Your message dated Thu, 16 Aug 2018 06:34:07 +0000
with message-id <e1fqbrd-0007cw...@fasolo.debian.org>
and subject line Bug#905616: fixed in ariba 2.12.1+ds-2
has caused the Debian Bug report #905616,
regarding FTBFS: ariba/ext/minimap_ariba.cpp:15:10: fatal error: Python.h: No
such file or directory
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact ow...@bugs.debian.org
immediately.)
--
905616: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=905616
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Package: src:ariba
Version: 2.12.1+ds-1
Severity: serious
ariba fails to build in a clean amd64 sid chroot:
-----------------------------------------------
building 'minimap_ariba' extension
creating build
creating build/temp.linux-amd64-3.7
creating build/temp.linux-amd64-3.7/ariba
creating build/temp.linux-amd64-3.7/ariba/ext
x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2
-fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
-Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC
-I/usr/include/minimap -I/usr/include/python3.7m -c ariba/ext/minimap_ariba.cpp
-o build/temp.linux-amd64-3.7/ariba/ext/minimap_ariba.o
ariba/ext/minimap_ariba.cpp:15:10: fatal error: Python.h: No such file or
directory
#include "Python.h"
^~~~~~~~~~
compilation terminated.
error: command 'x86_64-linux-gnu-gcc' failed with exit status 1
E: pybuild pybuild:338: build: plugin distutils failed with: exit code=1:
/usr/bin/python3.7 setup.py build
dh_auto_build: pybuild --build --test-nose -i python{version} -p "3.7 3.6"
returned exit code 13
make: *** [debian/rules:10: build] Error 25
dpkg-buildpackage: error: debian/rules build subprocess returned exit status 2
------------------------------------------------
Full build log attached.
-- dam
sbuild (Debian sbuild) 0.77.0 (06 July 2018) on pc1.creditreform.bg
+==============================================================================+
| ariba 2.12.1+ds-1 (amd64) Tue, 07 Aug 2018 08:12:52 +0000 |
+==============================================================================+
Package: ariba
Version: 2.12.1+ds-1
Source Version: 2.12.1+ds-1
Distribution: sid
Machine Architecture: amd64
Host Architecture: amd64
Build Architecture: amd64
Build Type: binary
I: NOTICE: Log filtering will replace
'var/run/schroot/mount/sid-fa0d2234-8ccc-4429-af64-e6dcf305c240' with
'<<CHROOT>>'
I: NOTICE: Log filtering will replace 'build/ariba-HGdlhW/resolver-UgWMEb' with
'<<RESOLVERDIR>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Hit:1 http://pc1.modsoftsys.net/public sid InRelease
Get:2 http://proxy:9999/debian sid InRelease [233 kB]
Get:3 http://proxy:9999/debian sid/main amd64 Packages.diff/Index [27.9 kB]
Ign:3 http://proxy:9999/debian sid/main amd64 Packages.diff/Index
Get:3 http://proxy:9999/debian sid/main amd64 Packages.diff/Index [27.9 kB]
Ign:3 http://proxy:9999/debian sid/main amd64 Packages.diff/Index
Get:4 http://proxy:9999/debian sid/main amd64 Packages [8191 kB]
Fetched 8452 kB in 2s (5227 kB/s)
Reading package lists...
Reading package lists...
Building dependency tree...
Reading state information...
Calculating upgrade...
The following packages will be upgraded:
bsdutils fdisk gcc-8-base gzip libblkid1 libfdisk1 libgcc1 libmount1
libpcre3 libsmartcols1 libstdc++6 libuuid1 make mount patch util-linux
16 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
Need to get 3814 kB of archives.
After this operation, 8192 B of additional disk space will be used.
Get:1 http://proxy:9999/debian sid/main amd64 bsdutils amd64 1:2.32-0.4 [117 kB]
Get:2 http://proxy:9999/debian sid/main amd64 gzip amd64 1.9-2 [119 kB]
Get:3 http://proxy:9999/debian sid/main amd64 libuuid1 amd64 2.32-0.4 [77.6 kB]
Get:4 http://proxy:9999/debian sid/main amd64 libblkid1 amd64 2.32-0.4 [190 kB]
Get:5 http://proxy:9999/debian sid/main amd64 libfdisk1 amd64 2.32-0.4 [229 kB]
Get:6 http://proxy:9999/debian sid/main amd64 libmount1 amd64 2.32-0.4 [201 kB]
Get:7 http://proxy:9999/debian sid/main amd64 libsmartcols1 amd64 2.32-0.4 [146
kB]
Get:8 http://proxy:9999/debian sid/main amd64 fdisk amd64 2.32-0.4 [168 kB]
Get:9 http://proxy:9999/debian sid/main amd64 util-linux amd64 2.32-0.4 [974 kB]
Get:10 http://proxy:9999/debian sid/main amd64 mount amd64 2.32-0.4 [164 kB]
Get:11 http://proxy:9999/debian sid/main amd64 gcc-8-base amd64 8.2.0-3 [186 kB]
Get:12 http://proxy:9999/debian sid/main amd64 libstdc++6 amd64 8.2.0-3 [393 kB]
Get:13 http://proxy:9999/debian sid/main amd64 libgcc1 amd64 1:8.2.0-3 [40.7 kB]
Get:14 http://proxy:9999/debian sid/main amd64 libpcre3 amd64 2:8.39-11 [341 kB]
Get:15 http://proxy:9999/debian sid/main amd64 make amd64 4.2.1-1.2 [341 kB]
Get:16 http://proxy:9999/debian sid/main amd64 patch amd64 2.7.6-3 [126 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 3814 kB in 0s (42.6 MB/s)
(Reading database ...
(Reading database ... 5%
(Reading database ... 10%
(Reading database ... 15%
(Reading database ... 20%
(Reading database ... 25%
(Reading database ... 30%
(Reading database ... 35%
(Reading database ... 40%
(Reading database ... 45%
(Reading database ... 50%
(Reading database ... 55%
(Reading database ... 60%
(Reading database ... 65%
(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 9321 files and directories currently installed.)
Preparing to unpack .../bsdutils_1%3a2.32-0.4_amd64.deb ...
Unpacking bsdutils (1:2.32-0.4) over (1:2.32-0.3) ...
Setting up bsdutils (1:2.32-0.4) ...
(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 ... 9321 files and directories currently installed.)
Preparing to unpack .../archives/gzip_1.9-2_amd64.deb ...
Unpacking gzip (1.9-2) over (1.9-1) ...
Setting up gzip (1.9-2) ...
(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 ... 9321 files and directories currently installed.)
Preparing to unpack .../libuuid1_2.32-0.4_amd64.deb ...
Unpacking libuuid1:amd64 (2.32-0.4) over (2.32-0.3) ...
Setting up libuuid1:amd64 (2.32-0.4) ...
(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 ... 9321 files and directories currently installed.)
Preparing to unpack .../libblkid1_2.32-0.4_amd64.deb ...
Unpacking libblkid1:amd64 (2.32-0.4) over (2.32-0.3) ...
Setting up libblkid1:amd64 (2.32-0.4) ...
(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 ... 9321 files and directories currently installed.)
Preparing to unpack .../libfdisk1_2.32-0.4_amd64.deb ...
Unpacking libfdisk1:amd64 (2.32-0.4) over (2.32-0.3) ...
Setting up libfdisk1:amd64 (2.32-0.4) ...
(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 ... 9321 files and directories currently installed.)
Preparing to unpack .../libmount1_2.32-0.4_amd64.deb ...
Unpacking libmount1:amd64 (2.32-0.4) over (2.32-0.3) ...
Setting up libmount1:amd64 (2.32-0.4) ...
(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 ... 9321 files and directories currently installed.)
Preparing to unpack .../libsmartcols1_2.32-0.4_amd64.deb ...
Unpacking libsmartcols1:amd64 (2.32-0.4) over (2.32-0.3) ...
Setting up libsmartcols1:amd64 (2.32-0.4) ...
(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 ... 9321 files and directories currently installed.)
Preparing to unpack .../fdisk_2.32-0.4_amd64.deb ...
Unpacking fdisk (2.32-0.4) over (2.32-0.3) ...
Setting up fdisk (2.32-0.4) ...
(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 ... 9321 files and directories currently installed.)
Preparing to unpack .../util-linux_2.32-0.4_amd64.deb ...
Unpacking util-linux (2.32-0.4) over (2.32-0.3) ...
Setting up util-linux (2.32-0.4) ...
(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 ... 9321 files and directories currently installed.)
Preparing to unpack .../mount_2.32-0.4_amd64.deb ...
Unpacking mount (2.32-0.4) over (2.32-0.3) ...
Preparing to unpack .../gcc-8-base_8.2.0-3_amd64.deb ...
Unpacking gcc-8-base:amd64 (8.2.0-3) over (8.2.0-2) ...
Setting up gcc-8-base:amd64 (8.2.0-3) ...
(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 ... 9321 files and directories currently installed.)
Preparing to unpack .../libstdc++6_8.2.0-3_amd64.deb ...
Unpacking libstdc++6:amd64 (8.2.0-3) over (8.2.0-2) ...
Setting up libstdc++6:amd64 (8.2.0-3) ...
(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 ... 9321 files and directories currently installed.)
Preparing to unpack .../libgcc1_1%3a8.2.0-3_amd64.deb ...
Unpacking libgcc1:amd64 (1:8.2.0-3) over (1:8.2.0-2) ...
Setting up libgcc1:amd64 (1:8.2.0-3) ...
(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 ... 9321 files and directories currently installed.)
Preparing to unpack .../libpcre3_2%3a8.39-11_amd64.deb ...
Unpacking libpcre3:amd64 (2:8.39-11) over (2:8.39-10) ...
Setting up libpcre3:amd64 (2:8.39-11) ...
(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 ... 9321 files and directories currently installed.)
Preparing to unpack .../make_4.2.1-1.2_amd64.deb ...
Unpacking make (4.2.1-1.2) over (4.2.1-1.1) ...
Preparing to unpack .../patch_2.7.6-3_amd64.deb ...
Unpacking patch (2.7.6-3) over (2.7.6-2) ...
Processing triggers for ccache (3.4.2-1) ...
Updating symlinks in /usr/lib/ccache ...
Setting up make (4.2.1-1.2) ...
Setting up mount (2.32-0.4) ...
Setting up patch (2.7.6-3) ...
Processing triggers for libc-bin (2.27-5) ...
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Local sources
-------------
/tmp/prebuild-ariba-dVRr1vT8em/ariba_2.12.1+ds-1.dsc exists in
/tmp/prebuild-ariba-dVRr1vT8em; copying to chroot
I: NOTICE: Log filtering will replace 'build/ariba-HGdlhW/ariba-2.12.1+ds' with
'<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/ariba-HGdlhW' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper (>= 11), python3, python3-all, python3-dev,
python3-dendropy (>= 4.2.0), python3-setuptools, python3-pymummer (>= 0.10.2),
python3-pysam (>= 0.9.1), python3-nose (>= 1.3), python3-bs4 (>= 4.1.0),
python3-matplotlib, python3-tk, bowtie2 (>= 2.1.0), cd-hit, mash,
libminimap-dev, libfml-dev (>= 0.1-3), mummer, fastaq (>= 3.12.0), help2man,
asciidoctor, build-essential, fakeroot
Filtered Build-Depends: debhelper (>= 11), python3, python3-all, python3-dev,
python3-dendropy (>= 4.2.0), python3-setuptools, python3-pymummer (>= 0.10.2),
python3-pysam (>= 0.9.1), python3-nose (>= 1.3), python3-bs4 (>= 4.1.0),
python3-matplotlib, python3-tk, bowtie2 (>= 2.1.0), cd-hit, mash,
libminimap-dev, libfml-dev (>= 0.1-3), mummer, fastaq (>= 3.12.0), help2man,
asciidoctor, build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-main-dummy' in
'/<<RESOLVERDIR>>/apt_archive/sbuild-build-depends-main-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-main-dummy
dpkg-scanpackages: info: Wrote 1 entries to output Packages file.
Ign:1 copy:/<<RESOLVERDIR>>/apt_archive ./ InRelease
Get:2 copy:/<<RESOLVERDIR>>/apt_archive ./ Release [957 B]
Ign:3 copy:/<<RESOLVERDIR>>/apt_archive ./ Release.gpg
Get:4 copy:/<<RESOLVERDIR>>/apt_archive ./ Sources [513 B]
Get:5 copy:/<<RESOLVERDIR>>/apt_archive ./ Packages [598 B]
Fetched 2068 B in 0s (199 kB/s)
Reading package lists...
Reading package lists...
