filter-stoptags.py -> build/scripts-3.7 copying and adjusting scripts/filter-abund.py -> build/scripts-3.7 copying and adjusting scripts/filter-abund-single.py -> build/scripts-3.7 copying and adjusting scripts/fastq-to-fasta.py -> build/scripts-3.7 copying and adjusting scripts/extract-partitions.py -> build/scripts-3.7 copying and adjusting scripts/extract-long-sequences.py -> build/scripts-3.7 copying and adjusting scripts/do-partition.py -> build/scripts-3.7 copying and adjusting scripts/count-median.py -> build/scripts-3.7 copying and adjusting scripts/annotate-partitions.py -> build/scripts-3.7 copying and adjusting scripts/abundance-dist.py -> build/scripts-3.7 copying and adjusting scripts/abundance-dist-single.py -> build/scripts-3.7 changing mode of build/scripts-3.7/extract-paired-reads.py from 644 to 755 changing mode of build/scripts-3.7/unique-kmers.py from 644 to 755 changing mode of build/scripts-3.7/trim-low-abund.py from 644 to 755 changing mode of build/scripts-3.7/split-paired-reads.py from 644 to 755 changing mode of build/scripts-3.7/sample-reads-randomly.py from 644 to 755 changing mode of build/scripts-3.7/readstats.py from 644 to 755 changing mode of build/scripts-3.7/partition-graph.py from 644 to 755 changing mode of build/scripts-3.7/normalize-by-median.py from 644 to 755 changing mode of build/scripts-3.7/merge-partitions.py from 644 to 755 changing mode of build/scripts-3.7/make-initial-stoptags.py from 644 to 755 changing mode of build/scripts-3.7/load-into-counting.py from 644 to 755 changing mode of build/scripts-3.7/load-graph.py from 644 to 755 changing mode of build/scripts-3.7/interleave-reads.py from 644 to 755 changing mode of build/scripts-3.7/find-knots.py from 644 to 755 changing mode of build/scripts-3.7/filter-stoptags.py from 644 to 755 changing mode of build/scripts-3.7/filter-abund.py from 644 to 755 changing mode of build/scripts-3.7/filter-abund-single.py from 644 to 755 changing mode of build/scripts-3.7/fastq-to-fasta.py from 644 to 755 changing mode of build/scripts-3.7/extract-partitions.py from 644 to 755 changing mode of build/scripts-3.7/extract-long-sequences.py from 644 to 755 changing mode of build/scripts-3.7/do-partition.py from 644 to 755 changing mode of build/scripts-3.7/count-median.py from 644 to 755 changing mode of build/scripts-3.7/annotate-partitions.py from 644 to 755 changing mode of build/scripts-3.7/abundance-dist.py from 644 to 755 changing mode of build/scripts-3.7/abundance-dist-single.py from 644 to 755 /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:367: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /build/khmer-2.1.2+dfsg/khmer/_oxli/utils.pxd tree = Parsing.p_module(s, pxd, full_module_name) /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:367: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /build/khmer-2.1.2+dfsg/khmer/_oxli/parsing.pxd tree = Parsing.p_module(s, pxd, full_module_name) warning: khmer/_oxli/parsing.pxd:159:25: Declarations should not be declared inline. warning: khmer/_oxli/parsing.pxd:161:34: Declarations should not be declared inline. /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:367: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /build/khmer-2.1.2+dfsg/khmer/_oxli/hashing.pxd tree = Parsing.p_module(s, pxd, full_module_name) /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:367: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /build/khmer-2.1.2+dfsg/khmer/_oxli/graphs.pxd tree = Parsing.p_module(s, pxd, full_module_name) warning: khmer/_oxli/parsing.pxd:159:25: Declarations should not be declared inline. warning: khmer/_oxli/parsing.pxd:161:34: Declarations should not be declared inline. /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:367: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /build/khmer-2.1.2+dfsg/khmer/_oxli/assembly.pxd tree = Parsing.p_module(s, pxd, full_module_name) warning: khmer/_oxli/parsing.pxd:159:25: Declarations should not be declared inline. warning: khmer/_oxli/parsing.pxd:161:34: Declarations should not be declared inline. ln -sf "`pwd`"/.pybuild/pythonX.Y_*/build/khmer/*.so khmer && \ ./setup.py develop --user && ./setup.py build_sphinx running develop running egg_info writing khmer.egg-info/PKG-INFO writing dependency_links to khmer.egg-info/dependency_links.txt writing requirements to khmer.egg-info/requires.txt writing top-level names to khmer.egg-info/top_level.txt reading manifest file 'khmer.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'ChangeLog' warning: no files found matching 'ez_setup.py' warning: no files found matching 'IDEAS' warning: no files found matching 'README.md' warning: no files found matching 'TODO' warning: no files found matching '.ycm_extra_conf.py' warning: no files found matching '*.hh' under directory 'lib' warning: no files found matching '*.cc' under directory 'lib' warning: no files found matching '[Mm]akefile*' under directory 'lib' warning: no files found matching 'get_version.py' under directory 'lib' warning: no files found matching '*.hh' under directory 'khmer' warning: no files found matching '*.1' under directory 'third-party' warning: no files found matching '*.xsl' under directory 'third-party' warning: no files found matching 'sample*' under directory 'third-party' warning: no files found matching 'words*' under directory 'third-party' warning: no files found matching '*.sh' under directory 'third-party' warning: no files found matching '*.c' under directory 'third-party' warning: no files found matching 'manual*' under directory 'third-party' warning: no files found matching '[Mm]akefile*' under directory 'third-party' warning: no files found matching '*.pl' under directory 'third-party' warning: no files found matching '*.dsp' under directory 'third-party' warning: no files found matching 'CHANGES' under directory 'third-party' warning: no files found matching '*.txt' under directory 'third-party' warning: no files found matching 'FAQ' under directory 'third-party' warning: no files found matching 'INDEX' under directory 'third-party' warning: no files found matching 'configure' under directory 'third-party' warning: no files found matching '*.xsl' under directory 'third-party' warning: no files found matching 'bzip.css' under directory 'third-party/bzip2' warning: no files found matching 'entities.xml' under directory 'third-party/bzip2' warning: no files found matching 'libbz2.def' under directory 'third-party/bzip2' warning: no files found matching 'LICENSE' under directory 'third-party/bzip2' warning: no files found matching 'third-party/zlib/zconf.h.in' warning: no files found matching 'third-party/zlib/zlib.pc.in' warning: no previously-included files found matching 'third-party/zlib/Makefile' warning: no previously-included files found matching 'third-party/zlib/zconf.h' warning: no files found matching 'README.txt' under directory 'scripts' warning: no previously-included files matching '*.orig' found anywhere in distribution warning: no previously-included files matching '*.pyc' found anywhere in distribution writing manifest file 'khmer.egg-info/SOURCES.txt' running build_ext building 'khmer._khmer' extension creating build/temp.linux-aarch64-3.7 creating build/temp.linux-aarch64-3.7/src creating build/temp.linux-aarch64-3.7/src/khmer creating build/temp.linux-aarch64-3.7/src/oxli creating build/temp.linux-aarch64-3.7/third-party creating build/temp.linux-aarch64-3.7/third-party/smhasher aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_utils.cc -o build/temp.linux-aarch64-3.7/src/khmer/_cpy_utils.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_subsetpartition.cc -o build/temp.linux-aarch64-3.7/src/khmer/_cpy_subsetpartition.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_smallcounttable.cc -o build/temp.linux-aarch64-3.7/src/khmer/_cpy_smallcounttable.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_smallcountgraph.cc -o build/temp.linux-aarch64-3.7/src/khmer/_cpy_smallcountgraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_readparsers.cc -o build/temp.linux-aarch64-3.7/src/khmer/_cpy_readparsers.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_readaligner.cc -o build/temp.linux-aarch64-3.7/src/khmer/_cpy_readaligner.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_nodetable.cc -o build/temp.linux-aarch64-3.7/src/khmer/_cpy_nodetable.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_nodegraph.cc -o build/temp.linux-aarch64-3.7/src/khmer/_cpy_nodegraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_khmer.cc -o build/temp.linux-aarch64-3.7/src/khmer/_cpy_khmer.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_hllcounter.cc -o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hllcounter.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_hashtable.cc -o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashtable.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_hashset.cc -o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashset.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_hashgraph.cc -o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashgraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_graphlabels.cc -o build/temp.linux-aarch64-3.7/src/khmer/_cpy_graphlabels.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_counttable.cc -o build/temp.linux-aarch64-3.7/src/khmer/_cpy_counttable.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_countgraph.cc -o build/temp.linux-aarch64-3.7/src/khmer/_cpy_countgraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/read_parsers.cc -o build/temp.linux-aarch64-3.7/src/oxli/read_parsers.o -O3 -std=c++11 -pedantic -fopenmp In file included from third-party/seqan/core/include/seqan/basic.h:62, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/basic/test_system.h:92:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr instance; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:105:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > _gzStream; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:108:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > _bz2Stream; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:110:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > > _mmapString; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:111:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr _plainStream; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:116:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr, SinglePass<> > > _gzReader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:119:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr, SinglePass<> > > _bz2Reader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:121:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr >, SinglePass > > _mmapReaderSinglePass; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:122:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr >, DoublePass > > _mmapReaderDoublePass; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:123:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > > _istreamReader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:124:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > > _ifstreamReader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/align.h:116, from third-party/seqan/core/include/seqan/store.h:38, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/align/dp_cell_affine.h: In member function 'seqan::DPCell_ >& seqan::DPCell_ >::operator=(const seqan::DPCell_ >&)': third-party/seqan/core/include/seqan/align/dp_cell_affine.h:84:9: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (this != &other) ^~ third-party/seqan/core/include/seqan/align/dp_cell_affine.h:86:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' _horizontalScore = other._horizontalScore; ^~~~~~~~~~~~~~~~ In file included from third-party/seqan/core/include/seqan/align.h:166, from third-party/seqan/core/include/seqan/store.h:38, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/align/global_alignment_myers_impl.h: In function 'int seqan::_globalAlignmentScore(const seqan::String&, const seqan::String&, const MyersBitVector&)': third-party/seqan/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (length(seqH) < length(seqV)) ^~ third-party/seqan/core/include/seqan/align/global_alignment_myers_impl.h:74:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; ^~~~~ In file included from third-party/seqan/core/include/seqan/align.h:174, from third-party/seqan/core/include/seqan/store.h:38, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function 'seqan::Pair > seqan::_alignBandedSmithWatermanTrace(seqan::LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)': third-party/seqan/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if ((actualCol == 0) || (actualRow == 0)) ^~ third-party/seqan/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); ^~ In file included from third-party/seqan/core/include/seqan/bam_io.h:107, from third-party/seqan/core/include/seqan/store.h:41, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/bam_io/bam_stream.h: At global scope: third-party/seqan/core/include/seqan/bam_io/bam_stream.h:180:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr _writer; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/bam_io.h:107, from third-party/seqan/core/include/seqan/store.h:41, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/bam_io/bam_stream.h:182:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr _reader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/store.h:61, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/store/store_all.h: In function 'void seqan::convertMatchesToGlobalAlignment(seqan::FragmentStore&, const TScore&, const TShrinkMatches&)': third-party/seqan/core/include/seqan/store/store_all.h:1733:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (alignQualityStoreLengthPre == 0u) ^~ third-party/seqan/core/include/seqan/store/store_all.h:1737:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' sortAlignedReads(store.alignedReadStore, SortBeginPos()); ^~~~~~~~~~~~~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/kmer_hash.cc -o build/temp.linux-aarch64-3.7/src/oxli/kmer_hash.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/hashtable.cc -o build/temp.linux-aarch64-3.7/src/oxli/hashtable.o -O3 -std=c++11 -pedantic -fopenmp src/oxli/hashtable.cc: In instantiation of 'void oxli::Hashtable::consume_seqfile(oxli::read_parsers::ReadParserPtr&, unsigned int&, long long unsigned int&) [with SeqIO = oxli::read_parsers::FastxReader; oxli::read_parsers::ReadParserPtr = std::unique_ptr >]': src/oxli/hashtable.cc:512:1: required from here src/oxli/hashtable.cc:103:11: warning: catching polymorphic type 'struct oxli::read_parsers::NoMoreReadsAvailable' by value [-Wcatch-value=] } catch (NoMoreReadsAvailable) { ^~~~~ src/oxli/hashtable.cc: In instantiation of 'void oxli::Hashtable::consume_seqfile_banding(oxli::read_parsers::ReadParserPtr&, unsigned int, unsigned int, unsigned int&, long long unsigned int&) [with SeqIO = oxli::read_parsers::FastxReader; oxli::read_parsers::ReadParserPtr = std::unique_ptr >]': src/oxli/hashtable.cc:529:1: required from here src/oxli/hashtable.cc:133:11: warning: catching polymorphic type 'struct oxli::read_parsers::NoMoreReadsAvailable' by value [-Wcatch-value=] } catch (NoMoreReadsAvailable) { ^~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/hashgraph.cc -o build/temp.linux-aarch64-3.7/src/oxli/hashgraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/labelhash.cc -o build/temp.linux-aarch64-3.7/src/oxli/labelhash.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/subset.cc -o build/temp.linux-aarch64-3.7/src/oxli/subset.o -O3 -std=c++11 -pedantic -fopenmp src/oxli/subset.cc: In member function 'size_t oxli::SubsetPartition::output_partitioned_file(const string&, const string&, bool, oxli::CallbackFn, void*)': src/oxli/subset.cc:136:24: warning: unused variable 'ksize' [-Wunused-variable] const unsigned int ksize = _ht->ksize(); ^~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/read_aligner.cc -o build/temp.linux-aarch64-3.7/src/oxli/read_aligner.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/hllcounter.cc -o build/temp.linux-aarch64-3.7/src/oxli/hllcounter.o -O3 -std=c++11 -pedantic -fopenmp src/oxli/hllcounter.cc: In instantiation of 'void oxli::HLLCounter::consume_seqfile(oxli::read_parsers::ReadParserPtr&, bool, unsigned int&, long long unsigned int&) [with SeqIO = oxli::read_parsers::FastxReader; oxli::read_parsers::ReadParserPtr = std::unique_ptr >]': src/oxli/hllcounter.cc:524:1: required from here src/oxli/hllcounter.cc:428:19: warning: catching polymorphic type 'struct oxli::read_parsers::NoMoreReadsAvailable' by value [-Wcatch-value=] } catch (read_parsers::NoMoreReadsAvailable) { ^~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/traversal.cc -o build/temp.linux-aarch64-3.7/src/oxli/traversal.o -O3 -std=c++11 -pedantic -fopenmp In file included from src/oxli/traversal.cc:39: src/oxli/traversal.cc: In instantiation of 'oxli::NodeGatherer::NodeGatherer(const oxli::Hashgraph*, oxli::KmerFilterList) [with bool direction = false; oxli::KmerFilterList = std::__cxx11::list >]': src/oxli/traversal.cc:203:31: required from here include/oxli/traversal.hh:79:23: warning: 'oxli::NodeGatherer::graph' will be initialized after [-Wreorder] const Hashgraph * graph; ^~~~~ include/oxli/traversal.hh:76:20: warning: 'oxli::KmerFilterList oxli::NodeGatherer::filters' [-Wreorder] KmerFilterList filters; ^~~~~~~ src/oxli/traversal.cc:53:1: warning: when initialized here [-Wreorder] NodeGatherer::NodeGatherer(const Hashgraph * ht, ^~~~~~~~~~~~~~~~~~~~~~~ In file included from src/oxli/traversal.cc:39: src/oxli/traversal.cc: In instantiation of 'oxli::NodeGatherer::NodeGatherer(const oxli::Hashgraph*, oxli::KmerFilterList) [with bool direction = true; oxli::KmerFilterList = std::__cxx11::list >]': src/oxli/traversal.cc:203:31: required from here include/oxli/traversal.hh:79:23: warning: 'oxli::NodeGatherer::graph' will be initialized after [-Wreorder] const Hashgraph * graph; ^~~~~ include/oxli/traversal.hh:76:20: warning: 'oxli::KmerFilterList oxli::NodeGatherer::filters' [-Wreorder] KmerFilterList filters; ^~~~~~~ src/oxli/traversal.cc:53:1: warning: when initialized here [-Wreorder] NodeGatherer::NodeGatherer(const Hashgraph * ht, ^~~~~~~~~~~~~~~~~~~~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/kmer_filters.cc -o build/temp.linux-aarch64-3.7/src/oxli/kmer_filters.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/assembler.cc -o build/temp.linux-aarch64-3.7/src/oxli/assembler.o -O3 -std=c++11 -pedantic -fopenmp In file included from src/oxli/assembler.cc:38: include/oxli/assembler.hh: In constructor 'oxli::LinearAssembler::LinearAssembler(const oxli::Hashgraph*)': include/oxli/assembler.hh:80:23: warning: 'oxli::LinearAssembler::graph' will be initialized after [-Wreorder] const Hashgraph * graph; ^~~~~ include/oxli/assembler.hh:79:16: warning: 'oxli::WordLength oxli::LinearAssembler::_ksize' [-Wreorder] WordLength _ksize; ^~~~~~ src/oxli/assembler.cc:52:1: warning: when initialized here [-Wreorder] LinearAssembler::LinearAssembler(const Hashgraph * ht) : ^~~~~~~~~~~~~~~ src/oxli/assembler.cc: In destructor 'oxli::SimpleLabeledAssembler::~SimpleLabeledAssembler()': src/oxli/assembler.cc:189:18: warning: deleting object of polymorphic class type 'oxli::LinearAssembler' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] delete this->linear_asm; ^~~~~~~~~~ In file included from src/oxli/assembler.cc:38: include/oxli/assembler.hh: In constructor 'oxli::JunctionCountAssembler::JunctionCountAssembler(oxli::Hashgraph*)': include/oxli/assembler.hh:158:16: warning: 'oxli::JunctionCountAssembler::_ksize' will be initialized after [-Wreorder] WordLength _ksize; ^~~~~~ include/oxli/assembler.hh:153:15: warning: 'oxli::Traverser oxli::JunctionCountAssembler::traverser' [-Wreorder] Traverser traverser; ^~~~~~~~~ src/oxli/assembler.cc:346:1: warning: when initialized here [-Wreorder] JunctionCountAssembler::JunctionCountAssembler(Hashgraph * ht) : ^~~~~~~~~~~~~~~~~~~~~~ In file included from src/oxli/assembler.cc:38: include/oxli/assembler.hh:153:15: warning: 'oxli::JunctionCountAssembler::traverser' will be initialized after [-Wreorder] Traverser traverser; ^~~~~~~~~ include/oxli/assembler.hh:151:21: warning: 'oxli::LinearAssembler oxli::JunctionCountAssembler::linear_asm' [-Wreorder] LinearAssembler linear_asm; ^~~~~~~~~~ src/oxli/assembler.cc:346:1: warning: when initialized here [-Wreorder] JunctionCountAssembler::JunctionCountAssembler(Hashgraph * ht) : ^~~~~~~~~~~~~~~~~~~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/alphabets.cc -o build/temp.linux-aarch64-3.7/src/oxli/alphabets.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/storage.cc -o build/temp.linux-aarch64-3.7/src/oxli/storage.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c third-party/smhasher/MurmurHash3.cc -o build/temp.linux-aarch64-3.7/third-party/smhasher/MurmurHash3.o -O3 -std=c++11 -pedantic -fopenmp creating build/lib.linux-aarch64-3.7 creating build/lib.linux-aarch64-3.7/khmer aarch64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-3.7/src/khmer/_cpy_utils.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_subsetpartition.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_smallcounttable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_smallcountgraph.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_readparsers.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_readaligner.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_nodetable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_nodegraph.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_khmer.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hllcounter.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashtable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashset.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashgraph.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_graphlabels.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_counttable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_countgraph.o build/temp.linux-aarch64-3.7/src/oxli/read_parsers.o build/temp.linux-aarch64-3.7/src/oxli/kmer_hash.o build/temp.linux-aarch64-3.7/src/oxli/hashtable.o build/temp.linux-aarch64-3.7/src/oxli/hashgraph.o build/temp.linux-aarch64-3.7/src/oxli/labelhash.o build/temp.linux-aarch64-3.7/src/oxli/subset.o build/temp.linux-aarch64-3.7/src/oxli/read_aligner.o build/temp.linux-aarch64-3.7/src/oxli/hllcounter.o build/temp.linux-aarch64-3.7/src/oxli/traversal.o build/temp.linux-aarch64-3.7/src/oxli/kmer_filters.o build/temp.linux-aarch64-3.7/src/oxli/assembler.o build/temp.linux-aarch64-3.7/src/oxli/alphabets.o build/temp.linux-aarch64-3.7/src/oxli/storage.o build/temp.linux-aarch64-3.7/third-party/smhasher/MurmurHash3.o -lz -lbz2 -o build/lib.linux-aarch64-3.7/khmer/_khmer.cpython-37m-aarch64-linux-gnu.so -fopenmp skipping 'khmer/_oxli/utils.cpp' Cython extension (up-to-date) building 'khmer._oxli.utils' extension creating build/temp.linux-aarch64-3.7/khmer creating build/temp.linux-aarch64-3.7/khmer/_oxli aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c khmer/_oxli/utils.cpp -o build/temp.linux-aarch64-3.7/khmer/_oxli/utils.o -O3 -std=c++11 -pedantic -fopenmp creating build/lib.linux-aarch64-3.7/khmer/_oxli aarch64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-3.7/khmer/_oxli/utils.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_utils.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_subsetpartition.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_smallcounttable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_smallcountgraph.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_readparsers.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_readaligner.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_nodetable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_nodegraph.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_khmer.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hllcounter.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashtable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashset.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashgraph.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_graphlabels.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_counttable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_countgraph.o build/temp.linux-aarch64-3.7/src/oxli/read_parsers.o build/temp.linux-aarch64-3.7/src/oxli/kmer_hash.o build/temp.linux-aarch64-3.7/src/oxli/hashtable.o build/temp.linux-aarch64-3.7/src/oxli/hashgraph.o build/temp.linux-aarch64-3.7/src/oxli/labelhash.o build/temp.linux-aarch64-3.7/src/oxli/subset.o build/temp.linux-aarch64-3.7/src/oxli/read_aligner.o build/temp.linux-aarch64-3.7/src/oxli/hllcounter.o build/temp.linux-aarch64-3.7/src/oxli/traversal.o build/temp.linux-aarch64-3.7/src/oxli/kmer_filters.o build/temp.linux-aarch64-3.7/src/oxli/assembler.o build/temp.linux-aarch64-3.7/src/oxli/alphabets.o build/temp.linux-aarch64-3.7/src/oxli/storage.o build/temp.linux-aarch64-3.7/third-party/smhasher/MurmurHash3.o -lz -lbz2 -o build/lib.linux-aarch64-3.7/khmer/_oxli/utils.cpython-37m-aarch64-linux-gnu.so -fopenmp skipping 'khmer/_oxli/parsing.cpp' Cython extension (up-to-date) building 'khmer._oxli.parsing' extension aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c khmer/_oxli/parsing.cpp -o build/temp.linux-aarch64-3.7/khmer/_oxli/parsing.o -O3 -std=c++11 -pedantic -fopenmp khmer/_oxli/parsing.cpp: In function 'bool __pyx_f_5khmer_5_oxli_7parsing_sanitize_sequence(std::__cxx11::string&, std::__cxx11::string&, bool)': khmer/_oxli/parsing.cpp:5590:33: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { ~~~~~~~~~~^~~~~~~~~~~ aarch64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-3.7/khmer/_oxli/parsing.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_utils.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_subsetpartition.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_smallcounttable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_smallcountgraph.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_readparsers.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_readaligner.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_nodetable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_nodegraph.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_khmer.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hllcounter.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashtable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashset.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashgraph.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_graphlabels.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_counttable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_countgraph.o build/temp.linux-aarch64-3.7/src/oxli/read_parsers.o build/temp.linux-aarch64-3.7/src/oxli/kmer_hash.o build/temp.linux-aarch64-3.7/src/oxli/hashtable.o build/temp.linux-aarch64-3.7/src/oxli/hashgraph.o build/temp.linux-aarch64-3.7/src/oxli/labelhash.o build/temp.linux-aarch64-3.7/src/oxli/subset.o build/temp.linux-aarch64-3.7/src/oxli/read_aligner.o build/temp.linux-aarch64-3.7/src/oxli/hllcounter.o build/temp.linux-aarch64-3.7/src/oxli/traversal.o build/temp.linux-aarch64-3.7/src/oxli/kmer_filters.o build/temp.linux-aarch64-3.7/src/oxli/assembler.o build/temp.linux-aarch64-3.7/src/oxli/alphabets.o build/temp.linux-aarch64-3.7/src/oxli/storage.o build/temp.linux-aarch64-3.7/third-party/smhasher/MurmurHash3.o -lz -lbz2 -o build/lib.linux-aarch64-3.7/khmer/_oxli/parsing.cpython-37m-aarch64-linux-gnu.so -fopenmp skipping 'khmer/_oxli/hashing.cpp' Cython extension (up-to-date) building 'khmer._oxli.hashing' extension aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c khmer/_oxli/hashing.cpp -o build/temp.linux-aarch64-3.7/khmer/_oxli/hashing.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-3.7/khmer/_oxli/hashing.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_utils.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_subsetpartition.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_smallcounttable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_smallcountgraph.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_readparsers.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_readaligner.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_nodetable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_nodegraph.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_khmer.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hllcounter.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashtable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashset.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashgraph.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_graphlabels.