Raspbian Package Auto-Building

Build log for python-cobra (0.5.9-1+b1) on armhf

python-cobra → 0.5.9-1+b1 → armhf → 2017-10-29 04:13:24 

sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-01

+==============================================================================+
| python-cobra 0.5.9-1+b1 (armhf)              Sun, 29 Oct 2017 04:02:03 +0000 |
+==============================================================================+

Package: python-cobra
Version: 0.5.9-1+b1
Source Version: 0.5.9-1
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-f33a44a4-e45f-4427-a93a-99933c9a4d63' with '<<CHROOT>>'

+------------------------------------------------------------------------------+
| Update chroot                                                                |
+------------------------------------------------------------------------------+

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 [10.3 MB]
Get:3 http://172.17.0.1/private buster-staging/main armhf Packages [12.1 MB]
Fetched 22.4 MB in 8s (2620 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges

+------------------------------------------------------------------------------+
| Fetch source files                                                           |
+------------------------------------------------------------------------------+


Check APT
---------

Checking available source versions...

Download source files with APT
------------------------------

Reading package lists...
NOTICE: 'python-cobra' packaging is maintained in the 'Git' version control system at:
https://anonscm.debian.org/git/debian-med/python-cobra.git
Please use:
git clone https://anonscm.debian.org/git/debian-med/python-cobra.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 2714 kB of source archives.
Get:1 http://172.17.0.1/private buster-staging/main python-cobra 0.5.9-1 (dsc) [2424 B]
Get:2 http://172.17.0.1/private buster-staging/main python-cobra 0.5.9-1 (tar) [2704 kB]
Get:3 http://172.17.0.1/private buster-staging/main python-cobra 0.5.9-1 (diff) [8216 B]
Fetched 2714 kB in 0s (4719 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/python-cobra-epzmXK/python-cobra-0.5.9' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/python-cobra-epzmXK' with '<<BUILDDIR>>'

+------------------------------------------------------------------------------+
| Install build-essential                                                      |
+------------------------------------------------------------------------------+


Setup apt archive
-----------------

Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-szvnsf/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-szvnsf/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-szvnsf/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-szvnsf/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-szvnsf/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-szvnsf/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-szvnsf/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-szvnsf/apt_archive ./ Packages [433 B]
Fetched 2109 B in 0s (8273 B/s)
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 libreadline5 libsasl2-modules libssl1.1 openssl
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 73 not upgraded.
Need to get 774 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-szvnsf/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [774 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 774 B in 0s (0 B/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 15082 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                                                          |
+------------------------------------------------------------------------------+

Arch check ok (armhf included in any all)

+------------------------------------------------------------------------------+
| Install package build dependencies                                           |
+------------------------------------------------------------------------------+


Setup apt archive
-----------------

Merged Build-Depends: debhelper (>= 9), dh-python, libglpk-dev, python-all, python-all-dev, python-setuptools, python-six, cython, python3-all, python3-all-dev, python3-setuptools, python3-six, cython3, python-pytest, python3-pytest, python-jsonschema (>> 2.5.0), python-numpy, python-scipy, python3-jsonschema (>> 2.5.0), python3-numpy, python3-scipy
Filtered Build-Depends: debhelper (>= 9), dh-python, libglpk-dev, python-all, python-all-dev, python-setuptools, python-six, cython, python3-all, python3-all-dev, python3-setuptools, python3-six, cython3, python-pytest, python3-pytest, python-jsonschema (>> 2.5.0), python-numpy, python-scipy, python3-jsonschema (>> 2.5.0), python3-numpy, python3-scipy
dpkg-deb: building package 'sbuild-build-depends-python-cobra-dummy' in '/<<BUILDDIR>>/resolver-szvnsf/apt_archive/sbuild-build-depends-python-cobra-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-cobra-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-szvnsf/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-szvnsf/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-szvnsf/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-szvnsf/apt_archive ./ Sources [588 B]
Get:5 copy:/<<BUILDDIR>>/resolver-szvnsf/apt_archive ./ Packages [670 B]
Fetched 2591 B in 0s (10.1 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...