Install main build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following additional packages will be installed:
asciidoctor autoconf automake autopoint autotools-dev blt bowtie2
bsdmainutils build-essential ca-certificates cd-hit cpp cpp-8 debhelper
dh-autoreconf dh-python dh-strip-nondeterminism dwz fakeroot fastaq file
fontconfig-config fonts-lyx g++ g++-8 gawk gcc gcc-8 gettext gettext-base
groff-base help2man intltool-debian libarchive-zip-perl libasan5 libatomic1
libblas3 libbsd0 libc-dev-bin libc6-dev libcapnp-0.6.1 libcc1-0 libcroco3
libcurl3-gnutls libelf1 libexpat1 libexpat1-dev libfakeroot
libfile-stripnondeterminism-perl libfml-dev libfml0 libfontconfig1
libfreetype6 libgcc-8-dev libgfortran5 libglib2.0-0 libgomp1 libgraphite2-3
libgsl23 libgslcblas0 libgssapi-krb5-2 libharfbuzz0b libhts2 libicu-le-hb0
libicu60 libisl19 libitm1 libjs-jquery libjs-jquery-ui libk5crypto3
libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.4-2
libldap-common liblocale-gettext-perl liblsan0 libmagic-mgc libmagic1
libminimap-dev libminimap0 libmpc3 libmpdec2 libmpfr6 libmpx2 libncurses6
libnghttp2-14 libpipeline1 libpng16-16 libpsl5 libpython-stdlib
libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-dev
libpython3-stdlib libpython3.6 libpython3.6-dev libpython3.6-minimal
libpython3.6-stdlib libpython3.7-minimal libpython3.7-stdlib libquadmath0
libreadline7 librtmp1 libruby2.5 libsasl2-2 libsasl2-modules-db libsigsegv2
libsqlite3-0 libssh2-1 libssl1.1 libstdc++-8-dev libtbb2 libtcl8.6
libtimedate-perl libtk8.6 libtool libtsan0 libubsan1 libx11-6 libx11-data
libxau6 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxrender1 libxss1
libyaml-0-2 linux-libc-dev m4 man-db mash mime-support mummer openssl
po-debconf python python-matplotlib-data python-minimal python2
python2-minimal python2.7 python2.7-minimal python3 python3-all python3-bs4
python3-cycler python3-dateutil python3-dendropy python3-dev
python3-distutils python3-kiwisolver python3-lib2to3 python3-matplotlib
python3-minimal python3-nose python3-numpy python3-pkg-resources
python3-pymummer python3-pyparsing python3-pysam python3-setuptools
python3-six python3-tk python3-tz python3.6 python3.6-dev python3.6-minimal
python3.7 python3.7-minimal rake readline-common ruby ruby-asciidoctor
ruby-did-you-mean ruby-minitest ruby-net-telnet ruby-power-assert
ruby-test-unit ruby-xmlrpc ruby2.5 rubygems-integration samtools
tk8.6-blt2.5 ttf-bitstream-vera ucf x11-common zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc blt-demo bowtie2-examples
wamerican | wordlist whois vacation cpp-doc gcc-8-locales dh-make
g++-multilib g++-8-multilib gcc-8-doc libstdc++6-8-dbg gawk-doc gcc-multilib
manpages-dev flex bison gdb gcc-doc gcc-8-multilib libgcc1-dbg libgomp1-dbg
libitm1-dbg libatomic1-dbg libasan5-dbg liblsan0-dbg libtsan0-dbg
libubsan1-dbg libmpx2-dbg libquadmath0-dbg gettext-doc libasprintf-dev
libgettextpo-dev groff glibc-doc gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info
| gsl-ref-html krb5-doc krb5-user libjs-jquery-ui-docs libstdc++-8-doc
tcl8.6 tk8.6 libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc
apparmor less www-browser libmail-box-perl python-doc python-tk python2-doc
python2.7-doc binfmt-support python3-doc python3-venv python-cycler-doc
dvipng ffmpeg gir1.2-gtk-3.0 ghostscript inkscape ipython3 librsvg2-common
python-matplotlib-doc python3-cairocffi python3-gi python3-gi-cairo
python3-gobject python3-pyqt4 python3-scipy python3-sip python3-tornado
texlive-extra-utils texlive-latex-extra ttf-staypuft python-nose-doc
gfortran python-numpy-doc python3-numpy-dbg python-pyparsing-doc
python-setuptools-doc tix python3-tk-dbg python3.6-venv python3.6-doc
python3.7-venv python3.7-doc readline-doc ri ruby-dev bundler
Recommended packages:
curl | wget | lynx manpages manpages-dev libarchive-cpio-perl
libglib2.0-data shared-mime-info xdg-user-dirs javascript-common
krb5-locales libgpm2 publicsuffix libsasl2-modules libltdl-dev
libmail-sendmail-perl python3-chardet python3-lxml python3-pil zip
fonts-lato cwltool
The following NEW packages will be installed:
asciidoctor autoconf automake autopoint autotools-dev blt bowtie2
bsdmainutils build-essential ca-certificates cd-hit cpp cpp-8 debhelper
dh-autoreconf dh-python dh-strip-nondeterminism dwz fakeroot fastaq file
fontconfig-config fonts-lyx g++ g++-8 gawk gcc gcc-8 gettext gettext-base
groff-base help2man intltool-debian libarchive-zip-perl libasan5 libatomic1
libblas3 libbsd0 libc-dev-bin libc6-dev libcapnp-0.6.1 libcc1-0 libcroco3
libcurl3-gnutls libelf1 libexpat1 libexpat1-dev libfakeroot
libfile-stripnondeterminism-perl libfml-dev libfml0 libfontconfig1
libfreetype6 libgcc-8-dev libgfortran5 libglib2.0-0 libgomp1 libgraphite2-3
libgsl23 libgslcblas0 libgssapi-krb5-2 libharfbuzz0b libhts2 libicu-le-hb0
libicu60 libisl19 libitm1 libjs-jquery libjs-jquery-ui libk5crypto3
libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.4-2
libldap-common liblocale-gettext-perl liblsan0 libmagic-mgc libmagic1
libminimap-dev libminimap0 libmpc3 libmpdec2 libmpfr6 libmpx2 libncurses6
libnghttp2-14 libpipeline1 libpng16-16 libpsl5 libpython-stdlib
libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-dev
libpython3-stdlib libpython3.6 libpython3.6-dev libpython3.6-minimal
libpython3.6-stdlib libpython3.7-minimal libpython3.7-stdlib libquadmath0
libreadline7 librtmp1 libruby2.5 libsasl2-2 libsasl2-modules-db libsigsegv2
libsqlite3-0 libssh2-1 libssl1.1 libstdc++-8-dev libtbb2 libtcl8.6
libtimedate-perl libtk8.6 libtool libtsan0 libubsan1 libx11-6 libx11-data
libxau6 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxrender1 libxss1
libyaml-0-2 linux-libc-dev m4 man-db mash mime-support mummer openssl
po-debconf python python-matplotlib-data python-minimal python2
python2-minimal python2.7 python2.7-minimal python3 python3-all python3-bs4
python3-cycler python3-dateutil python3-dendropy python3-dev
python3-distutils python3-kiwisolver python3-lib2to3 python3-matplotlib
python3-minimal python3-nose python3-numpy python3-pkg-resources
python3-pymummer python3-pyparsing python3-pysam python3-setuptools
python3-six python3-tk python3-tz python3.6 python3.6-dev python3.6-minimal
python3.7 python3.7-minimal rake readline-common ruby ruby-asciidoctor
ruby-did-you-mean ruby-minitest ruby-net-telnet ruby-power-assert
ruby-test-unit ruby-xmlrpc ruby2.5 rubygems-integration samtools
sbuild-build-depends-main-dummy tk8.6-blt2.5 ttf-bitstream-vera ucf
x11-common zlib1g-dev
0 upgraded, 193 newly installed, 0 to remove and 0 not upgraded.
Need to get 155 MB of archives.
After this operation, 499 MB of additional disk space will be used.
Get:1 copy:/<<RESOLVERDIR>>/apt_archive ./ sbuild-build-depends-main-dummy
0.invalid.0 [1016 B]
Get:2 http://proxy:9999/debian sid/main amd64 libbsd0 amd64 0.9.1-1 [99.3 kB]
Get:3 http://proxy:9999/debian sid/main amd64 bsdmainutils amd64 11.1.2+b1 [191
kB]
Get:4 http://proxy:9999/debian sid/main amd64 groff-base amd64 1.22.3-10 [1176
kB]
Get:5 http://proxy:9999/debian sid/main amd64 libpipeline1 amd64 1.5.0-1 [29.0
kB]
Get:6 http://proxy:9999/debian sid/main amd64 man-db amd64 2.8.4-2 [1194 kB]
Get:7 http://proxy:9999/debian sid/main amd64 libpython2.7-minimal amd64
2.7.15-3 [393 kB]
Get:8 http://proxy:9999/debian sid/main amd64 python2.7-minimal amd64 2.7.15-3
[1358 kB]
Get:9 http://proxy:9999/debian sid/main amd64 python2-minimal amd64 2.7.15-3
[41.3 kB]
Get:10 http://proxy:9999/debian sid/main amd64 python-minimal amd64 2.7.15-3
[20.9 kB]
Get:11 http://proxy:9999/debian sid/main amd64 mime-support all 3.61 [37.1 kB]
Get:12 http://proxy:9999/debian sid/main amd64 libexpat1 amd64 2.2.5-3 [96.8 kB]
Get:13 http://proxy:9999/debian sid/main amd64 readline-common all 7.0-5 [70.6
kB]
Get:14 http://proxy:9999/debian sid/main amd64 libreadline7 amd64 7.0-5 [151 kB]
Get:15 http://proxy:9999/debian sid/main amd64 libsqlite3-0 amd64 3.24.0-1 [608
kB]
Get:16 http://proxy:9999/debian sid/main amd64 libssl1.1 amd64 1.1.0h-4 [1352
kB]
Get:17 http://proxy:9999/debian sid/main amd64 libpython2.7-stdlib amd64
2.7.15-3 [1904 kB]
Get:18 http://proxy:9999/debian sid/main amd64 python2.7 amd64 2.7.15-3 [298 kB]
Get:19 http://proxy:9999/debian sid/main amd64 libpython2-stdlib amd64 2.7.15-3
[20.7 kB]
Get:20 http://proxy:9999/debian sid/main amd64 libpython-stdlib amd64 2.7.15-3
[20.7 kB]
Get:21 http://proxy:9999/debian sid/main amd64 python2 amd64 2.7.15-3 [41.5 kB]
Get:22 http://proxy:9999/debian sid/main amd64 python amd64 2.7.15-3 [22.7 kB]
Get:23 http://proxy:9999/debian sid/main amd64 libmpfr6 amd64 4.0.1-1 [764 kB]
Get:24 http://proxy:9999/debian sid/main amd64 libsigsegv2 amd64 2.12-2 [32.8
kB]
Get:25 http://proxy:9999/debian sid/main amd64 gawk amd64 1:4.1.4+dfsg-1+b1
[571 kB]
Get:26 http://proxy:9999/debian sid/main amd64 liblocale-gettext-perl amd64
1.07-3+b3 [18.7 kB]
Get:27 http://proxy:9999/debian sid/main amd64 libpython3.6-minimal amd64
3.6.6-1 [572 kB]
Get:28 http://proxy:9999/debian sid/main amd64 python3.6-minimal amd64 3.6.6-1
[1649 kB]
Get:29 http://proxy:9999/debian sid/main amd64 python3-minimal amd64 3.6.6-1
[36.4 kB]
Get:30 http://proxy:9999/debian sid/main amd64 libmpdec2 amd64 2.4.2-2 [87.2 kB]
Get:31 http://proxy:9999/debian sid/main amd64 libpython3.6-stdlib amd64
3.6.6-1 [1709 kB]
Get:32 http://proxy:9999/debian sid/main amd64 python3.6 amd64 3.6.6-1 [234 kB]
Get:33 http://proxy:9999/debian sid/main amd64 libpython3-stdlib amd64 3.6.6-1
[19.8 kB]
Get:34 http://proxy:9999/debian sid/main amd64 python3 amd64 3.6.6-1 [47.5 kB]
Get:35 http://proxy:9999/debian sid/main amd64 libpython3.7-minimal amd64
3.7.0-4 [590 kB]
Get:36 http://proxy:9999/debian sid/main amd64 python3.7-minimal amd64 3.7.0-4
[1727 kB]
Get:37 http://proxy:9999/debian sid/main amd64 libmagic-mgc amd64 1:5.34-2 [239
kB]
Get:38 http://proxy:9999/debian sid/main amd64 libmagic1 amd64 1:5.34-2 [116 kB]
Get:39 http://proxy:9999/debian sid/main amd64 file amd64 1:5.34-2 [65.8 kB]
Get:40 http://proxy:9999/debian sid/main amd64 gettext-base amd64 0.19.8.1-6+b1
[122 kB]
Get:41 http://proxy:9999/debian sid/main amd64 ucf all 3.0038 [67.8 kB]
Get:42 http://proxy:9999/debian sid/main amd64 openssl amd64 1.1.0h-4 [744 kB]
Get:43 http://proxy:9999/debian sid/main amd64 ca-certificates all 20180409
[161 kB]
Get:44 http://proxy:9999/debian sid/main amd64 rubygems-integration all 1.11
[4994 B]
Get:45 http://proxy:9999/debian sid/main amd64 rake all 12.3.1-3 [66.9 kB]
Get:46 http://proxy:9999/debian sid/main amd64 ruby-did-you-mean all 1.2.1-1
[14.4 kB]
Get:47 http://proxy:9999/debian sid/main amd64 ruby-minitest all 5.10.3-1 [53.5
kB]
Get:48 http://proxy:9999/debian sid/main amd64 ruby-net-telnet all 0.1.1-2
[12.5 kB]
Get:49 http://proxy:9999/debian sid/main amd64 ruby-power-assert all 1.1.1-1
[10.9 kB]
Get:50 http://proxy:9999/debian sid/main amd64 ruby-test-unit all 3.2.7-1 [72.3
kB]
Get:51 http://proxy:9999/debian sid/main amd64 ruby-xmlrpc all 0.3.0-2 [23.7 kB]
Get:52 http://proxy:9999/debian sid/main amd64 libncurses6 amd64 6.1+20180714-1
[102 kB]
Get:53 http://proxy:9999/debian sid/main amd64 libyaml-0-2 amd64 0.2.1-1 [47.2
kB]
Get:54 http://proxy:9999/debian sid/main amd64 libruby2.5 amd64 2.5.1-5 [3419
kB]
Get:55 http://proxy:9999/debian sid/main amd64 ruby2.5 amd64 2.5.1-5 [385 kB]
Get:56 http://proxy:9999/debian sid/main amd64 ruby amd64 1:2.5.1 [11.3 kB]
Get:57 http://proxy:9999/debian sid/main amd64 ruby-asciidoctor all 1.5.7.1-1
[183 kB]
Get:58 http://proxy:9999/debian sid/main amd64 asciidoctor amd64 1.5.7.1-1