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_counttable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_countgraph.o build/temp.linux-aarch64-3.7/src/oxli/read_parsers.o build/temp.linux-aarch64-3.7/src/oxli/kmer_hash.o build/temp.linux-aarch64-3.7/src/oxli/hashtable.o build/temp.linux-aarch64-3.7/src/oxli/hashgraph.o build/temp.linux-aarch64-3.7/src/oxli/labelhash.o build/temp.linux-aarch64-3.7/src/oxli/subset.o build/temp.linux-aarch64-3.7/src/oxli/read_aligner.o build/temp.linux-aarch64-3.7/src/oxli/hllcounter.o build/temp.linux-aarch64-3.7/src/oxli/traversal.o build/temp.linux-aarch64-3.7/src/oxli/kmer_filters.o build/temp.linux-aarch64-3.7/src/oxli/assembler.o build/temp.linux-aarch64-3.7/src/oxli/alphabets.o build/temp.linux-aarch64-3.7/src/oxli/storage.o build/temp.linux-aarch64-3.7/third-party/smhasher/MurmurHash3.o -lz -lbz2 -o build/lib.linux-aarch64-3.7/khmer/_oxli/hashing.cpython-37m-aarch64-linux-gnu.so -fopenmp skipping 'khmer/_oxli/graphs.cpp' Cython extension (up-to-date) building 'khmer._oxli.graphs' extension aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c khmer/_oxli/graphs.cpp -o build/temp.linux-aarch64-3.7/khmer/_oxli/graphs.o -O3 -std=c++11 -pedantic -fopenmp In file included from include/khmer/_cpy_khmer.hh:49, from khmer/_oxli/graphs.cpp:643: include/khmer/_cpy_utils.hh:17: warning: "PyInt_Check" redefined #define PyInt_Check(arg) PyLong_Check(arg) khmer/_oxli/graphs.cpp:536: note: this is the location of the previous definition #define PyInt_Check(op) PyLong_Check(op) In file included from include/khmer/_cpy_khmer.hh:49, from khmer/_oxli/graphs.cpp:643: include/khmer/_cpy_utils.hh:18: warning: "PyInt_AsLong" redefined #define PyInt_AsLong(arg) PyLong_AsLong(arg) khmer/_oxli/graphs.cpp:543: note: this is the location of the previous definition #define PyInt_AsLong PyLong_AsLong In file included from include/khmer/_cpy_khmer.hh:49, from khmer/_oxli/graphs.cpp:643: include/khmer/_cpy_utils.hh:19: warning: "PyInt_FromLong" redefined #define PyInt_FromLong(arg) PyLong_FromLong(arg) khmer/_oxli/graphs.cpp:540: note: this is the location of the previous definition #define PyInt_FromLong PyLong_FromLong aarch64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-3.7/khmer/_oxli/graphs.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_utils.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_subsetpartition.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_smallcounttable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_smallcountgraph.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_readparsers.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_readaligner.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_nodetable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_nodegraph.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_khmer.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hllcounter.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashtable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashset.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashgraph.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_graphlabels.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_counttable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_countgraph.o build/temp.linux-aarch64-3.7/src/oxli/read_parsers.o build/temp.linux-aarch64-3.7/src/oxli/kmer_hash.o build/temp.linux-aarch64-3.7/src/oxli/hashtable.o build/temp.linux-aarch64-3.7/src/oxli/hashgraph.o build/temp.linux-aarch64-3.7/src/oxli/labelhash.o build/temp.linux-aarch64-3.7/src/oxli/subset.o build/temp.linux-aarch64-3.7/src/oxli/read_aligner.o build/temp.linux-aarch64-3.7/src/oxli/hllcounter.o build/temp.linux-aarch64-3.7/src/oxli/traversal.o build/temp.linux-aarch64-3.7/src/oxli/kmer_filters.o build/temp.linux-aarch64-3.7/src/oxli/assembler.o build/temp.linux-aarch64-3.7/src/oxli/alphabets.o build/temp.linux-aarch64-3.7/src/oxli/storage.o build/temp.linux-aarch64-3.7/third-party/smhasher/MurmurHash3.o -lz -lbz2 -o build/lib.linux-aarch64-3.7/khmer/_oxli/graphs.cpython-37m-aarch64-linux-gnu.so -fopenmp skipping 'khmer/_oxli/assembly.cpp' Cython extension (up-to-date) building 'khmer._oxli.assembly' extension aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c khmer/_oxli/assembly.cpp -o build/temp.linux-aarch64-3.7/khmer/_oxli/assembly.o -O3 -std=c++11 -pedantic -fopenmp In file included from include/khmer/_cpy_khmer.hh:49, from khmer/_oxli/assembly.cpp:643: include/khmer/_cpy_utils.hh:17: warning: "PyInt_Check" redefined #define PyInt_Check(arg) PyLong_Check(arg) khmer/_oxli/assembly.cpp:536: note: this is the location of the previous definition #define PyInt_Check(op) PyLong_Check(op) In file included from include/khmer/_cpy_khmer.hh:49, from khmer/_oxli/assembly.cpp:643: include/khmer/_cpy_utils.hh:18: warning: "PyInt_AsLong" redefined #define PyInt_AsLong(arg) PyLong_AsLong(arg) khmer/_oxli/assembly.cpp:543: note: this is the location of the previous definition #define PyInt_AsLong PyLong_AsLong In file included from include/khmer/_cpy_khmer.hh:49, from khmer/_oxli/assembly.cpp:643: include/khmer/_cpy_utils.hh:19: warning: "PyInt_FromLong" redefined #define PyInt_FromLong(arg) PyLong_FromLong(arg) khmer/_oxli/assembly.cpp:540: note: this is the location of the previous definition #define PyInt_FromLong PyLong_FromLong aarch64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-3.7/khmer/_oxli/assembly.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_utils.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_subsetpartition.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_smallcounttable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_smallcountgraph.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_readparsers.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_readaligner.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_nodetable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_nodegraph.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_khmer.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hllcounter.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashtable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashset.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_hashgraph.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_graphlabels.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_counttable.o build/temp.linux-aarch64-3.7/src/khmer/_cpy_countgraph.o build/temp.linux-aarch64-3.7/src/oxli/read_parsers.o build/temp.linux-aarch64-3.7/src/oxli/kmer_hash.o build/temp.linux-aarch64-3.7/src/oxli/hashtable.o build/temp.linux-aarch64-3.7/src/oxli/hashgraph.o build/temp.linux-aarch64-3.7/src/oxli/labelhash.o build/temp.linux-aarch64-3.7/src/oxli/subset.o build/temp.linux-aarch64-3.7/src/oxli/read_aligner.o build/temp.linux-aarch64-3.7/src/oxli/hllcounter.o build/temp.linux-aarch64-3.7/src/oxli/traversal.o build/temp.linux-aarch64-3.7/src/oxli/kmer_filters.o build/temp.linux-aarch64-3.7/src/oxli/assembler.o build/temp.linux-aarch64-3.7/src/oxli/alphabets.o build/temp.linux-aarch64-3.7/src/oxli/storage.o build/temp.linux-aarch64-3.7/third-party/smhasher/MurmurHash3.o -lz -lbz2 -o build/lib.linux-aarch64-3.7/khmer/_oxli/assembly.cpython-37m-aarch64-linux-gnu.so -fopenmp copying build/lib.linux-aarch64-3.7/khmer/_khmer.cpython-37m-aarch64-linux-gnu.so -> khmer copying build/lib.linux-aarch64-3.7/khmer/_oxli/utils.cpython-37m-aarch64-linux-gnu.so -> khmer/_oxli copying build/lib.linux-aarch64-3.7/khmer/_oxli/parsing.cpython-37m-aarch64-linux-gnu.so -> khmer/_oxli copying build/lib.linux-aarch64-3.7/khmer/_oxli/hashing.cpython-37m-aarch64-linux-gnu.so -> khmer/_oxli copying build/lib.linux-aarch64-3.7/khmer/_oxli/graphs.cpython-37m-aarch64-linux-gnu.so -> khmer/_oxli copying build/lib.linux-aarch64-3.7/khmer/_oxli/assembly.cpython-37m-aarch64-linux-gnu.so -> khmer/_oxli Creating /build/khmer-2.1.2+dfsg/fakehome/.local/lib/python3.7/site-packages/khmer.egg-link (link to .) Adding khmer 2.1.2 to easy-install.pth file Installing extract-paired-reads.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing unique-kmers.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing trim-low-abund.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing split-paired-reads.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing sample-reads-randomly.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing readstats.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing partition-graph.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing normalize-by-median.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing merge-partitions.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing make-initial-stoptags.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing load-into-counting.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing load-graph.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing interleave-reads.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing find-knots.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing filter-stoptags.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing filter-abund.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing filter-abund-single.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing fastq-to-fasta.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing extract-partitions.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing extract-long-sequences.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing do-partition.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing count-median.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing annotate-partitions.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing abundance-dist.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installing abundance-dist-single.py script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Installed /build/khmer-2.1.2+dfsg Processing dependencies for khmer==2.1.2 Searching for screed==1.0 Best match: screed 1.0 Adding screed 1.0 to easy-install.pth file Installing screed script to /build/khmer-2.1.2+dfsg/fakehome/.local/bin Using /usr/lib/python3/dist-packages Searching for bz2file==0.98 Best match: bz2file 0.98 Adding bz2file 0.98 to easy-install.pth file Using /usr/lib/python3/dist-packages Searching for Cython==0.29.2 Best match: Cython 0.29.2 Adding Cython 0.29.2 to easy-install.pth file Using /usr/lib/python3/dist-packages Finished processing dependencies for khmer==2.1.2 running build_sphinx Running Sphinx v1.8.4 making output directory... building [mo]: targets for 0 po files that are out of date building [html]: targets for 41 source files that are out of date updating environment: 41 added, 0 changed, 0 removed reading sources... 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[100%] user/scripts looking for now-outdated files... none found pickling environment... done checking consistency... /build/khmer-2.1.2+dfsg/doc/dev/hackathon.rst: WARNING: document isn't included in any toctree /build/khmer-2.1.2+dfsg/doc/dev/python-api.rst: WARNING: document isn't included in any toctree done preparing documents... done writing output... [ 2%] LICENSE writing output... [ 4%] citations writing output... [ 7%] contributors writing output... [ 9%] dev/CODE_OF_CONDUCT writing output... [ 12%] dev/a-quick-guide-to-testing writing output... [ 14%] dev/binary-file-formats writing output... [ 17%] dev/codebase-guide writing output... [ 19%] dev/development writing output... [ 21%] dev/for-khmer-developers writing output... [ 24%] dev/getting-started writing output... [ 26%] dev/guidelines-continued-dev writing output... [ 29%] dev/hackathon writing output... [ 31%] dev/index writing output... [ 34%] dev/python-api writing output... [ 36%] dev/release writing output... 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[100%] user/scripts /build/khmer-2.1.2+dfsg/doc/user/choosing-table-sizes.rst:59: WARNING: unknown option: load-into-counting.py -N /build/khmer-2.1.2+dfsg/doc/user/choosing-table-sizes.rst:59: WARNING: unknown option: load-into-counting.py --n_tables /build/khmer-2.1.2+dfsg/doc/user/choosing-table-sizes.rst:59: WARNING: unknown option: load-into-counting.py -x /build/khmer-2.1.2+dfsg/doc/user/choosing-table-sizes.rst:59: WARNING: unknown option: load-into-counting.py --max-tablesize /build/khmer-2.1.2+dfsg/doc/user/scripts.rst:79: WARNING: unknown option: -x /build/khmer-2.1.2+dfsg/doc/user/scripts.rst:79: WARNING: unknown option: -N /build/khmer-2.1.2+dfsg/doc/user/scripts.rst:87: WARNING: unknown option: -x /build/khmer-2.1.2+dfsg/doc/user/scripts.rst:87: WARNING: unknown option: -N generating indices... genindex writing additional pages... search copying images... [ 50%] user/partitioning-workflow.png copying images... [100%] user/artifact-removal.png copying static files... done copying extra files... done dumping search index in English (code: en) ... done dumping object inventory... done build succeeded, 10 warnings. The HTML pages are in build/sphinx/html. asciidoctor --backend manpage -a reproducible debian/khmer.1.adoc cd src/oxli && /usr/bin/make clean all make[2]: Entering directory '/build/khmer-2.1.2+dfsg/src/oxli' rm -f *.o *.a *.so* oxli.pc g++ -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fPIC -Wall -Wstrict-null-sentinel -std=c++11 -I ../../include/ -I ../../third-party/seqan/core/include/ -I ../../third-party/smhasher/ -Wdate-time -D_FORTIFY_SOURCE=2 -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -O3 -fPIC -Wall -fopenmp -DVERSION= -DNO_UNIQUE_RC=0 -Wl,-z,relro -Wl,-z,now -lz -lbz2 -c -o hashtable.o hashtable.cc hashtable.cc: In instantiation of 'void oxli::Hashtable::consume_seqfile(oxli::read_parsers::ReadParserPtr&, unsigned int&, long long unsigned int&) [with SeqIO = oxli::read_parsers::FastxReader; oxli::read_parsers::ReadParserPtr = std::unique_ptr >]': hashtable.cc:512:1: required from here hashtable.cc:103:11: warning: catching polymorphic type 'struct oxli::read_parsers::NoMoreReadsAvailable' by value [-Wcatch-value=] } catch (NoMoreReadsAvailable) { ^~~~~ hashtable.cc: In instantiation of 'void oxli::Hashtable::consume_seqfile_banding(oxli::read_parsers::ReadParserPtr&, unsigned int, unsigned int, unsigned int&, long long unsigned int&) [with SeqIO = oxli::read_parsers::FastxReader; oxli::read_parsers::ReadParserPtr = std::unique_ptr >]': hashtable.cc:529:1: required from here hashtable.cc:133:11: warning: catching polymorphic type 'struct oxli::read_parsers::NoMoreReadsAvailable' by value [-Wcatch-value=] } catch (NoMoreReadsAvailable) { ^~~~~ g++ -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fPIC -Wall -Wstrict-null-sentinel -std=c++11 -I ../../include/ -I ../../third-party/seqan/core/include/ -I ../../third-party/smhasher/ -Wdate-time -D_FORTIFY_SOURCE=2 -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -O3 -fPIC -Wall -fopenmp -DVERSION= -DNO_UNIQUE_RC=0 -Wl,-z,relro -Wl,-z,now -lz -lbz2 -c -o hashgraph.o hashgraph.cc g++ -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fPIC -Wall -Wstrict-null-sentinel -std=c++11 -I ../../include/ -I ../../third-party/seqan/core/include/ -I ../../third-party/smhasher/ -Wdate-time -D_FORTIFY_SOURCE=2 -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -O3 -fPIC -Wall -fopenmp -DVERSION= -DNO_UNIQUE_RC=0 -Wl,-z,relro -Wl,-z,now -lz -lbz2 -c -o hllcounter.o hllcounter.cc hllcounter.cc: In instantiation of 'void oxli::HLLCounter::consume_seqfile(oxli::read_parsers::ReadParserPtr&, bool, unsigned int&, long long unsigned int&) [with SeqIO = oxli::read_parsers::FastxReader; oxli::read_parsers::ReadParserPtr = std::unique_ptr >]': hllcounter.cc:524:1: required from here hllcounter.cc:428:19: warning: catching polymorphic type 'struct oxli::read_parsers::NoMoreReadsAvailable' by value [-Wcatch-value=] } catch (read_parsers::NoMoreReadsAvailable) { ^~~~~ g++ -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fPIC -Wall -Wstrict-null-sentinel -std=c++11 -I ../../include/ -I ../../third-party/seqan/core/include/ -I ../../third-party/smhasher/ -Wdate-time -D_FORTIFY_SOURCE=2 -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -O3 -fPIC -Wall -fopenmp -DVERSION= -DNO_UNIQUE_RC=0 -Wl,-z,relro -Wl,-z,now -lz -lbz2 -c -o kmer_hash.o kmer_hash.cc g++ -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fPIC -Wall -Wstrict-null-sentinel -std=c++11 -I ../../include/ -I ../../third-party/seqan/core/include/ -I ../../third-party/smhasher/ -Wdate-time -D_FORTIFY_SOURCE=2 -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -O3 -fPIC -Wall -fopenmp -DVERSION= -DNO_UNIQUE_RC=0 -Wl,-z,relro -Wl,-z,now -lz -lbz2 -c -o labelhash.o labelhash.cc g++ -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fPIC -Wall -Wstrict-null-sentinel -std=c++11 -I ../../include/ -I ../../third-party/seqan/core/include/ -I ../../third-party/smhasher/ -Wdate-time -D_FORTIFY_SOURCE=2 -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -O3 -fPIC -Wall -fopenmp -DVERSION= -DNO_UNIQUE_RC=0 -Wl,-z,relro -Wl,-z,now -lz -lbz2 -c -o traversal.o traversal.cc In file included from traversal.cc:39: traversal.cc: In instantiation of 'oxli::NodeGatherer::NodeGatherer(const oxli::Hashgraph*, oxli::KmerFilterList) [with bool direction = false; oxli::KmerFilterList = std::__cxx11::list >]': traversal.cc:203:31: required from here ../../include/oxli/traversal.hh:79:23: warning: 'oxli::NodeGatherer::graph' will be initialized after [-Wreorder] const Hashgraph * graph; ^~~~~ ../../include/oxli/traversal.hh:76:20: warning: 'oxli::KmerFilterList oxli::NodeGatherer::filters' [-Wreorder] KmerFilterList filters; ^~~~~~~ traversal.cc:53:1: warning: when initialized here [-Wreorder] NodeGatherer::NodeGatherer(const Hashgraph * ht, ^~~~~~~~~~~~~~~~~~~~~~~ In file included from traversal.cc:39: traversal.cc: In instantiation of 'oxli::NodeGatherer::NodeGatherer(const oxli::Hashgraph*, oxli::KmerFilterList) [with bool direction = true; oxli::KmerFilterList = std::__cxx11::list >]': traversal.cc:203:31: required from here ../../include/oxli/traversal.hh:79:23: warning: 'oxli::NodeGatherer::graph' will be initialized after [-Wreorder] const Hashgraph * graph; ^~~~~ ../../include/oxli/traversal.hh:76:20: warning: 'oxli::KmerFilterList oxli::NodeGatherer::filters' [-Wreorder] KmerFilterList filters; ^~~~~~~ traversal.cc:53:1: warning: when initialized here [-Wreorder] NodeGatherer::NodeGatherer(const Hashgraph * ht, ^~~~~~~~~~~~~~~~~~~~~~~ g++ -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fPIC -Wall -Wstrict-null-sentinel -std=c++11 -I ../../include/ -I ../../third-party/seqan/core/include/ -I ../../third-party/smhasher/ -Wdate-time -D_FORTIFY_SOURCE=2 -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -O3 -fPIC -Wall -fopenmp -DVERSION= -DNO_UNIQUE_RC=0 -Wl,-z,relro -Wl,-z,now -lz -lbz2 -c -o read_aligner.o read_aligner.cc g++ -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fPIC -Wall -Wstrict-null-sentinel -std=c++11 -I ../../include/ -I ../../third-party/seqan/core/include/ -I ../../third-party/smhasher/ -Wdate-time -D_FORTIFY_SOURCE=2 -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -O3 -fPIC -Wall -fopenmp -DVERSION= -DNO_UNIQUE_RC=0 -Wl,-z,relro -Wl,-z,now -lz -lbz2 -c -o read_parsers.o read_parsers.cc In file included from ../../third-party/seqan/core/include/seqan/basic.h:62, from ../../third-party/seqan/core/include/seqan/seq_io.h:44, from read_parsers.cc:39: ../../third-party/seqan/core/include/seqan/basic/test_system.h:92:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr instance; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from ../../third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from ../../third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from ../../third-party/seqan/core/include/seqan/basic.h:52, from ../../third-party/seqan/core/include/seqan/seq_io.h:44, from read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ../../third-party/seqan/core/include/seqan/seq_io.h:64, from read_parsers.cc:39: ../../third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:105:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > _gzStream; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from ../../third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from ../../third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from ../../third-party/seqan/core/include/seqan/basic.h:52, from ../../third-party/seqan/core/include/seqan/seq_io.h:44, from read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ../../third-party/seqan/core/include/seqan/seq_io.h:64, from read_parsers.cc:39: ../../third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:108:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > _bz2Stream; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from ../../third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from ../../third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from ../../third-party/seqan/core/include/seqan/basic.h:52, from ../../third-party/seqan/core/include/seqan/seq_io.h:44, from read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ../../third-party/seqan/core/include/seqan/seq_io.h:64, from read_parsers.cc:39: ../../third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:110:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > > _mmapString; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from ../../third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from ../../third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from ../../third-party/seqan/core/include/seqan/basic.h:52, from ../../third-party/seqan/core/include/seqan/seq_io.h:44, from read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ../../third-party/seqan/core/include/seqan/seq_io.h:64, from read_parsers.cc:39: ../../third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:111:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr _plainStream; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from ../../third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from ../../third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from ../../third-party/seqan/core/include/seqan/basic.h:52, from ../../third-party/seqan/core/include/seqan/seq_io.h:44, from read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ../../third-party/seqan/core/include/seqan/seq_io.h:64, from read_parsers.cc:39: ../../third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:116:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr, SinglePass<> > > _gzReader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from ../../third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from ../../third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from ../../third-party/seqan/core/include/seqan/basic.h:52, from ../../third-party/seqan/core/include/seqan/seq_io.h:44, from read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ../../third-party/seqan/core/include/seqan/seq_io.h:64, from read_parsers.cc:39: ../../third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:119:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr, SinglePass<> > > _bz2Reader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from ../../third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from ../../third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from ../../third-party/seqan/core/include/seqan/basic.h:52, from ../../third-party/seqan/core/include/seqan/seq_io.h:44, from read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ../../third-party/seqan/core/include/seqan/seq_io.h:64, from read_parsers.cc:39: ../../third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:121:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr >, SinglePass > > _mmapReaderSinglePass; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from ../../third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from ../../third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from ../../third-party/seqan/core/include/seqan/basic.h:52, from ../../third-party/seqan/core/include/seqan/seq_io.h:44, from read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ../../third-party/seqan/core/include/seqan/seq_io.h:64, from read_parsers.cc:39: ../../third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:122:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr >, DoublePass > > _mmapReaderDoublePass; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from ../../third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from ../../third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from ../../third-party/seqan/core/include/seqan/basic.h:52, from ../../third-party/seqan/core/include/seqan/seq_io.h:44, from read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ../../third-party/seqan/core/include/seqan/seq_io.h:64, from read_parsers.cc:39: ../../third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:123:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > > _istreamReader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from ../../third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from ../../third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from ../../third-party/seqan/core/include/seqan/basic.h:52, from ../../third-party/seqan/core/include/seqan/seq_io.h:44, from read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ../../third-party/seqan/core/include/seqan/seq_io.h:64, from read_parsers.cc:39: ../../third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:124:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > > _ifstreamReader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from ../../third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from ../../third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from ../../third-party/seqan/core/include/seqan/basic.h:52, from ../../third-party/seqan/core/include/seqan/seq_io.h:44, from read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ../../third-party/seqan/core/include/seqan/align.h:116, from ../../third-party/seqan/core/include/seqan/store.h:38, from ../../third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from ../../third-party/seqan/core/include/seqan/seq_io.h:83, from read_parsers.cc:39: ../../third-party/seqan/core/include/seqan/align/dp_cell_affine.h: In member function 'seqan::DPCell_ >& seqan::DPCell_ >::operator=(const seqan::DPCell_ >&)': ../../third-party/seqan/core/include/seqan/align/dp_cell_affine.h:84:9: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (this != &other) ^~ ../../third-party/seqan/core/include/seqan/align/dp_cell_affine.h:86:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' _horizontalScore = other._horizontalScore; ^~~~~~~~~~~~~~~~ In file included from ../../third-party/seqan/core/include/seqan/align.h:166, from ../../third-party/seqan/core/include/seqan/store.h:38, from ../../third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from ../../third-party/seqan/core/include/seqan/seq_io.h:83, from read_parsers.cc:39: ../../third-party/seqan/core/include/seqan/align/global_alignment_myers_impl.h: In function 'int seqan::_globalAlignmentScore(const seqan::String&, const seqan::String&, const MyersBitVector&)': ../../third-party/seqan/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (length(seqH) < length(seqV)) ^~ ../../third-party/seqan/core/include/seqan/align/global_alignment_myers_impl.h:74:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; ^~~~~ In file included from ../../third-party/seqan/core/include/seqan/align.h:174, from ../../third-party/seqan/core/include/seqan/store.h:38, from ../../third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from ../../third-party/seqan/core/include/seqan/seq_io.h:83, from read_parsers.cc:39: ../../third-party/seqan/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function 'seqan::Pair > seqan::_alignBandedSmithWatermanTrace(seqan::LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)': ../../third-party/seqan/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if ((actualCol == 0) || (actualRow == 0)) ^~ ../../third-party/seqan/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); ^~ In file included from ../../third-party/seqan/core/include/seqan/bam_io.h:107, from ../../third-party/seqan/core/include/seqan/store.h:41, from ../../third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from ../../third-party/seqan/core/include/seqan/seq_io.h:83, from read_parsers.cc:39: ../../third-party/seqan/core/include/seqan/bam_io/bam_stream.h: At global scope: ../../third-party/seqan/core/include/seqan/bam_io/bam_stream.h:180:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr _writer; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from ../../third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from ../../third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from ../../third-party/seqan/core/include/seqan/basic.h:52, from ../../third-party/seqan/core/include/seqan/seq_io.h:44, from read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ../../third-party/seqan/core/include/seqan/bam_io.h:107, from ../../third-party/seqan/core/include/seqan/store.h:41, from ../../third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from ../../third-party/seqan/core/include/seqan/seq_io.h:83, from read_parsers.cc:39: ../../third-party/seqan/core/include/seqan/bam_io/bam_stream.h:182:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr _reader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from ../../third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from ../../third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from ../../third-party/seqan/core/include/seqan/basic.h:52, from ../../third-party/seqan/core/include/seqan/seq_io.h:44, from read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from ../../third-party/seqan/core/include/seqan/store.h:61, from ../../third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from ../../third-party/seqan/core/include/seqan/seq_io.h:83, from read_parsers.cc:39: ../../third-party/seqan/core/include/seqan/store/store_all.h: In function 'void