python-biom-format →
2.1.6+dfsg-2 →
armhf → 2018-10-10 08:38:39
sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-01
+==============================================================================+
| python-biom-format 2.1.6+dfsg-2 (armhf) Wed, 10 Oct 2018 08:14:50 +0000 |
+==============================================================================+
Package: python-biom-format
Version: 2.1.6+dfsg-2
Source Version: 2.1.6+dfsg-2
Distribution: buster-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/buster-staging-armhf-sbuild-5814b78f-38b5-426b-b807-ca1f9e7ec9ac' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
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Get:1 http://172.17.0.1/private buster-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private buster-staging/main Sources [11.1 MB]
Get:3 http://172.17.0.1/private buster-staging/main armhf Packages [12.8 MB]
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Reading package lists...
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| Fetch source files |
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Check APT
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Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'python-biom-format' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/python-biom-format.git
Please use:
git clone https://salsa.debian.org/med-team/python-biom-format.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 8533 kB of source archives.
Get:1 http://172.17.0.1/private buster-staging/main python-biom-format 2.1.6+dfsg-2 (dsc) [2948 B]
Get:2 http://172.17.0.1/private buster-staging/main python-biom-format 2.1.6+dfsg-2 (tar) [8522 kB]
Get:3 http://172.17.0.1/private buster-staging/main python-biom-format 2.1.6+dfsg-2 (diff) [8256 B]
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I: NOTICE: Log filtering will replace 'build/python-biom-format-7CRX9f/python-biom-format-2.1.6+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/python-biom-format-7CRX9f' with '<<BUILDDIR>>'
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| Install build-essential |
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Setup apt archive
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Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-LX0caP/apt_archive/sbuild-build-depends-core-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy
dpkg-scanpackages: info: Wrote 1 entries to output Packages file.
gpg: keybox '/<<BUILDDIR>>/resolver-LX0caP/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-LX0caP/gpg/trustdb.gpg: trustdb created
gpg: key 37145E60F90AF620: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 37145E60F90AF620: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 37145E60F90AF620: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-LX0caP/apt_archive ./ InRelease
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Get:3 copy:/<<BUILDDIR>>/resolver-LX0caP/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-LX0caP/apt_archive ./ Sources [349 B]
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Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
ca-certificates dbus dbus-user-session e2fsprogs-l10n libexpat1
libnss-systemd libpam-systemd libsasl2-modules libssl1.1 openssl
systemd-sysv
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 80 not upgraded.
Need to get 852 B of archives.
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debconf: delaying package configuration, since apt-utils is not installed
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Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 15689 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
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Arch check ok (armhf included in any-amd64 any-arm64 any-i386 any-mips64el any-ppc64el armel armhf mipsel all)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper (>= 11~), dh-python, cython, python-dev, python-numpy, python-scipy, python-h5py, help2man, python-click, python-cogent, python-future, python-nose, python-pandas, python-setuptools, bash-completion, cython3, python3-all-dev, python3-click, python3-future, python3-h5py, python3-nose, python3-numpy, python3-pandas, python3-setuptools, python3-scipy, python3-sphinx
Filtered Build-Depends: debhelper (>= 11~), dh-python, cython, python-dev, python-numpy, python-scipy, python-h5py, help2man, python-click, python-cogent, python-future, python-nose, python-pandas, python-setuptools, bash-completion, cython3, python3-all-dev, python3-click, python3-future, python3-h5py, python3-nose, python3-numpy, python3-pandas, python3-setuptools, python3-scipy, python3-sphinx
dpkg-deb: building package 'sbuild-build-depends-python-biom-format-dummy' in '/<<BUILDDIR>>/resolver-LX0caP/apt_archive/sbuild-build-depends-python-biom-format-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-python-biom-format-dummy
dpkg-scanpackages: info: Wrote 2 entries to output Packages file.
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-LX0caP/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-LX0caP/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-LX0caP/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-LX0caP/apt_archive ./ Sources [616 B]
Get:5 copy:/<<BUILDDIR>>/resolver-LX0caP/apt_archive ./ Packages [701 B]
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Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install python-biom-format build dependencies (apt-based resolver)
------------------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
dbus dbus-user-session e2fsprogs-l10n libnss-systemd libpam-systemd
libsasl2-modules systemd-sysv
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bash-completion bsdmainutils cpp-8
cython cython3 debhelper dh-autoreconf dh-python dh-strip-nondeterminism
docutils-common dwz file fonts-lyx g++-8 gcc-7-base gcc-8 gcc-8-base gettext
gettext-base groff-base help2man intltool-debian libaec0 libarchive-zip-perl
libasan5 libatomic1 libblas3 libbsd0 libcc1-0 libcroco3 libelf1 libexpat1
libexpat1-dev libfile-stripnondeterminism-perl libfreetype6 libgcc-8-dev
libgcc1 libgfortran4 libgfortran5 libglib2.0-0 libgomp1 libgraphite2-3
libharfbuzz0b libhdf5-100 libicu-le-hb0 libicu60 libjs-jquery
libjs-jquery-ui libjs-sphinxdoc libjs-underscore liblapack3
liblocale-gettext-perl libmagic-mgc libmagic1 libmpdec2 libpipeline1
libpython-dev libpython-stdlib libpython2-dev libpython2-stdlib libpython2.7
libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libpython3-all-dev
libpython3-dev libpython3-stdlib libpython3.6 libpython3.6-dev
libpython3.6-minimal libpython3.6-stdlib libpython3.7 libpython3.7-dev
libpython3.7-minimal libpython3.7-stdlib libsigsegv2 libstdc++-8-dev
libstdc++6 libsz2 libtool libubsan1 libxml2 m4 man-db mime-support
po-debconf python python-babel-localedata
python-backports.functools-lru-cache python-click python-cogent
python-colorama python-configparser python-cycler python-dateutil
python-decorator python-dev python-future python-h5py python-kiwisolver
python-matplotlib python-matplotlib-data python-minimal python-nose
python-numpy python-pandas python-pandas-lib python-pkg-resources
python-pyparsing python-scipy python-setuptools python-six
python-subprocess32 python-tz python2 python2-dev python2-minimal python2.7
python2.7-dev python2.7-minimal python3 python3-alabaster python3-all
python3-all-dev python3-babel python3-certifi python3-chardet python3-click
python3-colorama python3-dateutil python3-decorator python3-dev
python3-distutils python3-docutils python3-future python3-h5py python3-idna
python3-imagesize python3-jinja2 python3-lib2to3 python3-markupsafe
python3-minimal python3-nose python3-numpy python3-packaging python3-pandas
python3-pandas-lib python3-pkg-resources python3-pygments python3-pyparsing
python3-requests python3-roman python3-scipy python3-setuptools python3-six
python3-sphinx python3-tz python3-urllib3 python3.6 python3.6-dev
python3.6-minimal python3.7 python3.7-dev python3.7-minimal sgml-base
sphinx-common ttf-bitstream-vera xml-core
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation gcc-8-locales cython-doc dh-make gcc-8-doc libstdc++6-8-dbg
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 libjs-jquery-ui-docs
libstdc++-8-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc
apparmor less www-browser libmail-box-perl python-doc python-tk
python-cogent-doc cdbfasta clustalw fasttree mafft mothur parsinsert
rdp-classifier rtax python-cycler-doc python-future-doc python-h5py-doc
dvipng ffmpeg gir1.2-gtk-3.0 ghostscript inkscape ipython librsvg2-common
python-cairocffi python-configobj python-excelerator python-gobject
python-matplotlib-doc python-qt4 python-sip python-tornado python-traits
python-wxgtk3.0 texlive-extra-utils texlive-latex-extra ttf-staypuft
python-coverage python-nose-doc gfortran python-numpy-dbg python-numpy-doc
python-pandas-doc python-pyparsing-doc python-scipy-doc
python-setuptools-doc python2-doc python2.7-doc binfmt-support python3-doc
python3-tk python3-venv docutils-doc fonts-linuxlibertine
| ttf-linux-libertine texlive-lang-french texlive-latex-base
texlive-latex-recommended python-jinja2-doc python3-numpy-dbg
python-pygments-doc python3-cryptography python3-openssl python3-socks
imagemagick-6.q16 latexmk libjs-mathjax python3-sphinx-rtd-theme
python3-stemmer sphinx-doc texlive-fonts-recommended texlive-generic-extra
python3.6-venv python3.6-doc python3.7-venv python3.7-doc sgml-base-doc
Recommended packages:
curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info
xdg-user-dirs javascript-common libltdl-dev libmail-sendmail-perl blast2
cd-hit clearcut dialign muscle python-pil python-tk python-tables
python-numexpr python-xlrd python-statsmodels python-openpyxl python-xlwt
python-bs4 python-html5lib python-lxml libpaper-utils python3-pil
python3-matplotlib python3-numexpr python3-tables python3-bs4
python3-html5lib python3-lxml
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bash-completion bsdmainutils
cython cython3 debhelper dh-autoreconf dh-python dh-strip-nondeterminism
docutils-common dwz file fonts-lyx gcc-7-base gettext gettext-base
groff-base help2man intltool-debian libaec0 libarchive-zip-perl libblas3
libbsd0 libcroco3 libelf1 libexpat1-dev libfile-stripnondeterminism-perl
libfreetype6 libgfortran4 libgfortran5 libglib2.0-0 libgraphite2-3
libharfbuzz0b libhdf5-100 libicu-le-hb0 libicu60 libjs-jquery
libjs-jquery-ui libjs-sphinxdoc libjs-underscore liblapack3
liblocale-gettext-perl libmagic-mgc libmagic1 libmpdec2 libpipeline1
libpython-dev libpython-stdlib libpython2-dev libpython2-stdlib libpython2.7
libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libpython3-all-dev
libpython3-dev libpython3-stdlib libpython3.6 libpython3.6-dev
libpython3.6-minimal libpython3.6-stdlib libpython3.7 libpython3.7-dev
libpython3.7-minimal libpython3.7-stdlib libsigsegv2 libsz2 libtool libxml2
m4 man-db mime-support po-debconf python python-babel-localedata
python-backports.functools-lru-cache python-click python-cogent
python-colorama python-configparser python-cycler python-dateutil
python-decorator python-dev python-future python-h5py python-kiwisolver
python-matplotlib python-matplotlib-data python-minimal python-nose
python-numpy python-pandas python-pandas-lib python-pkg-resources
python-pyparsing python-scipy python-setuptools python-six
python-subprocess32 python-tz python2 python2-dev python2-minimal python2.7
python2.7-dev python2.7-minimal python3 python3-alabaster python3-all
python3-all-dev python3-babel python3-certifi python3-chardet python3-click
python3-colorama python3-dateutil python3-decorator python3-dev
python3-distutils python3-docutils python3-future python3-h5py python3-idna
python3-imagesize python3-jinja2 python3-lib2to3 python3-markupsafe
python3-minimal python3-nose python3-numpy python3-packaging python3-pandas
python3-pandas-lib python3-pkg-resources python3-pygments python3-pyparsing
python3-requests python3-roman python3-scipy python3-setuptools python3-six
python3-sphinx python3-tz python3-urllib3 python3.6 python3.6-dev
python3.6-minimal python3.7 python3.7-dev python3.7-minimal
sbuild-build-depends-python-biom-format-dummy sgml-base sphinx-common
ttf-bitstream-vera xml-core
The following packages will be upgraded:
cpp-8 g++-8 gcc-8 gcc-8-base libasan5 libatomic1 libcc1-0 libexpat1
libgcc-8-dev libgcc1 libgomp1 libstdc++-8-dev libstdc++6 libubsan1
14 upgraded, 159 newly installed, 0 to remove and 66 not upgraded.
Need to get 231 MB/240 MB of archives.