[63.9 kB]
Get:59 http://proxy:9999/debian sid/main amd64 m4 amd64 1.4.18-1 [202 kB]
Get:60 http://proxy:9999/debian sid/main amd64 autoconf all 2.69-11 [341 kB]
Get:61 http://proxy:9999/debian sid/main amd64 autotools-dev all 20180224.1
[77.0 kB]
Get:62 http://proxy:9999/debian sid/main amd64 automake all 1:1.16.1-1 [771 kB]
Get:63 http://proxy:9999/debian sid/main amd64 autopoint all 0.19.8.1-6 [434 kB]
Get:64 http://proxy:9999/debian sid/main amd64 libtcl8.6 amd64 8.6.8+dfsg-4
[988 kB]
Get:65 http://proxy:9999/debian sid/main amd64 libpng16-16 amd64 1.6.34-2 [288
kB]
Get:66 http://proxy:9999/debian sid/main amd64 libfreetype6 amd64 2.8.1-2 [461
kB]
Get:67 http://proxy:9999/debian sid/main amd64 ttf-bitstream-vera all 1.10-8
[352 kB]
Get:68 http://proxy:9999/debian sid/main amd64 fontconfig-config all 2.13.0-5
[280 kB]
Get:69 http://proxy:9999/debian sid/main amd64 libfontconfig1 amd64 2.13.0-5
[343 kB]
Get:70 http://proxy:9999/debian sid/main amd64 libxau6 amd64 1:1.0.8-1+b2 [19.9
kB]
Get:71 http://proxy:9999/debian sid/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3
kB]
Get:72 http://proxy:9999/debian sid/main amd64 libxcb1 amd64 1.13-2 [136 kB]
Get:73 http://proxy:9999/debian sid/main amd64 libx11-data all 2:1.6.5-1 [292
kB]
Get:74 http://proxy:9999/debian sid/main amd64 libx11-6 amd64 2:1.6.5-1 [749 kB]
Get:75 http://proxy:9999/debian sid/main amd64 libxext6 amd64 2:1.3.3-1+b2
[52.5 kB]
Get:76 http://proxy:9999/debian sid/main amd64 libxrender1 amd64 1:0.9.10-1
[33.0 kB]
Get:77 http://proxy:9999/debian sid/main amd64 libxft2 amd64 2.3.2-2 [57.2 kB]
Get:78 http://proxy:9999/debian sid/main amd64 x11-common all 1:7.7+19 [251 kB]
Get:79 http://proxy:9999/debian sid/main amd64 libxss1 amd64 1:1.2.2-1+b2 [16.5
kB]
Get:80 http://proxy:9999/debian sid/main amd64 libtk8.6 amd64 8.6.8-4 [752 kB]
Get:81 http://proxy:9999/debian sid/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-4
[587 kB]
Get:82 http://proxy:9999/debian sid/main amd64 blt amd64 2.5.3+dfsg-4 [14.8 kB]
Get:83 http://proxy:9999/debian sid/main amd64 libatomic1 amd64 8.2.0-3 [8892 B]
Get:84 http://proxy:9999/debian sid/main amd64 libtbb2 amd64 2017~U7-8 [140 kB]
Get:85 http://proxy:9999/debian sid/main amd64 bowtie2 amd64 2.3.4.1-2 [1180 kB]
Get:86 http://proxy:9999/debian sid/main amd64 libc-dev-bin amd64 2.27-5 [271
kB]
Get:87 http://proxy:9999/debian sid/main amd64 linux-libc-dev amd64 4.17.8-1
[1479 kB]
Get:88 http://proxy:9999/debian sid/main amd64 libc6-dev amd64 2.27-5 [2666 kB]
Get:89 http://proxy:9999/debian sid/main amd64 libisl19 amd64 0.20-1 [587 kB]
Get:90 http://proxy:9999/debian sid/main amd64 libmpc3 amd64 1.1.0-1 [41.3 kB]
Get:91 http://proxy:9999/debian sid/main amd64 cpp-8 amd64 8.2.0-3 [7193 kB]
Get:92 http://proxy:9999/debian sid/main amd64 cpp amd64 4:8.1.0-1 [19.2 kB]
Get:93 http://proxy:9999/debian sid/main amd64 libcc1-0 amd64 8.2.0-3 [38.6 kB]
Get:94 http://proxy:9999/debian sid/main amd64 libgomp1 amd64 8.2.0-3 [75.6 kB]
Get:95 http://proxy:9999/debian sid/main amd64 libitm1 amd64 8.2.0-3 [27.8 kB]
Get:96 http://proxy:9999/debian sid/main amd64 libasan5 amd64 8.2.0-3 [360 kB]
Get:97 http://proxy:9999/debian sid/main amd64 liblsan0 amd64 8.2.0-3 [130 kB]
Get:98 http://proxy:9999/debian sid/main amd64 libtsan0 amd64 8.2.0-3 [283 kB]
Get:99 http://proxy:9999/debian sid/main amd64 libubsan1 amd64 8.2.0-3 [119 kB]
Get:100 http://proxy:9999/debian sid/main amd64 libmpx2 amd64 8.2.0-3 [11.4 kB]
Get:101 http://proxy:9999/debian sid/main amd64 libquadmath0 amd64 8.2.0-3 [133
kB]
Get:102 http://proxy:9999/debian sid/main amd64 libgcc-8-dev amd64 8.2.0-3
[2295 kB]
Get:103 http://proxy:9999/debian sid/main amd64 gcc-8 amd64 8.2.0-3 [7627 kB]
Get:104 http://proxy:9999/debian sid/main amd64 gcc amd64 4:8.1.0-1 [5192 B]
Get:105 http://proxy:9999/debian sid/main amd64 libstdc++-8-dev amd64 8.2.0-3
[1525 kB]
Get:106 http://proxy:9999/debian sid/main amd64 g++-8 amd64 8.2.0-3 [7767 kB]
Get:107 http://proxy:9999/debian sid/main amd64 g++ amd64 4:8.1.0-1 [1636 B]
Get:108 http://proxy:9999/debian sid/main amd64 build-essential amd64 12.5
[7556 B]
Get:109 http://proxy:9999/debian sid/main amd64 cd-hit amd64 4.6.8-1 [517 kB]
Get:110 http://proxy:9999/debian sid/main amd64 libtool all 2.4.6-2.1 [547 kB]
Get:111 http://proxy:9999/debian sid/main amd64 dh-autoreconf all 19 [16.9 kB]
Get:112 http://proxy:9999/debian sid/main amd64 libarchive-zip-perl all 1.60-1
[95.6 kB]
Get:113 http://proxy:9999/debian sid/main amd64
libfile-stripnondeterminism-perl all 0.042-1 [20.1 kB]
Get:114 http://proxy:9999/debian sid/main amd64 libtimedate-perl all 2.3000-2
[42.2 kB]
Get:115 http://proxy:9999/debian sid/main amd64 dh-strip-nondeterminism all
0.042-1 [12.1 kB]
Get:116 http://proxy:9999/debian sid/main amd64 libelf1 amd64 0.170-0.5 [162 kB]
Get:117 http://proxy:9999/debian sid/main amd64 dwz amd64 0.12-2 [77.5 kB]
Get:118 http://proxy:9999/debian sid/main amd64 libglib2.0-0 amd64 2.56.1-2
[2928 kB]
Get:119 http://proxy:9999/debian sid/main amd64 libgraphite2-3 amd64 1.3.11-2
[85.2 kB]
Get:120 http://proxy:9999/debian sid/main amd64 libharfbuzz0b amd64 1.8.5-1
[893 kB]
Get:121 http://proxy:9999/debian sid/main amd64 libicu-le-hb0 amd64
1.0.3+git161113-5 [14.6 kB]
Get:122 http://proxy:9999/debian sid/main amd64 libicu60 amd64 60.2-6 [8073 kB]
Get:123 http://proxy:9999/debian sid/main amd64 libxml2 amd64 2.9.4+dfsg1-7+b1
[725 kB]
Get:124 http://proxy:9999/debian sid/main amd64 libcroco3 amd64 0.6.12-2 [144
kB]
Get:125 http://proxy:9999/debian sid/main amd64 gettext amd64 0.19.8.1-6+b1
[1302 kB]
Get:126 http://proxy:9999/debian sid/main amd64 intltool-debian all
0.35.0+20060710.4 [26.3 kB]
Get:127 http://proxy:9999/debian sid/main amd64 po-debconf all 1.0.20 [247 kB]
Get:128 http://proxy:9999/debian sid/main amd64 debhelper all 11.3.5 [981 kB]
Get:129 http://proxy:9999/debian sid/main amd64 python3-lib2to3 all 3.6.6-1
[79.1 kB]
Get:130 http://proxy:9999/debian sid/main amd64 python3-distutils all 3.6.6-1
[144 kB]
Get:131 http://proxy:9999/debian sid/main amd64 dh-python all 3.20180723 [94.2
kB]
Get:132 http://proxy:9999/debian sid/main amd64 libfakeroot amd64 1.23-1 [45.9
kB]
Get:133 http://proxy:9999/debian sid/main amd64 fakeroot amd64 1.23-1 [85.8 kB]
Get:134 http://proxy:9999/debian sid/main amd64 python3-pkg-resources all
39.2.0-1 [142 kB]
Get:135 http://proxy:9999/debian sid/main amd64 libkeyutils1 amd64 1.5.9-9.3
[13.0 kB]
Get:136 http://proxy:9999/debian sid/main amd64 libkrb5support0 amd64 1.16-2
[62.8 kB]
Get:137 http://proxy:9999/debian sid/main amd64 libk5crypto3 amd64 1.16-2 [121
kB]
Get:138 http://proxy:9999/debian sid/main amd64 libkrb5-3 amd64 1.16-2 [316 kB]
Get:139 http://proxy:9999/debian sid/main amd64 libgssapi-krb5-2 amd64 1.16-2
[158 kB]
Get:140 http://proxy:9999/debian sid/main amd64 libsasl2-modules-db amd64
2.1.27~101-g0780600+dfsg-3.1 [68.6 kB]
Get:141 http://proxy:9999/debian sid/main amd64 libsasl2-2 amd64
2.1.27~101-g0780600+dfsg-3.1 [105 kB]
Get:142 http://proxy:9999/debian sid/main amd64 libldap-common all
2.4.46+dfsg-5 [88.3 kB]
Get:143 http://proxy:9999/debian sid/main amd64 libldap-2.4-2 amd64
2.4.46+dfsg-5 [223 kB]
Get:144 http://proxy:9999/debian sid/main amd64 libnghttp2-14 amd64 1.32.0-1
[83.0 kB]
Get:145 http://proxy:9999/debian sid/main amd64 libpsl5 amd64 0.20.2-1 [53.7 kB]
Get:146 http://proxy:9999/debian sid/main amd64 librtmp1 amd64
2.4+20151223.gitfa8646d.1-2 [60.5 kB]
Get:147 http://proxy:9999/debian sid/main amd64 libssh2-1 amd64 1.8.0-2 [138 kB]
Get:148 http://proxy:9999/debian sid/main amd64 libcurl3-gnutls amd64 7.60.0-2
[314 kB]
Get:149 http://proxy:9999/debian sid/main amd64 libhts2 amd64 1.7-2 [311 kB]
Get:150 http://proxy:9999/debian sid/main amd64 samtools amd64 1.7-2+b1 [410 kB]
Get:151 http://proxy:9999/debian sid/main amd64 fastaq all 3.17.0-2 [47.8 kB]
Get:152 http://proxy:9999/debian sid/main amd64 fonts-lyx all 2.3.0-2 [198 kB]
Get:153 http://proxy:9999/debian sid/main amd64 help2man amd64 1.47.6 [169 kB]
Get:154 http://proxy:9999/debian sid/main amd64 libgfortran5 amd64 8.2.0-3 [583
kB]
Get:155 http://proxy:9999/debian sid/main amd64 libblas3 amd64 3.8.0-1+b1 [148
kB]
Get:156 http://proxy:9999/debian sid/main amd64 libcapnp-0.6.1 amd64 0.6.1-1
[661 kB]
Get:157 http://proxy:9999/debian sid/main amd64 libexpat1-dev amd64 2.2.5-3
[140 kB]
Get:158 http://proxy:9999/debian sid/main amd64 libfml0 amd64 0.1-5 [69.3 kB]
Get:159 http://proxy:9999/debian sid/main amd64 zlib1g-dev amd64
1:1.2.11.dfsg-1 [214 kB]
Get:160 http://proxy:9999/debian sid/main amd64 libfml-dev amd64 0.1-5 [81.4 kB]
Get:161 http://proxy:9999/debian sid/main amd64 libgslcblas0 amd64 2.5+dfsg-4
[96.8 kB]
Get:162 http://proxy:9999/debian sid/main amd64 libgsl23 amd64 2.5+dfsg-4 [878
kB]
Get:163 http://proxy:9999/debian sid/main amd64 libjs-jquery all 3.2.1-1 [154
kB]
Get:164 http://proxy:9999/debian sid/main amd64 libjs-jquery-ui all
1.12.1+dfsg-5 [232 kB]
Get:165 http://proxy:9999/debian sid/main amd64 liblapack3 amd64 3.8.0-1+b1
[2112 kB]
Get:166 http://proxy:9999/debian sid/main amd64 libminimap0 amd64 0.2-4 [23.0
kB]
Get:167 http://proxy:9999/debian sid/main amd64 libminimap-dev amd64 0.2-4
[33.8 kB]
Get:168 http://proxy:9999/debian sid/main amd64 libpython3.6 amd64 3.6.6-1
[1415 kB]
Get:169 http://proxy:9999/debian sid/main amd64 libpython3.6-dev amd64 3.6.6-1
[44.8 MB]
Get:170 http://proxy:9999/debian sid/main amd64 libpython3-dev amd64 3.6.6-1
[19.9 kB]
Get:171 http://proxy:9999/debian sid/main amd64 libpython3.7-stdlib amd64
3.7.0-4 [1733 kB]
Get:172 http://proxy:9999/debian sid/main amd64 mash amd64 2.0-2 [142 kB]
Get:173 http://proxy:9999/debian sid/main amd64 mummer amd64 3.23+dfsg-4 [809
kB]
Get:174 http://proxy:9999/debian sid/main amd64 python-matplotlib-data all
2.2.2-4 [4123 kB]
Get:175 http://proxy:9999/debian sid/main amd64 python3.7 amd64 3.7.0-4 [309 kB]
Get:176 http://proxy:9999/debian sid/main amd64 python3-all amd64 3.6.6-1 [1060
B]
Get:177 http://proxy:9999/debian sid/main amd64 python3-bs4 all 4.6.0-1 [88.1
kB]
Get:178 http://proxy:9999/debian sid/main amd64 python3-six all 1.11.0-2 [15.2
kB]
Get:179 http://proxy:9999/debian sid/main amd64 python3-cycler all 0.10.0-1
[7556 B]
Get:180 http://proxy:9999/debian sid/main amd64 python3-dateutil all 2.6.1-1
[52.8 kB]
Get:181 http://proxy:9999/debian sid/main amd64 python3-dendropy all 4.4.0-1
[265 kB]
Get:182 http://proxy:9999/debian sid/main amd64 python3.6-dev amd64 3.6.6-1
[507 kB]
Get:183 http://proxy:9999/debian sid/main amd64 python3-dev amd64 3.6.6-1 [1260
B]
Get:184 http://proxy:9999/debian sid/main amd64 python3-kiwisolver amd64
1.0.1-2+b1 [65.4 kB]
Get:185 http://proxy:9999/debian sid/main amd64 python3-pyparsing all
2.2.0+dfsg1-2 [89.6 kB]
Get:186 http://proxy:9999/debian sid/main amd64 python3-tz all 2018.5-1 [26.9
kB]
Get:187 http://proxy:9999/debian sid/main amd64 python3-numpy amd64
1:1.14.5-1+b1 [2216 kB]
Get:188 http://proxy:9999/debian sid/main amd64 python3-matplotlib amd64
2.2.2-4+b1 [5065 kB]
Get:189 http://proxy:9999/debian sid/main amd64 python3-nose all 1.3.7-4 [132
kB]
Get:190 http://proxy:9999/debian sid/main amd64 python3-pymummer all 0.10.3-1
[9152 B]
Get:191 http://proxy:9999/debian sid/main amd64 python3-pysam amd64
0.14+ds-2+b1 [2233 kB]
Get:192 http://proxy:9999/debian sid/main amd64 python3-setuptools all 39.2.0-1
[292 kB]
Get:193 http://proxy:9999/debian sid/main amd64 python3-tk amd64 3.6.6-1 [103
kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 155 MB in 2s (93.8 MB/s)
Selecting previously unselected package libbsd0:amd64.