seqan::convertMatchesToGlobalAlignment(seqan::FragmentStore&, const TScore&, const TShrinkMatches&)': ../../third-party/seqan/core/include/seqan/store/store_all.h:1733:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (alignQualityStoreLengthPre == 0u) ^~ ../../third-party/seqan/core/include/seqan/store/store_all.h:1737:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' sortAlignedReads(store.alignedReadStore, SortBeginPos()); ^~~~~~~~~~~~~~~~ g++ -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fPIC -Wall -Wstrict-null-sentinel -std=c++11 -I ../../include/ -I ../../third-party/seqan/core/include/ -I ../../third-party/smhasher/ -Wdate-time -D_FORTIFY_SOURCE=2 -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -O3 -fPIC -Wall -fopenmp -DVERSION= -DNO_UNIQUE_RC=0 -Wl,-z,relro -Wl,-z,now -lz -lbz2 -c -o subset.o subset.cc subset.cc: In member function 'size_t oxli::SubsetPartition::output_partitioned_file(const string&, const string&, bool, oxli::CallbackFn, void*)': subset.cc:136:24: warning: unused variable 'ksize' [-Wunused-variable] const unsigned int ksize = _ht->ksize(); ^~~~~ g++ -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fPIC -Wall -Wstrict-null-sentinel -std=c++11 -I ../../include/ -I ../../third-party/seqan/core/include/ -I ../../third-party/smhasher/ -Wdate-time -D_FORTIFY_SOURCE=2 -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -O3 -fPIC -Wall -fopenmp -DVERSION= -DNO_UNIQUE_RC=0 -Wl,-z,relro -Wl,-z,now -lz -lbz2 -c -o kmer_filters.o kmer_filters.cc g++ -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fPIC -Wall -Wstrict-null-sentinel -std=c++11 -I ../../include/ -I ../../third-party/seqan/core/include/ -I ../../third-party/smhasher/ -Wdate-time -D_FORTIFY_SOURCE=2 -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -O3 -fPIC -Wall -fopenmp -DVERSION= -DNO_UNIQUE_RC=0 -Wl,-z,relro -Wl,-z,now -lz -lbz2 -c -o assembler.o assembler.cc In file included from assembler.cc:38: ../../include/oxli/assembler.hh: In constructor 'oxli::LinearAssembler::LinearAssembler(const oxli::Hashgraph*)': ../../include/oxli/assembler.hh:80:23: warning: 'oxli::LinearAssembler::graph' will be initialized after [-Wreorder] const Hashgraph * graph; ^~~~~ ../../include/oxli/assembler.hh:79:16: warning: 'oxli::WordLength oxli::LinearAssembler::_ksize' [-Wreorder] WordLength _ksize; ^~~~~~ assembler.cc:52:1: warning: when initialized here [-Wreorder] LinearAssembler::LinearAssembler(const Hashgraph * ht) : ^~~~~~~~~~~~~~~ assembler.cc: In destructor 'oxli::SimpleLabeledAssembler::~SimpleLabeledAssembler()': assembler.cc:189:18: warning: deleting object of polymorphic class type 'oxli::LinearAssembler' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] delete this->linear_asm; ^~~~~~~~~~ In file included from assembler.cc:38: ../../include/oxli/assembler.hh: In constructor 'oxli::JunctionCountAssembler::JunctionCountAssembler(oxli::Hashgraph*)': ../../include/oxli/assembler.hh:158:16: warning: 'oxli::JunctionCountAssembler::_ksize' will be initialized after [-Wreorder] WordLength _ksize; ^~~~~~ ../../include/oxli/assembler.hh:153:15: warning: 'oxli::Traverser oxli::JunctionCountAssembler::traverser' [-Wreorder] Traverser traverser; ^~~~~~~~~ assembler.cc:346:1: warning: when initialized here [-Wreorder] JunctionCountAssembler::JunctionCountAssembler(Hashgraph * ht) : ^~~~~~~~~~~~~~~~~~~~~~ In file included from assembler.cc:38: ../../include/oxli/assembler.hh:153:15: warning: 'oxli::JunctionCountAssembler::traverser' will be initialized after [-Wreorder] Traverser traverser; ^~~~~~~~~ ../../include/oxli/assembler.hh:151:21: warning: 'oxli::LinearAssembler oxli::JunctionCountAssembler::linear_asm' [-Wreorder] LinearAssembler linear_asm; ^~~~~~~~~~ assembler.cc:346:1: warning: when initialized here [-Wreorder] JunctionCountAssembler::JunctionCountAssembler(Hashgraph * ht) : ^~~~~~~~~~~~~~~~~~~~~~ g++ -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fPIC -Wall -Wstrict-null-sentinel -std=c++11 -I ../../include/ -I ../../third-party/seqan/core/include/ -I ../../third-party/smhasher/ -Wdate-time -D_FORTIFY_SOURCE=2 -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -O3 -fPIC -Wall -fopenmp -DVERSION= -DNO_UNIQUE_RC=0 -Wl,-z,relro -Wl,-z,now -lz -lbz2 -c -o alphabets.o alphabets.cc g++ -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fPIC -Wall -Wstrict-null-sentinel -std=c++11 -I ../../include/ -I ../../third-party/seqan/core/include/ -I ../../third-party/smhasher/ -Wdate-time -D_FORTIFY_SOURCE=2 -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -O3 -fPIC -Wall -fopenmp -DVERSION= -DNO_UNIQUE_RC=0 -c -o murmur3.o ../../third-party/smhasher/MurmurHash3.cc g++ -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fPIC -Wall -Wstrict-null-sentinel -std=c++11 -I ../../include/ -I ../../third-party/seqan/core/include/ -I ../../third-party/smhasher/ -Wdate-time -D_FORTIFY_SOURCE=2 -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -O3 -fPIC -Wall -fopenmp -DVERSION= -DNO_UNIQUE_RC=0 -Wl,-z,relro -Wl,-z,now -lz -lbz2 -c -o storage.o storage.cc g++ -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -fPIC -Wall -Wstrict-null-sentinel -std=c++11 -I ../../include/ -I ../../third-party/seqan/core/include/ -I ../../third-party/smhasher/ -Wdate-time -D_FORTIFY_SOURCE=2 -DSEQAN_HAS_ZLIB=1 -DSEQAN_HAS_BZIP2=1 -O3 -fPIC -Wall -fopenmp -DVERSION= -DNO_UNIQUE_RC=0 -Wl,-z,relro -Wl,-z,now -lz -lbz2 -Wl,-soname=liboxli.so.1 -shared -o liboxli.so.1 hashtable.o hashgraph.o hllcounter.o kmer_hash.o labelhash.o traversal.o read_aligner.o read_parsers.o subset.o kmer_filters.o assembler.o alphabets.o murmur3.o storage.o ln -sf liboxli.so.1 liboxli.so ar rcs liboxli.a hashtable.o hashgraph.o hllcounter.o kmer_hash.o labelhash.o traversal.o read_aligner.o read_parsers.o subset.o kmer_filters.o assembler.o alphabets.o murmur3.o storage.o ranlib liboxli.a sed -e 's,@prefix@,/usr/local,' -e 's,@VERSION@,,' oxli.pc.in >oxli.pc make[2]: Leaving directory '/build/khmer-2.1.2+dfsg/src/oxli' make[1]: Leaving directory '/build/khmer-2.1.2+dfsg' rm -f debian/khmer-common.debhelper.log debian/khmer.debhelper.log debian/liboxli-dev.debhelper.log debian/liboxli1.debhelper.log debian/rules override_dh_auto_test make[1]: Entering directory '/build/khmer-2.1.2+dfsg' dh_auto_install install -d /build/khmer-2.1.2\+dfsg/debian/tmp pybuild --install --test-pytest -i python{version} -p 3.7 --dest-dir /build/khmer-2.1.2\+dfsg/debian/tmp I: pybuild base:217: /usr/bin/python3 setup.py install --root /build/khmer-2.1.2+dfsg/debian/khmer '--install-scripts=/usr/lib/khmer/bin' running install running build running build_py running egg_info writing khmer.egg-info/PKG-INFO writing dependency_links to khmer.egg-info/dependency_links.txt writing requirements to khmer.egg-info/requires.txt writing top-level names to khmer.egg-info/top_level.txt reading manifest file 'khmer.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'ChangeLog' warning: no files found matching 'ez_setup.py' warning: no files found matching 'IDEAS' warning: no files found matching 'README.md' warning: no files found matching 'TODO' warning: no files found matching '.ycm_extra_conf.py' warning: no files found matching '*.hh' under directory 'lib' warning: no files found matching '*.cc' under directory 'lib' warning: no files found matching '[Mm]akefile*' under directory 'lib' warning: no files found matching 'get_version.py' under directory 'lib' warning: no files found matching '*.hh' under directory 'khmer' warning: no files found matching '*.1' under directory 'third-party' warning: no files found matching '*.xsl' under directory 'third-party' warning: no files found matching 'sample*' under directory 'third-party' warning: no files found matching 'words*' under directory 'third-party' warning: no files found matching '*.sh' under directory 'third-party' warning: no files found matching '*.c' under directory 'third-party' warning: no files found matching 'manual*' under directory 'third-party' warning: no files found matching '[Mm]akefile*' under directory 'third-party' warning: no files found matching '*.pl' under directory 'third-party' warning: no files found matching '*.dsp' under directory 'third-party' warning: no files found matching 'CHANGES' under directory 'third-party' warning: no files found matching '*.txt' under directory 'third-party' warning: no files found matching 'FAQ' under directory 'third-party' warning: no files found matching 'INDEX' under directory 'third-party' warning: no files found matching 'configure' under directory 'third-party' warning: no files found matching '*.xsl' under directory 'third-party' warning: no files found matching 'bzip.css' under directory 'third-party/bzip2' warning: no files found matching 'entities.xml' under directory 'third-party/bzip2' warning: no files found matching 'libbz2.def' under directory 'third-party/bzip2' warning: no files found matching 'LICENSE' under directory 'third-party/bzip2' warning: no files found matching 'third-party/zlib/zconf.h.in' warning: no files found matching 'third-party/zlib/zlib.pc.in' warning: no previously-included files found matching 'third-party/zlib/Makefile' warning: no previously-included files found matching 'third-party/zlib/zconf.h' warning: no files found matching 'README.txt' under directory 'scripts' warning: no previously-included files matching '*.orig' found anywhere in distribution warning: no previously-included files matching '*.pyc' found anywhere in distribution writing manifest file 'khmer.egg-info/SOURCES.txt' copying khmer/_oxli/assembly.cpp -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli copying khmer/_oxli/graphs.cpp -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli copying khmer/_oxli/hashing.cpp -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli copying khmer/_oxli/parsing.cpp -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli copying khmer/_oxli/utils.cpp -> /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli UPDATING /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_version.py set /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_version.py to '2.1.2' running build_ext building 'khmer._khmer' extension aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_utils.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_utils.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_subsetpartition.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_subsetpartition.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_smallcounttable.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcounttable.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_smallcountgraph.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcountgraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_readparsers.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_readparsers.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_readaligner.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_readaligner.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_nodetable.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodetable.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_nodegraph.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodegraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_khmer.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_khmer.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_hllcounter.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_hllcounter.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_hashtable.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashtable.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_hashset.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashset.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_hashgraph.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashgraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_graphlabels.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_graphlabels.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_counttable.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_counttable.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_countgraph.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_countgraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/read_parsers.cc -o build/temp.linux-arm64-3.7/src/oxli/read_parsers.o -O3 -std=c++11 -pedantic -fopenmp In file included from third-party/seqan/core/include/seqan/basic.h:62, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/basic/test_system.h:92:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr instance; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:105:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > _gzStream; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:108:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > _bz2Stream; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:110:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > > _mmapString; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:111:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr _plainStream; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:116:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr, SinglePass<> > > _gzReader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:119:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr, SinglePass<> > > _bz2Reader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:121:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr >, SinglePass > > _mmapReaderSinglePass; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:122:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr >, DoublePass > > _mmapReaderDoublePass; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:123:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > > _istreamReader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:124:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > > _ifstreamReader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/align.h:116, from third-party/seqan/core/include/seqan/store.h:38, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/align/dp_cell_affine.h: In member function 'seqan::DPCell_ >& seqan::DPCell_ >::operator=(const seqan::DPCell_ >&)': third-party/seqan/core/include/seqan/align/dp_cell_affine.h:84:9: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (this != &other) ^~ third-party/seqan/core/include/seqan/align/dp_cell_affine.h:86:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' _horizontalScore = other._horizontalScore; ^~~~~~~~~~~~~~~~ In file included from third-party/seqan/core/include/seqan/align.h:166, from third-party/seqan/core/include/seqan/store.h:38, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/align/global_alignment_myers_impl.h: In function 'int seqan::_globalAlignmentScore(const seqan::String&, const seqan::String&, const MyersBitVector&)': third-party/seqan/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (length(seqH) < length(seqV)) ^~ third-party/seqan/core/include/seqan/align/global_alignment_myers_impl.h:74:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; ^~~~~ In file included from third-party/seqan/core/include/seqan/align.h:174, from third-party/seqan/core/include/seqan/store.h:38, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function 'seqan::Pair > seqan::_alignBandedSmithWatermanTrace(seqan::LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)': third-party/seqan/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if ((actualCol == 0) || (actualRow == 0)) ^~ third-party/seqan/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); ^~ In file included from third-party/seqan/core/include/seqan/bam_io.h:107, from third-party/seqan/core/include/seqan/store.h:41, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/bam_io/bam_stream.h: At global scope: third-party/seqan/core/include/seqan/bam_io/bam_stream.h:180:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr _writer; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/bam_io.h:107, from third-party/seqan/core/include/seqan/store.h:41, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/bam_io/bam_stream.h:182:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr _reader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/store.h:61, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/store/store_all.h: In function 'void seqan::convertMatchesToGlobalAlignment(seqan::FragmentStore&, const TScore&, const TShrinkMatches&)': third-party/seqan/core/include/seqan/store/store_all.h:1733:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (alignQualityStoreLengthPre == 0u) ^~ third-party/seqan/core/include/seqan/store/store_all.h:1737:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' sortAlignedReads(store.alignedReadStore, SortBeginPos()); ^~~~~~~~~~~~~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/kmer_hash.cc -o build/temp.linux-arm64-3.7/src/oxli/kmer_hash.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/hashtable.cc -o build/temp.linux-arm64-3.7/src/oxli/hashtable.o -O3 -std=c++11 -pedantic -fopenmp src/oxli/hashtable.cc: In instantiation of 'void oxli::Hashtable::consume_seqfile(oxli::read_parsers::ReadParserPtr&, unsigned int&, long long unsigned int&) [with SeqIO = oxli::read_parsers::FastxReader; oxli::read_parsers::ReadParserPtr = std::unique_ptr >]': src/oxli/hashtable.cc:512:1: required from here src/oxli/hashtable.cc:103:11: warning: catching polymorphic type 'struct oxli::read_parsers::NoMoreReadsAvailable' by value [-Wcatch-value=] } catch (NoMoreReadsAvailable) { ^~~~~ src/oxli/hashtable.cc: In instantiation of 'void oxli::Hashtable::consume_seqfile_banding(oxli::read_parsers::ReadParserPtr&, unsigned int, unsigned int, unsigned int&, long long unsigned int&) [with SeqIO = oxli::read_parsers::FastxReader; oxli::read_parsers::ReadParserPtr = std::unique_ptr >]': src/oxli/hashtable.cc:529:1: required from here src/oxli/hashtable.cc:133:11: warning: catching polymorphic type 'struct oxli::read_parsers::NoMoreReadsAvailable' by value [-Wcatch-value=] } catch (NoMoreReadsAvailable) { ^~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/hashgraph.cc -o build/temp.linux-arm64-3.7/src/oxli/hashgraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/labelhash.cc -o build/temp.linux-arm64-3.7/src/oxli/labelhash.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/subset.cc -o build/temp.linux-arm64-3.7/src/oxli/subset.o -O3 -std=c++11 -pedantic -fopenmp src/oxli/subset.cc: In member function 'size_t oxli::SubsetPartition::output_partitioned_file(const string&, const string&, bool, oxli::CallbackFn, void*)': src/oxli/subset.cc:136:24: warning: unused variable 'ksize' [-Wunused-variable] const unsigned int ksize = _ht->ksize(); ^~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/read_aligner.cc -o build/temp.linux-arm64-3.7/src/oxli/read_aligner.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/hllcounter.cc -o build/temp.linux-arm64-3.7/src/oxli/hllcounter.o -O3 -std=c++11 -pedantic -fopenmp src/oxli/hllcounter.cc: In instantiation of 'void oxli::HLLCounter::consume_seqfile(oxli::read_parsers::ReadParserPtr&, bool, unsigned int&, long long unsigned int&) [with SeqIO = oxli::read_parsers::FastxReader; oxli::read_parsers::ReadParserPtr = std::unique_ptr >]': src/oxli/hllcounter.cc:524:1: required from here src/oxli/hllcounter.cc:428:19: warning: catching polymorphic type 'struct oxli::read_parsers::NoMoreReadsAvailable' by value [-Wcatch-value=] } catch (read_parsers::NoMoreReadsAvailable) { ^~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/traversal.cc -o build/temp.linux-arm64-3.7/src/oxli/traversal.o -O3 -std=c++11 -pedantic -fopenmp In file included from src/oxli/traversal.cc:39: src/oxli/traversal.cc: In instantiation of 'oxli::NodeGatherer::NodeGatherer(const oxli::Hashgraph*, oxli::KmerFilterList) [with bool direction = false; oxli::KmerFilterList = std::__cxx11::list >]': src/oxli/traversal.cc:203:31: required from here include/oxli/traversal.hh:79:23: warning: 'oxli::NodeGatherer::graph' will be initialized after [-Wreorder] const Hashgraph * graph; ^~~~~ include/oxli/traversal.hh:76:20: warning: 'oxli::KmerFilterList oxli::NodeGatherer::filters' [-Wreorder] KmerFilterList filters; ^~~~~~~ src/oxli/traversal.cc:53:1: warning: when initialized here [-Wreorder] NodeGatherer::NodeGatherer(const Hashgraph * ht, ^~~~~~~~~~~~~~~~~~~~~~~ In file included from src/oxli/traversal.cc:39: src/oxli/traversal.cc: In instantiation of 'oxli::NodeGatherer::NodeGatherer(const oxli::Hashgraph*, oxli::KmerFilterList) [with bool direction = true; oxli::KmerFilterList = std::__cxx11::list >]': src/oxli/traversal.cc:203:31: required from here include/oxli/traversal.hh:79:23: warning: 'oxli::NodeGatherer::graph' will be initialized after [-Wreorder] const Hashgraph * graph; ^~~~~ include/oxli/traversal.hh:76:20: warning: 'oxli::KmerFilterList oxli::NodeGatherer::filters' [-Wreorder] KmerFilterList filters; ^~~~~~~ src/oxli/traversal.cc:53:1: warning: when initialized here [-Wreorder] NodeGatherer::NodeGatherer(const Hashgraph * ht, ^~~~~~~~~~~~~~~~~~~~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/kmer_filters.cc -o build/temp.linux-arm64-3.7/src/oxli/kmer_filters.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/assembler.cc -o build/temp.linux-arm64-3.7/src/oxli/assembler.o -O3 -std=c++11 -pedantic -fopenmp In file included from src/oxli/assembler.cc:38: include/oxli/assembler.hh: In constructor 'oxli::LinearAssembler::LinearAssembler(const oxli::Hashgraph*)': include/oxli/assembler.hh:80:23: warning: 'oxli::LinearAssembler::graph' will be initialized after [-Wreorder] const Hashgraph * graph; ^~~~~ include/oxli/assembler.hh:79:16: warning: 'oxli::WordLength oxli::LinearAssembler::_ksize' [-Wreorder] WordLength _ksize; ^~~~~~ src/oxli/assembler.cc:52:1: warning: when initialized here [-Wreorder] LinearAssembler::LinearAssembler(const Hashgraph * ht) : ^~~~~~~~~~~~~~~ src/oxli/assembler.cc: In destructor 'oxli::SimpleLabeledAssembler::~SimpleLabeledAssembler()': src/oxli/assembler.cc:189:18: warning: deleting object of polymorphic class type 'oxli::LinearAssembler' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] delete this->linear_asm; ^~~~~~~~~~ In file included from src/oxli/assembler.cc:38: include/oxli/assembler.hh: In constructor 'oxli::JunctionCountAssembler::JunctionCountAssembler(oxli::Hashgraph*)': include/oxli/assembler.hh:158:16: warning: 'oxli::JunctionCountAssembler::_ksize' will be initialized after [-Wreorder] WordLength _ksize; ^~~~~~ include/oxli/assembler.hh:153:15: warning: 'oxli::Traverser oxli::JunctionCountAssembler::traverser' [-Wreorder] Traverser traverser; ^~~~~~~~~ src/oxli/assembler.cc:346:1: warning: when initialized here [-Wreorder] JunctionCountAssembler::JunctionCountAssembler(Hashgraph * ht) : ^~~~~~~~~~~~~~~~~~~~~~ In file included from src/oxli/assembler.cc:38: include/oxli/assembler.hh:153:15: warning: 'oxli::JunctionCountAssembler::traverser' will be initialized after [-Wreorder] Traverser traverser; ^~~~~~~~~ include/oxli/assembler.hh:151:21: warning: 'oxli::LinearAssembler oxli::JunctionCountAssembler::linear_asm' [-Wreorder] LinearAssembler linear_asm; ^~~~~~~~~~ src/oxli/assembler.cc:346:1: warning: when initialized here [-Wreorder] JunctionCountAssembler::JunctionCountAssembler(Hashgraph * ht) : ^~~~~~~~~~~~~~~~~~~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/alphabets.cc -o build/temp.linux-arm64-3.7/src/oxli/alphabets.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/storage.cc -o build/temp.linux-arm64-3.7/src/oxli/storage.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c third-party/smhasher/MurmurHash3.cc -o build/temp.linux-arm64-3.7/third-party/smhasher/MurmurHash3.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-arm64-3.7/src/khmer/_cpy_utils.o build/temp.linux-arm64-3.7/src/khmer/_cpy_subsetpartition.o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcounttable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcountgraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_readparsers.o build/temp.linux-arm64-3.7/src/khmer/_cpy_readaligner.o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodetable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodegraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_khmer.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hllcounter.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashtable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashset.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashgraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_graphlabels.o build/temp.linux-arm64-3.7/src/khmer/_cpy_counttable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_countgraph.o build/temp.linux-arm64-3.7/src/oxli/read_parsers.o build/temp.linux-arm64-3.7/src/oxli/kmer_hash.o build/temp.linux-arm64-3.7/src/oxli/hashtable.o build/temp.linux-arm64-3.7/src/oxli/hashgraph.o build/temp.linux-arm64-3.7/src/oxli/labelhash.o build/temp.linux-arm64-3.7/src/oxli/subset.o build/temp.linux-arm64-3.7/src/oxli/read_aligner.o build/temp.linux-arm64-3.7/src/oxli/hllcounter.o build/temp.linux-arm64-3.7/src/oxli/traversal.o build/temp.linux-arm64-3.7/src/oxli/kmer_filters.o build/temp.linux-arm64-3.7/src/oxli/assembler.o build/temp.linux-arm64-3.7/src/oxli/alphabets.o build/temp.linux-arm64-3.7/src/oxli/storage.o build/temp.linux-arm64-3.7/third-party/smhasher/MurmurHash3.o -lz -lbz2 -o /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_khmer.cpython-37m-aarch64-linux-gnu.so -fopenmp skipping 'khmer/_oxli/utils.cpp' Cython extension (up-to-date) skipping 'khmer/_oxli/parsing.cpp' Cython extension (up-to-date) skipping 'khmer/_oxli/hashing.cpp' Cython extension (up-to-date) skipping 'khmer/_oxli/graphs.cpp' Cython extension (up-to-date) skipping 'khmer/_oxli/assembly.cpp' Cython extension (up-to-date) running build_scripts running install_lib creating /build/khmer-2.1.2+dfsg/debian/khmer creating /build/khmer-2.1.2+dfsg/debian/khmer/usr creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7 creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/oxli/__init__.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/oxli/build_graph.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/oxli/functions.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/oxli/partition.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_khmer.cpython-37m-aarch64-linux-gnu.so -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_version.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/utils.cpp -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/parsing.cpp -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/hashing.cpp -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/graphs.cpp -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/assembly.cpp -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/assembly.cpython-37m-aarch64-linux-gnu.so -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/graphs.cpython-37m-aarch64-linux-gnu.so -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/hashing.cpython-37m-aarch64-linux-gnu.so -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/parsing.cpython-37m-aarch64-linux-gnu.so -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/utils.cpython-37m-aarch64-linux-gnu.so -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/utils.pyx -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/utils.pxd -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/traversal.pxd -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/parsing.pyx -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/parsing.pxd -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/oxli_types.pxd -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/hllcounter.pxd -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/hashing.pyx -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/hashing.pxd -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/graphs.pyx -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/graphs.pxd -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/assembly.pyx -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/assembly.pxd -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/__init__.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/valid-read-testing.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/unclean-reads.fastq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/truncated.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-transcript.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-sweep-reads.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-sweep-reads.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-sweep-contigs.fp -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-short.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-reads.fq.gz -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-reads.fq.bz2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-reads.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-overlap2.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-overlap1.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-output-partitions.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-multi.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-large.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-labels.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-graph5.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-graph2.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-graph.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-filter-abund-Ns.