After this operation, 600 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-LX0caP/apt_archive ./ sbuild-build-depends-python-biom-format-dummy 0.invalid.0 [984 B]
Get:2 http://172.17.0.1/private buster-staging/main armhf liblocale-gettext-perl armhf 1.07-3+b2 [18.3 kB]
Get:3 http://172.17.0.1/private buster-staging/main armhf libbsd0 armhf 0.9.1-1 [104 kB]
Get:4 http://172.17.0.1/private buster-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:5 http://172.17.0.1/private buster-staging/main armhf libcc1-0 armhf 8.2.0-7+rpi1 [30.2 kB]
Get:6 http://172.17.0.1/private buster-staging/main armhf gcc-8-base armhf 8.2.0-7+rpi1 [187 kB]
Get:7 http://172.17.0.1/private buster-staging/main armhf libgcc1 armhf 1:8.2.0-7+rpi1 [36.6 kB]
Get:8 http://172.17.0.1/private buster-staging/main armhf libgomp1 armhf 8.2.0-7+rpi1 [63.9 kB]
Get:9 http://172.17.0.1/private buster-staging/main armhf libatomic1 armhf 8.2.0-7+rpi1 [8096 B]
Get:10 http://172.17.0.1/private buster-staging/main armhf libasan5 armhf 8.2.0-7+rpi1 [318 kB]
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Get:13 http://172.17.0.1/private buster-staging/main armhf libstdc++-8-dev armhf 8.2.0-7+rpi1 [1562 kB]
Get:14 http://172.17.0.1/private buster-staging/main armhf libgcc-8-dev armhf 8.2.0-7+rpi1 [594 kB]
Get:15 http://172.17.0.1/private buster-staging/main armhf gcc-8 armhf 8.2.0-7+rpi1 [5844 kB]
Get:16 http://172.17.0.1/private buster-staging/main armhf cpp-8 armhf 8.2.0-7+rpi1 [5473 kB]
Get:17 http://172.17.0.1/private buster-staging/main armhf libstdc++6 armhf 8.2.0-7+rpi1 [325 kB]
Get:18 http://172.17.0.1/private buster-staging/main armhf groff-base armhf 1.22.3-10 [1005 kB]
Get:19 http://172.17.0.1/private buster-staging/main armhf libpipeline1 armhf 1.5.0-1 [24.6 kB]
Get:20 http://172.17.0.1/private buster-staging/main armhf man-db armhf 2.8.4-2 [1161 kB]
Get:21 http://172.17.0.1/private buster-staging/main armhf libpython2.7-minimal armhf 2.7.15-4 [394 kB]
Get:22 http://172.17.0.1/private buster-staging/main armhf python2.7-minimal armhf 2.7.15-4 [1088 kB]
Get:23 http://172.17.0.1/private buster-staging/main armhf python2-minimal armhf 2.7.15-3 [41.3 kB]
Get:24 http://172.17.0.1/private buster-staging/main armhf python-minimal armhf 2.7.15-3 [20.9 kB]
Get:25 http://172.17.0.1/private buster-staging/main armhf mime-support all 3.61 [37.1 kB]
Get:26 http://172.17.0.1/private buster-staging/main armhf libexpat1 armhf 2.2.6-1 [76.8 kB]
Get:27 http://172.17.0.1/private buster-staging/main armhf libpython2.7-stdlib armhf 2.7.15-4 [1843 kB]
Get:28 http://172.17.0.1/private buster-staging/main armhf python2.7 armhf 2.7.15-4 [299 kB]
Get:29 http://172.17.0.1/private buster-staging/main armhf libpython2-stdlib armhf 2.7.15-3 [20.7 kB]
Get:30 http://172.17.0.1/private buster-staging/main armhf libpython-stdlib armhf 2.7.15-3 [20.7 kB]
Get:31 http://172.17.0.1/private buster-staging/main armhf python2 armhf 2.7.15-3 [41.5 kB]
Get:32 http://172.17.0.1/private buster-staging/main armhf python armhf 2.7.15-3 [22.7 kB]
Get:33 http://172.17.0.1/private buster-staging/main armhf libpython3.6-minimal armhf 3.6.6-1 [565 kB]
Get:34 http://172.17.0.1/private buster-staging/main armhf python3.6-minimal armhf 3.6.6-1 [1383 kB]
Get:35 http://172.17.0.1/private buster-staging/main armhf python3-minimal armhf 3.6.6-1 [36.4 kB]
Get:36 http://172.17.0.1/private buster-staging/main armhf libmpdec2 armhf 2.4.2-2 [67.2 kB]
Get:37 http://172.17.0.1/private buster-staging/main armhf libpython3.6-stdlib armhf 3.6.6-1 [1638 kB]
Get:38 http://172.17.0.1/private buster-staging/main armhf python3.6 armhf 3.6.6-1 [234 kB]
Get:39 http://172.17.0.1/private buster-staging/main armhf libpython3-stdlib armhf 3.6.6-1 [19.8 kB]
Get:40 http://172.17.0.1/private buster-staging/main armhf python3 armhf 3.6.6-1 [47.5 kB]
Get:41 http://172.17.0.1/private buster-staging/main armhf libpython3.7-minimal armhf 3.7.0-1 [580 kB]
Get:42 http://172.17.0.1/private buster-staging/main armhf python3.7-minimal armhf 3.7.0-1 [1448 kB]
Get:43 http://172.17.0.1/private buster-staging/main armhf sgml-base all 1.29 [14.8 kB]
Get:44 http://172.17.0.1/private buster-staging/main armhf bash-completion all 1:2.8-1 [207 kB]
Get:45 http://172.17.0.1/private buster-staging/main armhf libmagic-mgc armhf 1:5.34-2 [239 kB]
Get:46 http://172.17.0.1/private buster-staging/main armhf libmagic1 armhf 1:5.34-2 [107 kB]
Get:47 http://172.17.0.1/private buster-staging/main armhf file armhf 1:5.34-2 [65.0 kB]
Get:48 http://172.17.0.1/private buster-staging/main armhf gettext-base armhf 0.19.8.1-7 [117 kB]
Get:49 http://172.17.0.1/private buster-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:50 http://172.17.0.1/private buster-staging/main armhf m4 armhf 1.4.18-1 [185 kB]
Get:51 http://172.17.0.1/private buster-staging/main armhf autoconf all 2.69-11 [341 kB]
Get:52 http://172.17.0.1/private buster-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:53 http://172.17.0.1/private buster-staging/main armhf automake all 1:1.16.1-1.1 [771 kB]
Get:54 http://172.17.0.1/private buster-staging/main armhf autopoint all 0.19.8.1-7 [434 kB]
Get:55 http://172.17.0.1/private buster-staging/main armhf cython armhf 0.28.4-1 [1947 kB]
Get:56 http://172.17.0.1/private buster-staging/main armhf cython3 armhf 0.28.4-1 [1998 kB]
Get:57 http://172.17.0.1/private buster-staging/main armhf libtool all 2.4.6-4 [547 kB]
Get:58 http://172.17.0.1/private buster-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:59 http://172.17.0.1/private buster-staging/main armhf libarchive-zip-perl all 1.64-1 [96.8 kB]
Get:60 http://172.17.0.1/private buster-staging/main armhf libfile-stripnondeterminism-perl all 0.043-1 [20.2 kB]
Get:61 http://172.17.0.1/private buster-staging/main armhf dh-strip-nondeterminism all 0.043-1 [12.1 kB]
Get:62 http://172.17.0.1/private buster-staging/main armhf libelf1 armhf 0.170-0.5 [160 kB]
Get:63 http://172.17.0.1/private buster-staging/main armhf dwz armhf 0.12-2 [67.4 kB]
Get:64 http://172.17.0.1/private buster-staging/main armhf libglib2.0-0 armhf 2.58.1-2 [1051 kB]
Get:65 http://172.17.0.1/private buster-staging/main armhf libgraphite2-3 armhf 1.3.12-1 [69.1 kB]
Get:66 http://172.17.0.1/private buster-staging/main armhf libharfbuzz0b armhf 1.9.0-1+rpi1 [877 kB]
Get:67 http://172.17.0.1/private buster-staging/main armhf gettext armhf 0.19.8.1-7 [1218 kB]
Get:68 http://172.17.0.1/private buster-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:69 http://172.17.0.1/private buster-staging/main armhf po-debconf all 1.0.20 [247 kB]
Get:70 http://172.17.0.1/private buster-staging/main armhf debhelper all 11.4.1 [989 kB]
Get:71 http://172.17.0.1/private buster-staging/main armhf python3-lib2to3 all 3.6.6-1 [79.1 kB]
Get:72 http://172.17.0.1/private buster-staging/main armhf python3-distutils all 3.6.6-1 [144 kB]
Get:73 http://172.17.0.1/private buster-staging/main armhf dh-python all 3.20180927 [95.8 kB]
Get:74 http://172.17.0.1/private buster-staging/main armhf xml-core all 0.18 [23.4 kB]
Get:75 http://172.17.0.1/private buster-staging/main armhf docutils-common all 0.14+dfsg-3 [204 kB]
Get:76 http://172.17.0.1/private buster-staging/main armhf fonts-lyx all 2.3.1-2-1 [198 kB]
Get:77 http://172.17.0.1/private buster-staging/main armhf help2man armhf 1.47.7 [176 kB]
Get:78 http://172.17.0.1/private buster-staging/main armhf libgfortran5 armhf 8.2.0-7+rpi1 [205 kB]
Get:79 http://172.17.0.1/private buster-staging/main armhf libblas3 armhf 3.8.0-1+b1 [104 kB]
Get:80 http://172.17.0.1/private buster-staging/main armhf libexpat1-dev armhf 2.2.6-1 [127 kB]
Get:81 http://172.17.0.1/private buster-staging/main armhf libgfortran4 armhf 7.3.0-19 [191 kB]
Get:82 http://172.17.0.1/private buster-staging/main armhf libhdf5-100 armhf 1.10.0-patch1+docs-4+b2 [1216 kB]
Get:83 http://172.17.0.1/private buster-staging/main armhf libjs-jquery-ui all 1.12.1+dfsg-5 [232 kB]
Get:84 http://172.17.0.1/private buster-staging/main armhf libjs-underscore all 1.8.3~dfsg-1 [63.8 kB]
Get:85 http://172.17.0.1/private buster-staging/main armhf libjs-sphinxdoc all 1.7.9-1 [92.3 kB]
Get:86 http://172.17.0.1/private buster-staging/main armhf liblapack3 armhf 3.8.0-1+b1 [1493 kB]
Get:87 http://172.17.0.1/private buster-staging/main armhf libpython2.7 armhf 2.7.15-4 [871 kB]
Get:88 http://172.17.0.1/private buster-staging/main armhf libpython2.7-dev armhf 2.7.15-4 [30.8 MB]
Get:89 http://172.17.0.1/private buster-staging/main armhf libpython2-dev armhf 2.7.15-3 [20.8 kB]
Get:90 http://172.17.0.1/private buster-staging/main armhf libpython-dev armhf 2.7.15-3 [20.8 kB]
Get:91 http://172.17.0.1/private buster-staging/main armhf libpython3.6 armhf 3.6.6-1 [1185 kB]
Get:92 http://172.17.0.1/private buster-staging/main armhf libpython3.6-dev armhf 3.6.6-1 [43.7 MB]
Get:93 http://172.17.0.1/private buster-staging/main armhf libpython3-dev armhf 3.6.6-1 [19.9 kB]
Get:94 http://172.17.0.1/private buster-staging/main armhf libpython3.7-stdlib armhf 3.7.0-1 [1661 kB]
Get:95 http://172.17.0.1/private buster-staging/main armhf libpython3.7 armhf 3.7.0-1 [1250 kB]
Get:96 http://172.17.0.1/private buster-staging/main armhf libpython3.7-dev armhf 3.7.0-1 [47.0 MB]
Get:97 http://172.17.0.1/private buster-staging/main armhf libpython3-all-dev armhf 3.6.6-1 [1072 B]
Get:98 http://172.17.0.1/private buster-staging/main armhf python-babel-localedata all 2.6.0+dfsg.1-1 [4083 kB]
Get:99 http://172.17.0.1/private buster-staging/main armhf python-backports.functools-lru-cache all 1.5-1 [6456 B]
Get:100 http://172.17.0.1/private buster-staging/main armhf python-colorama all 0.3.7-1 [25.7 kB]
Get:101 http://172.17.0.1/private buster-staging/main armhf python-click all 6.7+git20180829-1 [70.9 kB]
Get:102 http://172.17.0.1/private buster-staging/main armhf python-numpy armhf 1:1.14.5-1+b1 [1786 kB]
Get:103 http://172.17.0.1/private buster-staging/main armhf python-six all 1.11.0-2 [15.1 kB]
Get:104 http://172.17.0.1/private buster-staging/main armhf python-dateutil all 2.6.1-1 [61.1 kB]
Get:105 http://172.17.0.1/private buster-staging/main armhf ttf-bitstream-vera all 1.10-8 [352 kB]
Get:106 http://172.17.0.1/private buster-staging/main armhf python-matplotlib-data all 2.2.2-4 [4123 kB]
Get:107 http://172.17.0.1/private buster-staging/main armhf python-pyparsing all 2.2.0+dfsg1-2 [89.5 kB]
Get:108 http://172.17.0.1/private buster-staging/main armhf python-tz all 2018.5-1 [33.5 kB]
Get:109 http://172.17.0.1/private buster-staging/main armhf python-cycler all 0.10.0-1 [7448 B]
Get:110 http://172.17.0.1/private buster-staging/main armhf python-pkg-resources all 40.2.0-1 [172 kB]
Get:111 http://172.17.0.1/private buster-staging/main armhf python-kiwisolver armhf 1.0.1-2 [56.9 kB]
Get:112 http://172.17.0.1/private buster-staging/main armhf python-subprocess32 armhf 3.5.2-1 [28.7 kB]
Get:113 http://172.17.0.1/private buster-staging/main armhf python-matplotlib armhf 2.2.2-4+b1 [4995 kB]
Get:114 http://172.17.0.1/private buster-staging/main armhf python-cogent armhf 1.9-12 [2433 kB]
Get:115 http://172.17.0.1/private buster-staging/main armhf python-configparser all 3.5.0b2-1 [59.2 kB]
Get:116 http://172.17.0.1/private buster-staging/main armhf python-decorator all 4.3.0-1 [14.2 kB]
Get:117 http://172.17.0.1/private buster-staging/main armhf python2.7-dev armhf 2.7.15-4 [283 kB]
Get:118 http://172.17.0.1/private buster-staging/main armhf python2-dev armhf 2.7.15-3 [1216 B]
Get:119 http://172.17.0.1/private buster-staging/main armhf python-dev armhf 2.7.15-3 [1192 B]
Get:120 http://172.17.0.1/private buster-staging/main armhf python-future all 0.15.2-5 [347 kB]
Get:121 http://172.17.0.1/private buster-staging/main armhf python-h5py armhf 2.8.0-1 [591 kB]
Get:122 http://172.17.0.1/private buster-staging/main armhf python-nose all 1.3.7-4 [132 kB]
Get:123 http://172.17.0.1/private buster-staging/main armhf python-pandas-lib armhf 0.23.3-1 [2910 kB]
Get:124 http://172.17.0.1/private buster-staging/main armhf python-pandas all 0.23.3-1 [1743 kB]
Get:125 http://172.17.0.1/private buster-staging/main armhf python-scipy armhf 1.1.0-1 [8967 kB]
Get:126 http://172.17.0.1/private buster-staging/main armhf python-setuptools all 40.2.0-1 [376 kB]
Get:127 http://172.17.0.1/private buster-staging/main armhf python3.7 armhf 3.7.0-1 [307 kB]
Get:128 http://172.17.0.1/private buster-staging/main armhf python3-all armhf 3.6.6-1 [1060 B]
Get:129 http://172.17.0.1/private buster-staging/main armhf python3.6-dev armhf 3.6.6-1 [508 kB]
Get:130 http://172.17.0.1/private buster-staging/main armhf python3-dev armhf 3.6.6-1 [1264 B]
Get:131 http://172.17.0.1/private buster-staging/main armhf python3.7-dev armhf 3.7.0-1 [532 kB]
Get:132 http://172.17.0.1/private buster-staging/main armhf python3-all-dev armhf 3.6.6-1 [1068 B]
Get:133 http://172.17.0.1/private buster-staging/main armhf python3-pkg-resources all 40.2.0-1 [143 kB]
Get:134 http://172.17.0.1/private buster-staging/main armhf python3-tz all 2018.5-1 [26.9 kB]