Install python-cobra 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 libreadline5 libsasl2-modules openssl
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
  autoconf automake autopoint autotools-dev bsdmainutils cpp-7 cython cython3
  debhelper dh-autoreconf dh-python dh-strip-nondeterminism file g++-7 gcc-7
  gcc-7-base gettext gettext-base groff-base intltool-debian libamd2
  libarchive-zip-perl libasan4 libatomic1 libblas-dev libblas3 libbsd0 libbtf1
  libcamd2 libcc1-0 libccolamd2 libcholmod3 libcilkrts5 libcolamd2 libcroco3
  libcxsparse3 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl
  libgcc-7-dev libgcc1 libgfortran4 libglib2.0-0 libglpk-dev libglpk40
  libgmp-dev libgmp10 libgmpxx4ldbl libgomp1 libicu57 libklu1 liblapack-dev
  liblapack3 libldl2 libltdl7 libmagic-mgc libmagic1 libmetis5 libmpdec2
  libpipeline1 libpython-all-dev libpython-dev libpython-stdlib libpython2.7
  libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libpython3-all-dev
  libpython3-dev libpython3-stdlib libpython3.5 libpython3.5-dev
  libpython3.5-minimal libpython3.5-stdlib libpython3.6 libpython3.6-dev
  libpython3.6-minimal libpython3.6-stdlib librbio2 libsigsegv2 libspqr2
  libstdc++-7-dev libstdc++6 libsuitesparse-dev libsuitesparseconfig4
  libtimedate-perl libtool libubsan0 libumfpack5 libxml2 m4 man-db
  mime-support po-debconf python python-all python-all-dev python-decorator
  python-dev python-funcsigs python-functools32 python-jsonschema
  python-minimal python-mock python-numpy python-pbr python-pkg-resources
  python-py python-pytest python-scipy python-setuptools python-six python2.7
  python2.7-dev python2.7-minimal python3 python3-all python3-all-dev
  python3-decorator python3-dev python3-jsonschema python3-minimal
  python3-numpy python3-pkg-resources python3-py python3-pytest python3-scipy
  python3-setuptools python3-six python3.5 python3.5-dev python3.5-minimal
  python3.6 python3.6-dev python3.6-minimal zlib1g-dev
Suggested packages:
  autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
  vacation gcc-7-locales cython-doc dh-make gcc-7-doc libstdc++6-7-dbg
  libgcc1-dbg libgomp1-dbg libitm1-dbg libatomic1-dbg libasan4-dbg
  liblsan0-dbg libtsan0-dbg libubsan0-dbg libcilkrts5-dbg libmpx2-dbg
  libquadmath0-dbg gettext-doc libasprintf-dev libgettextpo-dev groff
  liblapack-doc libiodbc2-dev default-libmysqlclient-dev gmp-doc libgmp10-doc
  libmpfr-dev libstdc++-7-doc libtool-doc gfortran | fortran95-compiler
  gcj-jdk m4-doc less www-browser libmail-box-perl python-doc python-tk
  python-funcsigs-doc python-mock-doc gfortran python-nose python-numpy-dbg
  python-numpy-doc subversion python-pytest-xdist python-scipy-doc
  python-setuptools-doc python2.7-doc binfmt-support python3-doc python3-tk
  python3-venv python3-nose python3-numpy-dbg python3.5-venv python3.5-doc
  python3.6-venv python3.6-doc
Recommended packages:
  curl | wget | lynx-cur libarchive-cpio-perl libglib2.0-data shared-mime-info
  xdg-user-dirs libltdl-dev libmail-sendmail-perl python-imaging
The following NEW packages will be installed:
  autoconf automake autopoint autotools-dev bsdmainutils cython cython3
  debhelper dh-autoreconf dh-python dh-strip-nondeterminism file gettext
  gettext-base groff-base intltool-debian libamd2 libarchive-zip-perl
  libblas-dev libblas3 libbsd0 libbtf1 libcamd2 libccolamd2 libcholmod3
  libcolamd2 libcroco3 libcxsparse3 libexpat1 libexpat1-dev
  libfile-stripnondeterminism-perl libgfortran4 libglib2.0-0 libglpk-dev
  libglpk40 libgmp-dev libgmpxx4ldbl libicu57 libklu1 liblapack-dev liblapack3
  libldl2 libltdl7 libmagic-mgc libmagic1 libmetis5 libmpdec2 libpipeline1
  libpython-all-dev libpython-dev libpython-stdlib libpython2.7
  libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libpython3-all-dev
  libpython3-dev libpython3-stdlib libpython3.5 libpython3.5-dev
  libpython3.5-minimal libpython3.5-stdlib libpython3.6 libpython3.6-dev
  libpython3.6-minimal libpython3.6-stdlib librbio2 libsigsegv2 libspqr2
  libsuitesparse-dev libsuitesparseconfig4 libtimedate-perl libtool
  libumfpack5 libxml2 m4 man-db mime-support po-debconf python python-all
  python-all-dev python-decorator python-dev python-funcsigs
  python-functools32 python-jsonschema python-minimal python-mock python-numpy
  python-pbr python-pkg-resources python-py python-pytest python-scipy
  python-setuptools python-six python2.7 python2.7-dev python2.7-minimal
  python3 python3-all python3-all-dev python3-decorator python3-dev
  python3-jsonschema python3-minimal python3-numpy python3-pkg-resources
  python3-py python3-pytest python3-scipy python3-setuptools python3-six