(Reading database ... 9321 files and directories currently installed.)
Preparing to unpack .../00-libbsd0_0.9.1-1_amd64.deb ...
Unpacking libbsd0:amd64 (0.9.1-1) ...
Selecting previously unselected package bsdmainutils.
Preparing to unpack .../01-bsdmainutils_11.1.2+b1_amd64.deb ...
Unpacking bsdmainutils (11.1.2+b1) ...
Selecting previously unselected package groff-base.
Preparing to unpack .../02-groff-base_1.22.3-10_amd64.deb ...
Unpacking groff-base (1.22.3-10) ...
Selecting previously unselected package libpipeline1:amd64.
Preparing to unpack .../03-libpipeline1_1.5.0-1_amd64.deb ...
Unpacking libpipeline1:amd64 (1.5.0-1) ...
Selecting previously unselected package man-db.
Preparing to unpack .../04-man-db_2.8.4-2_amd64.deb ...
Unpacking man-db (2.8.4-2) ...
Selecting previously unselected package libpython2.7-minimal:amd64.
Preparing to unpack .../05-libpython2.7-minimal_2.7.15-3_amd64.deb ...
Unpacking libpython2.7-minimal:amd64 (2.7.15-3) ...
Selecting previously unselected package python2.7-minimal.
Preparing to unpack .../06-python2.7-minimal_2.7.15-3_amd64.deb ...
Unpacking python2.7-minimal (2.7.15-3) ...
Selecting previously unselected package python2-minimal.
Preparing to unpack .../07-python2-minimal_2.7.15-3_amd64.deb ...
Unpacking python2-minimal (2.7.15-3) ...
Selecting previously unselected package python-minimal.
Preparing to unpack .../08-python-minimal_2.7.15-3_amd64.deb ...
Unpacking python-minimal (2.7.15-3) ...
Selecting previously unselected package mime-support.
Preparing to unpack .../09-mime-support_3.61_all.deb ...
Unpacking mime-support (3.61) ...
Selecting previously unselected package libexpat1:amd64.
Preparing to unpack .../10-libexpat1_2.2.5-3_amd64.deb ...
Unpacking libexpat1:amd64 (2.2.5-3) ...
Selecting previously unselected package readline-common.
Preparing to unpack .../11-readline-common_7.0-5_all.deb ...
Unpacking readline-common (7.0-5) ...
Selecting previously unselected package libreadline7:amd64.
Preparing to unpack .../12-libreadline7_7.0-5_amd64.deb ...
Unpacking libreadline7:amd64 (7.0-5) ...
Selecting previously unselected package libsqlite3-0:amd64.
Preparing to unpack .../13-libsqlite3-0_3.24.0-1_amd64.deb ...
Unpacking libsqlite3-0:amd64 (3.24.0-1) ...
Selecting previously unselected package libssl1.1:amd64.
Preparing to unpack .../14-libssl1.1_1.1.0h-4_amd64.deb ...
Unpacking libssl1.1:amd64 (1.1.0h-4) ...
Selecting previously unselected package libpython2.7-stdlib:amd64.
Preparing to unpack .../15-libpython2.7-stdlib_2.7.15-3_amd64.deb ...
Unpacking libpython2.7-stdlib:amd64 (2.7.15-3) ...
Selecting previously unselected package python2.7.
Preparing to unpack .../16-python2.7_2.7.15-3_amd64.deb ...
Unpacking python2.7 (2.7.15-3) ...
Selecting previously unselected package libpython2-stdlib:amd64.
Preparing to unpack .../17-libpython2-stdlib_2.7.15-3_amd64.deb ...
Unpacking libpython2-stdlib:amd64 (2.7.15-3) ...
Selecting previously unselected package libpython-stdlib:amd64.
Preparing to unpack .../18-libpython-stdlib_2.7.15-3_amd64.deb ...
Unpacking libpython-stdlib:amd64 (2.7.15-3) ...
Setting up libpython2.7-minimal:amd64 (2.7.15-3) ...
Setting up python2.7-minimal (2.7.15-3) ...
Setting up python2-minimal (2.7.15-3) ...
Selecting previously unselected package python2.
(Reading database ... 10772 files and directories currently installed.)
Preparing to unpack .../python2_2.7.15-3_amd64.deb ...
Unpacking python2 (2.7.15-3) ...
Setting up python-minimal (2.7.15-3) ...
Selecting previously unselected package python.
(Reading database ... 10805 files and directories currently installed.)
Preparing to unpack .../python_2.7.15-3_amd64.deb ...
Unpacking python (2.7.15-3) ...
Selecting previously unselected package libmpfr6:amd64.
Preparing to unpack .../libmpfr6_4.0.1-1_amd64.deb ...
Unpacking libmpfr6:amd64 (4.0.1-1) ...
Selecting previously unselected package libsigsegv2:amd64.
Preparing to unpack .../libsigsegv2_2.12-2_amd64.deb ...
Unpacking libsigsegv2:amd64 (2.12-2) ...
Setting up libmpfr6:amd64 (4.0.1-1) ...
Setting up readline-common (7.0-5) ...
Setting up libreadline7:amd64 (7.0-5) ...
Setting up libsigsegv2:amd64 (2.12-2) ...
Selecting previously unselected package gawk.
(Reading database ... 10839 files and directories currently installed.)
Preparing to unpack .../gawk_1%3a4.1.4+dfsg-1+b1_amd64.deb ...
Unpacking gawk (1:4.1.4+dfsg-1+b1) ...
Selecting previously unselected package liblocale-gettext-perl.
Preparing to unpack .../liblocale-gettext-perl_1.07-3+b3_amd64.deb ...
Unpacking liblocale-gettext-perl (1.07-3+b3) ...
Selecting previously unselected package libpython3.6-minimal:amd64.
Preparing to unpack .../libpython3.6-minimal_3.6.6-1_amd64.deb ...
Unpacking libpython3.6-minimal:amd64 (3.6.6-1) ...
Selecting previously unselected package python3.6-minimal.
Preparing to unpack .../python3.6-minimal_3.6.6-1_amd64.deb ...
Unpacking python3.6-minimal (3.6.6-1) ...
Setting up libssl1.1:amd64 (1.1.0h-4) ...
Setting up libpython3.6-minimal:amd64 (3.6.6-1) ...
Setting up libexpat1:amd64 (2.2.5-3) ...
Setting up python3.6-minimal (3.6.6-1) ...
Selecting previously unselected package python3-minimal.
(Reading database ... 11256 files and directories currently installed.)
Preparing to unpack .../python3-minimal_3.6.6-1_amd64.deb ...
Unpacking python3-minimal (3.6.6-1) ...
Selecting previously unselected package libmpdec2:amd64.
Preparing to unpack .../libmpdec2_2.4.2-2_amd64.deb ...
Unpacking libmpdec2:amd64 (2.4.2-2) ...
Selecting previously unselected package libpython3.6-stdlib:amd64.
Preparing to unpack .../libpython3.6-stdlib_3.6.6-1_amd64.deb ...
Unpacking libpython3.6-stdlib:amd64 (3.6.6-1) ...
Selecting previously unselected package python3.6.
Preparing to unpack .../python3.6_3.6.6-1_amd64.deb ...
Unpacking python3.6 (3.6.6-1) ...
Selecting previously unselected package libpython3-stdlib:amd64.
Preparing to unpack .../libpython3-stdlib_3.6.6-1_amd64.deb ...
Unpacking libpython3-stdlib:amd64 (3.6.6-1) ...
Setting up python3-minimal (3.6.6-1) ...
Selecting previously unselected package python3.
(Reading database ... 11659 files and directories currently installed.)
Preparing to unpack .../000-python3_3.6.6-1_amd64.deb ...
Unpacking python3 (3.6.6-1) ...
Selecting previously unselected package libpython3.7-minimal:amd64.
Preparing to unpack .../001-libpython3.7-minimal_3.7.0-4_amd64.deb ...
Unpacking libpython3.7-minimal:amd64 (3.7.0-4) ...
Selecting previously unselected package python3.7-minimal.
Preparing to unpack .../002-python3.7-minimal_3.7.0-4_amd64.deb ...
Unpacking python3.7-minimal (3.7.0-4) ...
Selecting previously unselected package libmagic-mgc.
Preparing to unpack .../003-libmagic-mgc_1%3a5.34-2_amd64.deb ...
Unpacking libmagic-mgc (1:5.34-2) ...
Selecting previously unselected package libmagic1:amd64.
Preparing to unpack .../004-libmagic1_1%3a5.34-2_amd64.deb ...
Unpacking libmagic1:amd64 (1:5.34-2) ...
Selecting previously unselected package file.
Preparing to unpack .../005-file_1%3a5.34-2_amd64.deb ...
Unpacking file (1:5.34-2) ...
Selecting previously unselected package gettext-base.
Preparing to unpack .../006-gettext-base_0.19.8.1-6+b1_amd64.deb ...
Unpacking gettext-base (0.19.8.1-6+b1) ...
Selecting previously unselected package ucf.
Preparing to unpack .../007-ucf_3.0038_all.deb ...
Moving old data out of the way
Unpacking ucf (3.0038) ...
Selecting previously unselected package openssl.
Preparing to unpack .../008-openssl_1.1.0h-4_amd64.deb ...
Unpacking openssl (1.1.0h-4) ...
Selecting previously unselected package ca-certificates.
Preparing to unpack .../009-ca-certificates_20180409_all.deb ...
Unpacking ca-certificates (20180409) ...
Selecting previously unselected package rubygems-integration.
Preparing to unpack .../010-rubygems-integration_1.11_all.deb ...
Unpacking rubygems-integration (1.11) ...
Selecting previously unselected package rake.
Preparing to unpack .../011-rake_12.3.1-3_all.deb ...
Unpacking rake (12.3.1-3) ...
Selecting previously unselected package ruby-did-you-mean.
Preparing to unpack .../012-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 .../013-ruby-minitest_5.10.3-1_all.deb ...
Unpacking ruby-minitest (5.10.3-1) ...
Selecting previously unselected package ruby-net-telnet.
Preparing to unpack .../014-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 .../015-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 .../016-ruby-test-unit_3.2.7-1_all.deb ...
Unpacking ruby-test-unit (3.2.7-1) ...
Selecting previously unselected package ruby-xmlrpc.
Preparing to unpack .../017-ruby-xmlrpc_0.3.0-2_all.deb ...
Unpacking ruby-xmlrpc (0.3.0-2) ...
Selecting previously unselected package libncurses6:amd64.
Preparing to unpack .../018-libncurses6_6.1+20180714-1_amd64.deb ...
Unpacking libncurses6:amd64 (6.1+20180714-1) ...
Selecting previously unselected package libyaml-0-2:amd64.
Preparing to unpack .../019-libyaml-0-2_0.2.1-1_amd64.deb ...
Unpacking libyaml-0-2:amd64 (0.2.1-1) ...
Selecting previously unselected package libruby2.5:amd64.
Preparing to unpack .../020-libruby2.5_2.5.1-5_amd64.deb ...
Unpacking libruby2.5:amd64 (2.5.1-5) ...
Selecting previously unselected package ruby2.5.
Preparing to unpack .../021-ruby2.5_2.5.1-5_amd64.deb ...
Unpacking ruby2.5 (2.5.1-5) ...
Selecting previously unselected package ruby.
Preparing to unpack .../022-ruby_1%3a2.5.1_amd64.deb ...
Unpacking ruby (1:2.5.1) ...
Selecting previously unselected package ruby-asciidoctor.
Preparing to unpack .../023-ruby-asciidoctor_1.5.7.1-1_all.deb ...
Unpacking ruby-asciidoctor (1.5.7.1-1) ...
Selecting previously unselected package asciidoctor.
Preparing to unpack .../024-asciidoctor_1.5.7.1-1_amd64.deb ...
Unpacking asciidoctor (1.5.7.1-1) ...
Selecting previously unselected package m4.
Preparing to unpack .../025-m4_1.4.18-1_amd64.deb ...
Unpacking m4 (1.4.18-1) ...
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%3a1.16.1-1_all.deb ...
Unpacking automake (1:1.16.1-1) ...
Selecting previously unselected package autopoint.
Preparing to unpack .../029-autopoint_0.19.8.1-6_all.deb ...
Unpacking autopoint (0.19.8.1-6) ...
Selecting previously unselected package libtcl8.6:amd64.
Preparing to unpack .../030-libtcl8.6_8.6.8+dfsg-4_amd64.deb ...
Unpacking libtcl8.6:amd64 (8.6.8+dfsg-4) ...
Selecting previously unselected package libpng16-16:amd64.
Preparing to unpack .../031-libpng16-16_1.6.34-2_amd64.deb ...
Unpacking libpng16-16:amd64 (1.6.34-2) ...
Selecting previously unselected package libfreetype6:amd64.
Preparing to unpack .../032-libfreetype6_2.8.1-2_amd64.deb ...
Unpacking libfreetype6:amd64 (2.8.1-2) ...
Selecting previously unselected package ttf-bitstream-vera.
Preparing to unpack .../033-ttf-bitstream-vera_1.10-8_all.deb ...
Unpacking ttf-bitstream-vera (1.10-8) ...
Selecting previously unselected package fontconfig-config.
Preparing to unpack .../034-fontconfig-config_2.13.0-5_all.deb ...
Unpacking fontconfig-config (2.13.0-5) ...
Selecting previously unselected package libfontconfig1:amd64.
Preparing to unpack .../035-libfontconfig1_2.13.0-5_amd64.deb ...
Unpacking libfontconfig1:amd64 (2.13.0-5) ...
Selecting previously unselected package libxau6:amd64.
Preparing to unpack .../036-libxau6_1%3a1.0.8-1+b2_amd64.deb ...
Unpacking libxau6:amd64 (1:1.0.8-1+b2) ...
Selecting previously unselected package libxdmcp6:amd64.
Preparing to unpack .../037-libxdmcp6_1%3a1.1.2-3_amd64.deb ...
Unpacking libxdmcp6:amd64 (1:1.1.2-3) ...
Selecting previously unselected package libxcb1:amd64.
Preparing to unpack .../038-libxcb1_1.13-2_amd64.deb ...
Unpacking libxcb1:amd64 (1.13-2) ...
Selecting previously unselected package libx11-data.
Preparing to unpack .../039-libx11-data_2%3a1.6.5-1_all.deb ...
Unpacking libx11-data (2:1.6.5-1) ...
Selecting previously unselected package libx11-6:amd64.
Preparing to unpack .../040-libx11-6_2%3a1.6.5-1_amd64.deb ...