Get:135 http://172.17.0.1/private buster-staging/main armhf python3-babel all 2.6.0+dfsg.1-1 [96.7 kB]
Get:136 http://172.17.0.1/private buster-staging/main armhf python3-certifi all 2018.8.24-1 [140 kB]
Get:137 http://172.17.0.1/private buster-staging/main armhf python3-chardet all 3.0.4-1 [80.2 kB]
Get:138 http://172.17.0.1/private buster-staging/main armhf python3-colorama all 0.3.7-1 [18.1 kB]
Get:139 http://172.17.0.1/private buster-staging/main armhf python3-click all 6.7+git20180829-1 [70.9 kB]
Get:140 http://172.17.0.1/private buster-staging/main armhf python3-six all 1.11.0-2 [15.2 kB]
Get:141 http://172.17.0.1/private buster-staging/main armhf python3-dateutil all 2.6.1-1 [52.8 kB]
Get:142 http://172.17.0.1/private buster-staging/main armhf python3-decorator all 4.3.0-1 [14.3 kB]
Get:143 http://172.17.0.1/private buster-staging/main armhf python3-roman all 2.0.0-3 [8768 B]
Get:144 http://172.17.0.1/private buster-staging/main armhf python3-docutils all 0.14+dfsg-3 [377 kB]
Get:145 http://172.17.0.1/private buster-staging/main armhf python3-future all 0.15.2-5 [345 kB]
Get:146 http://172.17.0.1/private buster-staging/main armhf python3-numpy armhf 1:1.14.5-1+b1 [1949 kB]
Get:147 http://172.17.0.1/private buster-staging/main armhf python3-h5py armhf 2.8.0-1 [603 kB]
Get:148 http://172.17.0.1/private buster-staging/main armhf python3-idna all 2.6-1 [34.3 kB]
Get:149 http://172.17.0.1/private buster-staging/main armhf python3-imagesize all 1.0.0-1 [4960 B]
Get:150 http://172.17.0.1/private buster-staging/main armhf python3-markupsafe armhf 1.0-1+b1 [14.1 kB]
Get:151 http://172.17.0.1/private buster-staging/main armhf python3-jinja2 all 2.10-1 [106 kB]
Get:152 http://172.17.0.1/private buster-staging/main armhf python3-nose all 1.3.7-4 [132 kB]
Get:153 http://172.17.0.1/private buster-staging/main armhf python3-pyparsing all 2.2.0+dfsg1-2 [89.6 kB]
Get:154 http://172.17.0.1/private buster-staging/main armhf python3-packaging all 17.1-1 [18.3 kB]
Get:155 http://172.17.0.1/private buster-staging/main armhf python3-pandas-lib armhf 0.23.3-1 [2860 kB]
Get:156 http://172.17.0.1/private buster-staging/main armhf python3-pandas all 0.23.3-1 [1743 kB]
Get:157 http://172.17.0.1/private buster-staging/main armhf python3-pygments all 2.2.0+dfsg-2 [588 kB]
Get:158 http://172.17.0.1/private buster-staging/main armhf python3-urllib3 all 1.22-1 [97.9 kB]
Get:159 http://172.17.0.1/private buster-staging/main armhf python3-requests all 2.18.4-2 [77.1 kB]
Get:160 http://172.17.0.1/private buster-staging/main armhf python3-scipy armhf 1.1.0-1 [8912 kB]
Get:161 http://172.17.0.1/private buster-staging/main armhf python3-setuptools all 40.2.0-1 [293 kB]
Get:162 http://172.17.0.1/private buster-staging/main armhf sphinx-common all 1.7.9-1 [437 kB]
Get:163 http://172.17.0.1/private buster-staging/main armhf python3-alabaster all 0.7.8-1 [18.4 kB]
Get:164 http://172.17.0.1/private buster-staging/main armhf python3-sphinx all 1.7.9-1 [449 kB]
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W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.4.0-124-generic armhf (armv8l)
Toolchain package versions: binutils_2.31.1-2+rpi1 dpkg-dev_1.19.0.5 g++-8_8.2.0-7+rpi1 gcc-8_8.2.0-7+rpi1 libc6-dev_2.27-5+rpi1 libstdc++-8-dev_8.2.0-7+rpi1 libstdc++6_8.2.0-7+rpi1 linux-libc-dev_4.16.16-2+rpi1
Package versions: adduser_3.117 apt_1.6.3 autoconf_2.69-11 automake_1:1.16.1-1.1 autopoint_0.19.8.1-7 autotools-dev_20180224.1 base-files_10.1+rpi1 base-passwd_3.5.45 bash_4.4.18-3.1 bash-completion_1:2.8-1 binutils_2.31.1-2+rpi1 binutils-arm-linux-gnueabihf_2.31.1-2+rpi1 binutils-common_2.31.1-2+rpi1 bsdmainutils_11.1.2 bsdutils_1:2.32.1-0.1 build-essential_12.5 bzip2_1.0.6-8.1 ca-certificates_20170717 coreutils_8.28-1 cpio_2.12+dfsg-6 cpp_4:8.1.0-1+rpi1 cpp-8_8.2.0-7+rpi1 cython_0.28.4-1 cython3_0.28.4-1 dash_0.5.8-2.10 dbus_1.12.10-1 dbus-user-session_1.12.10-1 debconf_1.5.69 debhelper_11.4.1 debianutils_4.8.6 dh-autoreconf_19 dh-python_3.20180927 dh-strip-nondeterminism_0.043-1 diffutils_1:3.6-1 dirmngr_2.2.9-1+rpi1 dmsetup_2:1.02.145-4.1+b4 docutils-common_0.14+dfsg-3 dpkg_1.19.0.5 dpkg-dev_1.19.0.5 dwz_0.12-2 e2fslibs_1.44.3-1 e2fsprogs_1.44.3-1 e2fsprogs-l10n_1.44.3-1 fakeroot_1.23-1 fdisk_2.32.1-0.1 file_1:5.34-2 findutils_4.6.0+git+20171230-2 fonts-lyx_2.3.1-2-1 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libgnutls30_3.5.19-1 libgomp1_8.2.0-7+rpi1 libgpg-error0_1.32-1 libgraphite2-3_1.3.12-1 libharfbuzz0b_1.9.0-1+rpi1 libhdf5-100_1.10.0-patch1+docs-4+b2 libhogweed4_3.4-1 libicu-le-hb0_1.0.3+git161113-5 libicu60_60.2-6 libidn11_1.33-2.2 libidn2-0_2.0.4-2.2 libip4tc0_1.6.2-1.1 libisl19_0.20-1 libjs-jquery_3.2.1-1 libjs-jquery-ui_1.12.1+dfsg-5 libjs-sphinxdoc_1.7.9-1 libjs-underscore_1.8.3~dfsg-1 libjson-c3_0.12.1-1.3 libklibc_2.0.4-14+rpi1 libkmod2_25-1 libksba8_1.3.5-2 liblapack3_3.8.0-1+b1 libldap-2.4-2_2.4.46+dfsg-5+rpi1 libldap-common_2.4.46+dfsg-5+rpi1 liblocale-gettext-perl_1.07-3+b2 liblz4-1_1.8.2-1+rpi1 liblzma5_5.2.2-1.3 libmagic-mgc_1:5.34-2 libmagic1_1:5.34-2 libmount1_2.32.1-0.1 libmpc3_1.1.0-1 libmpdec2_2.4.2-2 libmpfr6_4.0.1-1 libncurses5_6.1+20180714-1 libncurses6_6.1+20180714-1 libncursesw5_6.1+20180714-1 libncursesw6_6.1+20180714-1 libnettle6_3.4-1 libnpth0_1.6-1 libnss-systemd_239-7 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 libpam-systemd_239-7 libpam0g_1.1.8-3.7 libpcre3_2:8.39-10 libperl5.24_5.24.1-7 libperl5.26_5.26.2-7 libpipeline1_1.5.0-1 libplymouth4_0.9.3-3 libpng16-16_1.6.34-2+rpi1 libprocps7_2:3.3.15-2 libpython-dev_2.7.15-3 libpython-stdlib_2.7.15-3 libpython2-dev_2.7.15-3 libpython2-stdlib_2.7.15-3 libpython2.7_2.7.15-4 libpython2.7-dev_2.7.15-4 libpython2.7-minimal_2.7.15-4 libpython2.7-stdlib_2.7.15-4 libpython3-all-dev_3.6.6-1 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_3.7.0-1 libpython3.7-dev_3.7.0-1 libpython3.7-minimal_3.7.0-1 libpython3.7-stdlib_3.7.0-1 libreadline7_7.0-5 libsasl2-2_2.1.27~101-g0780600+dfsg-3.1 libsasl2-modules_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 libsemanage-common_2.8-1 libsemanage1_2.8-1 libsepol1_2.8-1 libsigsegv2_2.12-2 libsmartcols1_2.32.1-0.1 libsqlite3-0_3.24.0-1 libss2_1.44.3-1 libssl1.1_1.1.0h-4 libstdc++-8-dev_8.2.0-7+rpi1 libstdc++6_8.2.0-7+rpi1 libsystemd0_239-7 libsz2_1.0.2-1 libtasn1-6_4.13-3 libtinfo5_6.1+20180714-1 libtinfo6_6.1+20180714-1 libtool_2.4.6-4 libubsan1_8.2.0-7+rpi1 libudev1_239-7 libunistring2_0.9.10-1 libustr-1.0-1_1.0.4-6 libuuid1_2.32.1-0.1 libxml2_2.9.4+dfsg1-7 libzstd1_1.3.4+dfsg-3+rpi1 linux-base_4.5 linux-libc-dev_4.16.16-2+rpi1 login_1:4.5-1.1 lsb-base_9.20170808+rpi1 m4_1.4.18-1 make_4.2.1-1.2 makedev_2.3.1-93 man-db_2.8.4-2 mawk_1.3.3-17 mime-support_3.61 mount_2.32.1-0.1 multiarch-support_2.27-5+rpi1 nano_2.9.8-1 ncurses-base_6.1+20180714-1 ncurses-bin_6.1+20180714-1 netbase_5.4 openssl_1.1.0h-4 passwd_1:4.5-1.1 patch_2.7.6-3 perl_5.26.2-7 perl-base_5.26.2-7 perl-modules-5.24_5.24.1-7 perl-modules-5.26_5.26.2-7 pinentry-curses_1.1.0-1 plymouth_0.9.3-3 po-debconf_1.0.20 procps_2:3.3.15-2 python_2.7.15-3 python-babel-localedata_2.6.0+dfsg.1-1 python-backports.functools-lru-cache_1.5-1 python-click_6.7+git20180829-1 python-cogent_1.9-12 python-colorama_0.3.7-1 python-configparser_3.5.0b2-1 python-cycler_0.10.0-1 python-dateutil_2.6.1-1 python-decorator_4.3.0-1 python-dev_2.7.15-3 python-future_0.15.2-5 python-h5py_2.8.0-1 python-kiwisolver_1.0.1-2 python-matplotlib_2.2.2-4+b1 python-matplotlib-data_2.2.2-4 python-minimal_2.7.15-3 python-nose_1.3.7-4 python-numpy_1:1.14.5-1+b1 python-pandas_0.23.3-1 python-pandas-lib_0.23.3-1 python-pkg-resources_40.2.0-1 python-pyparsing_2.2.0+dfsg1-2 python-scipy_1.1.0-1 python-setuptools_40.2.0-1 python-six_1.11.0-2 python-subprocess32_3.5.2-1 python-tz_2018.5-1 python2_2.7.15-3 python2-dev_2.7.15-3 python2-minimal_2.7.15-3 python2.7_2.7.15-4 python2.7-dev_2.7.15-4 python2.7-minimal_2.7.15-4 python3_3.6.6-1 python3-alabaster_0.7.8-1 python3-all_3.6.6-1 python3-all-dev_3.6.6-1 python3-babel_2.6.0+dfsg.1-1 python3-certifi_2018.8.24-1 python3-chardet_3.0.4-1 python3-click_6.7+git20180829-1 python3-colorama_0.3.7-1 python3-dateutil_2.6.1-1 python3-decorator_4.3.0-1 python3-dev_3.6.6-1 python3-distutils_3.6.6-1 python3-docutils_0.14+dfsg-3 python3-future_0.15.2-5 python3-h5py_2.8.0-1 python3-idna_2.6-1 python3-imagesize_1.0.0-1 python3-jinja2_2.10-1 python3-lib2to3_3.6.6-1 python3-markupsafe_1.0-1+b1 python3-minimal_3.6.6-1 python3-nose_1.3.7-4 python3-numpy_1:1.14.5-1+b1 python3-packaging_17.1-1 python3-pandas_0.23.3-1 python3-pandas-lib_0.23.3-1 python3-pkg-resources_40.2.0-1 python3-pygments_2.2.0+dfsg-2 python3-pyparsing_2.2.0+dfsg1-2 python3-requests_2.18.4-2 python3-roman_2.0.0-3 python3-scipy_1.1.0-1 python3-setuptools_40.2.0-1 python3-six_1.11.0-2 python3-sphinx_1.7.9-1 python3-tz_2018.5-1 python3-urllib3_1.22-1 python3.6_3.6.6-1 python3.6-dev_3.6.6-1 python3.6-minimal_3.6.6-1 python3.7_3.7.0-1 python3.7-dev_3.7.0-1 python3.7-minimal_3.7.0-1 raspbian-archive-keyring_20120528.2 readline-common_7.0-5 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-python-biom-format-dummy_0.invalid.0 sed_4.5-1 sensible-utils_0.0.12 sgml-base_1.29 sphinx-common_1.7.9-1 systemd_239-7 systemd-sysv_239-7 sysvinit-utils_2.88dsf-59.10 tar_1.30+dfsg-2 ttf-bitstream-vera_1.10-8 tzdata_2018e-1 udev_239-7 util-linux_2.32.1-0.1 xml-core_0.18 xz-utils_5.2.2-1.3 zlib1g_1:1.2.11.dfsg-1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Thu Jun 21 03:36:25 2018 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./python-biom-format_2.1.6+dfsg-2.dsc
dpkg-source: info: extracting python-biom-format in /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg
dpkg-source: info: unpacking python-biom-format_2.1.6+dfsg.orig.tar.xz
dpkg-source: info: unpacking python-biom-format_2.1.6+dfsg-2.debian.tar.xz
dpkg-source: info: applying ignore_local_dist-packages.patch
dpkg-source: info: applying no-web-adds.patch
dpkg-source: info: applying fix_future_import.patch
dpkg-source: info: applying enable_sloppy_sphinx_build.patch
dpkg-source: info: applying random_seed_for_test.patch
dpkg-source: info: applying sphinx_1.6.patch
Check disk space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=buster-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=buster-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=112
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=buster-staging-armhf-sbuild-5814b78f-38b5-426b-b807-ca1f9e7ec9ac
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package python-biom-format
dpkg-buildpackage: info: source version 2.1.6+dfsg-2
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build python-biom-format-2.1.6+dfsg
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean --with python2,python3,bash-completion,sphinxdoc --buildsystem=pybuild
dh_auto_clean -O--buildsystem=pybuild
pybuild --clean --test-nose -i python{version} -p 2.7
I: pybuild base:217: python2.7 setup.py clean
running clean
removing '/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build' (and everything under it)
'build/bdist.linux-armhf' does not exist -- can't clean it
'build/scripts-2.7' does not exist -- can't clean it
pybuild --clean --test-nose -i python{version} -p "3.7 3.6"
I: pybuild base:217: python3.7 setup.py clean
running clean
removing '/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build' (and everything under it)
'build/bdist.linux-armhf' 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 '/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build' (and everything under it)
'build/bdist.linux-armhf' does not exist -- can't clean it
'build/scripts-3.6' does not exist -- can't clean it
rm -rf .pybuild/
find . -name \*.pyc -exec rm {} \;
dh_autoreconf_clean -O--buildsystem=pybuild
dh_clean -O--buildsystem=pybuild
rm -f debian/debhelper-build-stamp
rm -rf debian/.debhelper/
rm -f -- debian/python-biom-format.substvars debian/python3-biom-format.substvars debian/python-biom-format-doc.substvars debian/biom-format-tools.substvars debian/files
rm -fr -- debian/python-biom-format/ debian/tmp/ debian/python3-biom-format/ debian/python-biom-format-doc/ debian/biom-format-tools/
find . \( \( \
\( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \
\( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \
-o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \
-o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \
-o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \
\) -exec rm -f {} + \) -o \
\( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \)
debian/rules build-arch
dh build-arch --with python2,python3,bash-completion,sphinxdoc --buildsystem=pybuild
dh_update_autotools_config -a -O--buildsystem=pybuild
dh_autoreconf -a -O--buildsystem=pybuild
dh_auto_configure -a -O--buildsystem=pybuild
pybuild --configure --test-nose -i python{version} -p 2.7
I: pybuild base:217: python2.7 setup.py config
running config
pybuild --configure --test-nose -i python{version} -p "3.7 3.6"
I: pybuild base:217: python3.7 setup.py config