  python3.5 python3.5-dev python3.5-minimal python3.6 python3.6-dev
  python3.6-minimal sbuild-build-depends-python-cobra-dummy zlib1g-dev
The following packages will be upgraded:
  cpp-7 g++-7 gcc-7 gcc-7-base libasan4 libatomic1 libcc1-0 libcilkrts5
  libgcc-7-dev libgcc1 libgmp10 libgomp1 libstdc++-7-dev libstdc++6 libubsan0
15 upgraded, 122 newly installed, 0 to remove and 58 not upgraded.
Need to get 157 MB of archives.
After this operation, 99.9 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-szvnsf/apt_archive ./ sbuild-build-depends-python-cobra-dummy 0.invalid.0 [880 B]
Get:2 http://172.17.0.1/private buster-staging/main armhf libgomp1 armhf 7.2.0-11 [63.1 kB]
Get:3 http://172.17.0.1/private buster-staging/main armhf gcc-7-base armhf 7.2.0-11 [182 kB]
Get:4 http://172.17.0.1/private buster-staging/main armhf libgcc1 armhf 1:7.2.0-11 [38.6 kB]
Get:5 http://172.17.0.1/private buster-staging/main armhf libatomic1 armhf 7.2.0-11 [6732 B]
Get:6 http://172.17.0.1/private buster-staging/main armhf libasan4 armhf 7.2.0-11 [302 kB]
Get:7 http://172.17.0.1/private buster-staging/main armhf libubsan0 armhf 7.2.0-11 [106 kB]
Get:8 http://172.17.0.1/private buster-staging/main armhf libcilkrts5 armhf 7.2.0-11 [35.3 kB]
Get:9 http://172.17.0.1/private buster-staging/main armhf cpp-7 armhf 7.2.0-11 [5136 kB]
Get:10 http://172.17.0.1/private buster-staging/main armhf libcc1-0 armhf 7.2.0-11 [30.3 kB]
Get:11 http://172.17.0.1/private buster-staging/main armhf g++-7 armhf 7.2.0-11 [5585 kB]
Get:12 http://172.17.0.1/private buster-staging/main armhf gcc-7 armhf 7.2.0-11 [5458 kB]
Get:13 http://172.17.0.1/private buster-staging/main armhf libgcc-7-dev armhf 7.2.0-11 [670 kB]
Get:14 http://172.17.0.1/private buster-staging/main armhf libstdc++-7-dev armhf 7.2.0-11 [1500 kB]
Get:15 http://172.17.0.1/private buster-staging/main armhf libstdc++6 armhf 7.2.0-11 [335 kB]
Get:16 http://172.17.0.1/private buster-staging/main armhf libgmp10 armhf 2:6.1.2+dfsg-1.1 [187 kB]
Get:17 http://172.17.0.1/private buster-staging/main armhf groff-base armhf 1.22.3-9 [1005 kB]
Get:18 http://172.17.0.1/private buster-staging/main armhf libbsd0 armhf 0.8.6-2 [95.8 kB]
Get:19 http://172.17.0.1/private buster-staging/main armhf bsdmainutils armhf 9.0.14 [178 kB]
Get:20 http://172.17.0.1/private buster-staging/main armhf libpipeline1 armhf 1.4.2-1 [24.2 kB]
Get:21 http://172.17.0.1/private buster-staging/main armhf man-db armhf 2.7.6.1-2 [1014 kB]
Get:22 http://172.17.0.1/private buster-staging/main armhf libpython2.7-minimal armhf 2.7.14-2 [393 kB]
Get:23 http://172.17.0.1/private buster-staging/main armhf python2.7-minimal armhf 2.7.14-2 [1091 kB]
Get:24 http://172.17.0.1/private buster-staging/main armhf python-minimal armhf 2.7.14-1 [40.7 kB]
Get:25 http://172.17.0.1/private buster-staging/main armhf mime-support all 3.60 [36.7 kB]
Get:26 http://172.17.0.1/private buster-staging/main armhf libexpat1 armhf 2.2.3-1 [67.1 kB]
Get:27 http://172.17.0.1/private buster-staging/main armhf libpython2.7-stdlib armhf 2.7.14-2 [1854 kB]
Get:28 http://172.17.0.1/private buster-staging/main armhf python2.7 armhf 2.7.14-2 [292 kB]
Get:29 http://172.17.0.1/private buster-staging/main armhf libpython-stdlib armhf 2.7.14-1 [20.1 kB]
Get:30 http://172.17.0.1/private buster-staging/main armhf python armhf 2.7.14-1 [155 kB]
Get:31 http://172.17.0.1/private buster-staging/main armhf libpython3.6-minimal armhf 3.6.3-1 [564 kB]
Get:32 http://172.17.0.1/private buster-staging/main armhf python3.6-minimal armhf 3.6.3-1 [1232 kB]
Get:33 http://172.17.0.1/private buster-staging/main armhf python3-minimal armhf 3.6.3-1 [35.6 kB]
Get:34 http://172.17.0.1/private buster-staging/main armhf libmpdec2 armhf 2.4.2-1 [67.5 kB]
Get:35 http://172.17.0.1/private buster-staging/main armhf libpython3.6-stdlib armhf 3.6.3-1 [2055 kB]
Get:36 http://172.17.0.1/private buster-staging/main armhf python3.6 armhf 3.6.3-1 [218 kB]
Get:37 http://172.17.0.1/private buster-staging/main armhf libpython3-stdlib armhf 3.6.3-1 [19.0 kB]
Get:38 http://172.17.0.1/private buster-staging/main armhf dh-python all 2.20170125 [86.8 kB]
Get:39 http://172.17.0.1/private buster-staging/main armhf python3 armhf 3.6.3-1 [22.1 kB]
Get:40 http://172.17.0.1/private buster-staging/main armhf libpython3.5-minimal armhf 3.5.4-4 [572 kB]
Get:41 http://172.17.0.1/private buster-staging/main armhf python3.5-minimal armhf 3.5.4-4 [1431 kB]
Get:42 http://172.17.0.1/private buster-staging/main armhf libmagic-mgc armhf 1:5.32-1 [225 kB]
Get:43 http://172.17.0.1/private buster-staging/main armhf libmagic1 armhf 1:5.32-1 [105 kB]
Get:44 http://172.17.0.1/private buster-staging/main armhf file armhf 1:5.32-1 [63.7 kB]