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-fastq-reads.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-fastq-reads.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-fastq-n-reads.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-error-reads.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-empty.fa.bz2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-empty.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-paired.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-paired.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-impaired.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-3.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-2.paired2.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-2.paired.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-2.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-2.fa.gz -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-2.fa.bz2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-2.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/single-read.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/single-read.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/simple-genome.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/simple-genome-reads.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/real-partition-tiny.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/real-partition-small.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/readaligner-k12.json -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/readaligner-default.json -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-31-c.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-b.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-a.odd.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-a.fq.gz -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-a.fq.bz2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-a.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-a.fa.part -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-a.fa.gz -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-a.fa.bz2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-a.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-a.even.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-X2.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired_one.base.dif.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired.malformat.fq.2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired.malformat.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired.fq.2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired.fq.1 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired.fa.2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired.fa.1 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-slash1.fq.2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-slash1.fq.1 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-slash1.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-mixed.fq.se -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-mixed.fq.pe -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-mixed.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-mixed.fa.se -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-mixed.fa.pe -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-mixed.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-mixed-witherror.fa.pe -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-mixed-broken.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-mixed-2.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken4.fq.2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken4.fq.1 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken3.fq.2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken3.fq.1 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken2.fq.2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken2.fq.1 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken.fq.paired_bad -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken.fq.badright -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken.fq.badleft -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken.fq.2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken.fq.1 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/old-style-format-w-comments.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/normC20k20.ct -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/multi-output.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/goodversion-k32.tagset -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/goodversion-k32.stoptags -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/goodversion-k12.ht.gz -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/goodversion-k12.ht -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/filter-test-B.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/filter-test-A.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/fakelump.fa.stoptags.txt -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/fakelump.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/empty-file.gz -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/empty-file.bz2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/empty-file -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/dn-test-some-paired-all-keep.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/dn-test-none-paired.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/dn-test-all-paired-all-keep.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/combine_parts_1.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/casava_18-pe.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/bogus.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/biglump-random-20-a.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/banding-reads.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/badversion-k32.tagset -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/badversion-k32.stoptags -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/badversion-k12.ht -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/badversion-k12.ct -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/all-A.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/README.rst -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/100-reads.fq.truncated.gz -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/100-reads.fq.truncated.bz2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/100-reads.fq.gz -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/100-reads.fq.bz2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/.gitignore -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__init__.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/graph_features.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_banding.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_countgraph.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_counting_single.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_counttable.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_cpython_hierarchy.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_cython_assembly.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_cython_parsing.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_filter_abund.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_functions.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_graph.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_hashset.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_hll.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_labelhash.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_lump.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_nibblestorage.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_nodegraph.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_normalize_by_median.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_oxli_functions.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_read_aligner.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_read_handling.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_sandbox_scripts.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_script_arguments.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_script_output.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_scripts.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_sequence_validation.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_streaming_io.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_subset_graph.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_tabletype.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_threaded_sequence_processor.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_version.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_read_parsers.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/khmer_tst_utils.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/__init__.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/kfile.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/khmer_args.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/khmer_logger.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/thread_utils.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/trimming.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/utils.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli/__init__.py to __init__.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli/build_graph.py to build_graph.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli/functions.py to functions.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli/partition.py to partition.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_version.py to _version.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli/__init__.py to __init__.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__init__.py to __init__.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/graph_features.py to graph_features.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_banding.py to test_banding.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_countgraph.py to test_countgraph.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_counting_single.py to test_counting_single.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_counttable.py to test_counttable.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_cpython_hierarchy.py to test_cpython_hierarchy.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_cython_assembly.py to test_cython_assembly.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_cython_parsing.py to test_cython_parsing.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_filter_abund.py to test_filter_abund.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_functions.py to test_functions.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_graph.py to test_graph.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_hashset.py to test_hashset.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_hll.py to test_hll.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_labelhash.py to test_labelhash.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_lump.py to test_lump.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_nibblestorage.py to test_nibblestorage.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_nodegraph.py to test_nodegraph.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_normalize_by_median.py to test_normalize_by_median.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_oxli_functions.py to test_oxli_functions.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_read_aligner.py to test_read_aligner.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_read_handling.py to test_read_handling.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_sandbox_scripts.py to test_sandbox_scripts.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_script_arguments.py to test_script_arguments.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_script_output.py to test_script_output.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_scripts.py to test_scripts.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_sequence_validation.py to test_sequence_validation.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_streaming_io.py to test_streaming_io.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_subset_graph.py to test_subset_graph.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_tabletype.py to test_tabletype.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_threaded_sequence_processor.py to test_threaded_sequence_processor.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_version.py to test_version.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_read_parsers.py to test_read_parsers.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/khmer_tst_utils.py to khmer_tst_utils.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/__init__.py to __init__.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/kfile.py to kfile.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/khmer_args.py to khmer_args.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/khmer_logger.py to khmer_logger.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/thread_utils.py to thread_utils.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/trimming.py to trimming.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/utils.py to utils.cpython-37.pyc running install_egg_info Copying khmer.egg-info to /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer-2.1.2.egg-info Skipping SOURCES.txt running install_scripts creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/abundance-dist-single.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/abundance-dist.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/annotate-partitions.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/count-median.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/do-partition.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/extract-long-sequences.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/extract-partitions.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/fastq-to-fasta.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/filter-abund-single.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/filter-abund.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/filter-stoptags.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/find-knots.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/interleave-reads.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/load-graph.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/load-into-counting.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/make-initial-stoptags.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/merge-partitions.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/normalize-by-median.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/partition-graph.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/readstats.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/sample-reads-randomly.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/split-paired-reads.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/trim-low-abund.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/unique-kmers.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/extract-paired-reads.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/abundance-dist-single.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/abundance-dist.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/annotate-partitions.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/count-median.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/do-partition.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/extract-long-sequences.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/extract-partitions.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/fastq-to-fasta.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/filter-abund-single.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/filter-abund.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/filter-stoptags.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/find-knots.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/interleave-reads.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/load-graph.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/load-into-counting.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/make-initial-stoptags.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/merge-partitions.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/normalize-by-median.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/partition-graph.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/readstats.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/sample-reads-randomly.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/split-paired-reads.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/trim-low-abund.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/unique-kmers.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/extract-paired-reads.py to 755 PYBUILD_SYSTEM=custom \ PYBUILD_TEST_ARGS="cd {dir}; export PATH={destdir}/usr/lib/khmer/bin:$PATH ; \ cd {build_dir}; export PYTHONPATH=$(pwd); {interpreter} -m pytest \ -m 'not known_failing and not jenkins and not huge and not noroot'\ -q" dh_auto_test pybuild --test --test-pytest -i python{version} -p 3.7 I: pybuild base:217: cd /build/khmer-2.1.2+dfsg; export PATH=/build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games ; cd /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build; export PYTHONPATH=/build/khmer-2.1.2+dfsg; python3.7 -m pytest -m 'not known_failing and not jenkins and not huge and not noroot' -q ============================= test session starts ============================== platform linux -- Python 3.7.3, pytest-3.10.1, py-1.7.0, pluggy-0.8.0 rootdir: /build/khmer-2.1.2+dfsg, inifile: pytest.ini collected 2730 items / 52 deselected khmer/tests/test_banding.py ............ [ 0%] khmer/tests/test_countgraph.py ......................................... [ 1%] .................................................. [ 3%] khmer/tests/test_counting_single.py ......................... [ 4%] khmer/tests/test_counttable.py .......... [ 5%] khmer/tests/test_cpython_hierarchy.py .... [ 5%] khmer/tests/test_cython_assembly.py .................................... [ 6%] ........................................................................ [ 9%] ........................................................................ [ 12%] ........................................................................ [ 14%] ........................................................................ [ 17%] ......... [ 17%] khmer/tests/test_cython_parsing.py ..................................... [ 19%] .... [ 19%] khmer/tests/test_filter_abund.py ................... [ 19%] khmer/tests/test_functions.py .................. [ 20%] khmer/tests/test_graph.py ............................ [ 21%] khmer/tests/test_hashset.py ............. [ 22%] khmer/tests/test_hll.py ...................... [ 23%] khmer/tests/test_labelhash.py ................. [ 23%] khmer/tests/test_lump.py ...... [ 23%] khmer/tests/test_nibblestorage.py ..... [ 24%] khmer/tests/test_nodegraph.py .......................................... [ 25%] ........................ [ 26%] khmer/tests/test_normalize_by_median.py ................................ [ 27%] ...... [ 27%] khmer/tests/test_oxli_functions.py .... [ 28%] khmer/tests/test_read_aligner.py ................... [ 28%] khmer/tests/test_read_handling.py ................................ [ 29%] khmer/tests/test_read_parsers.py .............................. [ 31%] khmer/tests/test_sandbox_scripts.py sssssssssss [ 31%] khmer/tests/test_script_arguments.py ............................ [ 32%] khmer/tests/test_script_output.py ........... [ 32%] khmer/tests/test_scripts.py ............................................ [ 34%] ........................................................................ [ 37%] .............................. [ 38%] khmer/tests/test_sequence_validation.py ................................ [ 39%] ............ [ 40%] khmer/tests/test_streaming_io.py ............................ [ 41%] khmer/tests/test_subset_graph.py ........................... [ 42%] khmer/tests/test_tabletype.py .....................................s.s.s [ 43%] ........................................................................ [ 46%] ........................................................................ [ 49%] .................. [ 49%] khmer/tests/test_threaded_sequence_processor.py ...... [ 49%] khmer/tests/test_version.py . [ 50%] tests/test_banding.py ............ [ 50%] tests/test_countgraph.py ............................................... [ 52%] ............................................ [ 53%] tests/test_counting_single.py ......................... [ 54%] tests/test_counttable.py .......... [ 55%] tests/test_cpython_hierarchy.py .... [ 55%] tests/test_cython_assembly.py .......................................... [ 56%] ........................................................................ [ 59%] ........................................................................ [ 62%] ........................................................................ [ 64%] ........................................................................ [ 67%] ... [ 67%] tests/test_cython_parsing.py ......................................... [ 69%] tests/test_filter_abund.py ................... [ 69%] tests/test_functions.py .................. [ 70%] tests/test_graph.py ............................ [ 71%] tests/test_hashset.py ............. [ 72%] tests/test_hll.py ...................... [ 73%] tests/test_labelhash.py ................. [ 73%] tests/test_lump.py ...... [ 73%] tests/test_nibblestorage.py ..... [ 74%] tests/test_nodegraph.py ................................................ [ 75%] .................. [ 76%] tests/test_normalize_by_median.py ...................................... [ 77%] [ 77%] tests/test_oxli_functions.py .... [ 78%] tests/test_read_aligner.py ................... [ 78%] tests/test_read_handling.py ................................ [ 79%] tests/test_read_parsers.py .............................. [ 81%] tests/test_sandbox_scripts.py sssssssssss [ 81%] tests/test_script_arguments.py ............................ [ 82%] tests/test_script_output.py ........... [ 82%] tests/test_scripts.py .................................................. [ 84%] ........................................................................ [ 87%] ........................ [ 88%] tests/test_sequence_validation.py ...................................... [ 89%] ...... [ 90%] tests/test_streaming_io.py ............................ [ 91%] tests/test_subset_graph.py ........................... [ 92%] tests/test_tabletype.py .....................................s.s.s...... [ 93%] ........................................................................ [ 96%] ........................................................................ [ 99%] ............ [ 99%] tests/test_threaded_sequence_processor.py ...... [ 99%] tests/test_version.py . [100%] =========== 2650 passed, 28 skipped, 52 deselected in 201.70 seconds =========== make[1]: Leaving directory '/build/khmer-2.1.2+dfsg' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary --with python3,sphinxdoc --buildsystem=pybuild dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild rm -f -- debian/khmer-common.substvars debian/khmer.substvars debian/liboxli1.substvars debian/liboxli-dev.substvars rm -fr -- debian/.debhelper/generated/khmer-common/ debian/khmer-common/ debian/tmp/ debian/.debhelper/generated/khmer/ debian/khmer/ debian/.debhelper/generated/liboxli1/ debian/liboxli1/ debian/.debhelper/generated/liboxli-dev/ debian/liboxli-dev/ dh_auto_install -O--buildsystem=pybuild install -d /build/khmer-2.1.2\+dfsg/debian/tmp pybuild --install --test-pytest -i python{version} -p 3.7 --dest-dir /build/khmer-2.1.2\+dfsg/debian/tmp I: pybuild base:217: /usr/bin/python3 setup.py install --root /build/khmer-2.1.2+dfsg/debian/khmer '--install-scripts=/usr/lib/khmer/bin' running install running build running build_py running egg_info writing khmer.egg-info/PKG-INFO writing dependency_links to khmer.egg-info/dependency_links.txt writing requirements to khmer.egg-info/requires.txt writing top-level names to khmer.egg-info/top_level.txt reading manifest file 'khmer.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'ChangeLog' warning: no files found matching 'ez_setup.py' warning: no files found matching 'IDEAS' warning: no files found matching 'README.md' warning: no files found matching 'TODO' warning: no files found matching '.ycm_extra_conf.py' warning: no files found matching '*.hh' under directory 'lib' warning: no files found matching '*.cc' under directory 'lib' warning: no files found matching '[Mm]akefile*' under directory 'lib' warning: no files found matching 'get_version.py' under directory 'lib' warning: no files found matching '*.hh' under directory 'khmer' warning: no files found matching '*.1' under directory 'third-party' warning: no files found matching '*.xsl' under directory 'third-party' warning: no files found matching 'sample*' under directory 'third-party' warning: no files found matching 'words*' under directory 'third-party' warning: no files found matching '*.sh' under directory 'third-party' warning: no files found matching '*.c' under directory 'third-party' warning: no files found matching 'manual*' under directory 'third-party' warning: no files found matching '[Mm]akefile*' under directory 'third-party' warning: no files found matching '*.pl' under directory 'third-party' warning: no files found matching '*.dsp' under directory 'third-party' warning: no files found matching 'CHANGES' under directory 'third-party' warning: no files found matching '*.txt' under directory 'third-party' warning: no files found matching 'FAQ' under directory 'third-party' warning: no files found matching 'INDEX' under directory 'third-party' warning: no files found matching 'configure' under directory 'third-party' warning: no files found matching '*.xsl' under directory 'third-party' warning: no files found matching 'bzip.css' under directory 'third-party/bzip2' warning: no files found matching 'entities.xml' under directory 'third-party/bzip2' warning: no files found matching 'libbz2.def' under directory 'third-party/bzip2' warning: no files found matching 'LICENSE' under directory 'third-party/bzip2' warning: no files found matching 'third-party/zlib/zconf.h.in' warning: no files found matching 'third-party/zlib/zlib.pc.in' warning: no previously-included files found matching 'third-party/zlib/Makefile' warning: no previously-included files found matching 'third-party/zlib/zconf.h' warning: no files found matching 'README.txt' under directory 'scripts' warning: no previously-included files matching '*.orig' found anywhere in distribution warning: no previously-included files matching '*.pyc' found anywhere in distribution writing manifest file 'khmer.egg-info/SOURCES.txt' UPDATING /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_version.py set /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_version.py to '2.1.2' running build_ext building 'khmer._khmer' extension aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_utils.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_utils.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_subsetpartition.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_subsetpartition.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_smallcounttable.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcounttable.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_smallcountgraph.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcountgraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_readparsers.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_readparsers.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_readaligner.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_readaligner.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_nodetable.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodetable.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_nodegraph.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodegraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_khmer.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_khmer.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_hllcounter.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_hllcounter.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_hashtable.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashtable.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_hashset.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashset.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_hashgraph.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashgraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_graphlabels.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_graphlabels.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_counttable.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_counttable.