running config
I: pybuild base:217: python3.6 setup.py config
running config
debian/rules override_dh_auto_build
make[1]: Entering directory '/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg'
# arch
USE_CYTHON=true dh_auto_build
pybuild --build --test-nose -i python{version} -p 2.7
I: pybuild base:217: /usr/bin/python setup.py build
Compiling biom/_filter.pyx because it changed.
Compiling biom/_transform.pyx because it changed.
Compiling biom/_subsample.pyx because it changed.
[1/3] Cythonizing biom/_filter.pyx
[2/3] Cythonizing biom/_subsample.pyx
[3/3] Cythonizing biom/_transform.pyx
running build
running build_py
creating /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/tests
copying tests/test_parse.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/tests
copying tests/test_table.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/tests
copying tests/__init__.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/tests
copying tests/test_err.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/tests
copying tests/test_util.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/tests
creating /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom
copying biom/err.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom
copying biom/util.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom
copying biom/table.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom
copying biom/__init__.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom
copying biom/exception.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom
copying biom/parse.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom
creating /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/tests/test_data
copying tests/test_data/__init__.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/tests/test_data
creating /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/tests/test_cli
copying tests/test_cli/test_uc_processor.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/tests/test_cli
copying tests/test_cli/test_table_normalizer.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/tests/test_cli
copying tests/test_cli/test_validate_table.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/tests/test_cli
copying tests/test_cli/test_summarize_table.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/tests/test_cli
copying tests/test_cli/test_subset_table.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/tests/test_cli
copying tests/test_cli/__init__.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/tests/test_cli
copying tests/test_cli/test_add_metadata.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/tests/test_cli
copying tests/test_cli/test_show_install_info.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/tests/test_cli
copying tests/test_cli/test_table_converter.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/tests/test_cli
creating /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom/cli
copying biom/cli/table_ids.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom/cli
copying biom/cli/metadata_adder.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom/cli
copying biom/cli/installation_informer.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom/cli
copying biom/cli/table_subsetter.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom/cli
copying biom/cli/util.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom/cli
copying biom/cli/table_head.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom/cli
copying biom/cli/table_converter.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom/cli
copying biom/cli/uc_processor.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom/cli
copying biom/cli/table_summarizer.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom/cli
copying biom/cli/__init__.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom/cli
copying biom/cli/table_validator.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom/cli
copying biom/cli/table_normalizer.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom/cli
running egg_info
creating biom_format.egg-info
writing requirements to biom_format.egg-info/requires.txt
writing biom_format.egg-info/PKG-INFO
writing top-level names to biom_format.egg-info/top_level.txt
writing dependency_links to biom_format.egg-info/dependency_links.txt
writing entry points to biom_format.egg-info/entry_points.txt
writing manifest file 'biom_format.egg-info/SOURCES.txt'
reading manifest file 'biom_format.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no directories found matching 'support_files'
no previously-included directories found matching 'docs/_build'
warning: no previously-included files matching '*.pyc' found anywhere in distribution
warning: no previously-included files matching '*.pyo' found anywhere in distribution
warning: no previously-included files matching '.git' found anywhere in distribution
writing manifest file 'biom_format.egg-info/SOURCES.txt'
copying biom/_filter.c -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom
copying biom/_filter.pyx -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom
copying biom/_subsample.c -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom
copying biom/_subsample.pyx -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom
copying biom/_transform.c -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom
copying biom/_transform.pyx -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom
creating /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom/assets
copying biom/assets/exercise_api.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom/assets
copying biom/assets/exercise_cli.sh -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom/assets
running build_ext
building 'biom._filter' extension
creating build
creating build/temp.linux-armhf-2.7
creating build/temp.linux-armhf-2.7/biom
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include/python2.7 -c biom/_filter.c -o build/temp.linux-armhf-2.7/biom/_filter.o
In file included from /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1816,
from /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/ndarrayobject.h:18,
from /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
from biom/_filter.c:586:
/usr/lib/python2.7/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^~~~~~~
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -Wdate-time -D_FORTIFY_SOURCE=2 -g -fdebug-prefix-map=/build/python2.7-25ieCH/python2.7-2.7.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-2.7/biom/_filter.o -o /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom/_filter.so
building 'biom._transform' extension
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include/python2.7 -c biom/_transform.c -o build/temp.linux-armhf-2.7/biom/_transform.o
In file included from /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1816,
from /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/ndarrayobject.h:18,
from /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
from biom/_transform.c:586:
/usr/lib/python2.7/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^~~~~~~
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -Wdate-time -D_FORTIFY_SOURCE=2 -g -fdebug-prefix-map=/build/python2.7-25ieCH/python2.7-2.7.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-2.7/biom/_transform.o -o /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom/_transform.so
building 'biom._subsample' extension
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include/python2.7 -c biom/_subsample.c -o build/temp.linux-armhf-2.7/biom/_subsample.o
In file included from /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1816,
from /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/ndarrayobject.h:18,
from /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
from biom/_subsample.c:586:
/usr/lib/python2.7/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^~~~~~~
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -Wdate-time -D_FORTIFY_SOURCE=2 -g -fdebug-prefix-map=/build/python2.7-25ieCH/python2.7-2.7.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-2.7/biom/_subsample.o -o /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build/biom/_subsample.so
pybuild --build --test-nose -i python{version} -p "3.7 3.6"
I: pybuild base:217: /usr/bin/python3.7 setup.py build
running build
running build_py
creating /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests
copying tests/test_parse.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests
copying tests/test_table.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests
copying tests/__init__.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests
copying tests/test_err.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests
copying tests/test_util.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests
creating /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom
copying biom/err.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom
copying biom/util.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom
copying biom/table.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom
copying biom/__init__.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom
copying biom/exception.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom
copying biom/parse.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom
creating /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_data
copying tests/test_data/__init__.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_data
creating /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_cli
copying tests/test_cli/test_uc_processor.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_cli
copying tests/test_cli/test_table_normalizer.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_cli
copying tests/test_cli/test_validate_table.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_cli
copying tests/test_cli/test_summarize_table.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_cli
copying tests/test_cli/test_subset_table.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_cli
copying tests/test_cli/__init__.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_cli
copying tests/test_cli/test_add_metadata.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_cli
copying tests/test_cli/test_show_install_info.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_cli
copying tests/test_cli/test_table_converter.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_cli
creating /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/cli
copying biom/cli/table_ids.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/cli
copying biom/cli/metadata_adder.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/cli
copying biom/cli/installation_informer.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/cli
copying biom/cli/table_subsetter.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/cli
copying biom/cli/util.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/cli
copying biom/cli/table_head.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/cli
copying biom/cli/table_converter.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/cli
copying biom/cli/uc_processor.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/cli
copying biom/cli/table_summarizer.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/cli
copying biom/cli/__init__.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/cli
copying biom/cli/table_validator.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/cli
copying biom/cli/table_normalizer.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/cli
running egg_info
writing biom_format.egg-info/PKG-INFO
writing dependency_links to biom_format.egg-info/dependency_links.txt
writing entry points to biom_format.egg-info/entry_points.txt
writing requirements to biom_format.egg-info/requires.txt
writing top-level names to biom_format.egg-info/top_level.txt
reading manifest file 'biom_format.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no directories found matching 'support_files'
no previously-included directories found matching 'docs/_build'
warning: no previously-included files matching '*.pyc' found anywhere in distribution
warning: no previously-included files matching '*.pyo' found anywhere in distribution
warning: no previously-included files matching '.git' found anywhere in distribution
writing manifest file 'biom_format.egg-info/SOURCES.txt'
copying biom/_filter.c -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom
copying biom/_filter.pyx -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom
copying biom/_subsample.c -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom
copying biom/_subsample.pyx -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom
copying biom/_transform.c -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom
copying biom/_transform.pyx -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom
creating /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/assets
copying biom/assets/exercise_api.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/assets
copying biom/assets/exercise_cli.sh -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/assets
running build_ext
building 'biom._filter' extension
creating build/temp.linux-armhf-3.7
creating build/temp.linux-armhf-3.7/biom
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.7m -c biom/_filter.c -o build/temp.linux-armhf-3.7/biom/_filter.o
In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1816,
from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:18,
from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
from biom/_filter.c:586:
/usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^~~~~~~
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.7/biom/_filter.o -o /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/_filter.cpython-37m-arm-linux-gnueabihf.so
building 'biom._transform' extension
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.7m -c biom/_transform.c -o build/temp.linux-armhf-3.7/biom/_transform.o
In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1816,
from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:18,
from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
from biom/_transform.c:586:
/usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^~~~~~~
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.7/biom/_transform.o -o /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/_transform.cpython-37m-arm-linux-gnueabihf.so
building 'biom._subsample' extension
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.7m -c biom/_subsample.c -o build/temp.linux-armhf-3.7/biom/_subsample.o
In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1816,
from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:18,
from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
from biom/_subsample.c:586:
/usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^~~~~~~
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.7/biom/_subsample.o -o /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/_subsample.cpython-37m-arm-linux-gnueabihf.so
I: pybuild base:217: /usr/bin/python3 setup.py build
running build
running build_py
creating /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/tests
copying tests/test_parse.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/tests
copying tests/test_table.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/tests
copying tests/__init__.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/tests
copying tests/test_err.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/tests
copying tests/test_util.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/tests
creating /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom
copying biom/err.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom
copying biom/util.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom
copying biom/table.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom
copying biom/__init__.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom
copying biom/exception.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom
copying biom/parse.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom
creating /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/tests/test_data
copying tests/test_data/__init__.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/tests/test_data
creating /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/tests/test_cli
copying tests/test_cli/test_uc_processor.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/tests/test_cli
copying tests/test_cli/test_table_normalizer.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/tests/test_cli
copying tests/test_cli/test_validate_table.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/tests/test_cli
copying tests/test_cli/test_summarize_table.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/tests/test_cli
copying tests/test_cli/test_subset_table.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/tests/test_cli
copying tests/test_cli/__init__.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/tests/test_cli
copying tests/test_cli/test_add_metadata.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/tests/test_cli
copying tests/test_cli/test_show_install_info.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/tests/test_cli
copying tests/test_cli/test_table_converter.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/tests/test_cli
creating /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom/cli
copying biom/cli/table_ids.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom/cli
copying biom/cli/metadata_adder.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom/cli
copying biom/cli/installation_informer.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom/cli
copying biom/cli/table_subsetter.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom/cli
copying biom/cli/util.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom/cli
copying biom/cli/table_head.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom/cli
copying biom/cli/table_converter.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom/cli
copying biom/cli/uc_processor.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom/cli
copying biom/cli/table_summarizer.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom/cli
copying biom/cli/__init__.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom/cli
copying biom/cli/table_validator.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom/cli
copying biom/cli/table_normalizer.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom/cli
running egg_info
writing biom_format.egg-info/PKG-INFO
writing dependency_links to biom_format.egg-info/dependency_links.txt
writing entry points to biom_format.egg-info/entry_points.txt
writing requirements to biom_format.egg-info/requires.txt
writing top-level names to biom_format.egg-info/top_level.txt
reading manifest file 'biom_format.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no directories found matching 'support_files'
no previously-included directories found matching 'docs/_build'
warning: no previously-included files matching '*.pyc' found anywhere in distribution
warning: no previously-included files matching '*.pyo' found anywhere in distribution
warning: no previously-included files matching '.git' found anywhere in distribution
writing manifest file 'biom_format.egg-info/SOURCES.txt'
copying biom/_filter.c -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom
copying biom/_filter.pyx -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom
copying biom/_subsample.c -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom
copying biom/_subsample.pyx -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom
copying biom/_transform.c -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom
copying biom/_transform.pyx -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom
creating /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom/assets
copying biom/assets/exercise_api.py -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom/assets
copying biom/assets/exercise_cli.sh -> /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom/assets
running build_ext
building 'biom._filter' extension
creating build/temp.linux-armhf-3.6
creating build/temp.linux-armhf-3.6/biom
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.6m -c biom/_filter.c -o build/temp.linux-armhf-3.6/biom/_filter.o
In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1816,
from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:18,
from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
from biom/_filter.c:586:
/usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^~~~~~~
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.6/biom/_filter.o -o /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom/_filter.cpython-36m-arm-linux-gnueabihf.so
building 'biom._transform' extension
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.6m -c biom/_transform.c -o build/temp.linux-armhf-3.6/biom/_transform.o
In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1816,
from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:18,
from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
from biom/_transform.c:586:
/usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^~~~~~~
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.6/biom/_transform.o -o /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom/_transform.cpython-36m-arm-linux-gnueabihf.so
building 'biom._subsample' extension
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.6m -c biom/_subsample.c -o build/temp.linux-armhf-3.6/biom/_subsample.o
In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1816,
from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:18,
from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
from biom/_subsample.c:586:
/usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^~~~~~~
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.6/biom/_subsample.o -o /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.6_biom-format/build/biom/_subsample.cpython-36m-arm-linux-gnueabihf.so
# indep:
PYTHONPATH=. http_proxy='127.0.0.1:9' sphinx-build -N -b html doc build/html
Running Sphinx v1.7.9
WARNING: sphinx.ext.pngmath has been deprecated. Please use sphinx.ext.imgmath instead.
making output directory...
loading pickled environment... not yet created
[autosummary] generating autosummary for: BIOM_LICENSE.rst, documentation/adding_metadata.rst, documentation/biom_conversion.rst, documentation/biom_format.rst, documentation/index.rst, documentation/quick_usage_examples.rst, documentation/summarizing_biom_tables.rst, documentation/table_objects.rst, index.rst
Failed to import 'biom.table': no module named biom.table
Failed to import 'biom': no module named biom
building [mo]: targets for 0 po files that are out of date
building [html]: targets for 12 source files that are out of date
updating environment: 12 added, 0 changed, 0 removed
reading sources... [ 8%] BIOM_LICENSE
reading sources... [ 16%] documentation/adding_metadata
reading sources... [ 25%] documentation/biom_conversion
reading sources... [ 33%] documentation/biom_format
reading sources... [ 41%] documentation/format_versions/biom-1.0
reading sources... [ 50%] documentation/format_versions/biom-2.0
reading sources... [ 58%] documentation/format_versions/biom-2.1
reading sources... [ 66%] documentation/index
reading sources... [ 75%] documentation/quick_usage_examples
reading sources... [ 83%] documentation/summarizing_biom_tables
reading sources... [ 91%] documentation/table_objects
reading sources... [100%] index
WARNING: autodoc: failed to import module 'biom'; the following exception was raised:
No module named 'biom._filter'
WARNING: autodoc: failed to import module 'biom.table'; the following exception was raised:
No module named 'biom._filter'
looking for now-outdated files... none found
pickling environment... done
checking consistency... done
preparing documents... done
writing output... [ 8%] BIOM_LICENSE
writing output... [ 16%] documentation/adding_metadata
writing output... [ 25%] documentation/biom_conversion
writing output... [ 33%] documentation/biom_format
writing output... [ 41%] documentation/format_versions/biom-1.0
writing output... [ 50%] documentation/format_versions/biom-2.0
writing output... [ 58%] documentation/format_versions/biom-2.1
writing output... [ 66%] documentation/index
writing output... [ 75%] documentation/quick_usage_examples
writing output... [ 83%] documentation/summarizing_biom_tables
writing output... [ 91%] documentation/table_objects
writing output... [100%] index
/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/doc/documentation/index.rst:11: WARNING: toctree contains reference to document 'documentation/quick_usage_examples' that doesn't have a title: no link will be generated
/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/doc/documentation/index.rst:11: WARNING: toctree contains reference to document 'documentation/table_objects' that doesn't have a title: no link will be generated
/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/doc/documentation/index.rst:11: WARNING: toctree contains reference to document 'documentation/quick_usage_examples' that doesn't have a title: no link will be generated
/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/doc/documentation/index.rst:11: WARNING: toctree contains reference to document 'documentation/table_objects' that doesn't have a title: no link will be generated
generating indices...
writing additional pages... search
copying images... [100%] _static/biom-format.png
copying static files... done
copying extra files... done
dumping search index in English (code: en) ... done
dumping object inventory... done
build succeeded, 7 warnings.
The HTML pages are in build/html.