Get:45 http://172.17.0.1/private buster-staging/main armhf gettext-base armhf 0.19.8.1-4 [117 kB]
Get:46 http://172.17.0.1/private buster-staging/main armhf libicu57 armhf 57.1-8 [7411 kB]
Get:47 http://172.17.0.1/private buster-staging/main armhf libxml2 armhf 2.9.4+dfsg1-5 [609 kB]
Get:48 http://172.17.0.1/private buster-staging/main armhf libsigsegv2 armhf 2.11-1 [29.3 kB]
Get:49 http://172.17.0.1/private buster-staging/main armhf m4 armhf 1.4.18-1 [185 kB]
Get:50 http://172.17.0.1/private buster-staging/main armhf autoconf all 2.69-11 [341 kB]
Get:51 http://172.17.0.1/private buster-staging/main armhf autotools-dev all 20161112.1+nmu1 [74.2 kB]
Get:52 http://172.17.0.1/private buster-staging/main armhf automake all 1:1.15.1-3 [736 kB]
Get:53 http://172.17.0.1/private buster-staging/main armhf autopoint all 0.19.8.1-4 [434 kB]
Get:54 http://172.17.0.1/private buster-staging/main armhf cython armhf 0.26.1-0.3+rpi1 [1748 kB]
Get:55 http://172.17.0.1/private buster-staging/main armhf cython3 armhf 0.26.1-0.3+rpi1 [2477 kB]
Get:56 http://172.17.0.1/private buster-staging/main armhf libtool all 2.4.6-2 [545 kB]
Get:57 http://172.17.0.1/private buster-staging/main armhf dh-autoreconf all 14 [15.9 kB]
Get:58 http://172.17.0.1/private buster-staging/main armhf libarchive-zip-perl all 1.59-1 [95.5 kB]
Get:59 http://172.17.0.1/private buster-staging/main armhf libfile-stripnondeterminism-perl all 0.039-1 [18.2 kB]
Get:60 http://172.17.0.1/private buster-staging/main armhf libtimedate-perl all 2.3000-2 [42.2 kB]
Get:61 http://172.17.0.1/private buster-staging/main armhf dh-strip-nondeterminism all 0.039-1 [11.6 kB]
Get:62 http://172.17.0.1/private buster-staging/main armhf libglib2.0-0 armhf 2.54.1-1 [2653 kB]
Get:63 http://172.17.0.1/private buster-staging/main armhf libcroco3 armhf 0.6.12-1 [132 kB]
Get:64 http://172.17.0.1/private buster-staging/main armhf gettext armhf 0.19.8.1-4 [1218 kB]
Get:65 http://172.17.0.1/private buster-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:66 http://172.17.0.1/private buster-staging/main armhf po-debconf all 1.0.20 [247 kB]
Get:67 http://172.17.0.1/private buster-staging/main armhf debhelper all 10.9.2 [979 kB]
Get:68 http://172.17.0.1/private buster-staging/main armhf libsuitesparseconfig4 armhf 1:4.5.6-1 [18.8 kB]
Get:69 http://172.17.0.1/private buster-staging/main armhf libamd2 armhf 1:4.5.6-1 [30.7 kB]
Get:70 http://172.17.0.1/private buster-staging/main armhf libgfortran4 armhf 7.2.0-11 [191 kB]
Get:71 http://172.17.0.1/private buster-staging/main armhf libblas3 armhf 3.7.1-4 [103 kB]
Get:72 http://172.17.0.1/private buster-staging/main armhf libblas-dev armhf 3.7.1-4 [112 kB]
Get:73 http://172.17.0.1/private buster-staging/main armhf libbtf1 armhf 1:4.5.6-1 [19.1 kB]
Get:74 http://172.17.0.1/private buster-staging/main armhf libcamd2 armhf 1:4.5.6-1 [25.6 kB]
Get:75 http://172.17.0.1/private buster-staging/main armhf libccolamd2 armhf 1:4.5.6-1 [26.4 kB]
Get:76 http://172.17.0.1/private buster-staging/main armhf libcolamd2 armhf 1:4.5.6-1 [23.4 kB]
Get:77 http://172.17.0.1/private buster-staging/main armhf liblapack3 armhf 3.7.1-4 [1508 kB]
Get:78 http://172.17.0.1/private buster-staging/main armhf libmetis5 armhf 5.1.0.dfsg-5 [131 kB]
Get:79 http://172.17.0.1/private buster-staging/main armhf libcholmod3 armhf 1:4.5.6-1 [205 kB]
Get:80 http://172.17.0.1/private buster-staging/main armhf libcxsparse3 armhf 1:4.5.6-1 [47.5 kB]
Get:81 http://172.17.0.1/private buster-staging/main armhf libexpat1-dev armhf 2.2.3-1 [120 kB]
Get:82 http://172.17.0.1/private buster-staging/main armhf libltdl7 armhf 2.4.6-2 [386 kB]
Get:83 http://172.17.0.1/private buster-staging/main armhf libglpk40 armhf 4.63-1 [335 kB]
Get:84 http://172.17.0.1/private buster-staging/main armhf libgmpxx4ldbl armhf 2:6.1.2+dfsg-1.1 [21.5 kB]
Get:85 http://172.17.0.1/private buster-staging/main armhf libgmp-dev armhf 2:6.1.2+dfsg-1.1 [561 kB]
Get:86 http://172.17.0.1/private buster-staging/main armhf zlib1g-dev armhf 1:1.2.8.dfsg-5 [198 kB]
Get:87 http://172.17.0.1/private buster-staging/main armhf libklu1 armhf 1:4.5.6-1 [46.6 kB]
Get:88 http://172.17.0.1/private buster-staging/main armhf libldl2 armhf 1:4.5.6-1 [19.0 kB]
Get:89 http://172.17.0.1/private buster-staging/main armhf libumfpack5 armhf 1:4.5.6-1 [124 kB]
Get:90 http://172.17.0.1/private buster-staging/main armhf librbio2 armhf 1:4.5.6-1 [27.6 kB]
Get:91 http://172.17.0.1/private buster-staging/main armhf libspqr2 armhf 1:4.5.6-1 [63.3 kB]
Get:92 http://172.17.0.1/private buster-staging/main armhf liblapack-dev armhf 3.7.1-4 [1564 kB]