Unpacking libx11-6:amd64 (2:1.6.5-1) ...
Selecting previously unselected package libxext6:amd64.
Preparing to unpack .../041-libxext6_2%3a1.3.3-1+b2_amd64.deb ...
Unpacking libxext6:amd64 (2:1.3.3-1+b2) ...
Selecting previously unselected package libxrender1:amd64.
Preparing to unpack .../042-libxrender1_1%3a0.9.10-1_amd64.deb ...
Unpacking libxrender1:amd64 (1:0.9.10-1) ...
Selecting previously unselected package libxft2:amd64.
Preparing to unpack .../043-libxft2_2.3.2-2_amd64.deb ...
Unpacking libxft2:amd64 (2.3.2-2) ...
Selecting previously unselected package x11-common.
Preparing to unpack .../044-x11-common_1%3a7.7+19_all.deb ...
Unpacking x11-common (1:7.7+19) ...
Selecting previously unselected package libxss1:amd64.
Preparing to unpack .../045-libxss1_1%3a1.2.2-1+b2_amd64.deb ...
Unpacking libxss1:amd64 (1:1.2.2-1+b2) ...
Selecting previously unselected package libtk8.6:amd64.
Preparing to unpack .../046-libtk8.6_8.6.8-4_amd64.deb ...
Unpacking libtk8.6:amd64 (8.6.8-4) ...
Selecting previously unselected package tk8.6-blt2.5.
Preparing to unpack .../047-tk8.6-blt2.5_2.5.3+dfsg-4_amd64.deb ...
Unpacking tk8.6-blt2.5 (2.5.3+dfsg-4) ...
Selecting previously unselected package blt.
Preparing to unpack .../048-blt_2.5.3+dfsg-4_amd64.deb ...
Unpacking blt (2.5.3+dfsg-4) ...
Selecting previously unselected package libatomic1:amd64.
Preparing to unpack .../049-libatomic1_8.2.0-3_amd64.deb ...
Unpacking libatomic1:amd64 (8.2.0-3) ...
Selecting previously unselected package libtbb2:amd64.
Preparing to unpack .../050-libtbb2_2017~U7-8_amd64.deb ...
Unpacking libtbb2:amd64 (2017~U7-8) ...
Selecting previously unselected package bowtie2.
Preparing to unpack .../051-bowtie2_2.3.4.1-2_amd64.deb ...
Unpacking bowtie2 (2.3.4.1-2) ...
Selecting previously unselected package libc-dev-bin.
Preparing to unpack .../052-libc-dev-bin_2.27-5_amd64.deb ...
Unpacking libc-dev-bin (2.27-5) ...
Selecting previously unselected package linux-libc-dev:amd64.
Preparing to unpack .../053-linux-libc-dev_4.17.8-1_amd64.deb ...
Unpacking linux-libc-dev:amd64 (4.17.8-1) ...
Selecting previously unselected package libc6-dev:amd64.
Preparing to unpack .../054-libc6-dev_2.27-5_amd64.deb ...
Unpacking libc6-dev:amd64 (2.27-5) ...
Selecting previously unselected package libisl19:amd64.
Preparing to unpack .../055-libisl19_0.20-1_amd64.deb ...
Unpacking libisl19:amd64 (0.20-1) ...
Selecting previously unselected package libmpc3:amd64.
Preparing to unpack .../056-libmpc3_1.1.0-1_amd64.deb ...
Unpacking libmpc3:amd64 (1.1.0-1) ...
Selecting previously unselected package cpp-8.
Preparing to unpack .../057-cpp-8_8.2.0-3_amd64.deb ...
Unpacking cpp-8 (8.2.0-3) ...
Selecting previously unselected package cpp.
Preparing to unpack .../058-cpp_4%3a8.1.0-1_amd64.deb ...
Unpacking cpp (4:8.1.0-1) ...
Selecting previously unselected package libcc1-0:amd64.
Preparing to unpack .../059-libcc1-0_8.2.0-3_amd64.deb ...
Unpacking libcc1-0:amd64 (8.2.0-3) ...
Selecting previously unselected package libgomp1:amd64.
Preparing to unpack .../060-libgomp1_8.2.0-3_amd64.deb ...
Unpacking libgomp1:amd64 (8.2.0-3) ...
Selecting previously unselected package libitm1:amd64.
Preparing to unpack .../061-libitm1_8.2.0-3_amd64.deb ...
Unpacking libitm1:amd64 (8.2.0-3) ...
Selecting previously unselected package libasan5:amd64.
Preparing to unpack .../062-libasan5_8.2.0-3_amd64.deb ...
Unpacking libasan5:amd64 (8.2.0-3) ...
Selecting previously unselected package liblsan0:amd64.
Preparing to unpack .../063-liblsan0_8.2.0-3_amd64.deb ...
Unpacking liblsan0:amd64 (8.2.0-3) ...
Selecting previously unselected package libtsan0:amd64.
Preparing to unpack .../064-libtsan0_8.2.0-3_amd64.deb ...
Unpacking libtsan0:amd64 (8.2.0-3) ...
Selecting previously unselected package libubsan1:amd64.
Preparing to unpack .../065-libubsan1_8.2.0-3_amd64.deb ...
Unpacking libubsan1:amd64 (8.2.0-3) ...
Selecting previously unselected package libmpx2:amd64.
Preparing to unpack .../066-libmpx2_8.2.0-3_amd64.deb ...
Unpacking libmpx2:amd64 (8.2.0-3) ...
Selecting previously unselected package libquadmath0:amd64.
Preparing to unpack .../067-libquadmath0_8.2.0-3_amd64.deb ...
Unpacking libquadmath0:amd64 (8.2.0-3) ...
Selecting previously unselected package libgcc-8-dev:amd64.
Preparing to unpack .../068-libgcc-8-dev_8.2.0-3_amd64.deb ...
Unpacking libgcc-8-dev:amd64 (8.2.0-3) ...
Selecting previously unselected package gcc-8.
Preparing to unpack .../069-gcc-8_8.2.0-3_amd64.deb ...
Unpacking gcc-8 (8.2.0-3) ...
Selecting previously unselected package gcc.
Preparing to unpack .../070-gcc_4%3a8.1.0-1_amd64.deb ...
Unpacking gcc (4:8.1.0-1) ...
Selecting previously unselected package libstdc++-8-dev:amd64.
Preparing to unpack .../071-libstdc++-8-dev_8.2.0-3_amd64.deb ...
Unpacking libstdc++-8-dev:amd64 (8.2.0-3) ...
Selecting previously unselected package g++-8.
Preparing to unpack .../072-g++-8_8.2.0-3_amd64.deb ...
Unpacking g++-8 (8.2.0-3) ...
Selecting previously unselected package g++.
Preparing to unpack .../073-g++_4%3a8.1.0-1_amd64.deb ...
Unpacking g++ (4:8.1.0-1) ...
Selecting previously unselected package build-essential.
Preparing to unpack .../074-build-essential_12.5_amd64.deb ...
Unpacking build-essential (12.5) ...
Selecting previously unselected package cd-hit.
Preparing to unpack .../075-cd-hit_4.6.8-1_amd64.deb ...
Unpacking cd-hit (4.6.8-1) ...
Selecting previously unselected package libtool.
Preparing to unpack .../076-libtool_2.4.6-2.1_all.deb ...
Unpacking libtool (2.4.6-2.1) ...
Selecting previously unselected package dh-autoreconf.
Preparing to unpack .../077-dh-autoreconf_19_all.deb ...
Unpacking dh-autoreconf (19) ...
Selecting previously unselected package libarchive-zip-perl.
Preparing to unpack .../078-libarchive-zip-perl_1.60-1_all.deb ...
Unpacking libarchive-zip-perl (1.60-1) ...
Selecting previously unselected package libfile-stripnondeterminism-perl.
Preparing to unpack .../079-libfile-stripnondeterminism-perl_0.042-1_all.deb ...
Unpacking libfile-stripnondeterminism-perl (0.042-1) ...
Selecting previously unselected package libtimedate-perl.
Preparing to unpack .../080-libtimedate-perl_2.3000-2_all.deb ...
Unpacking libtimedate-perl (2.3000-2) ...
Selecting previously unselected package dh-strip-nondeterminism.
Preparing to unpack .../081-dh-strip-nondeterminism_0.042-1_all.deb ...
Unpacking dh-strip-nondeterminism (0.042-1) ...
Selecting previously unselected package libelf1:amd64.
Preparing to unpack .../082-libelf1_0.170-0.5_amd64.deb ...
Unpacking libelf1:amd64 (0.170-0.5) ...
Selecting previously unselected package dwz.
Preparing to unpack .../083-dwz_0.12-2_amd64.deb ...
Unpacking dwz (0.12-2) ...
Selecting previously unselected package libglib2.0-0:amd64.
Preparing to unpack .../084-libglib2.0-0_2.56.1-2_amd64.deb ...
Unpacking libglib2.0-0:amd64 (2.56.1-2) ...
Selecting previously unselected package libgraphite2-3:amd64.
Preparing to unpack .../085-libgraphite2-3_1.3.11-2_amd64.deb ...
Unpacking libgraphite2-3:amd64 (1.3.11-2) ...
Selecting previously unselected package libharfbuzz0b:amd64.
Preparing to unpack .../086-libharfbuzz0b_1.8.5-1_amd64.deb ...
Unpacking libharfbuzz0b:amd64 (1.8.5-1) ...
Selecting previously unselected package libicu-le-hb0:amd64.
Preparing to unpack .../087-libicu-le-hb0_1.0.3+git161113-5_amd64.deb ...
Unpacking libicu-le-hb0:amd64 (1.0.3+git161113-5) ...
Selecting previously unselected package libicu60:amd64.
Preparing to unpack .../088-libicu60_60.2-6_amd64.deb ...
Unpacking libicu60:amd64 (60.2-6) ...
Selecting previously unselected package libxml2:amd64.
Preparing to unpack .../089-libxml2_2.9.4+dfsg1-7+b1_amd64.deb ...
Unpacking libxml2:amd64 (2.9.4+dfsg1-7+b1) ...
Selecting previously unselected package libcroco3:amd64.
Preparing to unpack .../090-libcroco3_0.6.12-2_amd64.deb ...
Unpacking libcroco3:amd64 (0.6.12-2) ...
Selecting previously unselected package gettext.
Preparing to unpack .../091-gettext_0.19.8.1-6+b1_amd64.deb ...
Unpacking gettext (0.19.8.1-6+b1) ...
Selecting previously unselected package intltool-debian.
Preparing to unpack .../092-intltool-debian_0.35.0+20060710.4_all.deb ...
Unpacking intltool-debian (0.35.0+20060710.4) ...
Selecting previously unselected package po-debconf.
Preparing to unpack .../093-po-debconf_1.0.20_all.deb ...
Unpacking po-debconf (1.0.20) ...
Selecting previously unselected package debhelper.
Preparing to unpack .../094-debhelper_11.3.5_all.deb ...
Unpacking debhelper (11.3.5) ...
Selecting previously unselected package python3-lib2to3.
Preparing to unpack .../095-python3-lib2to3_3.6.6-1_all.deb ...
Unpacking python3-lib2to3 (3.6.6-1) ...
Selecting previously unselected package python3-distutils.
Preparing to unpack .../096-python3-distutils_3.6.6-1_all.deb ...
Unpacking python3-distutils (3.6.6-1) ...
Selecting previously unselected package dh-python.
Preparing to unpack .../097-dh-python_3.20180723_all.deb ...
Unpacking dh-python (3.20180723) ...
Selecting previously unselected package libfakeroot:amd64.
Preparing to unpack .../098-libfakeroot_1.23-1_amd64.deb ...
Unpacking libfakeroot:amd64 (1.23-1) ...
Selecting previously unselected package fakeroot.
Preparing to unpack .../099-fakeroot_1.23-1_amd64.deb ...
Unpacking fakeroot (1.23-1) ...
Selecting previously unselected package python3-pkg-resources.
Preparing to unpack .../100-python3-pkg-resources_39.2.0-1_all.deb ...
Unpacking python3-pkg-resources (39.2.0-1) ...
Selecting previously unselected package libkeyutils1:amd64.
Preparing to unpack .../101-libkeyutils1_1.5.9-9.3_amd64.deb ...
Unpacking libkeyutils1:amd64 (1.5.9-9.3) ...
Selecting previously unselected package libkrb5support0:amd64.
Preparing to unpack .../102-libkrb5support0_1.16-2_amd64.deb ...
Unpacking libkrb5support0:amd64 (1.16-2) ...
Selecting previously unselected package libk5crypto3:amd64.
Preparing to unpack .../103-libk5crypto3_1.16-2_amd64.deb ...
Unpacking libk5crypto3:amd64 (1.16-2) ...
Selecting previously unselected package libkrb5-3:amd64.
Preparing to unpack .../104-libkrb5-3_1.16-2_amd64.deb ...
Unpacking libkrb5-3:amd64 (1.16-2) ...
Selecting previously unselected package libgssapi-krb5-2:amd64.
Preparing to unpack .../105-libgssapi-krb5-2_1.16-2_amd64.deb ...
Unpacking libgssapi-krb5-2:amd64 (1.16-2) ...
Selecting previously unselected package libsasl2-modules-db:amd64.
Preparing to unpack
.../106-libsasl2-modules-db_2.1.27~101-g0780600+dfsg-3.1_amd64.deb ...
Unpacking libsasl2-modules-db:amd64 (2.1.27~101-g0780600+dfsg-3.1) ...
Selecting previously unselected package libsasl2-2:amd64.
Preparing to unpack .../107-libsasl2-2_2.1.27~101-g0780600+dfsg-3.1_amd64.deb
...
Unpacking libsasl2-2:amd64 (2.1.27~101-g0780600+dfsg-3.1) ...
Selecting previously unselected package libldap-common.
Preparing to unpack .../108-libldap-common_2.4.46+dfsg-5_all.deb ...
Unpacking libldap-common (2.4.46+dfsg-5) ...
Selecting previously unselected package libldap-2.4-2:amd64.
Preparing to unpack .../109-libldap-2.4-2_2.4.46+dfsg-5_amd64.deb ...
Unpacking libldap-2.4-2:amd64 (2.4.46+dfsg-5) ...
Selecting previously unselected package libnghttp2-14:amd64.
Preparing to unpack .../110-libnghttp2-14_1.32.0-1_amd64.deb ...
Unpacking libnghttp2-14:amd64 (1.32.0-1) ...
Selecting previously unselected package libpsl5:amd64.
Preparing to unpack .../111-libpsl5_0.20.2-1_amd64.deb ...
Unpacking libpsl5:amd64 (0.20.2-1) ...
Selecting previously unselected package librtmp1:amd64.