PYTHONPATH=. http_proxy='127.0.0.1:9' sphinx-build -N -b man doc build/man
Running Sphinx v1.7.9
WARNING: sphinx.ext.pngmath has been deprecated. Please use sphinx.ext.imgmath instead.
making output directory...
loading pickled environment... not yet created
[autosummary] generating autosummary for: BIOM_LICENSE.rst, documentation/adding_metadata.rst, documentation/biom_conversion.rst, documentation/biom_format.rst, documentation/index.rst, documentation/quick_usage_examples.rst, documentation/summarizing_biom_tables.rst, documentation/table_objects.rst, index.rst
Failed to import 'biom.table': no module named biom.table
Failed to import 'biom': no module named biom
building [mo]: targets for 0 po files that are out of date
building [man]: all manpages
updating environment: 12 added, 0 changed, 0 removed
reading sources... [ 8%] BIOM_LICENSE
reading sources... [ 16%] documentation/adding_metadata
reading sources... [ 25%] documentation/biom_conversion
reading sources... [ 33%] documentation/biom_format
reading sources... [ 41%] documentation/format_versions/biom-1.0
reading sources... [ 50%] documentation/format_versions/biom-2.0
reading sources... [ 58%] documentation/format_versions/biom-2.1
reading sources... [ 66%] documentation/index
reading sources... [ 75%] documentation/quick_usage_examples
reading sources... [ 83%] documentation/summarizing_biom_tables
reading sources... [ 91%] documentation/table_objects
reading sources... [100%] index
WARNING: autodoc: failed to import module 'biom'; the following exception was raised:
No module named 'biom._filter'
WARNING: autodoc: failed to import module 'biom.table'; the following exception was raised:
No module named 'biom._filter'
looking for now-outdated files... none found
pickling environment... done
checking consistency... done
writing... biom.1 { documentation/index documentation/biom_format documentation/format_versions/biom-1.0 documentation/format_versions/biom-2.0 documentation/format_versions/biom-2.1 documentation/quick_usage_examples documentation/table_objects documentation/biom_conversion documentation/adding_metadata documentation/summarizing_biom_tables BIOM_LICENSE }
build succeeded, 3 warnings.
The manual pages are in build/man.
make[1]: Leaving directory '/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg'
dh_auto_test -a -O--buildsystem=pybuild
pybuild --test --test-nose -i python{version} -p 2.7
I: pybuild pybuild:269: cp -r /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/examples /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/tests /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build
I: pybuild base:217: cd /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython2_2.7_biom-format/build; python2.7 -m nose -v tests
Correctly adds observation metadata without casting it. ... ok
Correctly adds observation metadata with casting. ... ok
Correctly adds sample metadata without casting it. ... ok
Correctly adds sample metadata with casting. ... ok
test_default (tests.test_cli.test_show_install_info.TestShowInstallInfo) ... ok
Correctly raises politically correct error upon invalid input. ... ok
Correctly subsets observations in a table. ... ok
Correctly subsets samples in a hdf5 table ... ok
Correctly subsets samples in a table. ... ok
Correctly subsets samples in a hdf5 table ... ok
TableSummarizer functions as expected ... ok
TableSummarizer functions as expected with qualitative=True ... ok
Correctly converts biom to classic. ... ok
Correctly converts biom to classic with metadata renaming. ... ok
Correctly converts classic to biom. ... ok
Correctly converts classic to biom with metadata. ... ok
Correctly converts json to HDF5 changing the observation metadata ... ok
Correctly converts json to HDF5 changing the sample metadata ... ok
test_bad_inputs (tests.test_cli.test_table_normalizer.TableNormalizerTests) ... ok
test_basic (tests.test_cli.test_uc_processor.TestUcProcessor) ... ok
test_basic_w_mapping (tests.test_cli.test_uc_processor.TestUcProcessor) ... ok
test_rep_set_missing_id (tests.test_cli.test_uc_processor.TestUcProcessor) ... ok
test_rep_set_no_mapping (tests.test_cli.test_uc_processor.TestUcProcessor) ... ok
test_uc (tests.test_cli.test_uc_processor.TestUcProcessor) ... ok
test_uc_w_mapping (tests.test_cli.test_uc_processor.TestUcProcessor) ... ok
Correctly invalidates a table that is... invalid. ... ok
Test an invalid HDF5 table ... ok
Correctly validates a table that is indeed... valid. ... ok
validates table:columns: fields ... ok
validates data: fields ... ok
Make sure we have a datetime stamp ... ok
Takes a dense matrix field and validates ... ok
Should match format string ... ok
validates format url ... ok
Should have some string for generated by ... ok
Test a valid HDF5 table ... ok
test_valid_hdf5_metadata_v200 (tests.test_cli.test_validate_table.TableValidatorTests) ... ok
test_valid_hdf5_metadata_v210 (tests.test_cli.test_validate_table.TableValidatorTests) ... ok
Make sure we have a valid matrix type ... ok
Make sure we have a valid matrix type ... ok
Can be nullable or an object ... ok
Should just work. ... ok
validates rows: field ... ok
validates shape information ... ok
Takes a sparse matrix field and validates ... ok
Should be valid table type ... ok
test_test_empty (tests.test_err.ErrModeTests) ... ok
test_test_obsdup (tests.test_err.ErrModeTests) ... ok
test_test_obsmdsize (tests.test_err.ErrModeTests) ... ok
test_test_obssize (tests.test_err.ErrModeTests) ... ok
test_test_sampdup (tests.test_err.ErrModeTests) ... ok
test_test_sampmdsize (tests.test_err.ErrModeTests) ... ok
test_test_sampsize (tests.test_err.ErrModeTests) ... ok
test_contains (tests.test_err.ErrorProfileTests) ... ok
test_getcall (tests.test_err.ErrorProfileTests) ... ok
test_handle_error (tests.test_err.ErrorProfileTests) ... ok
test_register_unregister (tests.test_err.ErrorProfileTests) ... ok
test_setcall (tests.test_err.ErrorProfileTests) ... ok
test_state (tests.test_err.ErrorProfileTests) ... ok
test_test (tests.test_err.ErrorProfileTests) ... ok
test_errcheck (tests.test_err.SupportTests) ... ok
test_errstate (tests.test_err.SupportTests) ... ok
test_geterr (tests.test_err.SupportTests) ... ok
test_geterrcall (tests.test_err.SupportTests) ... ok
test_seterr (tests.test_err.SupportTests) ... ok
test_seterrcall (tests.test_err.SupportTests) ... ok
get a generatedby string ... ok
MetadataMap functions as expected ... ok
MetadataMap functions as expected w user-provided header ... ok
MetadataMap functions as expected w process_fns ... ok
test the biom otu table parser ... ok
tests for parse_biom_table when we do not have h5py ... ok
Make sure we can parse a HDF5 table through the same loader ... ok
test the biom table parser subsetting ... ok
tests for parse_biom_table when we have h5py ... ok
empty uc file returns empty Table ... ok
invalid query sequence identifier detected ... ok
single library seed observed ... ok
single new seed observed ... ok
new and library seeds observed ... ok
multiple new seeds observed ... ok
Yield tables binned by observation metadata ... ok
Yield tables binned by sample metadata ... ok
test_collapse_median (tests.test_table.SparseTableTests) ... ok
Collapse observations by arbitrary metadata ... ok
Collapse observations by arbitary metadata ... ok
Collapse observations by 1-M metadata using divide mode ... ok
Collapse observations by arbitary metadata ... ok
Collapse samples by arbitrary metadata ... ok
Collapse samples by arbitary metadata ... ok
Collapse samples by 1-M metadata using divide mode ... ok
Collapse samples by arbitary metadata ... ok
Should convert other to sparse type ... ok
test_copy_data (tests.test_table.SparseTableTests) ... ok
test_copy_ids (tests.test_table.SparseTableTests) ... ok
test_copy_metadata (tests.test_table.SparseTableTests) ... ok
test_data (tests.test_table.SparseTableTests) ... ok
check equality between tables ... ok
test_data_sparse (tests.test_table.SparseTableTests) ... ok
Print out self in a delimited form ... ok
sparse equality ... ok
Parses a classic table ... ok
test_extract_data_from_tsv_badvalue_complaint (tests.test_table.SparseTableTests) ... ok
test_filter_general_observation (tests.test_table.SparseTableTests) ... ok
test_filter_general_sample (tests.test_table.SparseTableTests) ... ok
test_filter_id_state (tests.test_table.SparseTableTests) ... ok
test_filter_observations_id (tests.test_table.SparseTableTests) ... ok
test_filter_observations_invert (tests.test_table.SparseTableTests) ... ok
test_filter_observations_metadata (tests.test_table.SparseTableTests) ... ok
test_filter_observations_remove_everything (tests.test_table.SparseTableTests) ... ok
test_filter_out_full_table (tests.test_table.SparseTableTests) ... ok
test_filter_return_type (tests.test_table.SparseTableTests) ... ok
test_filter_sample_id (tests.test_table.SparseTableTests) ... ok
test_filter_sample_invert (tests.test_table.SparseTableTests) ... ok
test_filter_sample_metadata (tests.test_table.SparseTableTests) ... ok
test_filter_sample_remove_everything (tests.test_table.SparseTableTests) ... ok
test_filter_table_with_zeros (tests.test_table.SparseTableTests) ... ok
test_filter_using_list_of_ids (tests.test_table.SparseTableTests) ... ok
test_from_json_issue_697 (tests.test_table.SparseTableTests) ... ok
Test correctly computes density of table. ... ok
test_identify_bad_value (tests.test_table.SparseTableTests) ... ok
Should iterate over samples ... ok
test_iter_data_dense (tests.test_table.SparseTableTests) ... ok
test_iter_data_sparse (tests.test_table.SparseTableTests) ... ok
Iterate over observations of sparse matrix ... ok
Iterates data by observations ... ok
Iterates data by observations from a single sample. ... ok
Iterates observations ... ok
Should iterate pairwise over samples ... ok
Should iterate pairwise over samples ... ok
Should iterate pairwise over samples ... ok
Should iterate pairwise over samples ... ok
Iterate over samples of sparse matrix ... ok
Iterates data by samples ... ok
Iterates data by samples with a single observation. ... ok
Iterates samples ... ok
Merge two tables ... ok
Return a list of nonzero positions ... ok
Returns nonzero counts over an axis ... ok
Returns nonzero counts over an axis ... ok
test_nonzero_csc_bug (tests.test_table.SparseTableTests) ... ok
normalize observations by sample ... ok
normalize sample by observation ... ok
test_other_spmatrix_type (tests.test_table.SparseTableTests) ... ok
test_pa (tests.test_table.SparseTableTests) ... ok
test_pa_with_neg (tests.test_table.SparseTableTests) ... ok
test_pa_works_if_something_has_been_zeroed (tests.test_table.SparseTableTests) ... ok
rank observations by sample ... ok
rank observations by sample with alt method ... ok
rank samples by observation ... ok
Reduce method ... ok
table sorted by a function and provided axis ... ok
sorts tables by arbitrary order ... ok
test_subsample (tests.test_table.SparseTableTests) ... ok
test_subsample_by_id (tests.test_table.SparseTableTests) ... ok
subsample would except when if metadata were present ... ok
Test of sum! ... ok
Should convert a self styled vector to numpy type ... ok
Get a BIOM format string for a dense table of floats ... ok
Get a BIOM format string for a dense table of floats ... ok
Get a BIOM format string for a dense table of integers ... ok
Get a BIOM format string for a dense table of integers ... ok
test_to_json_empty (tests.test_table.SparseTableTests) ... ok
Get a BIOM format string for a sparse table of floats ... ok
Get a BIOM format string for a sparse table of floats ... ok
Get a BIOM format string for a sparse table of integers ... ok
Get a BIOM format string for a sparse table of integers ... ok
Transform axis by arbitrary function ... ok
test_transform_return_type (tests.test_table.SparseTableTests) ... ok
test_transform_sample (tests.test_table.SparseTableTests) ... ok
Should transpose a sparse table ... ok
ids are updated as expected ... ok
test_update_ids_cache_bug (tests.test_table.SparseTableTests) ... ok
ids are updated as expected ... ok
test_concat_different_order (tests.test_table.SupportTests) ... ok
test_concat_empty (tests.test_table.SupportTests) ... ok
test_concat_multiple (tests.test_table.SupportTests) ... ok
test_concat_no_metadata_bug (tests.test_table.SupportTests) ... ok
test_concat_observations (tests.test_table.SupportTests) ... ok
test_concat_pad_on_subset (tests.test_table.SupportTests) ... ok
test_concat_raise_overlap (tests.test_table.SupportTests) ... ok
test_concat_samples (tests.test_table.SupportTests) ... ok
test_concat_table_type (tests.test_table.SupportTests) ... ok
test_head (tests.test_table.SupportTests) ... ok
test_head_bounded (tests.test_table.SupportTests) ... ok
test_head_overstep (tests.test_table.SupportTests) ... ok
test_head_zero_or_neg (tests.test_table.SupportTests) ... ok
returns a dict for list lookups ... ok
prefer x ... ok
test_remove_empty_both (tests.test_table.SupportTests) ... ok
test_remove_empty_obs (tests.test_table.SupportTests) ... /usr/lib/python2.7/dist-packages/scipy/sparse/compressed.py:746: SparseEfficiencyWarning: Changing the sparsity structure of a csr_matrix is expensive. lil_matrix is more efficient.