Get:93 http://172.17.0.1/private buster-staging/main armhf libsuitesparse-dev armhf 1:4.5.6-1 [552 kB]
Get:94 http://172.17.0.1/private buster-staging/main armhf libglpk-dev armhf 4.63-1 [371 kB]
Get:95 http://172.17.0.1/private buster-staging/main armhf libpython2.7 armhf 2.7.14-2 [904 kB]
Get:96 http://172.17.0.1/private buster-staging/main armhf libpython2.7-dev armhf 2.7.14-2 [27.6 MB]
Get:97 http://172.17.0.1/private buster-staging/main armhf libpython-dev armhf 2.7.14-1 [20.1 kB]
Get:98 http://172.17.0.1/private buster-staging/main armhf libpython-all-dev armhf 2.7.14-1 [958 B]
Get:99 http://172.17.0.1/private buster-staging/main armhf libpython3.6 armhf 3.6.3-1 [1228 kB]
Get:100 http://172.17.0.1/private buster-staging/main armhf libpython3.6-dev armhf 3.6.3-1 [2252 kB]
Get:101 http://172.17.0.1/private buster-staging/main armhf libpython3-dev armhf 3.6.3-1 [19.1 kB]
Get:102 http://172.17.0.1/private buster-staging/main armhf libpython3.5-stdlib armhf 3.5.4-4 [2095 kB]
Get:103 http://172.17.0.1/private buster-staging/main armhf libpython3.5 armhf 3.5.4-4 [1160 kB]
Get:104 http://172.17.0.1/private buster-staging/main armhf libpython3.5-dev armhf 3.5.4-4 [37.1 MB]
Get:105 http://172.17.0.1/private buster-staging/main armhf libpython3-all-dev armhf 3.6.3-1 [972 B]
Get:106 http://172.17.0.1/private buster-staging/main armhf python-all armhf 2.7.14-1 [942 B]
Get:107 http://172.17.0.1/private buster-staging/main armhf python2.7-dev armhf 2.7.14-2 [295 kB]
Get:108 http://172.17.0.1/private buster-staging/main armhf python-dev armhf 2.7.14-1 [1130 B]
Get:109 http://172.17.0.1/private buster-staging/main armhf python-all-dev armhf 2.7.14-1 [964 B]
Get:110 http://172.17.0.1/private buster-staging/main armhf python-decorator all 4.1.2-1 [13.7 kB]
Get:111 http://172.17.0.1/private buster-staging/main armhf python-funcsigs all 1.0.2-3 [13.3 kB]
Get:112 http://172.17.0.1/private buster-staging/main armhf python-functools32 all 3.2.3.2-3 [11.0 kB]
Get:113 http://172.17.0.1/private buster-staging/main armhf python-pkg-resources all 36.2.7-2 [169 kB]
Get:114 http://172.17.0.1/private buster-staging/main armhf python-six all 1.11.0-1 [14.9 kB]
Get:115 http://172.17.0.1/private buster-staging/main armhf python-pbr all 1.10.0-1 [52.4 kB]
Get:116 http://172.17.0.1/private buster-staging/main armhf python-mock all 2.0.0-3 [59.8 kB]
Get:117 http://172.17.0.1/private buster-staging/main armhf python3-pkg-resources all 36.2.7-2 [140 kB]
Get:118 http://172.17.0.1/private buster-staging/main armhf python-jsonschema all 2.5.1-6 [32.7 kB]
Get:119 http://172.17.0.1/private buster-staging/main armhf python-numpy armhf 1:1.13.1-1 [1727 kB]
Get:120 http://172.17.0.1/private buster-staging/main armhf python-py all 1.4.34-3 [83.5 kB]
Get:121 http://172.17.0.1/private buster-staging/main armhf python-pytest all 3.2.1-2 [200 kB]
Get:122 http://172.17.0.1/private buster-staging/main armhf python-setuptools all 36.2.7-2 [302 kB]
Get:123 http://172.17.0.1/private buster-staging/main armhf python3.5 armhf 3.5.4-4 [241 kB]
Get:124 http://172.17.0.1/private buster-staging/main armhf python3-all armhf 3.6.3-1 [946 B]
Get:125 http://172.17.0.1/private buster-staging/main armhf python3.6-dev armhf 3.6.3-1 [510 kB]
Get:126 http://172.17.0.1/private buster-staging/main armhf python3-dev armhf 3.6.3-1 [1158 B]
Get:127 http://172.17.0.1/private buster-staging/main armhf python3.5-dev armhf 3.5.4-4 [429 kB]
Get:128 http://172.17.0.1/private buster-staging/main armhf python3-all-dev armhf 3.6.3-1 [972 B]
Get:129 http://172.17.0.1/private buster-staging/main armhf python3-decorator all 4.1.2-1 [13.7 kB]
Get:130 http://172.17.0.1/private buster-staging/main armhf python3-jsonschema all 2.5.1-6 [32.5 kB]
Get:131 http://172.17.0.1/private buster-staging/main armhf python3-numpy armhf 1:1.13.1-1 [1885 kB]
Get:132 http://172.17.0.1/private buster-staging/main armhf python3-py all 1.4.34-3 [83.6 kB]
Get:133 http://172.17.0.1/private buster-staging/main armhf python3-pytest all 3.2.1-2 [200 kB]
Get:134 http://172.17.0.1/private buster-staging/main armhf python3-setuptools all 36.2.7-2 [220 kB]
Get:135 http://172.17.0.1/private buster-staging/main armhf python3-six all 1.11.0-1 [15.0 kB]
Get:136 http://172.17.0.1/private buster-staging/main armhf python-scipy armhf 0.19.1-1 [8548 kB]
Get:137 http://172.17.0.1/private buster-staging/main armhf python3-scipy armhf 0.19.1-1 [9522 kB]
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Setting up libgomp1:armhf (7.2.0-11) ...
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No schema files found: doing nothing.
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Setting up libpipeline1:armhf (1.4.2-1) ...