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/khmer/_cpy_countgraph.cc -o build/temp.linux-arm64-3.7/src/khmer/_cpy_countgraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/read_parsers.cc -o build/temp.linux-arm64-3.7/src/oxli/read_parsers.o -O3 -std=c++11 -pedantic -fopenmp In file included from third-party/seqan/core/include/seqan/basic.h:62, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/basic/test_system.h:92:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr instance; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:105:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > _gzStream; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:108:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > _bz2Stream; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:110:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > > _mmapString; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:111:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr _plainStream; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:116:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr, SinglePass<> > > _gzReader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:119:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr, SinglePass<> > > _bz2Reader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:121:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr >, SinglePass > > _mmapReaderSinglePass; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:122:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr >, DoublePass > > _mmapReaderDoublePass; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:123:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > > _istreamReader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/seq_io.h:64, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/seq_io/sequence_stream_impl.h:124:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr > > _ifstreamReader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/align.h:116, from third-party/seqan/core/include/seqan/store.h:38, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/align/dp_cell_affine.h: In member function 'seqan::DPCell_ >& seqan::DPCell_ >::operator=(const seqan::DPCell_ >&)': third-party/seqan/core/include/seqan/align/dp_cell_affine.h:84:9: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (this != &other) ^~ third-party/seqan/core/include/seqan/align/dp_cell_affine.h:86:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' _horizontalScore = other._horizontalScore; ^~~~~~~~~~~~~~~~ In file included from third-party/seqan/core/include/seqan/align.h:166, from third-party/seqan/core/include/seqan/store.h:38, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/align/global_alignment_myers_impl.h: In function 'int seqan::_globalAlignmentScore(const seqan::String&, const seqan::String&, const MyersBitVector&)': third-party/seqan/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (length(seqH) < length(seqV)) ^~ third-party/seqan/core/include/seqan/align/global_alignment_myers_impl.h:74:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; ^~~~~ In file included from third-party/seqan/core/include/seqan/align.h:174, from third-party/seqan/core/include/seqan/store.h:38, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function 'seqan::Pair > seqan::_alignBandedSmithWatermanTrace(seqan::LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)': third-party/seqan/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if ((actualCol == 0) || (actualRow == 0)) ^~ third-party/seqan/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); ^~ In file included from third-party/seqan/core/include/seqan/bam_io.h:107, from third-party/seqan/core/include/seqan/store.h:41, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/bam_io/bam_stream.h: At global scope: third-party/seqan/core/include/seqan/bam_io/bam_stream.h:180:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr _writer; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/bam_io.h:107, from third-party/seqan/core/include/seqan/store.h:41, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/bam_io/bam_stream.h:182:10: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr _reader; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from third-party/seqan/core/include/seqan/basic/debug_test_system.h:46, from third-party/seqan/core/include/seqan/basic/basic_debug.h:52, from third-party/seqan/core/include/seqan/basic.h:52, from third-party/seqan/core/include/seqan/seq_io.h:44, from src/oxli/read_parsers.cc:39: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from third-party/seqan/core/include/seqan/store.h:61, from third-party/seqan/core/include/seqan/seq_io/fai_index.h:40, from third-party/seqan/core/include/seqan/seq_io.h:83, from src/oxli/read_parsers.cc:39: third-party/seqan/core/include/seqan/store/store_all.h: In function 'void seqan::convertMatchesToGlobalAlignment(seqan::FragmentStore&, const TScore&, const TShrinkMatches&)': third-party/seqan/core/include/seqan/store/store_all.h:1733:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (alignQualityStoreLengthPre == 0u) ^~ third-party/seqan/core/include/seqan/store/store_all.h:1737:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' sortAlignedReads(store.alignedReadStore, SortBeginPos()); ^~~~~~~~~~~~~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/kmer_hash.cc -o build/temp.linux-arm64-3.7/src/oxli/kmer_hash.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/hashtable.cc -o build/temp.linux-arm64-3.7/src/oxli/hashtable.o -O3 -std=c++11 -pedantic -fopenmp src/oxli/hashtable.cc: In instantiation of 'void oxli::Hashtable::consume_seqfile(oxli::read_parsers::ReadParserPtr&, unsigned int&, long long unsigned int&) [with SeqIO = oxli::read_parsers::FastxReader; oxli::read_parsers::ReadParserPtr = std::unique_ptr >]': src/oxli/hashtable.cc:512:1: required from here src/oxli/hashtable.cc:103:11: warning: catching polymorphic type 'struct oxli::read_parsers::NoMoreReadsAvailable' by value [-Wcatch-value=] } catch (NoMoreReadsAvailable) { ^~~~~ src/oxli/hashtable.cc: In instantiation of 'void oxli::Hashtable::consume_seqfile_banding(oxli::read_parsers::ReadParserPtr&, unsigned int, unsigned int, unsigned int&, long long unsigned int&) [with SeqIO = oxli::read_parsers::FastxReader; oxli::read_parsers::ReadParserPtr = std::unique_ptr >]': src/oxli/hashtable.cc:529:1: required from here src/oxli/hashtable.cc:133:11: warning: catching polymorphic type 'struct oxli::read_parsers::NoMoreReadsAvailable' by value [-Wcatch-value=] } catch (NoMoreReadsAvailable) { ^~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/hashgraph.cc -o build/temp.linux-arm64-3.7/src/oxli/hashgraph.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/labelhash.cc -o build/temp.linux-arm64-3.7/src/oxli/labelhash.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/subset.cc -o build/temp.linux-arm64-3.7/src/oxli/subset.o -O3 -std=c++11 -pedantic -fopenmp src/oxli/subset.cc: In member function 'size_t oxli::SubsetPartition::output_partitioned_file(const string&, const string&, bool, oxli::CallbackFn, void*)': src/oxli/subset.cc:136:24: warning: unused variable 'ksize' [-Wunused-variable] const unsigned int ksize = _ht->ksize(); ^~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/read_aligner.cc -o build/temp.linux-arm64-3.7/src/oxli/read_aligner.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/hllcounter.cc -o build/temp.linux-arm64-3.7/src/oxli/hllcounter.o -O3 -std=c++11 -pedantic -fopenmp src/oxli/hllcounter.cc: In instantiation of 'void oxli::HLLCounter::consume_seqfile(oxli::read_parsers::ReadParserPtr&, bool, unsigned int&, long long unsigned int&) [with SeqIO = oxli::read_parsers::FastxReader; oxli::read_parsers::ReadParserPtr = std::unique_ptr >]': src/oxli/hllcounter.cc:524:1: required from here src/oxli/hllcounter.cc:428:19: warning: catching polymorphic type 'struct oxli::read_parsers::NoMoreReadsAvailable' by value [-Wcatch-value=] } catch (read_parsers::NoMoreReadsAvailable) { ^~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/traversal.cc -o build/temp.linux-arm64-3.7/src/oxli/traversal.o -O3 -std=c++11 -pedantic -fopenmp In file included from src/oxli/traversal.cc:39: src/oxli/traversal.cc: In instantiation of 'oxli::NodeGatherer::NodeGatherer(const oxli::Hashgraph*, oxli::KmerFilterList) [with bool direction = false; oxli::KmerFilterList = std::__cxx11::list >]': src/oxli/traversal.cc:203:31: required from here include/oxli/traversal.hh:79:23: warning: 'oxli::NodeGatherer::graph' will be initialized after [-Wreorder] const Hashgraph * graph; ^~~~~ include/oxli/traversal.hh:76:20: warning: 'oxli::KmerFilterList oxli::NodeGatherer::filters' [-Wreorder] KmerFilterList filters; ^~~~~~~ src/oxli/traversal.cc:53:1: warning: when initialized here [-Wreorder] NodeGatherer::NodeGatherer(const Hashgraph * ht, ^~~~~~~~~~~~~~~~~~~~~~~ In file included from src/oxli/traversal.cc:39: src/oxli/traversal.cc: In instantiation of 'oxli::NodeGatherer::NodeGatherer(const oxli::Hashgraph*, oxli::KmerFilterList) [with bool direction = true; oxli::KmerFilterList = std::__cxx11::list >]': src/oxli/traversal.cc:203:31: required from here include/oxli/traversal.hh:79:23: warning: 'oxli::NodeGatherer::graph' will be initialized after [-Wreorder] const Hashgraph * graph; ^~~~~ include/oxli/traversal.hh:76:20: warning: 'oxli::KmerFilterList oxli::NodeGatherer::filters' [-Wreorder] KmerFilterList filters; ^~~~~~~ src/oxli/traversal.cc:53:1: warning: when initialized here [-Wreorder] NodeGatherer::NodeGatherer(const Hashgraph * ht, ^~~~~~~~~~~~~~~~~~~~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/kmer_filters.cc -o build/temp.linux-arm64-3.7/src/oxli/kmer_filters.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/assembler.cc -o build/temp.linux-arm64-3.7/src/oxli/assembler.o -O3 -std=c++11 -pedantic -fopenmp In file included from src/oxli/assembler.cc:38: include/oxli/assembler.hh: In constructor 'oxli::LinearAssembler::LinearAssembler(const oxli::Hashgraph*)': include/oxli/assembler.hh:80:23: warning: 'oxli::LinearAssembler::graph' will be initialized after [-Wreorder] const Hashgraph * graph; ^~~~~ include/oxli/assembler.hh:79:16: warning: 'oxli::WordLength oxli::LinearAssembler::_ksize' [-Wreorder] WordLength _ksize; ^~~~~~ src/oxli/assembler.cc:52:1: warning: when initialized here [-Wreorder] LinearAssembler::LinearAssembler(const Hashgraph * ht) : ^~~~~~~~~~~~~~~ src/oxli/assembler.cc: In destructor 'oxli::SimpleLabeledAssembler::~SimpleLabeledAssembler()': src/oxli/assembler.cc:189:18: warning: deleting object of polymorphic class type 'oxli::LinearAssembler' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] delete this->linear_asm; ^~~~~~~~~~ In file included from src/oxli/assembler.cc:38: include/oxli/assembler.hh: In constructor 'oxli::JunctionCountAssembler::JunctionCountAssembler(oxli::Hashgraph*)': include/oxli/assembler.hh:158:16: warning: 'oxli::JunctionCountAssembler::_ksize' will be initialized after [-Wreorder] WordLength _ksize; ^~~~~~ include/oxli/assembler.hh:153:15: warning: 'oxli::Traverser oxli::JunctionCountAssembler::traverser' [-Wreorder] Traverser traverser; ^~~~~~~~~ src/oxli/assembler.cc:346:1: warning: when initialized here [-Wreorder] JunctionCountAssembler::JunctionCountAssembler(Hashgraph * ht) : ^~~~~~~~~~~~~~~~~~~~~~ In file included from src/oxli/assembler.cc:38: include/oxli/assembler.hh:153:15: warning: 'oxli::JunctionCountAssembler::traverser' will be initialized after [-Wreorder] Traverser traverser; ^~~~~~~~~ include/oxli/assembler.hh:151:21: warning: 'oxli::LinearAssembler oxli::JunctionCountAssembler::linear_asm' [-Wreorder] LinearAssembler linear_asm; ^~~~~~~~~~ src/oxli/assembler.cc:346:1: warning: when initialized here [-Wreorder] JunctionCountAssembler::JunctionCountAssembler(Hashgraph * ht) : ^~~~~~~~~~~~~~~~~~~~~~ aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/alphabets.cc -o build/temp.linux-arm64-3.7/src/oxli/alphabets.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c src/oxli/storage.cc -o build/temp.linux-arm64-3.7/src/oxli/storage.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=2.1.2 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Iinclude -Ithird-party/seqan/core/include -Ithird-party/smhasher -I/usr/include/python3.7m -c third-party/smhasher/MurmurHash3.cc -o build/temp.linux-arm64-3.7/third-party/smhasher/MurmurHash3.o -O3 -std=c++11 -pedantic -fopenmp aarch64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/khmer-2.1.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-arm64-3.7/src/khmer/_cpy_utils.o build/temp.linux-arm64-3.7/src/khmer/_cpy_subsetpartition.o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcounttable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_smallcountgraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_readparsers.o build/temp.linux-arm64-3.7/src/khmer/_cpy_readaligner.o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodetable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_nodegraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_khmer.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hllcounter.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashtable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashset.o build/temp.linux-arm64-3.7/src/khmer/_cpy_hashgraph.o build/temp.linux-arm64-3.7/src/khmer/_cpy_graphlabels.o build/temp.linux-arm64-3.7/src/khmer/_cpy_counttable.o build/temp.linux-arm64-3.7/src/khmer/_cpy_countgraph.o build/temp.linux-arm64-3.7/src/oxli/read_parsers.o build/temp.linux-arm64-3.7/src/oxli/kmer_hash.o build/temp.linux-arm64-3.7/src/oxli/hashtable.o build/temp.linux-arm64-3.7/src/oxli/hashgraph.o build/temp.linux-arm64-3.7/src/oxli/labelhash.o build/temp.linux-arm64-3.7/src/oxli/subset.o build/temp.linux-arm64-3.7/src/oxli/read_aligner.o build/temp.linux-arm64-3.7/src/oxli/hllcounter.o build/temp.linux-arm64-3.7/src/oxli/traversal.o build/temp.linux-arm64-3.7/src/oxli/kmer_filters.o build/temp.linux-arm64-3.7/src/oxli/assembler.o build/temp.linux-arm64-3.7/src/oxli/alphabets.o build/temp.linux-arm64-3.7/src/oxli/storage.o build/temp.linux-arm64-3.7/third-party/smhasher/MurmurHash3.o -lz -lbz2 -o /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_khmer.cpython-37m-aarch64-linux-gnu.so -fopenmp skipping 'khmer/_oxli/utils.cpp' Cython extension (up-to-date) skipping 'khmer/_oxli/parsing.cpp' Cython extension (up-to-date) skipping 'khmer/_oxli/hashing.cpp' Cython extension (up-to-date) skipping 'khmer/_oxli/graphs.cpp' Cython extension (up-to-date) skipping 'khmer/_oxli/assembly.cpp' Cython extension (up-to-date) running build_scripts running install_lib creating /build/khmer-2.1.2+dfsg/debian/khmer creating /build/khmer-2.1.2+dfsg/debian/khmer/usr creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7 creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/oxli/__pycache__/partition.cpython-37.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/oxli/__pycache__/functions.cpython-37.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/oxli/__pycache__/build_graph.cpython-37.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/oxli/__pycache__/__init__.cpython-37.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/oxli/__init__.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/oxli/build_graph.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/oxli/functions.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/oxli/partition.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_khmer.cpython-37m-aarch64-linux-gnu.so -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_version.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/__pycache__/trimming.cpython-37.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/__pycache__/thread_utils.cpython-37.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/__pycache__/kfile.cpython-37.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/__pycache__/khmer_logger.cpython-37.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/__pycache__/utils.cpython-37.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/__pycache__/khmer_args.cpython-37.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/__pycache__/_version.cpython-37.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/__pycache__/__init__.cpython-37.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/__pycache__ creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/__pycache__/__init__.cpython-37.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/utils.cpp -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/parsing.cpp -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/hashing.cpp -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/graphs.cpp -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/assembly.cpp -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/assembly.cpython-37m-aarch64-linux-gnu.so -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/graphs.cpython-37m-aarch64-linux-gnu.so -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/hashing.cpython-37m-aarch64-linux-gnu.so -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/parsing.cpython-37m-aarch64-linux-gnu.so -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/utils.cpython-37m-aarch64-linux-gnu.so -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/utils.pyx -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/utils.pxd -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/traversal.pxd -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/parsing.pyx -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/parsing.pxd -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/oxli_types.pxd -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/hllcounter.pxd -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/hashing.pyx -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/hashing.pxd -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/graphs.pyx -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/graphs.pxd -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/assembly.pyx -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/assembly.pxd -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/_oxli/__init__.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_version.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_threaded_sequence_processor.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_tabletype.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_subset_graph.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_streaming_io.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_sequence_validation.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_script_output.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_script_arguments.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_sandbox_scripts.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_read_parsers.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_read_handling.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_read_aligner.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_oxli_functions.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_normalize_by_median.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_nodegraph.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_nibblestorage.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_lump.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_labelhash.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_hll.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_hashset.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_graph.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_functions.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_scripts.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_filter_abund.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_cython_parsing.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/graph_features.cpython-37.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_cython_assembly.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_cpython_hierarchy.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_counttable.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_counting_single.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_countgraph.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/khmer_tst_utils.cpython-37.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/test_banding.cpython-37-PYTEST.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__pycache__/__init__.cpython-37.pyc -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__pycache__ creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/valid-read-testing.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/unclean-reads.fastq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/truncated.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-transcript.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-sweep-reads.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-sweep-reads.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-sweep-contigs.fp -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-short.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-reads.fq.gz -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-reads.fq.bz2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-reads.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-overlap2.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-overlap1.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-output-partitions.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-multi.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-large.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-labels.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-graph5.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-graph2.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-graph.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-filter-abund-Ns.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-fastq-reads.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-fastq-reads.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-fastq-n-reads.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-error-reads.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-empty.fa.bz2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-empty.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-paired.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-paired.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-impaired.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-3.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-2.paired2.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-2.paired.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-2.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-2.fa.gz -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-2.fa.bz2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/test-abund-read-2.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/single-read.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/single-read.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/simple-genome.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/simple-genome-reads.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/real-partition-tiny.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/real-partition-small.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/readaligner-k12.json -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/readaligner-default.json -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-31-c.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-b.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-a.odd.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-a.fq.gz -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-a.fq.bz2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-a.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-a.fa.part -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-a.fa.gz -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-a.fa.bz2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-a.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-a.even.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/random-20-X2.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired_one.base.dif.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired.malformat.fq.2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired.malformat.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired.fq.2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired.fq.1 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired.fa.2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired.fa.1 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-slash1.fq.2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-slash1.fq.1 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-slash1.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-mixed.fq.se -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-mixed.fq.pe -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-mixed.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-mixed.fa.se -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-mixed.fa.pe -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-mixed.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-mixed-witherror.fa.pe -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-mixed-broken.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-mixed-2.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken4.fq.2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken4.fq.1 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken3.fq.2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken3.fq.1 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken2.fq.2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken2.fq.1 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken.fq.paired_bad -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken.fq.badright -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken.fq.badleft -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken.fq.2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/paired-broken.fq.1 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/old-style-format-w-comments.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/normC20k20.ct -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/multi-output.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/goodversion-k32.tagset -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/goodversion-k32.stoptags -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/goodversion-k12.ht.gz -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/goodversion-k12.ht -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/filter-test-B.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/filter-test-A.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/fakelump.fa.stoptags.txt -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/fakelump.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/empty-file.gz -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/empty-file.bz2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/empty-file -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/dn-test-some-paired-all-keep.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/dn-test-none-paired.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/dn-test-all-paired-all-keep.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/combine_parts_1.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/casava_18-pe.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/bogus.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/biglump-random-20-a.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/banding-reads.fq -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/badversion-k32.tagset -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/badversion-k32.stoptags -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/badversion-k12.ht -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/badversion-k12.ct -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/all-A.fa -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/README.rst -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/100-reads.fq.truncated.gz -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/100-reads.fq.truncated.bz2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/100-reads.fq.gz -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test-data/100-reads.fq.bz2 -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test-data copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/.gitignore -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/__init__.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/graph_features.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_banding.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_countgraph.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_counting_single.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_counttable.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_cpython_hierarchy.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_cython_assembly.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_cython_parsing.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_filter_abund.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_functions.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_graph.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_hashset.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_hll.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_labelhash.