SparseEfficiencyWarning)
ok
test_remove_empty_sample (tests.test_table.SupportTests) ... ok
Make sure a TableException can be raised ... ok
beat the table sparsely to death ... ok
beat the table sparsely to death ... ok
beat the table sparsely to death ... ok
beat the table sparsely to death ... ok
beat the table sparsely to death ... ok
convert (values, (row, col)) to scipy ... ok
Take a dict and convert to sparse ... ok
Take a list of dicts and condense down to a single dict ... ok
convert [[row,col,value], ...] to scipy ... ok
lists of nparrays to sparse ... ok
list of lil_matrix to sparse ... ok
Convert nparray to sparse ... ok
Convert to expected sparse types ... ok
add group metadata works correctly ... ok
add group metadata works with existing metadata ... ok
add_sample_metadata functions with single md entry ... ok
add_sample_metadata functions with existing metadata ... ok
add_metadata functions with more than one md entry ... ok
add_sample_metadata functions with more than one md entry ... ok
test_all_keys_dropped (tests.test_table.TableTests) ... ok
Cast metadata objects to defaultdict to support default values ... ok
Properly converts ScipySparseMat vectors to dense numpy repr. ... ok
test_data_property (tests.test_table.TableTests) ... ok
test_del_metadata_badaxis (tests.test_table.TableTests) ... ok
test_del_metadata_defaults (tests.test_table.TableTests) ... ok
test_del_metadata_empty_list (tests.test_table.TableTests) ... ok
test_del_metadata_full (tests.test_table.TableTests) ... ok
test_del_metadata_idempotent (tests.test_table.TableTests) ... ok
test_del_metadata_jagged (tests.test_table.TableTests) ... ok
test_del_metadata_keys_none_observation (tests.test_table.TableTests) ... ok
test_del_metadata_keys_none_sample (tests.test_table.TableTests) ... ok
test_del_metadata_keys_none_whole (tests.test_table.TableTests) ... ok
test_del_metadata_multiple_keys (tests.test_table.TableTests) ... ok
test_del_metadata_nomd (tests.test_table.TableTests) ... ok
test_del_metadata_partial (tests.test_table.TableTests) ... ok
What's your type? ... ok
Test whether two matrices are equal. ... ok
Verify ValueError raised! ... ok
Parse a hdf5 formatted BIOM table ... ok
test_from_hdf5_custom_parsers (tests.test_table.TableTests) ... ok
Parse a hdf5 formatted BIOM table w/o metadata ... ok
HDF5 biom parse successfully loads an empty table ... ok
test_from_hdf5_issue_731 (tests.test_table.TableTests) ... ok
Parse a observation subset of a hdf5 formatted BIOM table ... ok
Parse a observation subset of a hdf5 formatted BIOM table ... ok
Parse a sample subset of a hdf5 formatted BIOM table ... ok
Parse a sample subset of a hdf5 formatted BIOM table ... ok
hdf5 biom table parse throws error with invalid parameters ... ok
test_from_tsv (tests.test_table.TableTests) ... ok
test_from_tsv_dense (tests.test_table.TableTests) ... ok
Test grabbing a column from the matrix. ... ok
Test grabbing a row from the matrix. ... ok
Return the value located in the matrix by the ids ... ok
getitem should work as expeceted ... ok
Test getting an element from the matrix. ... ok
Handles invalid input ... ok
Returns the observation group metadata ... ok
Returns the sample group metadata ... ok
Index all the ids!!! ... ok
Correctly handles invalid input. ... ok
returns the observation index ... ok
returns the sample index ... ok
to_sparse in constructor should be triggered ... ok
Combine ids, intersection ... ok
returns true if empty ... ok
test_length (tests.test_table.TableTests) ... ok
test_max_observation (tests.test_table.TableTests) ... ok
test_max_sample (tests.test_table.TableTests) ... ok
test_max_whole (tests.test_table.TableTests) ... ok
Correctly handles invalid input. ... ok
returns the observation metadata ... ok
returns the observation metadata for a given id ... ok
Return the sample metadata ... ok
returns the sample metadata for a given id ... ok
test_metadata_to_dataframe (tests.test_table.TableTests) ... ok
test_metadata_to_dataframe_badaxis (tests.test_table.TableTests) ... ok
test_metadata_to_dataframe_nomd (tests.test_table.TableTests) ... ok
test_metadata_to_dataframe_uneven_list_metadata (tests.test_table.TableTests) ... ok
test_min_observation (tests.test_table.TableTests) ... ok
test_min_sample (tests.test_table.TableTests) ... ok
test_min_whole (tests.test_table.TableTests) ... ok
Test whether two matrices are not equal. ... ok
What is your NNZ? ... ok
test_nnz_issue_727 (tests.test_table.TableTests) ... ok
Verify observation exist! ... ok
__repr__ method of biom.table.Table ... ok
Verify samples exist! ... ok
What kind of shape are you in? ... ok
test_to_dataframe (tests.test_table.TableTests) ... ok
Write a file ... ok
test_to_hdf5_custom_formatters (tests.test_table.TableTests) ... ok
Successfully writes an empty OTU table in HDF5 format ... ok
test_to_hdf5_general_fallback_to_list (tests.test_table.TableTests) ... ok
test_to_hdf5_malformed_taxonomy (tests.test_table.TableTests) ... ok
Print out self in a delimited form ... ok
Combine unique ids, union ... ok
Make sure the metadata is sane (including obs/sample ids) ... ok
test_biom_open_empty (tests.test_util.UtilTests) ... ok
test_biom_open_hdf5 (tests.test_util.UtilTests) ... ok
test_biom_open_hdf5_no_h5py (tests.test_util.UtilTests) ... SKIP: Skipping test: test_biom_open_hdf5_no_h5py: Can only be tested without H5PY
test_biom_open_json (tests.test_util.UtilTests) ... ok
compute_counts_per_sample_stats functions as expected ... ok
test_compute_counts_per_sample_stats_empty (tests.test_util.UtilTests) ... ok
compute_counts_per_sample_stats functions as expected ... ok
flatten should remove one level of nesting from nested sequences ... ok
flatten should not change non-nested sequences (except to list) ... ok
test_generate_subsamples (tests.test_util.UtilTests) ... ok
Getting the biom project directory functions as expected. ... ok
test_is_hdf5_file (tests.test_util.UtilTests) ... ok
test_load_classic (tests.test_util.UtilTests) ... ok
test_load_table_gzip_unicode (tests.test_util.UtilTests) ... ok
test_load_table_unicode (tests.test_util.UtilTests) ... ok
natsort should perform numeric comparisons on strings ... ok
parse_biom_config_files functions as expected. ... ok
Make sure we have the expected md5 with varied input types ... ok
unzip(items) should be the inverse of zip(*items) ... ok
----------------------------------------------------------------------
Ran 309 tests in 6.279s
OK (SKIP=1)
pybuild --test --test-nose -i python{version} -p "3.7 3.6"
I: pybuild pybuild:269: cp -r /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/examples /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/tests /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build
I: pybuild base:217: cd /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build; python3.7 -m nose -v tests
Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)) ... ERROR
Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)) ... ERROR
Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)) ... ERROR
Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)) ... ERROR
Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)) ... ERROR
Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)) ... ERROR
Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)) ... ERROR
Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)) ... ERROR
Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)) ... ERROR
Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)) ... ERROR
Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)) ... ERROR
Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)) ... ERROR
======================================================================
ERROR: Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py))
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/failure.py", line 39, in runTest
raise self.exc_val.with_traceback(self.tb)
File "/usr/lib/python3/dist-packages/nose/loader.py", line 417, in loadTestsFromName
addr.filename, addr.module)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 47, in importFromPath
return self.importFromDir(dir_path, fqname)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 94, in importFromDir
mod = load_module(part_fqname, fh, filename, desc)
File "/usr/lib/python3.7/imp.py", line 235, in load_module
return load_source(name, filename, file)
File "/usr/lib/python3.7/imp.py", line 172, in load_source
module = _load(spec)
File "<frozen importlib._bootstrap>", line 696, in _load
File "<frozen importlib._bootstrap>", line 677, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 728, in exec_module
File "<frozen importlib._bootstrap>", line 219, in _call_with_frames_removed
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_cli/test_add_metadata.py", line 14, in <module>
import biom
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/__init__.py", line 53, in <module>
from .table import Table
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/table.py", line 177, in <module>
import scipy.stats
File "/usr/lib/python3/dist-packages/scipy/__init__.py", line 119, in <module>
from scipy._lib._ccallback import LowLevelCallable
File "/usr/lib/python3/dist-packages/scipy/_lib/_ccallback.py", line 1, in <module>
from . import _ccallback_c
ImportError: cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)
======================================================================
ERROR: Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py))
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/failure.py", line 39, in runTest
raise self.exc_val.with_traceback(self.tb)
File "/usr/lib/python3/dist-packages/nose/loader.py", line 417, in loadTestsFromName
addr.filename, addr.module)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 47, in importFromPath
return self.importFromDir(dir_path, fqname)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 94, in importFromDir
mod = load_module(part_fqname, fh, filename, desc)
File "/usr/lib/python3.7/imp.py", line 235, in load_module
return load_source(name, filename, file)
File "/usr/lib/python3.7/imp.py", line 172, in load_source
module = _load(spec)
File "<frozen importlib._bootstrap>", line 696, in _load
File "<frozen importlib._bootstrap>", line 677, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 728, in exec_module
File "<frozen importlib._bootstrap>", line 219, in _call_with_frames_removed
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_cli/test_show_install_info.py", line 11, in <module>
from biom.cli.installation_informer import _show_install_info
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/__init__.py", line 53, in <module>
from .table import Table
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/table.py", line 177, in <module>
import scipy.stats
File "/usr/lib/python3/dist-packages/scipy/__init__.py", line 119, in <module>
from scipy._lib._ccallback import LowLevelCallable
File "/usr/lib/python3/dist-packages/scipy/_lib/_ccallback.py", line 1, in <module>
from . import _ccallback_c
ImportError: cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)
======================================================================
ERROR: Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py))
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/failure.py", line 39, in runTest
raise self.exc_val.with_traceback(self.tb)
File "/usr/lib/python3/dist-packages/nose/loader.py", line 417, in loadTestsFromName
addr.filename, addr.module)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 47, in importFromPath
return self.importFromDir(dir_path, fqname)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 94, in importFromDir
mod = load_module(part_fqname, fh, filename, desc)
File "/usr/lib/python3.7/imp.py", line 235, in load_module
return load_source(name, filename, file)
File "/usr/lib/python3.7/imp.py", line 172, in load_source
module = _load(spec)
File "<frozen importlib._bootstrap>", line 696, in _load
File "<frozen importlib._bootstrap>", line 677, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 728, in exec_module
File "<frozen importlib._bootstrap>", line 219, in _call_with_frames_removed
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_cli/test_subset_table.py", line 14, in <module>
from biom.cli.table_subsetter import _subset_table
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/__init__.py", line 53, in <module>
from .table import Table
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/table.py", line 177, in <module>
import scipy.stats
File "/usr/lib/python3/dist-packages/scipy/__init__.py", line 119, in <module>
from scipy._lib._ccallback import LowLevelCallable
File "/usr/lib/python3/dist-packages/scipy/_lib/_ccallback.py", line 1, in <module>
from . import _ccallback_c
ImportError: cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)
======================================================================
ERROR: Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py))
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/failure.py", line 39, in runTest
raise self.exc_val.with_traceback(self.tb)
File "/usr/lib/python3/dist-packages/nose/loader.py", line 417, in loadTestsFromName
addr.filename, addr.module)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 47, in importFromPath
return self.importFromDir(dir_path, fqname)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 94, in importFromDir
mod = load_module(part_fqname, fh, filename, desc)
File "/usr/lib/python3.7/imp.py", line 235, in load_module
return load_source(name, filename, file)
File "/usr/lib/python3.7/imp.py", line 172, in load_source
module = _load(spec)
File "<frozen importlib._bootstrap>", line 696, in _load
File "<frozen importlib._bootstrap>", line 677, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 728, in exec_module
File "<frozen importlib._bootstrap>", line 219, in _call_with_frames_removed
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_cli/test_summarize_table.py", line 11, in <module>
from biom.cli.table_summarizer import _summarize_table
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/__init__.py", line 53, in <module>
from .table import Table
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/table.py", line 177, in <module>
import scipy.stats
File "/usr/lib/python3/dist-packages/scipy/__init__.py", line 119, in <module>
from scipy._lib._ccallback import LowLevelCallable
File "/usr/lib/python3/dist-packages/scipy/_lib/_ccallback.py", line 1, in <module>
from . import _ccallback_c
ImportError: cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)
======================================================================
ERROR: Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py))