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Setting up libamd2:armhf (1:4.5.6-1) ...
Setting up libblas3:armhf (3.7.1-4) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode
Processing triggers for libc-bin (2.24-14) ...
Setting up autotools-dev (20161112.1+nmu1) ...
Setting up libmetis5:armhf (5.1.0.dfsg-5) ...
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Setting up libccolamd2:armhf (1:4.5.6-1) ...
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update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode
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Setting up libpython2.7-stdlib:armhf (2.7.14-2) ...
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Setting up libpython3.6-stdlib:armhf (3.6.3-1) ...
Setting up libcxsparse3:armhf (1:4.5.6-1) ...
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update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so to provide /usr/lib/arm-linux-gnueabihf/libblas.so (libblas.so-arm-linux-gnueabihf) in auto mode
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update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode
Setting up libpython3.5-stdlib:armhf (3.5.4-4) ...
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Setting up python2.7 (2.7.14-2) ...
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Setting up libcholmod3:armhf (1:4.5.6-1) ...
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Setting up intltool-debian (0.35.0+20060710.4) ...
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update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode
Setting up man-db (2.7.6.1-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libpython2.7-dev:armhf (2.7.14-2) ...
Setting up python2.7-dev (2.7.14-2) ...
Setting up python (2.7.14-1) ...
Setting up libspqr2:armhf (1:4.5.6-1) ...
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Setting up liblapack-dev:armhf (3.7.1-4) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so to provide /usr/lib/arm-linux-gnueabihf/liblapack.so (liblapack.so-arm-linux-gnueabihf) in auto mode
Setting up libtool (2.4.6-2) ...
Setting up python3.5 (3.5.4-4) ...
Setting up libpython3-stdlib:armhf (3.6.3-1) ...
Setting up libpython-dev:armhf (2.7.14-1) ...
Setting up python-functools32 (3.2.3.2-3) ...
Setting up po-debconf (1.0.20) ...
Setting up libpython3.5:armhf (3.5.4-4) ...
Setting up python-dev (2.7.14-1) ...
Setting up libpython-all-dev:armhf (2.7.14-1) ...
Setting up libumfpack5:armhf (1:4.5.6-1) ...
Setting up python-pkg-resources (36.2.7-2) ...
Setting up libpython3.6-dev:armhf (3.6.3-1) ...
Setting up libpython3.5-dev:armhf (3.5.4-4) ...
Setting up python-numpy (1:1.13.1-1) ...
Setting up cython (0.26.1-0.3+rpi1) ...
Setting up python-six (1.11.0-1) ...
Setting up python-pbr (1.10.0-1) ...
update-alternatives: using /usr/bin/python2-pbr to provide /usr/bin/pbr (pbr) in auto mode
Setting up python-funcsigs (1.0.2-3) ...
Setting up libsuitesparse-dev:armhf (1:4.5.6-1) ...
Setting up python-decorator (4.1.2-1) ...
Setting up python3.6-dev (3.6.3-1) ...
Setting up python3.5-dev (3.5.4-4) ...
Setting up python-all (2.7.14-1) ...
Setting up libglpk-dev:armhf (4.63-1) ...
Setting up libpython3-dev:armhf (3.6.3-1) ...
Setting up python-setuptools (36.2.7-2) ...
Setting up python-scipy (0.19.1-1) ...
Setting up python-py (1.4.34-3) ...
Setting up python-mock (2.0.0-3) ...
Setting up python-pytest (3.2.1-2) ...
Setting up python-all-dev (2.7.14-1) ...
Setting up libpython3-all-dev:armhf (3.6.3-1) ...
Setting up dh-autoreconf (14) ...
Setting up python3 (3.6.3-1) ...
Setting up python3-numpy (1:1.13.1-1) ...
Setting up python3-six (1.11.0-1) ...
Setting up python3-dev (3.6.3-1) ...
Setting up python3-pkg-resources (36.2.7-2) ...
Setting up python3-jsonschema (2.5.1-6) ...
update-alternatives: using /usr/bin/python3-jsonschema to provide /usr/bin/jsonschema (jsonschema) in auto mode
Setting up dh-strip-nondeterminism (0.039-1) ...
Setting up python3-all (3.6.3-1) ...
Setting up cython3 (0.26.1-0.3+rpi1) ...
Setting up python3-setuptools (36.2.7-2) ...
Setting up dh-python (2.20170125) ...
Setting up python3-decorator (4.1.2-1) ...
Setting up debhelper (10.9.2) ...
Setting up python-jsonschema (2.5.1-6) ...
update-alternatives: using /usr/bin/python2-jsonschema to provide /usr/bin/jsonschema (jsonschema) in auto mode
Setting up python3-scipy (0.19.1-1) ...
Setting up python3-py (1.4.34-3) ...
Setting up python3-all-dev (3.6.3-1) ...
Setting up python3-pytest (3.2.1-2) ...
Setting up sbuild-build-depends-python-cobra-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.24-14) ...
W: No sandbox user '_apt' on the system, can not drop privileges