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_lump.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_nibblestorage.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_nodegraph.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_normalize_by_median.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_oxli_functions.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_read_aligner.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_read_handling.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_sandbox_scripts.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_script_arguments.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_script_output.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_scripts.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_sequence_validation.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_streaming_io.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_subset_graph.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_tabletype.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_threaded_sequence_processor.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_version.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/test_read_parsers.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/tests/khmer_tst_utils.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/__init__.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/kfile.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/khmer_args.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/khmer_logger.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/thread_utils.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/trimming.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer copying /build/khmer-2.1.2+dfsg/.pybuild/cpython3_3.7_khmer/build/khmer/utils.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli/__init__.py to __init__.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli/build_graph.py to build_graph.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli/functions.py to functions.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/oxli/partition.py to partition.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_version.py to _version.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/_oxli/__init__.py to __init__.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/__init__.py to __init__.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/graph_features.py to graph_features.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_banding.py to test_banding.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_countgraph.py to test_countgraph.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_counting_single.py to test_counting_single.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_counttable.py to test_counttable.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_cpython_hierarchy.py to test_cpython_hierarchy.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_cython_assembly.py to test_cython_assembly.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_cython_parsing.py to test_cython_parsing.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_filter_abund.py to test_filter_abund.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_functions.py to test_functions.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_graph.py to test_graph.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_hashset.py to test_hashset.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_hll.py to test_hll.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_labelhash.py to test_labelhash.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_lump.py to test_lump.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_nibblestorage.py to test_nibblestorage.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_nodegraph.py to test_nodegraph.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_normalize_by_median.py to test_normalize_by_median.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_oxli_functions.py to test_oxli_functions.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_read_aligner.py to test_read_aligner.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_read_handling.py to test_read_handling.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_sandbox_scripts.py to test_sandbox_scripts.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_script_arguments.py to test_script_arguments.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_script_output.py to test_script_output.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_scripts.py to test_scripts.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_sequence_validation.py to test_sequence_validation.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_streaming_io.py to test_streaming_io.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_subset_graph.py to test_subset_graph.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_tabletype.py to test_tabletype.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_threaded_sequence_processor.py to test_threaded_sequence_processor.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_version.py to test_version.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/test_read_parsers.py to test_read_parsers.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/tests/khmer_tst_utils.py to khmer_tst_utils.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/__init__.py to __init__.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/kfile.py to kfile.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/khmer_args.py to khmer_args.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/khmer_logger.py to khmer_logger.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/thread_utils.py to thread_utils.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/trimming.py to trimming.cpython-37.pyc byte-compiling /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer/utils.py to utils.cpython-37.pyc running install_egg_info Copying khmer.egg-info to /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/python3.7/dist-packages/khmer-2.1.2.egg-info Skipping SOURCES.txt running install_scripts creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer creating /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/abundance-dist-single.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/abundance-dist.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/annotate-partitions.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/count-median.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/do-partition.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/extract-long-sequences.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/extract-partitions.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/fastq-to-fasta.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/filter-abund-single.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/filter-abund.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/filter-stoptags.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/find-knots.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/interleave-reads.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/load-graph.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/load-into-counting.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/make-initial-stoptags.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/merge-partitions.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/normalize-by-median.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/partition-graph.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/readstats.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/sample-reads-randomly.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/split-paired-reads.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/trim-low-abund.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/unique-kmers.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin copying build/scripts-3.7/extract-paired-reads.py -> /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/abundance-dist-single.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/abundance-dist.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/annotate-partitions.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/count-median.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/do-partition.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/extract-long-sequences.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/extract-partitions.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/fastq-to-fasta.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/filter-abund-single.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/filter-abund.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/filter-stoptags.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/find-knots.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/interleave-reads.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/load-graph.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/load-into-counting.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/make-initial-stoptags.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/merge-partitions.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/normalize-by-median.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/partition-graph.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/readstats.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/sample-reads-randomly.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/split-paired-reads.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/trim-low-abund.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/unique-kmers.py to 755 changing mode of /build/khmer-2.1.2+dfsg/debian/khmer/usr/lib/khmer/bin/extract-paired-reads.py to 755 rm -f debian/khmer-common.debhelper.log debian/khmer.debhelper.log debian/liboxli-dev.debhelper.log debian/liboxli1.debhelper.log debian/rules override_dh_install make[1]: Entering directory '/build/khmer-2.1.2+dfsg' cd src/oxli && /usr/bin/make PREFIX=../debian/tmp install make[2]: Entering directory '/build/khmer-2.1.2+dfsg/src/oxli' rm -rf ../debian/tmp/include/oxli ../debian/tmp/include/khmer mkdir -p ../debian/tmp/lib ../debian/tmp/lib/pkgconfig ../debian/tmp/include/oxli cp -r ../../include/oxli/hashtable.hh ../../include/oxli/hashgraph.hh ../../include/oxli/hllcounter.hh ../../include/oxli/oxli_exception.hh ../../include/oxli/oxli.hh ../../include/oxli/kmer_hash.hh ../../include/oxli/labelhash.hh ../../include/oxli/traversal.hh ../../include/oxli/read_aligner.hh ../../include/oxli/read_parsers.hh ../../include/oxli/subset.hh ../../include/oxli/kmer_filters.hh ../../include/oxli/assembler.hh ../../include/oxli/alphabets.hh ../../include/oxli/storage.hh \ ../../third-party/smhasher/MurmurHash3.h \ ../debian/tmp/include/oxli/ cp oxli.pc ../debian/tmp/lib/pkgconfig/ cp liboxli.so.1 liboxli.a ../debian/tmp/lib/ ln -sf ../debian/tmp/lib/liboxli.so.1 ../debian/tmp/lib/liboxli.so make[2]: Leaving directory '/build/khmer-2.1.2+dfsg/src/oxli' dh_install install -d debian/khmer-common/usr/share/file/khmer cp --reflink=auto -a ./include/oxli/magic debian/khmer-common/usr/share/file/khmer/ install -d debian/.debhelper/generated/khmer-common install -d debian/khmer//usr/share/metainfo/ cp --reflink=auto -a ./debian/khmer.metainfo.xml debian/khmer//usr/share/metainfo// install -d debian/khmer/usr/bin/ cp --reflink=auto -a ./debian/bin/khmer debian/khmer/usr/bin// install -d debian/.debhelper/generated/khmer install -d debian/liboxli1/usr/lib/aarch64-linux-gnu cp --reflink=auto -a ./src/oxli/liboxli.so.1 debian/liboxli1/usr/lib/aarch64-linux-gnu/ install -d debian/.debhelper/generated/liboxli1 install -d debian/liboxli-dev/usr/include/oxli cp --reflink=auto -a ./include/oxli/alphabets.hh ./include/oxli/assembler.hh ./include/oxli/hashgraph.hh ./include/oxli/hashtable.hh ./include/oxli/hllcounter.hh ./include/oxli/kmer_filters.hh ./include/oxli/kmer_hash.hh ./include/oxli/labelhash.hh ./include/oxli/oxli.hh ./include/oxli/oxli_exception.hh ./include/oxli/read_aligner.hh ./include/oxli/read_parsers.hh ./include/oxli/storage.hh ./include/oxli/subset.hh ./include/oxli/traversal.hh debian/liboxli-dev/usr/include/oxli/ install -d debian/liboxli-dev/usr/include/oxli/smhasher cp --reflink=auto -a ./third-party/smhasher/MurmurHash3.h debian/liboxli-dev/usr/include/oxli/smhasher/ install -d debian/liboxli-dev/usr/lib/aarch64-linux-gnu cp --reflink=auto -a ./src/oxli/liboxli.a ./src/oxli/liboxli.so debian/liboxli-dev/usr/lib/aarch64-linux-gnu/ install -d debian/liboxli-dev/usr/lib/aarch64-linux-gnu/pkgconfig cp --reflink=auto -a ./src/oxli/oxli.pc debian/liboxli-dev/usr/lib/aarch64-linux-gnu/pkgconfig/ install -d debian/.debhelper/generated/liboxli-dev find debian/khmer -name .gitignore -delete make[1]: Leaving directory '/build/khmer-2.1.2+dfsg' dh_installdocs -O--buildsystem=pybuild install -d debian/khmer-common/usr/share/doc/khmer-common cd './build/sphinx/html/..' && find 'html' \( -type f -or -type l \) -and ! -empty -print0 | LC_ALL=C sort -z | xargs -0 -I {} cp --reflink=auto --parents -dp {} /build/khmer-2.1.2+dfsg/debian/khmer-common/usr/share/doc/khmer-common cp --reflink=auto -a ./CITATION debian/khmer-common/usr/share/doc/khmer-common cp --reflink=auto -a ./README.rst debian/khmer-common/usr/share/doc/khmer-common cp --reflink=auto -a ./debian/README.test debian/khmer-common/usr/share/doc/khmer-common cp --reflink=auto -a ./debian/tests/run-unit-test debian/khmer-common/usr/share/doc/khmer-common cp --reflink=auto -a ./src/oxli/test-compile.cc debian/khmer-common/usr/share/doc/khmer-common chown -R 0:0 debian/khmer-common/usr/share/doc chmod -R u\+rw,go=rX debian/khmer-common/usr/share/doc install -p -m0644 debian/copyright debian/khmer-common/usr/share/doc/khmer-common/copyright install -d debian/khmer-common/usr/share/doc-base/ install -p -m0644 debian/doc-base debian/khmer-common/usr/share/doc-base/khmer install -d debian/khmer/usr/share/doc/khmer install -p -m0644 debian/copyright debian/khmer/usr/share/doc/khmer/copyright install -d debian/liboxli1/usr/share/doc/liboxli1 install -p -m0644 debian/copyright debian/liboxli1/usr/share/doc/liboxli1/copyright install -d debian/liboxli-dev/usr/share/doc/liboxli-dev install -p -m0644 debian/copyright debian/liboxli-dev/usr/share/doc/liboxli-dev/copyright rm -f debian/khmer-common.debhelper.log debian/khmer.debhelper.log debian/liboxli-dev.debhelper.log debian/liboxli1.debhelper.log debian/rules override_dh_sphinxdoc make[1]: Entering directory '/build/khmer-2.1.2+dfsg' dh_sphinxdoc dh_sphinxdoc: ignoring unknown JavaScript code: debian/khmer-common/usr/share/doc/khmer-common/html/_static/js/bootstrap.js ln -sf ../../../../javascript/sphinxdoc/1.0/jquery.js debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.js ln -sf ../../../../javascript/sphinxdoc/1.0/underscore.js debian/khmer-common/usr/share/doc/khmer-common/html/_static/underscore.js ln -sf ../../../../javascript/sphinxdoc/1.0/doctools.js debian/khmer-common/usr/share/doc/khmer-common/html/_static/doctools.js dh_sphinxdoc: ignoring unknown JavaScript code: debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.min.js ln -sf ../../../../javascript/sphinxdoc/1.0/searchtools.js debian/khmer-common/usr/share/doc/khmer-common/html/_static/searchtools.js dh_sphinxdoc: ignoring unknown JavaScript code: debian/khmer-common/usr/share/doc/khmer-common/html/_static/labibi.js rm -f debian/khmer-common/usr/share/doc/khmer-common/html/.buildinfo rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/websupport.js (grep -a -s -v sphinxdoc:Depends debian/khmer-common.substvars; echo "sphinxdoc:Depends=libjs-sphinxdoc (>= 1.0)") > debian/khmer-common.substvars.new mv debian/khmer-common.substvars.new debian/khmer-common.substvars (grep -a -s -v sphinxdoc:Built-Using debian/khmer-common.substvars; echo "sphinxdoc:Built-Using=sphinx (= 1.8.4-1)") > debian/khmer-common.substvars.new mv debian/khmer-common.substvars.new debian/khmer-common.substvars rdfind -makesymlinks true -followsymlinks true\ /usr/lib/python3/dist-packages/guzzle_sphinx_theme \ debian/khmer-common debian/khmer-common/usr debian/khmer-common/usr/share debian/khmer-common/usr/share/doc-base debian/khmer-common/usr/share/doc-base/khmer debian/khmer-common/usr/share/doc debian/khmer-common/usr/share/doc/khmer-common debian/khmer-common/usr/share/doc/khmer-common/copyright debian/khmer-common/usr/share/doc/khmer-common/test-compile.cc debian/khmer-common/usr/share/doc/khmer-common/run-unit-test debian/khmer-common/usr/share/doc/khmer-common/README.test debian/khmer-common/usr/share/doc/khmer-common/README.rst debian/khmer-common/usr/share/doc/khmer-common/html debian/khmer-common/usr/share/doc/khmer-common/html/user debian/khmer-common/usr/share/doc/khmer-common/html/user/scripts.html debian/khmer-common/usr/share/doc/khmer-common/html/user/partitioning-big-data.html debian/khmer-common/usr/share/doc/khmer-common/html/user/known-issues.html debian/khmer-common/usr/share/doc/khmer-common/html/user/install.html debian/khmer-common/usr/share/doc/khmer-common/html/user/index.html debian/khmer-common/usr/share/doc/khmer-common/html/user/guide.html debian/khmer-common/usr/share/doc/khmer-common/html/user/getting-help.html debian/khmer-common/usr/share/doc/khmer-common/html/user/galaxy.html debian/khmer-common/usr/share/doc/khmer-common/html/user/examples.html debian/khmer-common/usr/share/doc/khmer-common/html/user/choosing-table-sizes.html debian/khmer-common/usr/share/doc/khmer-common/html/user/blog-posts.html debian/khmer-common/usr/share/doc/khmer-common/html/user/biblio.html debian/khmer-common/usr/share/doc/khmer-common/html/user/api-examples.html debian/khmer-common/usr/share/doc/khmer-common/html/searchindex.js debian/khmer-common/usr/share/doc/khmer-common/html/search.html debian/khmer-common/usr/share/doc/khmer-common/html/roadmap.html debian/khmer-common/usr/share/doc/khmer-common/html/release-notes debian/khmer-common/usr/share/doc/khmer-common/html/release-notes/release-2.1.html debian/khmer-common/usr/share/doc/khmer-common/html/release-notes/release-2.0.html debian/khmer-common/usr/share/doc/khmer-common/html/release-notes/release-1.4.html debian/khmer-common/usr/share/doc/khmer-common/html/release-notes/release-1.3.html debian/khmer-common/usr/share/doc/khmer-common/html/release-notes/release-1.2.html debian/khmer-common/usr/share/doc/khmer-common/html/release-notes/release-1.1.html debian/khmer-common/usr/share/doc/khmer-common/html/release-notes/release-1.0.html debian/khmer-common/usr/share/doc/khmer-common/html/release-notes/release-1.0.1.html debian/khmer-common/usr/share/doc/khmer-common/html/release-notes/index.html debian/khmer-common/usr/share/doc/khmer-common/html/objects.inv debian/khmer-common/usr/share/doc/khmer-common/html/introduction.html debian/khmer-common/usr/share/doc/khmer-common/html/index.html debian/khmer-common/usr/share/doc/khmer-common/html/genindex.html debian/khmer-common/usr/share/doc/khmer-common/html/dev debian/khmer-common/usr/share/doc/khmer-common/html/dev/scripts-and-sandbox.html debian/khmer-common/usr/share/doc/khmer-common/html/dev/release.html debian/khmer-common/usr/share/doc/khmer-common/html/dev/python-api.html debian/khmer-common/usr/share/doc/khmer-common/html/dev/index.html debian/khmer-common/usr/share/doc/khmer-common/html/dev/hackathon.html debian/khmer-common/usr/share/doc/khmer-common/html/dev/guidelines-continued-dev.html debian/khmer-common/usr/share/doc/khmer-common/html/dev/getting-started.html debian/khmer-common/usr/share/doc/khmer-common/html/dev/for-khmer-developers.html debian/khmer-common/usr/share/doc/khmer-common/html/dev/development.html debian/khmer-common/usr/share/doc/khmer-common/html/dev/codebase-guide.html debian/khmer-common/usr/share/doc/khmer-common/html/dev/binary-file-formats.html debian/khmer-common/usr/share/doc/khmer-common/html/dev/a-quick-guide-to-testing.html debian/khmer-common/usr/share/doc/khmer-common/html/dev/CODE_OF_CONDUCT.html debian/khmer-common/usr/share/doc/khmer-common/html/contributors.html debian/khmer-common/usr/share/doc/khmer-common/html/_static 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debian/khmer-common/usr/share/doc/khmer-common/html/_static/js/bootstrap.js debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.min.js debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.js debian/khmer-common/usr/share/doc/khmer-common/html/_static/guzzle.css debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/source-serif-pro.css debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/bower.json debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Semibold.ttf.woff 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debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Italic-webfont.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Italic-webfont.ttf debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Italic-webfont.svg debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Italic-webfont.eot debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBoldItalic-webfont.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBoldItalic-webfont.ttf debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBoldItalic-webfont.svg debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBoldItalic-webfont.eot debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBold-webfont.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBold-webfont.ttf debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBold-webfont.svg debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBold-webfont.eot debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-BoldItalic-webfont.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-BoldItalic-webfont.ttf debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-BoldItalic-webfont.svg debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-BoldItalic-webfont.eot debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Bold-webfont.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Bold-webfont.ttf debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Bold-webfont.svg debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Bold-webfont.eot debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.woff2 debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.ttf debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.svg debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.eot debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/LiberationSerif-Regular.ttf debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/LiberationSans-Regular.ttf debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/LiberationSans-Italic.ttf debian/khmer-common/usr/share/doc/khmer-common/html/_static/file.png debian/khmer-common/usr/share/doc/khmer-common/html/_static/down.png debian/khmer-common/usr/share/doc/khmer-common/html/_static/down-pressed.png debian/khmer-common/usr/share/doc/khmer-common/html/_static/documentation_options.js debian/khmer-common/usr/share/doc/khmer-common/html/_static/doctools.js debian/khmer-common/usr/share/doc/khmer-common/html/_static/css debian/khmer-common/usr/share/doc/khmer-common/html/_static/css/font-face.css debian/khmer-common/usr/share/doc/khmer-common/html/_static/css/bootstrap.min.css debian/khmer-common/usr/share/doc/khmer-common/html/_static/css/bootstrap-theme.min.css debian/khmer-common/usr/share/doc/khmer-common/html/_static/comment.png debian/khmer-common/usr/share/doc/khmer-common/html/_static/comment-close.png debian/khmer-common/usr/share/doc/khmer-common/html/_static/comment-bright.png debian/khmer-common/usr/share/doc/khmer-common/html/_static/basic.css debian/khmer-common/usr/share/doc/khmer-common/html/_static/ajax-loader.gif debian/khmer-common/usr/share/doc/khmer-common/html/_sources debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/scripts.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/partitioning-big-data.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/known-issues.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/install.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/index.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/guide.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/getting-help.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/galaxy.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/examples.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/choosing-table-sizes.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/blog-posts.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/biblio.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/api-examples.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/roadmap.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes/release-2.1.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes/release-2.0.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes/release-1.4.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes/release-1.3.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes/release-1.2.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes/release-1.1.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes/release-1.0.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes/release-1.0.1.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes/index.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/introduction.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/index.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/scripts-and-sandbox.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/release.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/python-api.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/index.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/hackathon.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/guidelines-continued-dev.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/getting-started.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/for-khmer-developers.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/development.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/codebase-guide.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/binary-file-formats.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/a-quick-guide-to-testing.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/CODE_OF_CONDUCT.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/contributors.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/LICENSE.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_images debian/khmer-common/usr/share/doc/khmer-common/html/_images/partitioning-workflow.png debian/khmer-common/usr/share/doc/khmer-common/html/_images/artifact-removal.png debian/khmer-common/usr/share/doc/khmer-common/html/LICENSE.html debian/khmer-common/usr/share/doc/khmer-common/html/.buildinfo debian/khmer-common/usr/share/file debian/khmer-common/usr/share/file/khmer debian/khmer-common/usr/share/file/khmer/magic Now scanning "/usr/lib/python3/dist-packages/guzzle_sphinx_theme", found 116 files. Now scanning "debian/khmer-common"readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/searchtools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/searchtools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//searchtools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//searchtools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/doctools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/doctools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//doctools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//doctools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/underscore.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/underscore.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//underscore.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//underscore.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//jquery.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//jquery.js , found 204 files. Now scanning "debian/khmer-common/usr"readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/searchtools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/searchtools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//searchtools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//searchtools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/doctools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/doctools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//doctools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//doctools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/underscore.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/underscore.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//underscore.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//underscore.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//jquery.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//jquery.js , found 204 files. Now scanning "debian/khmer-common/usr/share"readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/searchtools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/searchtools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//searchtools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//searchtools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/doctools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/doctools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//doctools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//doctools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/underscore.