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/failure.py", line 39, in runTest
raise self.exc_val.with_traceback(self.tb)
File "/usr/lib/python3/dist-packages/nose/loader.py", line 417, in loadTestsFromName
addr.filename, addr.module)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 47, in importFromPath
return self.importFromDir(dir_path, fqname)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 94, in importFromDir
mod = load_module(part_fqname, fh, filename, desc)
File "/usr/lib/python3.7/imp.py", line 235, in load_module
return load_source(name, filename, file)
File "/usr/lib/python3.7/imp.py", line 172, in load_source
module = _load(spec)
File "<frozen importlib._bootstrap>", line 696, in _load
File "<frozen importlib._bootstrap>", line 677, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 728, in exec_module
File "<frozen importlib._bootstrap>", line 219, in _call_with_frames_removed
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_cli/test_table_converter.py", line 16, in <module>
from biom.cli.table_converter import _convert
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/__init__.py", line 53, in <module>
from .table import Table
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/table.py", line 177, in <module>
import scipy.stats
File "/usr/lib/python3/dist-packages/scipy/__init__.py", line 119, in <module>
from scipy._lib._ccallback import LowLevelCallable
File "/usr/lib/python3/dist-packages/scipy/_lib/_ccallback.py", line 1, in <module>
from . import _ccallback_c
ImportError: cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)
======================================================================
ERROR: Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py))
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/failure.py", line 39, in runTest
raise self.exc_val.with_traceback(self.tb)
File "/usr/lib/python3/dist-packages/nose/loader.py", line 417, in loadTestsFromName
addr.filename, addr.module)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 47, in importFromPath
return self.importFromDir(dir_path, fqname)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 94, in importFromDir
mod = load_module(part_fqname, fh, filename, desc)
File "/usr/lib/python3.7/imp.py", line 235, in load_module
return load_source(name, filename, file)
File "/usr/lib/python3.7/imp.py", line 172, in load_source
module = _load(spec)
File "<frozen importlib._bootstrap>", line 696, in _load
File "<frozen importlib._bootstrap>", line 677, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 728, in exec_module
File "<frozen importlib._bootstrap>", line 219, in _call_with_frames_removed
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_cli/test_table_normalizer.py", line 15, in <module>
import biom
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/__init__.py", line 53, in <module>
from .table import Table
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/table.py", line 177, in <module>
import scipy.stats
File "/usr/lib/python3/dist-packages/scipy/__init__.py", line 119, in <module>
from scipy._lib._ccallback import LowLevelCallable
File "/usr/lib/python3/dist-packages/scipy/_lib/_ccallback.py", line 1, in <module>
from . import _ccallback_c
ImportError: cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)
======================================================================
ERROR: Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py))
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/failure.py", line 39, in runTest
raise self.exc_val.with_traceback(self.tb)
File "/usr/lib/python3/dist-packages/nose/loader.py", line 417, in loadTestsFromName
addr.filename, addr.module)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 47, in importFromPath
return self.importFromDir(dir_path, fqname)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 94, in importFromDir
mod = load_module(part_fqname, fh, filename, desc)
File "/usr/lib/python3.7/imp.py", line 235, in load_module
return load_source(name, filename, file)
File "/usr/lib/python3.7/imp.py", line 172, in load_source
module = _load(spec)
File "<frozen importlib._bootstrap>", line 696, in _load
File "<frozen importlib._bootstrap>", line 677, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 728, in exec_module
File "<frozen importlib._bootstrap>", line 219, in _call_with_frames_removed
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_cli/test_uc_processor.py", line 16, in <module>
import biom
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/__init__.py", line 53, in <module>
from .table import Table
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/table.py", line 177, in <module>
import scipy.stats
File "/usr/lib/python3/dist-packages/scipy/__init__.py", line 119, in <module>
from scipy._lib._ccallback import LowLevelCallable
File "/usr/lib/python3/dist-packages/scipy/_lib/_ccallback.py", line 1, in <module>
from . import _ccallback_c
ImportError: cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)
======================================================================
ERROR: Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py))
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/failure.py", line 39, in runTest
raise self.exc_val.with_traceback(self.tb)
File "/usr/lib/python3/dist-packages/nose/loader.py", line 417, in loadTestsFromName
addr.filename, addr.module)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 47, in importFromPath
return self.importFromDir(dir_path, fqname)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 94, in importFromDir
mod = load_module(part_fqname, fh, filename, desc)
File "/usr/lib/python3.7/imp.py", line 235, in load_module
return load_source(name, filename, file)
File "/usr/lib/python3.7/imp.py", line 172, in load_source
module = _load(spec)
File "<frozen importlib._bootstrap>", line 696, in _load
File "<frozen importlib._bootstrap>", line 677, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 728, in exec_module
File "<frozen importlib._bootstrap>", line 219, in _call_with_frames_removed
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_cli/test_validate_table.py", line 27, in <module>
from biom.cli.table_validator import TableValidator
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/__init__.py", line 53, in <module>
from .table import Table
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/table.py", line 177, in <module>
import scipy.stats
File "/usr/lib/python3/dist-packages/scipy/__init__.py", line 119, in <module>
from scipy._lib._ccallback import LowLevelCallable
File "/usr/lib/python3/dist-packages/scipy/_lib/_ccallback.py", line 1, in <module>
from . import _ccallback_c
ImportError: cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)
======================================================================
ERROR: Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py))
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/failure.py", line 39, in runTest
raise self.exc_val.with_traceback(self.tb)
File "/usr/lib/python3/dist-packages/nose/loader.py", line 417, in loadTestsFromName
addr.filename, addr.module)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 47, in importFromPath
return self.importFromDir(dir_path, fqname)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 94, in importFromDir
mod = load_module(part_fqname, fh, filename, desc)
File "/usr/lib/python3.7/imp.py", line 235, in load_module
return load_source(name, filename, file)
File "/usr/lib/python3.7/imp.py", line 172, in load_source
module = _load(spec)
File "<frozen importlib._bootstrap>", line 696, in _load
File "<frozen importlib._bootstrap>", line 677, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 728, in exec_module
File "<frozen importlib._bootstrap>", line 219, in _call_with_frames_removed
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_err.py", line 14, in <module>
from biom import example_table, Table
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/__init__.py", line 53, in <module>
from .table import Table
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/table.py", line 177, in <module>
import scipy.stats
File "/usr/lib/python3/dist-packages/scipy/__init__.py", line 119, in <module>
from scipy._lib._ccallback import LowLevelCallable
File "/usr/lib/python3/dist-packages/scipy/_lib/_ccallback.py", line 1, in <module>
from . import _ccallback_c
ImportError: cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)
======================================================================
ERROR: Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py))
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/failure.py", line 39, in runTest
raise self.exc_val.with_traceback(self.tb)
File "/usr/lib/python3/dist-packages/nose/loader.py", line 417, in loadTestsFromName
addr.filename, addr.module)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 47, in importFromPath
return self.importFromDir(dir_path, fqname)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 94, in importFromDir
mod = load_module(part_fqname, fh, filename, desc)
File "/usr/lib/python3.7/imp.py", line 235, in load_module
return load_source(name, filename, file)
File "/usr/lib/python3.7/imp.py", line 172, in load_source
module = _load(spec)
File "<frozen importlib._bootstrap>", line 696, in _load
File "<frozen importlib._bootstrap>", line 677, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 728, in exec_module
File "<frozen importlib._bootstrap>", line 219, in _call_with_frames_removed
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_parse.py", line 19, in <module>
from biom.parse import generatedby, MetadataMap, parse_biom_table, parse_uc
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/__init__.py", line 53, in <module>
from .table import Table
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/table.py", line 177, in <module>
import scipy.stats
File "/usr/lib/python3/dist-packages/scipy/__init__.py", line 119, in <module>
from scipy._lib._ccallback import LowLevelCallable
File "/usr/lib/python3/dist-packages/scipy/_lib/_ccallback.py", line 1, in <module>
from . import _ccallback_c
ImportError: cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)
======================================================================
ERROR: Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py))
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/failure.py", line 39, in runTest
raise self.exc_val.with_traceback(self.tb)
File "/usr/lib/python3/dist-packages/nose/loader.py", line 417, in loadTestsFromName
addr.filename, addr.module)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 47, in importFromPath
return self.importFromDir(dir_path, fqname)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 94, in importFromDir
mod = load_module(part_fqname, fh, filename, desc)
File "/usr/lib/python3.7/imp.py", line 235, in load_module
return load_source(name, filename, file)
File "/usr/lib/python3.7/imp.py", line 172, in load_source
module = _load(spec)
File "<frozen importlib._bootstrap>", line 696, in _load
File "<frozen importlib._bootstrap>", line 677, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 728, in exec_module
File "<frozen importlib._bootstrap>", line 219, in _call_with_frames_removed
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_table.py", line 22, in <module>
from scipy.sparse import lil_matrix, csr_matrix, csc_matrix
File "/usr/lib/python3/dist-packages/scipy/__init__.py", line 119, in <module>
from scipy._lib._ccallback import LowLevelCallable
File "/usr/lib/python3/dist-packages/scipy/_lib/_ccallback.py", line 1, in <module>
from . import _ccallback_c
ImportError: cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)
======================================================================
ERROR: Failure: ImportError (cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py))
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/failure.py", line 39, in runTest
raise self.exc_val.with_traceback(self.tb)
File "/usr/lib/python3/dist-packages/nose/loader.py", line 417, in loadTestsFromName
addr.filename, addr.module)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 47, in importFromPath
return self.importFromDir(dir_path, fqname)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 94, in importFromDir
mod = load_module(part_fqname, fh, filename, desc)
File "/usr/lib/python3.7/imp.py", line 235, in load_module
return load_source(name, filename, file)
File "/usr/lib/python3.7/imp.py", line 172, in load_source
module = _load(spec)
File "<frozen importlib._bootstrap>", line 696, in _load
File "<frozen importlib._bootstrap>", line 677, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 728, in exec_module
File "<frozen importlib._bootstrap>", line 219, in _call_with_frames_removed
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/tests/test_util.py", line 20, in <module>
from biom.table import Table
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/__init__.py", line 53, in <module>
from .table import Table
File "/<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build/biom/table.py", line 177, in <module>
import scipy.stats
File "/usr/lib/python3/dist-packages/scipy/__init__.py", line 119, in <module>
from scipy._lib._ccallback import LowLevelCallable
File "/usr/lib/python3/dist-packages/scipy/_lib/_ccallback.py", line 1, in <module>
from . import _ccallback_c
ImportError: cannot import name '_ccallback_c' from 'scipy._lib' (/usr/lib/python3/dist-packages/scipy/_lib/__init__.py)
----------------------------------------------------------------------
Ran 12 tests in 0.016s
FAILED (errors=12)
E: pybuild pybuild:338: test: plugin distutils failed with: exit code=1: cd /<<BUILDDIR>>/python-biom-format-2.1.6+dfsg/.pybuild/cpython3_3.7_biom-format/build; python3.7 -m nose -v tests
dh_auto_test: pybuild --test --test-nose -i python{version} -p "3.7 3.6" returned exit code 13
make: *** [debian/rules:20: build-arch] Error 25
dpkg-buildpackage: error: debian/rules build-arch subprocess returned exit status 2
--------------------------------------------------------------------------------
Build finished at 2018-10-10T08:38:37Z
Finished
--------
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
E: Build failure (dpkg-buildpackage died)
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 167856
Build-Time: 105
Distribution: buster-staging
Fail-Stage: build
Host Architecture: armhf
Install-Time: 1295
Job: python-biom-format_2.1.6+dfsg-2
Machine Architecture: armhf
Package: python-biom-format
Package-Time: 1427
Source-Version: 2.1.6+dfsg-2
Space: 167856
Status: attempted
Version: 2.1.6+dfsg-2
--------------------------------------------------------------------------------
Finished at 2018-10-10T08:38:37Z
Build needed 00:23:47, 167856k disk space