+------------------------------------------------------------------------------+
| Build environment                                                            |
+------------------------------------------------------------------------------+

Kernel: Linux 4.4.0-79-generic armhf (armv8l)
Toolchain package versions: binutils_2.29.1-3+rpi1 dpkg-dev_1.18.24 g++-7_7.2.0-11 gcc-7_7.2.0-11 libc6-dev_2.24-14 libstdc++-7-dev_7.2.0-11 libstdc++6_7.2.0-11 linux-libc-dev_4.9.30-2+deb9u2+rpi1+stretch
Package versions: adduser_3.116 apt_1.5 autoconf_2.69-11 automake_1:1.15.1-3 autopoint_0.19.8.1-4 autotools-dev_20161112.1+nmu1 base-files_10+rpi1 base-passwd_3.5.44 bash_4.4-5 binutils_2.29.1-3+rpi1 binutils-arm-linux-gnueabihf_2.29.1-3+rpi1 binutils-common_2.29.1-3+rpi1 bsdmainutils_9.0.14 bsdutils_1:2.29.2-5 build-essential_12.4 bzip2_1.0.6-8.1 ca-certificates_20170717 coreutils_8.26-3 cpio_2.11+dfsg-6 cpp_4:7.2.0-1d1 cpp-7_7.2.0-11 cython_0.26.1-0.3+rpi1 cython3_0.26.1-0.3+rpi1 dash_0.5.8-2.5 debconf_1.5.63 debhelper_10.9.2 debianutils_4.8.2 dh-autoreconf_14 dh-python_2.20170125 dh-strip-nondeterminism_0.039-1 diffutils_1:3.6-1 dirmngr_2.2.1-1 dmsetup_2:1.02.142-1 dpkg_1.18.24 dpkg-dev_1.18.24 e2fslibs_1.43.6-1 e2fsprogs_1.43.6-1 fakeroot_1.22-1 fdisk_2.29.2-5 file_1:5.32-1 findutils_4.6.0+git+20170729-2 g++_4:7.2.0-1d1 g++-7_7.2.0-11 gcc_4:7.2.0-1d1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.5-4 gcc-4.9-base_4.9.3-14 gcc-5-base_5.4.1-4 gcc-7_7.2.0-11 gcc-7-base_7.2.0-11 gettext_0.19.8.1-4 gettext-base_0.19.8.1-4 gnupg_2.2.1-1 gnupg-agent_2.2.1-1 gnupg-l10n_2.2.1-1 gnupg-utils_2.2.1-1 gpg_2.2.1-1 gpg-agent_2.2.1-1 gpg-wks-client_2.2.1-1 gpg-wks-server_2.2.1-1 gpgconf_2.2.1-1 gpgsm_2.2.1-1 gpgv_2.2.1-1 grep_3.1-2 groff-base_1.22.3-9 gzip_1.6-5 hostname_3.18 init-system-helpers_1.49 initramfs-tools_0.130 initramfs-tools-core_0.130 intltool-debian_0.35.0+20060710.4 klibc-utils_2.0.4-9+rpi1 kmod_24-1 libacl1_2.2.52-3 libamd2_1:4.5.6-1 libapparmor1_2.11.0-11 libapt-pkg5.0_1.5 libarchive-zip-perl_1.59-1 libasan4_7.2.0-11 libassuan0_2.4.3-3 libatomic1_7.2.0-11 libattr1_1:2.4.47-2 libaudit-common_1:2.7.7-1 libaudit1_1:2.7.7-1+b1 libbinutils_2.29.1-3+rpi1 libblas-dev_3.7.1-4 libblas3_3.7.1-4 libblkid1_2.29.2-5 libbsd0_0.8.6-2 libbtf1_1:4.5.6-1 libbz2-1.0_1.0.6-8.1 libc-bin_2.24-14 libc-dev-bin_2.24-14 libc6_2.24-14 libc6-dev_2.24-14 libcamd2_1:4.5.6-1 libcap-ng0_0.7.7-3 libcap2_1:2.25-1 libcc1-0_7.2.0-11 libccolamd2_1:4.5.6-1 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m4_1.4.18-1 make_4.1-9.1 makedev_2.3.1-93 man-db_2.7.6.1-2 mawk_1.3.3-17 mime-support_3.60 mount_2.29.2-5 mountall_2.54 multiarch-support_2.24-14 ncurses-base_6.0+20170902-1 ncurses-bin_6.0+20170902-1 openssl_1.1.0f-5 passwd_1:4.4-4.1 patch_2.7.5-1 perl_5.26.0-8 perl-base_5.26.0-8 perl-modules-5.24_5.24.1-7 perl-modules-5.26_5.26.0-8 pinentry-curses_1.0.0-2 plymouth_0.9.3-1 po-debconf_1.0.20 procps_2:3.3.12-3 python_2.7.14-1 python-all_2.7.14-1 python-all-dev_2.7.14-1 python-decorator_4.1.2-1 python-dev_2.7.14-1 python-funcsigs_1.0.2-3 python-functools32_3.2.3.2-3 python-jsonschema_2.5.1-6 python-minimal_2.7.14-1 python-mock_2.0.0-3 python-numpy_1:1.13.1-1 python-pbr_1.10.0-1 python-pkg-resources_36.2.7-2 python-py_1.4.34-3 python-pytest_3.2.1-2 python-scipy_0.19.1-1 python-setuptools_36.2.7-2 python-six_1.11.0-1 python2.7_2.7.14-2 python2.7-dev_2.7.14-2 python2.7-minimal_2.7.14-2 python3_3.6.3-1 python3-all_3.6.3-1 python3-all-dev_3.6.3-1 python3-decorator_4.1.2-1 python3-dev_3.6.3-1 python3-jsonschema_2.5.1-6 python3-minimal_3.6.3-1 python3-numpy_1:1.13.1-1 python3-pkg-resources_36.2.7-2 python3-py_1.4.34-3 python3-pytest_3.2.1-2 python3-scipy_0.19.1-1 python3-setuptools_36.2.7-2 python3-six_1.11.0-1 python3.5_3.5.4-4 python3.5-dev_3.5.4-4 python3.5-minimal_3.5.4-4 python3.6_3.6.3-1 python3.6-dev_3.6.3-1 python3.6-minimal_3.6.3-1 raspbian-archive-keyring_20120528.2 readline-common_7.0-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-python-cobra-dummy_0.invalid.0 sed_4.4-1 sensible-utils_0.0.10 systemd_234-3 sysvinit-utils_2.88dsf-59.10 tar_1.29b-2 tzdata_2017b-2 udev_234-3 util-linux_2.29.2-5 xz-utils_5.2.2-1.3 zlib1g_1:1.2.8.dfsg-5 zlib1g-dev_1:1.2.8.dfsg-5