Preparing to unpack .../112-librtmp1_2.4+20151223.gitfa8646d.1-2_amd64.deb ...
Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ...
Selecting previously unselected package libssh2-1:amd64.
Preparing to unpack .../113-libssh2-1_1.8.0-2_amd64.deb ...
Unpacking libssh2-1:amd64 (1.8.0-2) ...
Selecting previously unselected package libcurl3-gnutls:amd64.
Preparing to unpack .../114-libcurl3-gnutls_7.60.0-2_amd64.deb ...
Unpacking libcurl3-gnutls:amd64 (7.60.0-2) ...
Selecting previously unselected package libhts2:amd64.
Preparing to unpack .../115-libhts2_1.7-2_amd64.deb ...
Unpacking libhts2:amd64 (1.7-2) ...
Selecting previously unselected package samtools.
Preparing to unpack .../116-samtools_1.7-2+b1_amd64.deb ...
Unpacking samtools (1.7-2+b1) ...
Selecting previously unselected package fastaq.
Preparing to unpack .../117-fastaq_3.17.0-2_all.deb ...
Unpacking fastaq (3.17.0-2) ...
Selecting previously unselected package fonts-lyx.
Preparing to unpack .../118-fonts-lyx_2.3.0-2_all.deb ...
Unpacking fonts-lyx (2.3.0-2) ...
Selecting previously unselected package help2man.
Preparing to unpack .../119-help2man_1.47.6_amd64.deb ...
Unpacking help2man (1.47.6) ...
Selecting previously unselected package libgfortran5:amd64.
Preparing to unpack .../120-libgfortran5_8.2.0-3_amd64.deb ...
Unpacking libgfortran5:amd64 (8.2.0-3) ...
Selecting previously unselected package libblas3:amd64.
Preparing to unpack .../121-libblas3_3.8.0-1+b1_amd64.deb ...
Unpacking libblas3:amd64 (3.8.0-1+b1) ...
Selecting previously unselected package libcapnp-0.6.1.
Preparing to unpack .../122-libcapnp-0.6.1_0.6.1-1_amd64.deb ...
Unpacking libcapnp-0.6.1 (0.6.1-1) ...
Selecting previously unselected package libexpat1-dev:amd64.
Preparing to unpack .../123-libexpat1-dev_2.2.5-3_amd64.deb ...
Unpacking libexpat1-dev:amd64 (2.2.5-3) ...
Selecting previously unselected package libfml0.
Preparing to unpack .../124-libfml0_0.1-5_amd64.deb ...
Unpacking libfml0 (0.1-5) ...
Selecting previously unselected package zlib1g-dev:amd64.
Preparing to unpack .../125-zlib1g-dev_1%3a1.2.11.dfsg-1_amd64.deb ...
Unpacking zlib1g-dev:amd64 (1:1.2.11.dfsg-1) ...
Selecting previously unselected package libfml-dev.
Preparing to unpack .../126-libfml-dev_0.1-5_amd64.deb ...
Unpacking libfml-dev (0.1-5) ...
Selecting previously unselected package libgslcblas0:amd64.
Preparing to unpack .../127-libgslcblas0_2.5+dfsg-4_amd64.deb ...
Unpacking libgslcblas0:amd64 (2.5+dfsg-4) ...
Selecting previously unselected package libgsl23:amd64.
Preparing to unpack .../128-libgsl23_2.5+dfsg-4_amd64.deb ...
Unpacking libgsl23:amd64 (2.5+dfsg-4) ...
Selecting previously unselected package libjs-jquery.
Preparing to unpack .../129-libjs-jquery_3.2.1-1_all.deb ...
Unpacking libjs-jquery (3.2.1-1) ...
Selecting previously unselected package libjs-jquery-ui.
Preparing to unpack .../130-libjs-jquery-ui_1.12.1+dfsg-5_all.deb ...
Unpacking libjs-jquery-ui (1.12.1+dfsg-5) ...
Selecting previously unselected package liblapack3:amd64.
Preparing to unpack .../131-liblapack3_3.8.0-1+b1_amd64.deb ...
Unpacking liblapack3:amd64 (3.8.0-1+b1) ...
Selecting previously unselected package libminimap0.
Preparing to unpack .../132-libminimap0_0.2-4_amd64.deb ...
Unpacking libminimap0 (0.2-4) ...
Selecting previously unselected package libminimap-dev.
Preparing to unpack .../133-libminimap-dev_0.2-4_amd64.deb ...
Unpacking libminimap-dev (0.2-4) ...
Selecting previously unselected package libpython3.6:amd64.
Preparing to unpack .../134-libpython3.6_3.6.6-1_amd64.deb ...
Unpacking libpython3.6:amd64 (3.6.6-1) ...
Selecting previously unselected package libpython3.6-dev:amd64.
Preparing to unpack .../135-libpython3.6-dev_3.6.6-1_amd64.deb ...
Unpacking libpython3.6-dev:amd64 (3.6.6-1) ...
Selecting previously unselected package libpython3-dev:amd64.
Preparing to unpack .../136-libpython3-dev_3.6.6-1_amd64.deb ...
Unpacking libpython3-dev:amd64 (3.6.6-1) ...
Selecting previously unselected package libpython3.7-stdlib:amd64.
Preparing to unpack .../137-libpython3.7-stdlib_3.7.0-4_amd64.deb ...
Unpacking libpython3.7-stdlib:amd64 (3.7.0-4) ...
Selecting previously unselected package mash.
Preparing to unpack .../138-mash_2.0-2_amd64.deb ...
Unpacking mash (2.0-2) ...
Selecting previously unselected package mummer.
Preparing to unpack .../139-mummer_3.23+dfsg-4_amd64.deb ...
Unpacking mummer (3.23+dfsg-4) ...
Selecting previously unselected package python-matplotlib-data.
Preparing to unpack .../140-python-matplotlib-data_2.2.2-4_all.deb ...
Unpacking python-matplotlib-data (2.2.2-4) ...
Selecting previously unselected package python3.7.
Preparing to unpack .../141-python3.7_3.7.0-4_amd64.deb ...
Unpacking python3.7 (3.7.0-4) ...
Selecting previously unselected package python3-all.
Preparing to unpack .../142-python3-all_3.6.6-1_amd64.deb ...
Unpacking python3-all (3.6.6-1) ...
Selecting previously unselected package python3-bs4.
Preparing to unpack .../143-python3-bs4_4.6.0-1_all.deb ...
Unpacking python3-bs4 (4.6.0-1) ...
Selecting previously unselected package python3-six.
Preparing to unpack .../144-python3-six_1.11.0-2_all.deb ...
Unpacking python3-six (1.11.0-2) ...
Selecting previously unselected package python3-cycler.
Preparing to unpack .../145-python3-cycler_0.10.0-1_all.deb ...
Unpacking python3-cycler (0.10.0-1) ...
Selecting previously unselected package python3-dateutil.
Preparing to unpack .../146-python3-dateutil_2.6.1-1_all.deb ...
Unpacking python3-dateutil (2.6.1-1) ...
Selecting previously unselected package python3-dendropy.
Preparing to unpack .../147-python3-dendropy_4.4.0-1_all.deb ...
Unpacking python3-dendropy (4.4.0-1) ...
Selecting previously unselected package python3.6-dev.
Preparing to unpack .../148-python3.6-dev_3.6.6-1_amd64.deb ...
Unpacking python3.6-dev (3.6.6-1) ...
Selecting previously unselected package python3-dev.
Preparing to unpack .../149-python3-dev_3.6.6-1_amd64.deb ...
Unpacking python3-dev (3.6.6-1) ...
Selecting previously unselected package python3-kiwisolver.
Preparing to unpack .../150-python3-kiwisolver_1.0.1-2+b1_amd64.deb ...
Unpacking python3-kiwisolver (1.0.1-2+b1) ...
Selecting previously unselected package python3-pyparsing.
Preparing to unpack .../151-python3-pyparsing_2.2.0+dfsg1-2_all.deb ...
Unpacking python3-pyparsing (2.2.0+dfsg1-2) ...
Selecting previously unselected package python3-tz.
Preparing to unpack .../152-python3-tz_2018.5-1_all.deb ...
Unpacking python3-tz (2018.5-1) ...
Selecting previously unselected package python3-numpy.
Preparing to unpack .../153-python3-numpy_1%3a1.14.5-1+b1_amd64.deb ...
Unpacking python3-numpy (1:1.14.5-1+b1) ...
Selecting previously unselected package python3-matplotlib.
Preparing to unpack .../154-python3-matplotlib_2.2.2-4+b1_amd64.deb ...
Unpacking python3-matplotlib (2.2.2-4+b1) ...
Selecting previously unselected package python3-nose.
Preparing to unpack .../155-python3-nose_1.3.7-4_all.deb ...
Unpacking python3-nose (1.3.7-4) ...
Selecting previously unselected package python3-pymummer.
Preparing to unpack .../156-python3-pymummer_0.10.3-1_all.deb ...
Unpacking python3-pymummer (0.10.3-1) ...
Selecting previously unselected package python3-pysam.
Preparing to unpack .../157-python3-pysam_0.14+ds-2+b1_amd64.deb ...
Unpacking python3-pysam (0.14+ds-2+b1) ...
Selecting previously unselected package python3-setuptools.
Preparing to unpack .../158-python3-setuptools_39.2.0-1_all.deb ...
Unpacking python3-setuptools (39.2.0-1) ...
Selecting previously unselected package python3-tk:amd64.
Preparing to unpack .../159-python3-tk_3.6.6-1_amd64.deb ...
Unpacking python3-tk:amd64 (3.6.6-1) ...
Selecting previously unselected package sbuild-build-depends-main-dummy.
Preparing to unpack
.../160-sbuild-build-depends-main-dummy_0.invalid.0_amd64.deb ...
Unpacking sbuild-build-depends-main-dummy (0.invalid.0) ...
Setting up libquadmath0:amd64 (8.2.0-3) ...
Setting up libgomp1:amd64 (8.2.0-3) ...
Setting up libjs-jquery (3.2.1-1) ...
Setting up libatomic1:amd64 (8.2.0-3) ...
Setting up cd-hit (4.6.8-1) ...
Setting up libcc1-0:amd64 (8.2.0-3) ...
Processing triggers for ccache (3.4.2-1) ...
Updating symlinks in /usr/lib/ccache ...
Setting up ruby-xmlrpc (0.3.0-2) ...
Setting up libarchive-zip-perl (1.60-1) ...
Setting up libnghttp2-14:amd64 (1.32.0-1) ...
Setting up mime-support (3.61) ...
Setting up libpng16-16:amd64 (1.6.34-2) ...
Setting up libtimedate-perl (2.3000-2) ...
Setting up libldap-common (2.4.46+dfsg-5) ...
Setting up libpsl5:amd64 (0.20.2-1) ...
Setting up libtbb2:amd64 (2017~U7-8) ...
Setting up libelf1:amd64 (0.170-0.5) ...
Setting up libtsan0:amd64 (8.2.0-3) ...
Setting up groff-base (1.22.3-10) ...
Setting up libglib2.0-0:amd64 (2.56.1-2) ...
No schema files found: doing nothing.
Setting up libsasl2-modules-db:amd64 (2.1.27~101-g0780600+dfsg-3.1) ...
Setting up linux-libc-dev:amd64 (4.17.8-1) ...
Setting up libsasl2-2:amd64 (2.1.27~101-g0780600+dfsg-3.1) ...
Setting up gettext-base (0.19.8.1-6+b1) ...
Setting up libpipeline1:amd64 (1.5.0-1) ...
Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ...
Setting up m4 (1.4.18-1) ...
Setting up libpython3.7-minimal:amd64 (3.7.0-4) ...
Setting up python3.7-minimal (3.7.0-4) ...
Setting up gawk (1:4.1.4+dfsg-1+b1) ...
Setting up libbsd0:amd64 (0.9.1-1) ...
Setting up ucf (3.0038) ...
Setting up libfreetype6:amd64 (2.8.1-2) ...
Setting up libmagic-mgc (1:5.34-2) ...
Setting up libmagic1:amd64 (1:5.34-2) ...
Setting up libgraphite2-3:amd64 (1.3.11-2) ...
Setting up liblsan0:amd64 (8.2.0-3) ...
Setting up ruby-did-you-mean (1.2.1-1) ...
Setting up libmpx2:amd64 (8.2.0-3) ...
Setting up libyaml-0-2:amd64 (0.2.1-1) ...
Setting up libssh2-1:amd64 (1.8.0-2) ...
Setting up libminimap0 (0.2-4) ...
Processing triggers for libc-bin (2.27-5) ...
Setting up dwz (0.12-2) ...
Setting up autotools-dev (20180224.1) ...
Setting up libldap-2.4-2:amd64 (2.4.46+dfsg-5) ...
Setting up libfakeroot:amd64 (1.23-1) ...
Setting up libjs-jquery-ui (1.12.1+dfsg-5) ...
Setting up libfml0 (0.1-5) ...
Setting up openssl (1.1.0h-4) ...
Setting up ruby-net-telnet (0.1.1-2) ...
Setting up libcapnp-0.6.1 (0.6.1-1) ...
Setting up libsqlite3-0:amd64 (3.24.0-1) ...
Setting up liblocale-gettext-perl (1.07-3+b3) ...
Setting up ttf-bitstream-vera (1.10-8) ...
Setting up libmpc3:amd64 (1.1.0-1) ...
Setting up libc-dev-bin (2.27-5) ...
Setting up libtcl8.6:amd64 (8.6.8+dfsg-4) ...
Setting up libxdmcp6:amd64 (1:1.1.2-3) ...
Setting up libkeyutils1:amd64 (1.5.9-9.3) ...
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 ruby-minitest (5.10.3-1) ...
Setting up x11-common (1:7.7+19) ...
update-rc.d: warning: start and stop actions are no longer supported; falling
back to defaults
invoke-rc.d: could not determine current runlevel
Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix.
Setting up libgslcblas0:amd64 (2.5+dfsg-4) ...
Setting up ca-certificates (20180409) ...
Updating certificates in /etc/ssl/certs...
133 added, 0 removed; done.
Setting up libc6-dev:amd64 (2.27-5) ...
Setting up libasan5:amd64 (8.2.0-3) ...
Setting up libgfortran5:amd64 (8.2.0-3) ...
Setting up libncurses6:amd64 (6.1+20180714-1) ...
Setting up libitm1:amd64 (8.2.0-3) ...
Setting up libx11-data (2:1.6.5-1) ...
Setting up libpython2.7-stdlib:amd64 (2.7.15-3) ...
Setting up libxau6:amd64 (1:1.0.8-1+b2) ...
Setting up autopoint (0.19.8.1-6) ...
Setting up libmpdec2:amd64 (2.4.2-2) ...