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/underscore.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//underscore.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//underscore.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//jquery.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//jquery.js , found 204 files. Now scanning "debian/khmer-common/usr/share/doc-base", found 1 files. Now scanning "debian/khmer-common/usr/share/doc-base/khmer", found 1 files. Now scanning "debian/khmer-common/usr/share/doc"readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/searchtools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/searchtools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//searchtools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//searchtools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/doctools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/doctools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//doctools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//doctools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/underscore.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/underscore.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//underscore.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//underscore.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//jquery.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//jquery.js , found 202 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common"readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/searchtools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/searchtools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//searchtools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//searchtools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/doctools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/doctools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//doctools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//doctools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/underscore.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/underscore.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//underscore.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//underscore.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//jquery.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//jquery.js , found 202 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/copyright", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/test-compile.cc", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/run-unit-test", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/README.test", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/README.rst", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html"readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/searchtools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/searchtools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//searchtools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//searchtools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/doctools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/doctools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//doctools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//doctools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/underscore.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/underscore.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//underscore.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//underscore.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//jquery.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//jquery.js , found 196 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/user", found 13 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/user/scripts.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/user/partitioning-big-data.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/user/known-issues.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/user/install.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/user/index.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/user/guide.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/user/getting-help.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/user/galaxy.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/user/examples.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/user/choosing-table-sizes.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/user/blog-posts.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/user/biblio.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/user/api-examples.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/searchindex.js", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/search.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/roadmap.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/release-notes", found 9 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/release-notes/release-2.1.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/release-notes/release-2.0.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/release-notes/release-1.4.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/release-notes/release-1.3.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/release-notes/release-1.2.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/release-notes/release-1.1.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/release-notes/release-1.0.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/release-notes/release-1.0.1.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/release-notes/index.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/objects.inv", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/introduction.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/index.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/genindex.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/dev", found 13 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/dev/scripts-and-sandbox.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/dev/release.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/dev/python-api.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/dev/index.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/dev/hackathon.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/dev/guidelines-continued-dev.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/dev/getting-started.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/dev/for-khmer-developers.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/dev/development.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/dev/codebase-guide.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/dev/binary-file-formats.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/dev/a-quick-guide-to-testing.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/dev/CODE_OF_CONDUCT.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/contributors.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static"readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/searchtools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/searchtools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//searchtools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//searchtools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/doctools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/doctools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//doctools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//doctools.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/underscore.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/underscore.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//underscore.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//underscore.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.js readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//jquery.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//jquery.js , found 108 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/websupport.js", found 0 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/up.png", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/up-pressed.png", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/underscore.js"readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//underscore.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//underscore.js , found 0 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/searchtools.js"readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//searchtools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//searchtools.js , found 0 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/pygments.css", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/plus.png", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/minus.png", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/language_data.js", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/labibi.js", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/labibi.css", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/js", found 2 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/js/bootstrap.min.js", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/js/bootstrap.js", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.min.js", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.js"readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//jquery.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//jquery.js , found 0 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/guzzle.css", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts", found 84 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro", found 35 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/source-serif-pro.css", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/bower.json", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF", found 12 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF", found 6 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Semibold.ttf.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Regular.ttf.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Light.ttf.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-ExtraLight.ttf.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Bold.ttf.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Black.ttf.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/OTF", found 6 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/OTF/SourceSerifPro-Semibold.otf.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/OTF/SourceSerifPro-Regular.otf.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/OTF/SourceSerifPro-Light.otf.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/OTF/SourceSerifPro-ExtraLight.otf.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/OTF/SourceSerifPro-Bold.otf.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/OTF/SourceSerifPro-Black.otf.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/TTF", found 6 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/TTF/SourceSerifPro-Semibold.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/TTF/SourceSerifPro-Regular.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/TTF/SourceSerifPro-Light.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/TTF/SourceSerifPro-ExtraLight.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/TTF/SourceSerifPro-Bold.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/TTF/SourceSerifPro-Black.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/SourceSerifProReadMe.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/ReadMe.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/README.md", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/OTF", found 6 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/OTF/SourceSerifPro-Semibold.otf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/OTF/SourceSerifPro-Regular.otf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/OTF/SourceSerifPro-Light.otf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/OTF/SourceSerifPro-ExtraLight.otf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/OTF/SourceSerifPro-Bold.otf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/OTF/SourceSerifPro-Black.otf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/EOT", found 6 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/EOT/SourceSerifPro-Semibold.eot", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/EOT/SourceSerifPro-Regular.eot", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/EOT/SourceSerifPro-Light.eot", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/EOT/SourceSerifPro-ExtraLight.eot", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/EOT/SourceSerifPro-Bold.eot", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/EOT/SourceSerifPro-Black.eot", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans", found 41 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/stylesheet.css", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts", found 40 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-SemiboldItalic-webfont.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-SemiboldItalic-webfont.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-SemiboldItalic-webfont.svg", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-SemiboldItalic-webfont.eot", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Semibold-webfont.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Semibold-webfont.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Semibold-webfont.svg", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Semibold-webfont.eot", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Regular-webfont.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Regular-webfont.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Regular-webfont.svg", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Regular-webfont.eot", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-LightItalic-webfont.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-LightItalic-webfont.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-LightItalic-webfont.svg", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-LightItalic-webfont.eot", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Light-webfont.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Light-webfont.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Light-webfont.svg", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Light-webfont.eot", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Italic-webfont.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Italic-webfont.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Italic-webfont.svg", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Italic-webfont.eot", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBoldItalic-webfont.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBoldItalic-webfont.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBoldItalic-webfont.svg", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBoldItalic-webfont.eot", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBold-webfont.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBold-webfont.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBold-webfont.svg", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBold-webfont.eot", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-BoldItalic-webfont.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-BoldItalic-webfont.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-BoldItalic-webfont.svg", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-BoldItalic-webfont.eot", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Bold-webfont.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Bold-webfont.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Bold-webfont.svg", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Bold-webfont.eot", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.woff2", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.woff", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.svg", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.eot", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/LiberationSerif-Regular.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/LiberationSans-Regular.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/LiberationSans-Italic.ttf", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/file.png", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/down.png", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/down-pressed.png", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/documentation_options.js", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/doctools.js"readfileinfo.cc:Something went wrong when reading file info from "debian/khmer-common/usr/share/doc/khmer-common/html/_static//doctools.js" :No such file or directory failed to read file info on file "debian/khmer-common/usr/share/doc/khmer-common/html/_static//doctools.js , found 0 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/css", found 3 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/css/font-face.css", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/css/bootstrap.min.css", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/css/bootstrap-theme.min.css", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/comment.png", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/comment-close.png", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/comment-bright.png", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/basic.css", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_static/ajax-loader.gif", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources", found 41 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user", found 13 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/scripts.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/partitioning-big-data.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/known-issues.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/install.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/index.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/guide.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/getting-help.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/galaxy.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/examples.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/choosing-table-sizes.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/blog-posts.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/biblio.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/user/api-examples.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/roadmap.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes", found 9 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes/release-2.1.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes/release-2.0.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes/release-1.4.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes/release-1.3.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes/release-1.2.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes/release-1.1.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes/release-1.0.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes/release-1.0.1.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/release-notes/index.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/introduction.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/index.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev", found 13 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/scripts-and-sandbox.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/release.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/python-api.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/index.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/hackathon.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/guidelines-continued-dev.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/getting-started.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/for-khmer-developers.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/development.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/codebase-guide.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/binary-file-formats.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/a-quick-guide-to-testing.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/dev/CODE_OF_CONDUCT.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/contributors.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_sources/LICENSE.rst.txt", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_images", found 2 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_images/partitioning-workflow.png", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/_images/artifact-removal.png", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/LICENSE.html", found 1 files. Now scanning "debian/khmer-common/usr/share/doc/khmer-common/html/.buildinfo", found 0 files. Now scanning "debian/khmer-common/usr/share/file", found 1 files. Now scanning "debian/khmer-common/usr/share/file/khmer", found 1 files. Now scanning "debian/khmer-common/usr/share/file/khmer/magic", found 1 files. Now have 2000 files in total. Removed 1694 files due to nonunique device and inode. Total size is 11798221 bytes or 11 MiB Removed 121 files due to unique sizes from list.185 files left. Now eliminating candidates based on first bytes:removed 3 files from list.182 files left. Now eliminating candidates based on last bytes:removed 0 files from list.182 files left. Now eliminating candidates based on sha1 checksum:removed 0 files from list.182 files left. It seems like you have 182 files that are not unique Totally, 5 MiB can be reduced. Now making results file results.txt Now making symbolic links. creating Making 91 links. if [ -f debian/khmer-common/usr/share/doc/khmer-common/html/_sources/citations.rst.txt ]; then \ rm debian/khmer-common/usr/share/doc/khmer-common/html/_sources/citations.rst.txt && \ cd debian/khmer-common/usr/share/doc/khmer-common/html/_sources/ && \ ln -s ../../CITATION citations.rst.txt; fi make[1]: Leaving directory '/build/khmer-2.1.2+dfsg' dh_installchangelogs -O--buildsystem=pybuild install -p -m0644 debian/changelog debian/khmer/usr/share/doc/khmer/changelog.Debian install -p -m0644 ./CHANGELOG.md debian/khmer/usr/share/doc/khmer/changelog install -p -m0644 debian/changelog debian/khmer-common/usr/share/doc/khmer-common/changelog.Debian install -p -m0644 ./CHANGELOG.md debian/khmer-common/usr/share/doc/khmer-common/changelog install -p -m0644 debian/changelog debian/liboxli1/usr/share/doc/liboxli1/changelog.Debian install -p -m0644 ./CHANGELOG.md debian/liboxli1/usr/share/doc/liboxli1/changelog install -p -m0644 debian/changelog debian/liboxli-dev/usr/share/doc/liboxli-dev/changelog.Debian install -p -m0644 ./CHANGELOG.md debian/liboxli-dev/usr/share/doc/liboxli-dev/changelog dh_installman -O--buildsystem=pybuild install -d debian/khmer/usr/share/man/man1/ install -p -m0644 ./debian/khmer.1 debian/khmer/usr/share/man/man1/khmer.1 man -l --recode UTF-8 ./debian/khmer/usr/share/man/man1/khmer.1 > debian/khmer/usr/share/man/man1/khmer.1.dh-new mv debian/khmer/usr/share/man/man1/khmer.1.dh-new debian/khmer/usr/share/man/man1/khmer.1 chmod 0644 -- debian/khmer/usr/share/man/man1/khmer.1 dh_python3 -O--buildsystem=pybuild D: dh_python3 dh_python3:161: version: 3.20190308 D: dh_python3 dh_python3:162: argv: ['/usr/bin/dh_python3', '-O--buildsystem=pybuild'] D: dh_python3 dh_python3:163: options: {'guess_deps': True, 'skip_private': False, 'verbose': False, 'arch': None, 'package': None, 'no_package': None, 'compile_all': False, 'vrange': None, 'regexpr': None, 'accept_upstream_versions': False, 'depends': None, 'depends_section': None, 'recommends': None, 'recommends_section': None, 'suggests': None, 'suggests_section': None, 'requires': None, 'shebang': None, 'ignore_shebangs': False, 'clean_dbg_pkg': True, 'no_ext_rename': False, 'no_shebang_rewrite': False, 'O': '--buildsystem=pybuild'} D: dh_python3 dh_python3:164: args: [] D: dh_python3 dh_python3:166: supported Python versions: 3.7 (default=3.7) D: dh_python3 debhelper:100: skipping package khmer-common (missing ${python3:Depends} in Depends) D: dh_python3 debhelper:100: skipping package liboxli1 (missing ${python3:Depends} in Depends) D: dh_python3 debhelper:100: skipping package liboxli-dev (missing ${python3:Depends} in Depends) D: dh_python3 debhelper:153: source=khmer, binary packages=['khmer'] D: dh_python3 dh_python3:183: processing package khmer... D: dh_python3 fs:49: moving files from debian/khmer/usr/lib/python3.7/dist-packages to debian/khmer/usr/lib/python3/dist-packages/ D: dh_python3 tools:232: invoking: /usr/bin/python3.7 -c 'import sysconfig as s;print("__SEP__".join(i or "" for i in s.get_config_vars("SOABI", "MULTIARCH", "INCLUDEPY", "LIBPL", "LDLIBRARY")))' D: dh_python3 tools:102: fix_shebang (debian/khmer/usr/bin/khmer): doesn't look like a shebang: #!/bin/sh D: dh_python3 fs:260: package khmer details = {'requires.txt': {'debian/khmer/usr/lib/python3/dist-packages/khmer-2.1.2.egg-info/requires.txt'}, 'egg-info': set(), 'nsp.txt': set(), 'shebangs': set(), 'public_vers': {Version('3')}, 'private_dirs': {'/usr/lib/khmer': {'shebangs': {/usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3}, 'compile': True}}, 'compile': True, 'ext_vers': {Version('3.7')}, 'ext_no_version': set()} D: dh_python3 depends:114: generating dependencies for package khmer D: dh_python3 pydist:138: trying to find dependency for Cython>=0.25.2 (python=None) D: dh_python3 pydist:138: trying to find dependency for bz2file (python=None) D: dh_python3 pydist:138: trying to find dependency for screed>=1.0 (python=None) D: dh_python3 depends:272: D={'python3:any', 'python3-screed (>= 1.0)', 'python3-bz2file', 'cython3 (>= 0.26.1)', 'python3 (<< 3.8)', 'python3 (>= 3.7~)'}; R=[]; S=[]; E=[], B=[]; RT=[('/usr/lib/khmer', '')] dh_installinit -O--buildsystem=pybuild dh_lintian -O--buildsystem=pybuild install -d debian/khmer/usr/share/lintian/overrides install -p -m0644 debian/khmer.lintian-overrides debian/khmer/usr/share/lintian/overrides/khmer install -d debian/liboxli1/usr/share/lintian/overrides install -p -m0644 debian/liboxli1.lintian-overrides debian/liboxli1/usr/share/lintian/overrides/liboxli1 dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_sources/citations.rst.txt ln -s ../../CITATION debian/khmer-common/usr/share/doc/khmer-common/html/_sources/citations.rst.txt rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/css/font-face.css ln -s ../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/css/font-face.css debian/khmer-common/usr/share/doc/khmer-common/html/_static/css/font-face.css rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/css/bootstrap-theme.min.css ln -s ../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/css/bootstrap-theme.min.css debian/khmer-common/usr/share/doc/khmer-common/html/_static/css/bootstrap-theme.min.css rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/css/bootstrap.min.css ln -s ../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/css/bootstrap.min.css debian/khmer-common/usr/share/doc/khmer-common/html/_static/css/bootstrap.min.css rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Light-webfont.woff ln -s ../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/open-sans/fonts/OpenSans-Light-webfont.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Light-webfont.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Regular-webfont.woff ln -s ../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/open-sans/fonts/OpenSans-Regular-webfont.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Regular-webfont.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Semibold-webfont.woff ln -s ../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/open-sans/fonts/OpenSans-Semibold-webfont.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Semibold-webfont.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Bold-webfont.woff ln -s ../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/open-sans/fonts/OpenSans-Bold-webfont.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Bold-webfont.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBold-webfont.woff ln -s ../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/open-sans/fonts/OpenSans-ExtraBold-webfont.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBold-webfont.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBoldItalic-webfont.woff ln -s ../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/open-sans/fonts/OpenSans-ExtraBoldItalic-webfont.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBoldItalic-webfont.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-BoldItalic-webfont.woff ln -s ../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/open-sans/fonts/OpenSans-BoldItalic-webfont.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-BoldItalic-webfont.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-SemiboldItalic-webfont.woff ln -s ../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/open-sans/fonts/OpenSans-SemiboldItalic-webfont.