Setting up ruby-power-assert (1.1.1-1) ...
Setting up fonts-lyx (2.3.0-2) ...
Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-1) ...
Setting up libfile-stripnondeterminism-perl (0.042-1) ...
Setting up libubsan1:amd64 (8.2.0-3) ...
Setting up libisl19:amd64 (0.20-1) ...
Setting up cpp-8 (8.2.0-3) ...
Setting up cpp (4:8.1.0-1) ...
Setting up libpython3.6-stdlib:amd64 (3.6.6-1) ...
Setting up libpython3.7-stdlib:amd64 (3.7.0-4) ...
Setting up fontconfig-config (2.13.0-5) ...
Setting up python3.6 (3.6.6-1) ...
Setting up python-matplotlib-data (2.2.2-4) ...
Setting up ruby-test-unit (3.2.7-1) ...
Setting up libgsl23:amd64 (2.5+dfsg-4) ...
Setting up mummer (3.23+dfsg-4) ...
Setting up python2.7 (2.7.15-3) ...
Setting up libminimap-dev (0.2-4) ...
Setting up libharfbuzz0b:amd64 (1.8.5-1) ...
Setting up libfml-dev (0.1-5) ...
Setting up python3.7 (3.7.0-4) ...
Setting up autoconf (2.69-11) ...
Setting up file (1:5.34-2) ...
Setting up fakeroot (1.23-1) ...
update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot
(fakeroot) in auto mode
Setting up libkrb5support0:amd64 (1.16-2) ...
Setting up libblas3:amd64 (3.8.0-1+b1) ...
update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to
provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu)
in auto mode
Setting up automake (1:1.16.1-1) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake
(automake) in auto mode
Setting up help2man (1.47.6) ...
Setting up rubygems-integration (1.11) ...
Setting up libexpat1-dev:amd64 (2.2.5-3) ...
Setting up man-db (2.8.4-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libpython2-stdlib:amd64 (2.7.15-3) ...
Setting up libgcc-8-dev:amd64 (8.2.0-3) ...
Setting up libxcb1:amd64 (1.13-2) ...
Setting up libpython3.6:amd64 (3.6.6-1) ...
Setting up libpython3-stdlib:amd64 (3.6.6-1) ...
Setting up libfontconfig1:amd64 (2.13.0-5) ...
Setting up libstdc++-8-dev:amd64 (8.2.0-3) ...
Setting up libk5crypto3:amd64 (1.16-2) ...
Setting up mash (2.0-2) ...
Setting up python3 (3.6.6-1) ...
Setting up liblapack3:amd64 (3.8.0-1+b1) ...
update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to
provide /usr/lib/x86_64-linux-gnu/liblapack.so.3
(liblapack.so.3-x86_64-linux-gnu) in auto mode
Setting up python3-six (1.11.0-2) ...
Setting up libx11-6:amd64 (2:1.6.5-1) ...
Setting up python3-pyparsing (2.2.0+dfsg1-2) ...
Setting up python3-cycler (0.10.0-1) ...
Setting up python3-pkg-resources (39.2.0-1) ...
Setting up python3-bs4 (4.6.0-1) ...
Setting up libpython3.6-dev:amd64 (3.6.6-1) ...
Setting up python2 (2.7.15-3) ...
Setting up gcc-8 (8.2.0-3) ...
Setting up g++-8 (8.2.0-3) ...
Setting up libpython-stdlib:amd64 (2.7.15-3) ...
Setting up python3-nose (1.3.7-4) ...
Setting up libxrender1:amd64 (1:0.9.10-1) ...
Setting up libkrb5-3:amd64 (1.16-2) ...
Setting up libxft2:amd64 (2.3.2-2) ...
Setting up python3-dendropy (4.4.0-1) ...
Setting up python3.6-dev (3.6.6-1) ...
Setting up python3-lib2to3 (3.6.6-1) ...
Setting up python3-tz (2018.5-1) ...
Setting up python3-distutils (3.6.6-1) ...
Setting up python (2.7.15-3) ...
Setting up python3-dateutil (2.6.1-1) ...
Setting up libpython3-dev:amd64 (3.6.6-1) ...
Setting up libtool (2.4.6-2.1) ...
Setting up python3-kiwisolver (1.0.1-2+b1) ...
Setting up libxext6:amd64 (2:1.3.3-1+b2) ...
Setting up python3-numpy (1:1.14.5-1+b1) ...
Setting up libxss1:amd64 (1:1.2.2-1+b2) ...
Setting up gcc (4:8.1.0-1) ...
Setting up bowtie2 (2.3.4.1-2) ...
Setting up libgssapi-krb5-2:amd64 (1.16-2) ...
Setting up g++ (4:8.1.0-1) ...
update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto
mode
Setting up python3-setuptools (39.2.0-1) ...
Setting up python3-matplotlib (2.2.2-4+b1) ...
Setting up dh-python (3.20180723) ...
Setting up build-essential (12.5) ...
Setting up libcurl3-gnutls:amd64 (7.60.0-2) ...
Setting up libtk8.6:amd64 (8.6.8-4) ...
Setting up python3-dev (3.6.6-1) ...
Setting up tk8.6-blt2.5 (2.5.3+dfsg-4) ...
Setting up python3-all (3.6.6-1) ...
Setting up libhts2:amd64 (1.7-2) ...
Setting up blt (2.5.3+dfsg-4) ...
Setting up python3-pysam (0.14+ds-2+b1) ...
Setting up python3-tk:amd64 (3.6.6-1) ...
Setting up samtools (1.7-2+b1) ...
Setting up fastaq (3.17.0-2) ...
Setting up python3-pymummer (0.10.3-1) ...
Setting up dh-autoreconf (19) ...
Setting up rake (12.3.1-3) ...
Setting up libicu-le-hb0:amd64 (1.0.3+git161113-5) ...
Setting up libruby2.5:amd64 (2.5.1-5) ...
Setting up libicu60:amd64 (60.2-6) ...
Setting up libxml2:amd64 (2.9.4+dfsg1-7+b1) ...
Setting up libcroco3:amd64 (0.6.12-2) ...
Setting up ruby2.5 (2.5.1-5) ...
Setting up gettext (0.19.8.1-6+b1) ...
Setting up intltool-debian (0.35.0+20060710.4) ...
Setting up ruby (1:2.5.1) ...
Setting up po-debconf (1.0.20) ...
Setting up ruby-asciidoctor (1.5.7.1-1) ...
Setting up debhelper (11.3.5) ...
Setting up asciidoctor (1.5.7.1-1) ...
Setting up dh-strip-nondeterminism (0.042-1) ...
Setting up sbuild-build-depends-main-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.27-5) ...
Processing triggers for ca-certificates (20180409) ...
Updating certificates in /etc/ssl/certs...
0 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (amd64 included in any)
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.17.0-1-amd64 #1 SMP Debian 4.17.8-1 (2018-07-20) amd64 (x86_64)
Toolchain package versions: binutils_2.31.1-2 dpkg-dev_1.19.0.5 g++-8_8.2.0-3
gcc-8_8.2.0-3 libc6-dev_2.27-5 libstdc++-8-dev_8.2.0-3 libstdc++6_8.2.0-3
linux-libc-dev_4.17.8-1
Package versions: adduser_3.117 apt_1.6.3 asciidoctor_1.5.7.1-1
autoconf_2.69-11 automake_1:1.16.1-1 autopoint_0.19.8.1-6
autotools-dev_20180224.1 base-files_10.1 base-passwd_3.5.45 bash_4.4.18-3.1
binutils_2.31.1-2 binutils-common_2.31.1-2 binutils-x86-64-linux-gnu_2.31.1-2
blt_2.5.3+dfsg-4 bowtie2_2.3.4.1-2 bsdmainutils_11.1.2+b1 bsdutils_1:2.32-0.4
build-essential_12.5 bzip2_1.0.6-8.1 ca-certificates_20180409 ccache_3.4.2-1
cd-hit_4.6.8-1 coreutils_8.28-1 cpp_4:8.1.0-1 cpp-8_8.2.0-3 dash_0.5.8-2.10
debconf_1.5.69 debhelper_11.3.5 debian-archive-keyring_2017.7 debianutils_4.8.6
dh-autoreconf_19 dh-python_3.20180723 dh-strip-nondeterminism_0.042-1
diffutils_1:3.6-1 dpkg_1.19.0.5+b1 dpkg-dev_1.19.0.5 dwz_0.12-2
e2fslibs_1.44.3-1 e2fsprogs_1.44.3-1 fakeroot_1.23-1 fastaq_3.17.0-2
fdisk_2.32-0.4 file_1:5.34-2 findutils_4.6.0+git+20171230-2
fontconfig-config_2.13.0-5 fonts-lyx_2.3.0-2 g++_4:8.1.0-1 g++-8_8.2.0-3
gawk_1:4.1.4+dfsg-1+b1 gcc_4:8.1.0-1 gcc-8_8.2.0-3 gcc-8-base_8.2.0-3
gettext_0.19.8.1-6+b1 gettext-base_0.19.8.1-6+b1 gpgv_2.2.9-1 grep_3.1-2
groff-base_1.22.3-10 gzip_1.9-2 help2man_1.47.6 hostname_3.20 init_1.51
init-system-helpers_1.51 initscripts_2.88dsf-59.10 insserv_1.14.0-5.4+b1
intltool-debian_0.35.0+20060710.4 libacl1_2.2.52-3+b1 libapt-pkg5.0_1.6.3
libarchive-zip-perl_1.60-1 libasan5_8.2.0-3 libatomic1_8.2.0-3
libattr1_1:2.4.47-2+b2 libaudit-common_1:2.8.3-1 libaudit1_1:2.8.3-1+b1
libbinutils_2.31.1-2 libblas3_3.8.0-1+b1 libblkid1_2.32-0.4 libbsd0_0.9.1-1
libbz2-1.0_1.0.6-8.1 libc-bin_2.27-5 libc-dev-bin_2.27-5 libc6_2.27-5
libc6-dev_2.27-5 libcap-ng0_0.7.9-1 libcapnp-0.6.1_0.6.1-1 libcc1-0_8.2.0-3
libcom-err2_1.44.3-1 libcroco3_0.6.12-2 libcurl3-gnutls_7.60.0-2
libdb5.3_5.3.28-13.1+b1 libdebconfclient0_0.244 libdpkg-perl_1.19.0.5
libelf1_0.170-0.5 libexpat1_2.2.5-3 libexpat1-dev_2.2.5-3 libext2fs2_1.44.3-1
libfakeroot_1.23-1 libfdisk1_2.32-0.4 libffi6_3.2.1-8
libfile-stripnondeterminism-perl_0.042-1 libfml-dev_0.1-5 libfml0_0.1-5
libfontconfig1_2.13.0-5 libfreetype6_2.8.1-2 libgcc-8-dev_8.2.0-3
libgcc1_1:8.2.0-3 libgcrypt20_1.8.3-1 libgdbm-compat4_1.14.1-6+b1
libgdbm5_1.14.1-6+b1 libgfortran5_8.2.0-3 libglib2.0-0_2.56.1-2
libgmp10_2:6.1.2+dfsg-3 libgnutls30_3.5.19-1 libgomp1_8.2.0-3
libgpg-error0_1.32-1 libgraphite2-3_1.3.11-2 libgsl23_2.5+dfsg-4
libgslcblas0_2.5+dfsg-4 libgssapi-krb5-2_1.16-2 libharfbuzz0b_1.8.5-1
libhogweed4_3.4-1 libhts2_1.7-2 libicu-le-hb0_1.0.3+git161113-5 libicu60_60.2-6
libidn2-0_2.0.4-2.2 libisl19_0.20-1 libitm1_8.2.0-3 libjs-jquery_3.2.1-1
libjs-jquery-ui_1.12.1+dfsg-5 libk5crypto3_1.16-2 libkeyutils1_1.5.9-9.3
libkrb5-3_1.16-2 libkrb5support0_1.16-2 liblapack3_3.8.0-1+b1
libldap-2.4-2_2.4.46+dfsg-5 libldap-common_2.4.46+dfsg-5
liblocale-gettext-perl_1.07-3+b3 liblsan0_8.2.0-3 liblz4-1_1.8.2-1
liblzma5_5.2.2-1.3 libmagic-mgc_1:5.34-2 libmagic1_1:5.34-2
libminimap-dev_0.2-4 libminimap0_0.2-4 libmount1_2.32-0.4 libmpc3_1.1.0-1
libmpdec2_2.4.2-2 libmpfr6_4.0.1-1 libmpx2_8.2.0-3 libncurses6_6.1+20180714-1
libncursesw6_6.1+20180714-1 libnettle6_3.4-1 libnghttp2-14_1.32.0-1
libp11-kit0_0.23.12-2 libpam-modules_1.1.8-3.7 libpam-modules-bin_1.1.8-3.7
libpam-runtime_1.1.8-3.7 libpam0g_1.1.8-3.7 libpcre3_2:8.39-11
libperl5.26_5.26.2-6 libpipeline1_1.5.0-1 libpng16-16_1.6.34-2 libpsl5_0.20.2-1
libpython-stdlib_2.7.15-3 libpython2-stdlib_2.7.15-3
libpython2.7-minimal_2.7.15-3 libpython2.7-stdlib_2.7.15-3
libpython3-dev_3.6.6-1 libpython3-stdlib_3.6.6-1 libpython3.6_3.6.6-1
libpython3.6-dev_3.6.6-1 libpython3.6-minimal_3.6.6-1
libpython3.6-stdlib_3.6.6-1 libpython3.7-minimal_3.7.0-4
libpython3.7-stdlib_3.7.0-4 libquadmath0_8.2.0-3 libreadline7_7.0-5
librtmp1_2.4+20151223.gitfa8646d.1-2 libruby2.5_2.5.1-5
libsasl2-2_2.1.27~101-g0780600+dfsg-3.1
libsasl2-modules-db_2.1.27~101-g0780600+dfsg-3.1 libseccomp2_2.3.3-3
libselinux1_2.8-1+b1 libsemanage-common_2.8-1 libsemanage1_2.8-1+b1
libsepol1_2.8-1 libsigsegv2_2.12-2 libsmartcols1_2.32-0.4 libsqlite3-0_3.24.0-1
libss2_1.44.3-1 libssh2-1_1.8.0-2 libssl1.1_1.1.0h-4 libstdc++-8-dev_8.2.0-3
libstdc++6_8.2.0-3 libsystemd0_239-7 libtasn1-6_4.13-3 libtbb2_2017~U7-8
libtcl8.6_8.6.8+dfsg-4 libtimedate-perl_2.3000-2 libtinfo6_6.1+20180714-1
libtk8.6_8.6.8-4 libtool_2.4.6-2.1 libtsan0_8.2.0-3 libubsan1_8.2.0-3
libudev1_239-7 libunistring2_0.9.10-1 libuuid1_2.32-0.4 libx11-6_2:1.6.5-1
libx11-data_2:1.6.5-1 libxau6_1:1.0.8-1+b2 libxcb1_1.13-2 libxdmcp6_1:1.1.2-3
libxext6_2:1.3.3-1+b2 libxft2_2.3.2-2 libxml2_2.9.4+dfsg1-7+b1
libxrender1_1:0.9.10-1 libxss1_1:1.2.2-1+b2 libyaml-0-2_0.2.1-1
libzstd1_1.3.4+dfsg-3 linux-libc-dev_4.17.8-1 login_1:4.5-1.1
lsb-base_9.20170808 m4_1.4.18-1 make_4.2.1-1.2 man-db_2.8.4-2 mash_2.0-2
mawk_1.3.3-17+b3 mime-support_3.61 mount_2.32-0.4 mummer_3.23+dfsg-4
ncurses-base_6.1+20180714-1 ncurses-bin_6.1+20180714-1 openssl_1.1.0h-4
passwd_1:4.5-1.1 patch_2.7.6-3 perl_5.26.2-6 perl-base_5.26.2-6
perl-modules-5.26_5.26.2-6 po-debconf_1.0.20 python_2.7.15-3
python-matplotlib-data_2.2.2-4 python-minimal_2.7.15-3 python2_2.7.15-3
python2-minimal_2.7.15-3 python2.7_2.7.15-3 python2.7-minimal_2.7.15-3
python3_3.6.6-1 python3-all_3.6.6-1 python3-bs4_4.6.0-1 python3-cycler_0.10.0-1
python3-dateutil_2.6.1-1 python3-dendropy_4.4.0-1 python3-dev_3.6.6-1
python3-distutils_3.6.6-1 python3-kiwisolver_1.0.1-2+b1 python3-lib2to3_3.6.6-1
python3-matplotlib_2.2.2-4+b1 python3-minimal_3.6.6-1 python3-nose_1.3.7-4
python3-numpy_1:1.14.5-1+b1 python3-pkg-resources_39.2.0-1
python3-pymummer_0.10.3-1 python3-pyparsing_2.2.0+dfsg1-2
python3-pysam_0.14+ds-2+b1 python3-setuptools_39.2.0-1 python3-six_1.11.0-2
python3-tk_3.6.6-1 python3-tz_2018.5-1 python3.6_3.6.6-1 python3.6-dev_3.6.6-1
python3.6-minimal_3.6.6-1 python3.7_3.7.0-4 python3.7-minimal_3.7.0-4
rake_12.3.1-3 readline-common_7.0-5 ruby_1:2.5.1 ruby-asciidoctor_1.5.7.1-1
ruby-did-you-mean_1.2.1-1 ruby-minitest_5.10.3-1 ruby-net-telnet_0.1.1-2
ruby-power-assert_1.1.1-1 ruby-test-unit_3.2.7-1 ruby-xmlrpc_0.3.0-2
ruby2.5_2.5.1-5 rubygems-integration_1.11 samtools_1.7-2+b1
sbuild-build-depends-main-dummy_0.invalid.0 sed_4.5-1 sensible-utils_0.0.12
startpar_0.59-4 sysv-rc_2.88dsf-59.10 sysvinit-core_2.88dsf-59.10
sysvinit-utils_2.88dsf-59.10 tar_1.30+dfsg-2 tk8.6-blt2.5_2.5.3+dfsg-4
ttf-bitstream-vera_1.10-8 tzdata_2018e-1 ucf_3.0038 util-linux_2.32-0.4
x11-common_1:7.7+19 xz-utils_5.2.2-1.3 zlib1g_1:1.2.11.dfsg-1
zlib1g-dev_1:1.2.11.dfsg-1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512
Format: 3.0 (quilt)
Source: ariba
Binary: ariba
Architecture: any
Version: 2.12.1+ds-1
Maintainer: Debian Med Packaging Team
<debian-med-packag...@lists.alioth.debian.org>
Uploaders: Sascha Steinbiss <sa...@debian.org>
Homepage: https://github.com/sanger-pathogens/ariba
Standards-Version: 4.1.4
Vcs-Browser: https://salsa.debian.org/med-team/ariba
Vcs-Git: https://salsa.debian.org/med-team/ariba.git
Testsuite: autopkgtest
Build-Depends: debhelper (>= 11), python3, python3-all, python3-dev,
python3-dendropy (>= 4.2.0), python3-setuptools, python3-pymummer (>= 0.10.2),
python3-pysam (>= 0.9.1), python3-nose (>= 1.3), python3-bs4 (>= 4.1.0),
python3-matplotlib, python3-tk, bowtie2 (>= 2.1.0), cd-hit, mash,
libminimap-dev, libfml-dev (>= 0.1-3), mummer, fastaq (>= 3.12.0), help2man,
asciidoctor
Package-List:
ariba deb science optional arch=any
Checksums-Sha1:
824b7e8cd2a63ad82ddd862400a767b004f3e19e 350652 ariba_2.12.1+ds.orig.tar.xz
7af4e63ae5e0094d32020c16ca4826caf927ea7c 6088 ariba_2.12.1+ds-1.debian.tar.xz
Checksums-Sha256:
7c9aefedea966ed7ca7b5ae461f88cc14d8eb838d53e69462f9bcf40f4bcccf5 350652
ariba_2.12.1+ds.orig.tar.xz
cbb9d3388b85088cddd49ba0d7b2fcf06c2fa29bfab11da9281ab785442a9e88 6088
ariba_2.12.1+ds-1.debian.tar.xz
Files:
d51e0a4cc0f3df3992a3bd4556f2dc66 350652 ariba_2.12.1+ds.orig.tar.xz
8289473254a3ccdebd237760edcdd386 6088 ariba_2.12.1+ds-1.debian.tar.xz
-----BEGIN PGP SIGNATURE-----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=e2r9
-----END PGP SIGNATURE-----
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General
error
gpgv: Signature made Wed Jun 20 11:04:53 2018 UTC
gpgv: using RSA key 5B34BA5AAB5507E903426E85E8D37AE2F09F4872
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./ariba_2.12.1+ds-1.dsc
dpkg-source: info: extracting ariba in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking ariba_2.12.1+ds.orig.tar.xz
dpkg-source: info: unpacking ariba_2.12.1+ds-1.debian.tar.xz
dpkg-source: info: applying use_debian_packaged_libs_for_extension.patch
dpkg-source: info: applying use_bwa_compatible_fermi-lite.patch
Check disk space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
CCACHE_COMPRESS=1
CCACHE_DIR=/var/cache/ccache-sbuild
CCACHE_UMASK=002
HOME=/sbuild-nonexistent
LANG=bg_BG.UTF-8
LC_ALL=POSIX
LC_MEASUREMENT=bg_BG.UTF-8
LC_MONETARY=bg_BG.UTF-8
LC_NUMERIC=bg_BG.UTF-8
LC_PAPER=bg_BG.UTF-8
LC_TIME=bg_BG.UTF-8
LOGNAME=dam
PATH=/usr/lib/ccache:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
PWD=/<<PKGBUILDDIR>>
SCHROOT_ALIAS_NAME=sid
SCHROOT_CHROOT_NAME=sid
SCHROOT_COMMAND=env
SCHROOT_GID=1000
SCHROOT_GROUP=dam
SCHROOT_SESSION_ID=sid-fa0d2234-8ccc-4429-af64-e6dcf305c240
SCHROOT_UID=1000
SCHROOT_USER=dam
SHELL=/bin/sh
USER=dam
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package ariba
dpkg-buildpackage: info: source version 2.12.1+ds-1
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Sascha Steinbiss <sa...@debian.org>
dpkg-source --before-build ariba-2.12.1+ds
dpkg-buildpackage: info: host architecture amd64
fakeroot debian/rules clean
dh clean --with python3 --buildsystem=pybuild
debian/rules override_dh_auto_clean
make[1]: Entering directory '/<<PKGBUILDDIR>>'
rm -rf /<<PKGBUILDDIR>>/debian/man
dh_auto_clean --
I: pybuild base:217: python3.7 setup.py clean
running clean
removing '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build' (and everything
under it)
'build/bdist.linux-amd64' does not exist -- can't clean it
'build/scripts-3.7' does not exist -- can't clean it
I: pybuild base:217: python3.6 setup.py clean
running clean
removing '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_ariba/build' (and everything
under it)
'build/bdist.linux-amd64' does not exist -- can't clean it
'build/scripts-3.6' does not exist -- can't clean it
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_clean -O--buildsystem=pybuild
debian/rules build
dh build --with python3 --buildsystem=pybuild
dh_update_autotools_config -O--buildsystem=pybuild
dh_autoreconf -O--buildsystem=pybuild
dh_auto_configure -O--buildsystem=pybuild
I: pybuild base:217: python3.7 setup.py config
running config
I: pybuild base:217: python3.6 setup.py config
running config
dh_auto_build -O--buildsystem=pybuild
I: pybuild base:217: /usr/bin/python3.7 setup.py build
running build
running build_py
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/samtools_variants.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/ref_seq_chooser.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/sequence_metadata.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/pubmlst_ref_preparer.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/common.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/summary.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/ref_preparer.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/refdata_query.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/__init__.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/vfdb_parser.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/megares_data_finder.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/assembly.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/external_progs.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/report.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/bam_parse.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/read_filter.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/ref_genes_getter.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/mic_plotter.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/histogram.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/versions.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/card_record.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/read_store.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/flag.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/mlst_profile.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/faidx.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/megares_zip_parser.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/summary_cluster_variant.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/summary_cluster.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/cdhit.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/report_flag_expander.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/assembly_compare.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/sequence_variant.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/clusters.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/summary_sample.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/aln_to_metadata.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/mapping.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/assembly_variants.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/scaffold_graph.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/reference_data.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/link.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/cluster.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/mlst_reporter.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/report_filter.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
copying ariba/pubmlst_getter.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/tasks
copying ariba/tasks/getref.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/tasks
copying ariba/tasks/summary.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/tasks
copying ariba/tasks/__init__.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/tasks
copying ariba/tasks/prepareref.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/tasks
copying ariba/tasks/aln2meta.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/tasks
copying ariba/tasks/test.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/tasks
copying ariba/tasks/micplot.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/tasks
copying ariba/tasks/refquery.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/tasks
copying ariba/tasks/flag.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/tasks
copying ariba/tasks/version.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/tasks
copying ariba/tasks/run.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/tasks
copying ariba/tasks/pubmlstget.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/tasks
copying ariba/tasks/reportfilter.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/tasks
copying ariba/tasks/expandflag.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/tasks
copying ariba/tasks/pubmlstspecies.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/tasks
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/test_run_data
copying ariba/test_run_data/ref_seqs.fa ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/test_run_data
copying ariba/test_run_data/reads_1.fq ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/test_run_data
copying ariba/test_run_data/reads_2.fq ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/test_run_data
copying ariba/test_run_data/metadata.tsv ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/test_run_data
copying ariba/test_run_data/ref_fasta_to_make_reads_from.fa ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/test_run_data
running build_ext
building 'minimap_ariba' extension
creating build
creating build/temp.linux-amd64-3.7
creating build/temp.linux-amd64-3.7/ariba
creating build/temp.linux-amd64-3.7/ariba/ext
x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2
-fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
-Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC
-I/usr/include/minimap -I/usr/include/python3.7m -c ariba/ext/minimap_ariba.cpp
-o build/temp.linux-amd64-3.7/ariba/ext/minimap_ariba.o
ariba/ext/minimap_ariba.cpp:15:10: fatal error: Python.h: No such file or
directory
#include "Python.h"
^~~~~~~~~~
compilation terminated.
error: command 'x86_64-linux-gnu-gcc' failed with exit status 1
E: pybuild pybuild:338: build: plugin distutils failed with: exit code=1:
/usr/bin/python3.7 setup.py build
dh_auto_build: pybuild --build --test-nose -i python{version} -p "3.7 3.6"
returned exit code 13
make: *** [debian/rules:10: build] Error 25
dpkg-buildpackage: error: debian/rules build subprocess returned exit status 2
--------------------------------------------------------------------------------
Build finished at 2018-08-07T08:13:50Z
Finished
--------
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
E: Build failure (dpkg-buildpackage died)
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: amd64
Build Type: binary
Build-Space: 6420
Build-Time: 4
Distribution: sid
Fail-Stage: build
Host Architecture: amd64
Install-Time: 43
Job: /tmp/prebuild-ariba-dVRr1vT8em/ariba_2.12.1+ds-1.dsc
Machine Architecture: amd64
Package: ariba
Package-Time: 58
Source-Version: 2.12.1+ds-1
Space: 6420
Status: attempted
Version: 2.12.1+ds-1
--------------------------------------------------------------------------------
Finished at 2018-08-07T08:13:50Z
Build needed 00:00:58, 6420k disk space
--- End Message ---
--- Begin Message ---
Source: ariba
Source-Version: 2.12.1+ds-2
We believe that the bug you reported is fixed in the latest version of
ariba, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to 905...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Andreas Tille <ti...@debian.org> (supplier of updated ariba package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing ftpmas...@ftp-master.debian.org)
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Thu, 16 Aug 2018 08:05:21 +0200
Source: ariba
Binary: ariba
Architecture: source
Version: 2.12.1+ds-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Andreas Tille <ti...@debian.org>
Description:
ariba - Antibiotic Resistance Identification By Assembly
Closes: 905616
Changes:
ariba (2.12.1+ds-2) unstable; urgency=medium
.
* Team upload.
* Build-Depends: python3-all-dev (instead of python3-all and python3-dev)
Closes: #905616
* Standards-Version: 4.2.0
* cme fix dpkg-control
Checksums-Sha1:
906c92f807492812e1d298a5ba0c0db622fe702e 2261 ariba_2.12.1+ds-2.dsc
da4bff6b68cc15e558badae82e15a9da2e068477 6124 ariba_2.12.1+ds-2.debian.tar.xz
Checksums-Sha256:
5c3f2ea1c19435b2e5bb3568e7c41da392f90897a9d66499f401825564466110 2261
ariba_2.12.1+ds-2.dsc
da720e483992ec3fc6e0dfd38126e8f3fc69961a9699c045554685abc44dcbd2 6124
ariba_2.12.1+ds-2.debian.tar.xz
Files:
16381d8385231a3550273ad80a4eb816 2261 science optional ariba_2.12.1+ds-2.dsc
5d8b5e80e130e1d7fe57d777ece80b49 6124 science optional
ariba_2.12.1+ds-2.debian.tar.xz
-----BEGIN PGP SIGNATURE-----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=1Mdf
-----END PGP SIGNATURE-----
--- End Message ---