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-SemiboldItalic-webfont.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Italic-webfont.woff ln -s ../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/open-sans/fonts/OpenSans-Italic-webfont.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Italic-webfont.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-LightItalic-webfont.woff ln -s ../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/open-sans/fonts/OpenSans-LightItalic-webfont.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-LightItalic-webfont.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Light-webfont.ttf ln -s ../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/open-sans/fonts/OpenSans-Light-webfont.ttf debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Light-webfont.ttf rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Regular-webfont.ttf ln -s ../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/open-sans/fonts/OpenSans-Regular-webfont.ttf debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Regular-webfont.ttf rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Light-webfont.eot ln -s ../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/open-sans/fonts/OpenSans-Light-webfont.eot debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Light-webfont.eot rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Regular-webfont.eot ln -s ../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/open-sans/fonts/OpenSans-Regular-webfont.eot debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Regular-webfont.eot rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Semibold-webfont.ttf ln -s ../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/open-sans/fonts/OpenSans-Semibold-webfont.ttf debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Semibold-webfont.ttf rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Semibold-webfont.eot ln -s ../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/open-sans/fonts/OpenSans-Semibold-webfont.eot debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-Semibold-webfont.eot rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBold-webfont.ttf ln -s ../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/open-sans/fonts/OpenSans-ExtraBold-webfont.ttf debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBold-webfont.ttf rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBold-webfont.eot ln -s ../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/open-sans/fonts/OpenSans-ExtraBold-webfont.eot debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/open-sans/fonts/OpenSans-ExtraBold-webfont.eot rm -f 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debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/OTF/SourceSerifPro-Black.otf.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/OTF/SourceSerifPro-Regular.otf.woff ln -s ../../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/source-serif-pro/WOFF/OTF/SourceSerifPro-Regular.otf.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/OTF/SourceSerifPro-Regular.otf.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/OTF/SourceSerifPro-Light.otf.woff ln -s ../../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/source-serif-pro/WOFF/OTF/SourceSerifPro-Light.otf.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/OTF/SourceSerifPro-Light.otf.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/OTF/SourceSerifPro-Bold.otf.woff ln -s ../../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/source-serif-pro/WOFF/OTF/SourceSerifPro-Bold.otf.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/OTF/SourceSerifPro-Bold.otf.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/OTF/SourceSerifPro-Semibold.otf.woff ln -s ../../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/source-serif-pro/WOFF/OTF/SourceSerifPro-Semibold.otf.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/OTF/SourceSerifPro-Semibold.otf.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-ExtraLight.ttf.woff ln -s ../../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-ExtraLight.ttf.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-ExtraLight.ttf.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Black.ttf.woff ln -s ../../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Black.ttf.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Black.ttf.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Regular.ttf.woff ln -s ../../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Regular.ttf.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Regular.ttf.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Light.ttf.woff ln -s ../../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Light.ttf.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Light.ttf.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Semibold.ttf.woff ln -s ../../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Semibold.ttf.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Semibold.ttf.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Bold.ttf.woff ln -s ../../../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Bold.ttf.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/WOFF/TTF/SourceSerifPro-Bold.ttf.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/bower.json ln -s ../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/source-serif-pro/bower.json debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/bower.json rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/README.md ln -s ../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/source-serif-pro/README.md debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/README.md rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/source-serif-pro.css ln -s ../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/source-serif-pro/source-serif-pro.css debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/source-serif-pro.css rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/ReadMe.html ln -s ../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/source-serif-pro/ReadMe.html debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/ReadMe.html rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/SourceSerifProReadMe.html ln -s ../../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/source-serif-pro/SourceSerifProReadMe.html debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/source-serif-pro/SourceSerifProReadMe.html rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.woff2 ln -s ../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/glyphicons-halflings-regular.woff2 debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.woff2 rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.eot ln -s ../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/glyphicons-halflings-regular.eot debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.eot rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.woff ln -s ../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/glyphicons-halflings-regular.woff debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.woff rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.ttf ln -s ../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/glyphicons-halflings-regular.ttf debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.ttf rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.svg ln -s ../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/glyphicons-halflings-regular.svg debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/glyphicons-halflings-regular.svg rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/LiberationSans-Regular.ttf ln -s ../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/LiberationSans-Regular.ttf debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/LiberationSans-Regular.ttf rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/LiberationSerif-Regular.ttf ln -s ../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/LiberationSerif-Regular.ttf debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/LiberationSerif-Regular.ttf rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/LiberationSans-Italic.ttf ln -s ../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/fonts/LiberationSans-Italic.ttf debian/khmer-common/usr/share/doc/khmer-common/html/_static/fonts/LiberationSans-Italic.ttf rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/js/bootstrap.min.js ln -s ../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/js/bootstrap.min.js debian/khmer-common/usr/share/doc/khmer-common/html/_static/js/bootstrap.min.js rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/js/bootstrap.js ln -s ../../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/js/bootstrap.js debian/khmer-common/usr/share/doc/khmer-common/html/_static/js/bootstrap.js rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.js ln -s ../../../../javascript/sphinxdoc/1.0/jquery.js debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.js rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/underscore.js ln -s ../../../../javascript/sphinxdoc/1.0/underscore.js debian/khmer-common/usr/share/doc/khmer-common/html/_static/underscore.js rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/doctools.js ln -s ../../../../javascript/sphinxdoc/1.0/doctools.js debian/khmer-common/usr/share/doc/khmer-common/html/_static/doctools.js rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/searchtools.js ln -s ../../../../javascript/sphinxdoc/1.0/searchtools.js debian/khmer-common/usr/share/doc/khmer-common/html/_static/searchtools.js rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.min.js ln -s ../../../../../lib/python3/dist-packages/guzzle_sphinx_theme/guzzle_sphinx_theme/static/jquery.min.js debian/khmer-common/usr/share/doc/khmer-common/html/_static/jquery.min.js rm -f debian/liboxli-dev/usr/lib/aarch64-linux-gnu/liboxli.so ln -s liboxli.so.1 debian/liboxli-dev/usr/lib/aarch64-linux-gnu/liboxli.so dh_strip_nondeterminism -O--buildsystem=pybuild Using 1547047665 as canonical time Normalizing debian/khmer-common/usr/share/doc/khmer-common/html/_static/up.png using File::StripNondeterminism::handlers::png Normalizing debian/khmer-common/usr/share/doc/khmer-common/html/_static/up-pressed.png using File::StripNondeterminism::handlers::png Normalizing debian/khmer-common/usr/share/doc/khmer-common/html/_static/plus.png using File::StripNondeterminism::handlers::png Normalizing debian/khmer-common/usr/share/doc/khmer-common/html/_static/minus.png using File::StripNondeterminism::handlers::png Normalizing debian/khmer-common/usr/share/doc/khmer-common/html/_static/file.png using File::StripNondeterminism::handlers::png Normalizing debian/khmer-common/usr/share/doc/khmer-common/html/_static/down.png using File::StripNondeterminism::handlers::png Normalizing debian/khmer-common/usr/share/doc/khmer-common/html/_static/down-pressed.png using File::StripNondeterminism::handlers::png Normalizing debian/khmer-common/usr/share/doc/khmer-common/html/_static/comment.png using File::StripNondeterminism::handlers::png Normalizing debian/khmer-common/usr/share/doc/khmer-common/html/_static/comment-close.png using File::StripNondeterminism::handlers::png Normalizing debian/khmer-common/usr/share/doc/khmer-common/html/_static/comment-bright.png using File::StripNondeterminism::handlers::png Normalizing debian/khmer-common/usr/share/doc/khmer-common/html/_images/partitioning-workflow.png using File::StripNondeterminism::handlers::png Normalizing debian/khmer-common/usr/share/doc/khmer-common/html/_images/artifact-removal.png using File::StripNondeterminism::handlers::png Using 1547047665 as canonical time Normalizing debian/khmer/usr/lib/python3/dist-packages/khmer/tests/test-data/test-abund-read-2.fa.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/khmer/usr/lib/python3/dist-packages/khmer/tests/test-data/random-20-a.fq.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/khmer/usr/lib/python3/dist-packages/khmer/tests/test-data/random-20-a.fa.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/khmer/usr/lib/python3/dist-packages/khmer/tests/test-data/test-reads.fq.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/khmer/usr/lib/python3/dist-packages/khmer/tests/test-data/100-reads.fq.truncated.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/khmer/usr/lib/python3/dist-packages/khmer/tests/test-data/100-reads.fq.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/khmer/usr/lib/python3/dist-packages/khmer/tests/test-data/empty-file.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/khmer/usr/lib/python3/dist-packages/khmer/tests/test-data/goodversion-k12.ht.gz using File::StripNondeterminism::handlers::gzip dh_compress -O--buildsystem=pybuild cd debian/khmer-common cd debian/khmer cd debian/liboxli1 cd debian/liboxli-dev chmod a-x usr/share/doc/khmer/changelog usr/share/doc/khmer/changelog.Debian usr/share/man/man1/khmer.1 chmod a-x usr/share/doc/liboxli1/changelog usr/share/doc/liboxli1/changelog.Debian gzip -9nf usr/share/doc/khmer/changelog usr/share/doc/khmer/changelog.Debian usr/share/man/man1/khmer.1 gzip -9nf usr/share/doc/liboxli1/changelog usr/share/doc/liboxli1/changelog.Debian chmod a-x usr/share/doc/liboxli-dev/changelog usr/share/doc/liboxli-dev/changelog.Debian chmod a-x usr/share/doc/khmer-common/CITATION usr/share/doc/khmer-common/changelog usr/share/doc/khmer-common/changelog.Debian gzip -9nf usr/share/doc/khmer-common/CITATION usr/share/doc/khmer-common/changelog usr/share/doc/khmer-common/changelog.Debian cd '/build/khmer-2.1.2+dfsg' gzip -9nf usr/share/doc/liboxli-dev/changelog usr/share/doc/liboxli-dev/changelog.Debian cd '/build/khmer-2.1.2+dfsg' cd '/build/khmer-2.1.2+dfsg' cd '/build/khmer-2.1.2+dfsg' rm -f debian/khmer-common/usr/share/doc/khmer-common/html/_sources/citations.rst.txt debian/khmer-common/usr/share/doc/khmer-common/html/_sources/citations.rst.txt.gz ln -s ../../CITATION.gz debian/khmer-common/usr/share/doc/khmer-common/html/_sources/citations.rst.txt.gz dh_fixperms -O--buildsystem=pybuild find debian/khmer-common -true -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0 find debian/khmer -true -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0 find debian/liboxli1 -true -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0 find debian/liboxli-dev -true -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0 find debian/liboxli1 ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/liboxli-dev ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/liboxli1/usr/share/doc -type f -a -true -a ! -regex 'debian/liboxli1/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/khmer ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/khmer-common ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/liboxli1/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/liboxli-dev/usr/share/doc -type f -a -true -a ! -regex 'debian/liboxli-dev/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/liboxli1/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/liboxli-dev/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/khmer-common/usr/share/doc -type f -a -true -a ! -regex 'debian/khmer-common/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/khmer/usr/share/doc -type f -a -true -a ! -regex 'debian/khmer/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/liboxli-dev/usr/include -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/liboxli1 -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/liboxli-dev -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/liboxli1/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w find debian/khmer/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/khmer-common/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/khmer/usr/share/man debian/khmer/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/liboxli-dev/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w find debian/khmer -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/khmer-common -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/khmer/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x find debian/khmer/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w dh_missing -O--buildsystem=pybuild dh_strip -O--buildsystem=pybuild strip --strip-debug --remove-section=.comment --remove-section=.note --enable-deterministic-archives debian/liboxli-dev/usr/lib/aarch64-linux-gnu/liboxli.a install -d debian/.debhelper/liboxli1/dbgsym-root/usr/lib/debug/.build-id/e6 objcopy --only-keep-debug --compress-debug-sections debian/liboxli1/usr/lib/aarch64-linux-gnu/liboxli.so.1 debian/.debhelper/liboxli1/dbgsym-root/usr/lib/debug/.build-id/e6/caa13c4a3d968a0dc3f1266e942db21681340e.debug install -d debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/c6 objcopy --only-keep-debug --compress-debug-sections debian/khmer/usr/lib/python3/dist-packages/khmer/_khmer.cpython-37m-aarch64-linux-gnu.so debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/c6/249547a3ffff56b3d4553b3d50b80cc39b42a6.debug chmod 0644 -- debian/.debhelper/liboxli1/dbgsym-root/usr/lib/debug/.build-id/e6/caa13c4a3d968a0dc3f1266e942db21681340e.debug chown 0:0 -- debian/.debhelper/liboxli1/dbgsym-root/usr/lib/debug/.build-id/e6/caa13c4a3d968a0dc3f1266e942db21681340e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/liboxli1/usr/lib/aarch64-linux-gnu/liboxli.so.1 objcopy --add-gnu-debuglink debian/.debhelper/liboxli1/dbgsym-root/usr/lib/debug/.build-id/e6/caa13c4a3d968a0dc3f1266e942db21681340e.debug debian/liboxli1/usr/lib/aarch64-linux-gnu/liboxli.so.1 install -d debian/.debhelper/liboxli1/dbgsym-root/usr/share/doc ln -s liboxli1 debian/.debhelper/liboxli1/dbgsym-root/usr/share/doc/liboxli1-dbgsym chmod 0644 -- debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/c6/249547a3ffff56b3d4553b3d50b80cc39b42a6.debug chown 0:0 -- debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/c6/249547a3ffff56b3d4553b3d50b80cc39b42a6.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/khmer/usr/lib/python3/dist-packages/khmer/_khmer.cpython-37m-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/c6/249547a3ffff56b3d4553b3d50b80cc39b42a6.debug debian/khmer/usr/lib/python3/dist-packages/khmer/_khmer.cpython-37m-aarch64-linux-gnu.so install -d debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/05 objcopy --only-keep-debug --compress-debug-sections debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/assembly.cpython-37m-aarch64-linux-gnu.so debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/05/112acfea5fb2cde0f678a5e2690cf92dc97567.debug chmod 0644 -- debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/05/112acfea5fb2cde0f678a5e2690cf92dc97567.debug chown 0:0 -- debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/05/112acfea5fb2cde0f678a5e2690cf92dc97567.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/assembly.cpython-37m-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/05/112acfea5fb2cde0f678a5e2690cf92dc97567.debug debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/assembly.cpython-37m-aarch64-linux-gnu.so install -d debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/06 objcopy --only-keep-debug --compress-debug-sections debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/graphs.cpython-37m-aarch64-linux-gnu.so debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/06/02bd20954359ab1c2fb2314782336644ea93ac.debug chmod 0644 -- debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/06/02bd20954359ab1c2fb2314782336644ea93ac.debug chown 0:0 -- debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/06/02bd20954359ab1c2fb2314782336644ea93ac.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/graphs.cpython-37m-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/06/02bd20954359ab1c2fb2314782336644ea93ac.debug debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/graphs.cpython-37m-aarch64-linux-gnu.so install -d debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/38 objcopy --only-keep-debug --compress-debug-sections debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/hashing.cpython-37m-aarch64-linux-gnu.so debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/38/c9b1d6b93889476a7b4ed75706ef00c157fa1d.debug chmod 0644 -- debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/38/c9b1d6b93889476a7b4ed75706ef00c157fa1d.debug chown 0:0 -- debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/38/c9b1d6b93889476a7b4ed75706ef00c157fa1d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/hashing.cpython-37m-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/38/c9b1d6b93889476a7b4ed75706ef00c157fa1d.debug debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/hashing.cpython-37m-aarch64-linux-gnu.so install -d debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/83 objcopy --only-keep-debug --compress-debug-sections debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/parsing.cpython-37m-aarch64-linux-gnu.so debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/83/269a6f2bcf5a96d8975d8f0b2c6c57c814f592.debug chmod 0644 -- debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/83/269a6f2bcf5a96d8975d8f0b2c6c57c814f592.debug chown 0:0 -- debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/83/269a6f2bcf5a96d8975d8f0b2c6c57c814f592.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/parsing.cpython-37m-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/83/269a6f2bcf5a96d8975d8f0b2c6c57c814f592.debug debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/parsing.cpython-37m-aarch64-linux-gnu.so install -d debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/50 objcopy --only-keep-debug --compress-debug-sections debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/utils.cpython-37m-aarch64-linux-gnu.so debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/50/fb38c3b931c92d16b206bedd3fdc95ad3217b7.debug chmod 0644 -- debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/50/fb38c3b931c92d16b206bedd3fdc95ad3217b7.debug chown 0:0 -- debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/50/fb38c3b931c92d16b206bedd3fdc95ad3217b7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/utils.cpython-37m-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/khmer/dbgsym-root/usr/lib/debug/.build-id/50/fb38c3b931c92d16b206bedd3fdc95ad3217b7.debug debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/utils.cpython-37m-aarch64-linux-gnu.so install -d debian/.debhelper/khmer/dbgsym-root/usr/share/doc ln -s khmer debian/.debhelper/khmer/dbgsym-root/usr/share/doc/khmer-dbgsym dh_makeshlibs -O--buildsystem=pybuild rm -f debian/khmer-common/DEBIAN/shlibs rm -f debian/khmer/DEBIAN/shlibs rm -f debian/liboxli1/DEBIAN/shlibs install -d debian/liboxli1/DEBIAN echo "liboxli 1 liboxli1" >> debian/liboxli1/DEBIAN/shlibs chmod 0644 -- debian/liboxli1/DEBIAN/shlibs chown 0:0 -- debian/liboxli1/DEBIAN/shlibs mv debian/.debhelper/generated/liboxli1/triggers.new debian/.debhelper/generated/liboxli1/triggers rm -f debian/liboxli-dev/DEBIAN/shlibs dh_shlibdeps -O--buildsystem=pybuild dpkg-shlibdeps -Tdebian/liboxli1.substvars debian/liboxli1/usr/lib/aarch64-linux-gnu/liboxli.so.1 install -d debian/khmer/DEBIAN dpkg-shlibdeps -Tdebian/khmer.substvars debian/khmer/usr/lib/python3/dist-packages/khmer/_khmer.cpython-37m-aarch64-linux-gnu.so debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/utils.cpython-37m-aarch64-linux-gnu.so debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/parsing.cpython-37m-aarch64-linux-gnu.so debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/hashing.cpython-37m-aarch64-linux-gnu.so debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/graphs.cpython-37m-aarch64-linux-gnu.so debian/khmer/usr/lib/python3/dist-packages/khmer/_oxli/assembly.cpython-37m-aarch64-linux-gnu.so dh_installdeb -O--buildsystem=pybuild install -d debian/khmer-common/DEBIAN sed s/\#DEBHELPER\#// debian/khmer-common.postinst > debian/khmer-common/DEBIAN/postinst chmod 0755 -- debian/khmer-common/DEBIAN/postinst chown 0:0 -- debian/khmer-common/DEBIAN/postinst sed s/\#DEBHELPER\#// debian/khmer-common.postrm > debian/khmer-common/DEBIAN/postrm chmod 0755 -- debian/khmer-common/DEBIAN/postrm chown 0:0 -- debian/khmer-common/DEBIAN/postrm printf '#!/bin/sh\nset -e\n' > debian/khmer/DEBIAN/postinst cat debian/khmer.postinst.debhelper >> debian/khmer/DEBIAN/postinst chmod 0755 -- debian/khmer/DEBIAN/postinst chown 0:0 -- debian/khmer/DEBIAN/postinst printf '#!/bin/sh\nset -e\n' > debian/khmer/DEBIAN/prerm cat debian/khmer.prerm.debhelper >> debian/khmer/DEBIAN/prerm chmod 0755 -- debian/khmer/DEBIAN/prerm chown 0:0 -- debian/khmer/DEBIAN/prerm install -p -m0644 debian/.debhelper/generated/liboxli1/triggers debian/liboxli1/DEBIAN/triggers install -d debian/liboxli-dev/DEBIAN dh_gencontrol -O--buildsystem=pybuild echo misc:Depends= >> debian/khmer-common.substvars echo misc:Pre-Depends= >> debian/khmer-common.substvars dpkg-gencontrol -pkhmer-common -ldebian/changelog -Tdebian/khmer-common.substvars -Pdebian/khmer-common echo misc:Depends= >> debian/liboxli-dev.substvars echo misc:Pre-Depends= >> debian/liboxli-dev.substvars dpkg-gencontrol -pliboxli-dev -ldebian/changelog -Tdebian/liboxli-dev.substvars -Pdebian/liboxli-dev echo misc:Depends= >> debian/khmer.substvars echo misc:Pre-Depends= >> debian/khmer.substvars install -d debian/.debhelper/khmer/dbgsym-root/DEBIAN dpkg-gencontrol -pkhmer -ldebian/changelog -Tdebian/khmer.substvars -Pdebian/.debhelper/khmer/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -DPackage=khmer-dbgsym "-DDepends=khmer (= \${binary:Version})" "-DDescription=debug symbols for khmer" "-DBuild-Ids=05112acfea5fb2cde0f678a5e2690cf92dc97567 0602bd20954359ab1c2fb2314782336644ea93ac 38c9b1d6b93889476a7b4ed75706ef00c157fa1d 50fb38c3b931c92d16b206bedd3fdc95ad3217b7 83269a6f2bcf5a96d8975d8f0b2c6c57c814f592 c6249547a3ffff56b3d4553b3d50b80cc39b42a6" -DSection=debug -UMulti-Arch -UReplaces -UBreaks echo misc:Depends= >> debian/liboxli1.substvars echo misc:Pre-Depends= >> debian/liboxli1.substvars install -d debian/.debhelper/liboxli1/dbgsym-root/DEBIAN dpkg-gencontrol -pliboxli1 -ldebian/changelog -Tdebian/liboxli1.substvars -Pdebian/.debhelper/liboxli1/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -DPackage=liboxli1-dbgsym "-DDepends=liboxli1 (= \${binary:Version})" "-DDescription=debug symbols for liboxli1" -DBuild-Ids=e6caa13c4a3d968a0dc3f1266e942db21681340e -DSection=debug -UReplaces -UBreaks chmod 0644 -- debian/khmer-common/DEBIAN/control chown 0:0 -- debian/khmer-common/DEBIAN/control chmod 0644 -- debian/liboxli-dev/DEBIAN/control chown 0:0 -- debian/liboxli-dev/DEBIAN/control chmod 0644 -- debian/.debhelper/liboxli1/dbgsym-root/DEBIAN/control chown 0:0 -- debian/.debhelper/liboxli1/dbgsym-root/DEBIAN/control dpkg-gencontrol -pliboxli1 -ldebian/changelog -Tdebian/liboxli1.substvars -Pdebian/liboxli1 dpkg-gencontrol: warning: package khmer: substitution variable ${python3:Versions} unused, but is defined chmod 0644 -- debian/.debhelper/khmer/dbgsym-root/DEBIAN/control chown 0:0 -- debian/.debhelper/khmer/dbgsym-root/DEBIAN/control dpkg-gencontrol -pkhmer -ldebian/changelog -Tdebian/khmer.substvars -Pdebian/khmer chmod 0644 -- debian/liboxli1/DEBIAN/control chown 0:0 -- debian/liboxli1/DEBIAN/control dpkg-gencontrol: warning: package khmer: substitution variable ${python3:Versions} unused, but is defined chmod 0644 -- debian/khmer/DEBIAN/control chown 0:0 -- debian/khmer/DEBIAN/control dh_md5sums -O--buildsystem=pybuild cd debian/liboxli-dev >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/khmer-common >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/khmer >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/liboxli1 >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/liboxli-dev/DEBIAN/md5sums chown 0:0 -- debian/liboxli-dev/DEBIAN/md5sums chmod 0644 -- debian/liboxli1/DEBIAN/md5sums chown 0:0 -- debian/liboxli1/DEBIAN/md5sums cd debian/.debhelper/liboxli1/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/khmer-common/DEBIAN/md5sums chown 0:0 -- debian/khmer-common/DEBIAN/md5sums chmod 0644 -- debian/.debhelper/liboxli1/dbgsym-root/DEBIAN/md5sums chown 0:0 -- debian/.debhelper/liboxli1/dbgsym-root/DEBIAN/md5sums chmod 0644 -- debian/khmer/DEBIAN/md5sums chown 0:0 -- debian/khmer/DEBIAN/md5sums cd debian/.debhelper/khmer/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/khmer/dbgsym-root/DEBIAN/md5sums chown 0:0 -- debian/.debhelper/khmer/dbgsym-root/DEBIAN/md5sums dh_builddeb -O--buildsystem=pybuild dpkg-deb --build debian/khmer-common .. dpkg-deb --build debian/.debhelper/khmer/dbgsym-root .. dpkg-deb --build debian/khmer .. dpkg-deb --build debian/liboxli1 .. dpkg-deb --build debian/liboxli-dev .. dpkg-deb: building package 'khmer-common' in '../khmer-common_2.1.2+dfsg-6_all.deb'. dpkg-deb --build debian/.debhelper/liboxli1/dbgsym-root .. dpkg-deb: building package 'liboxli1' in '../liboxli1_2.1.2+dfsg-6_arm64.deb'. dpkg-deb: building package 'liboxli-dev' in '../liboxli-dev_2.1.2+dfsg-6_arm64.deb'. dpkg-deb: building package 'khmer' in '../khmer_2.1.2+dfsg-6_arm64.deb'. dpkg-deb: building package 'khmer-dbgsym' in '../khmer-dbgsym_2.1.2+dfsg-6_arm64.deb'. dpkg-deb: building package 'liboxli1-dbgsym' in '../liboxli1-dbgsym_2.1.2+dfsg-6_arm64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../khmer_2.1.2+dfsg-6_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/25724 and its subdirectories I: Current time: Mon Aug 10 08:03:46 -12 2020 I: pbuilder-time-stamp: 1597089826