+------------------------------------------------------------------------------+
| Build                                                                        |
+------------------------------------------------------------------------------+


Unpack source
-------------

gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Wed Jan 25 09:25:22 2017 UTC
gpgv:                using RSA key 59B2306F3AF9DDC1
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./python-cobra_0.5.9-1.dsc
dpkg-source: info: extracting python-cobra in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking python-cobra_0.5.9.orig.tar.gz
dpkg-source: info: unpacking python-cobra_0.5.9-1.debian.tar.xz
dpkg-source: info: applying mathjax.patch
dpkg-source: info: applying exclude-pytest-benchmark.patch

Check disk space
----------------

Sufficient free space for build

Hack binNMU version
-------------------

Created changelog entry for binNMU version 0.5.9-1+b1

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-f33a44a4-e45f-4427-a93a-99933c9a4d63
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd

dpkg-buildpackage
-----------------

dpkg-buildpackage: info: source package python-cobra
dpkg-buildpackage: info: source version 0.5.9-1+b1
dpkg-buildpackage: info: source distribution buster-staging
 dpkg-source --before-build python-cobra-0.5.9
dpkg-buildpackage: info: host architecture armhf
 fakeroot debian/rules clean
dh clean --with python2,python3 --buildsystem=pybuild
   debian/rules override_dh_auto_clean
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_clean
I: pybuild base:184: python2.7 setup.py clean 
Could not autodetect include and library dirs: Command '['which', 'glpsol']' returned non-zero exit status 1
[1/1] Cythonizing cobra/solvers/cglpk.pyx
running clean
removing '/<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/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
I: pybuild base:184: python3.5 setup.py clean 
Could not autodetect include and library dirs: Command '['which', 'glpsol']' returned non-zero exit status 1
[1/1] Cythonizing cobra/solvers/cglpk.pyx
running clean
removing '/<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build' (and everything under it)
'build/bdist.linux-armhf' does not exist -- can't clean it
'build/scripts-3.5' does not exist -- can't clean it
I: pybuild base:184: python3.6 setup.py clean 
Could not autodetect include and library dirs: Command '['which', 'glpsol']' returned non-zero exit status 1.
[1/1] Cythonizing cobra/solvers/cglpk.pyx
running clean
removing '/<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/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 -f cobra/solvers/cglpk.c
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
   dh_clean -O--buildsystem=pybuild
 debian/rules build-arch
dh build-arch --with python2,python3 --buildsystem=pybuild
   dh_update_autotools_config -a -O--buildsystem=pybuild
   dh_auto_configure -a -O--buildsystem=pybuild
I: pybuild base:184: python2.7 setup.py config 
Could not autodetect include and library dirs: Command '['which', 'glpsol']' returned non-zero exit status 1
[1/1] Cythonizing cobra/solvers/cglpk.pyx
running config
I: pybuild base:184: python3.5 setup.py config 
Could not autodetect include and library dirs: Command '['which', 'glpsol']' returned non-zero exit status 1
[1/1] Cythonizing cobra/solvers/cglpk.pyx
running config
I: pybuild base:184: python3.6 setup.py config 
Could not autodetect include and library dirs: Command '['which', 'glpsol']' returned non-zero exit status 1.
[1/1] Cythonizing cobra/solvers/cglpk.pyx
running config
   dh_auto_build -a -O--buildsystem=pybuild
I: pybuild base:184: /usr/bin/python setup.py build 
Could not autodetect include and library dirs: Command '['which', 'glpsol']' returned non-zero exit status 1
[1/1] Cythonizing cobra/solvers/cglpk.pyx
running build
running build_py
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra
copying cobra/version.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra
copying cobra/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/topology
copying cobra/topology/reporter_metabolites.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/topology
copying cobra/topology/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/topology
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/flux_analysis
copying cobra/flux_analysis/single_deletion.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/flux_analysis
copying cobra/flux_analysis/variability.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/flux_analysis
copying cobra/flux_analysis/parsimonious.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/flux_analysis
copying cobra/flux_analysis/summary.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/flux_analysis
copying cobra/flux_analysis/moma.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/flux_analysis
copying cobra/flux_analysis/double_deletion.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/flux_analysis
copying cobra/flux_analysis/reaction.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/flux_analysis
copying cobra/flux_analysis/essentiality.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/flux_analysis
copying cobra/flux_analysis/deletion_worker.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/flux_analysis
copying cobra/flux_analysis/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/flux_analysis
copying cobra/flux_analysis/loopless.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/flux_analysis
copying cobra/flux_analysis/gapfilling.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/flux_analysis
copying cobra/flux_analysis/phenotype_phase_plane.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/flux_analysis
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/core
copying cobra/core/Species.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/core
copying cobra/core/Solution.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/core
copying cobra/core/ArrayBasedModel.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/core
copying cobra/core/Formula.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/core
copying cobra/core/Gene.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/core
copying cobra/core/Object.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/core
copying cobra/core/Reaction.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/core
copying cobra/core/Model.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/core
copying cobra/core/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/core
copying cobra/core/Metabolite.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/core
copying cobra/core/DictList.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/core
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/design
copying cobra/design/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/design
copying cobra/design/design_algorithms.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/design
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test
copying cobra/test/test_design.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test
copying cobra/test/test_dictlist.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test
copying cobra/test/test_model.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test
copying cobra/test/test_flux_analysis.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test
copying cobra/test/conftest.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test
copying cobra/test/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test
copying cobra/test/test_solvers.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test
copying cobra/test/test_io.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test
copying cobra/test/test_manipulation.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/manipulation
copying cobra/manipulation/validate.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/manipulation
copying cobra/manipulation/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/manipulation
copying cobra/manipulation/annotate.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/manipulation
copying cobra/manipulation/modify.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/manipulation
copying cobra/manipulation/delete.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/manipulation
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/solvers
copying cobra/solvers/cplex_solver.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/solvers
copying cobra/solvers/coin.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/solvers
copying cobra/solvers/glpk_solver_java.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/solvers
copying cobra/solvers/cplex_solver_java.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/solvers
copying cobra/solvers/wrappers.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/solvers
copying cobra/solvers/mosek.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/solvers
copying cobra/solvers/gurobi_solver_java.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/solvers
copying cobra/solvers/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/solvers
copying cobra/solvers/esolver.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/solvers
copying cobra/solvers/parameters.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/solvers
copying cobra/solvers/gurobi_solver.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/solvers
copying cobra/solvers/glpk_solver.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/solvers
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/io
copying cobra/io/json.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/io
copying cobra/io/sbml.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/io
copying cobra/io/sbml3.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/io
copying cobra/io/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/io
copying cobra/io/mat.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/io
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/mini_fbc2.xml.bz2 -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/iJO1366.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/mini_cobra.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/mini_fbc2.xml.gz -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/invalid1.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/invalid2.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/mini.json -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/textbook.xml.gz -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/salmonella.pickle -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/textbook_fva.json -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/raven.mat -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/raven.pickle -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/textbook_solution.pickle -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/salmonella.media -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/iJO1366.pickle -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/salmonella.genes -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/update_pickles.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/mini.pickle -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/mini_fbc1.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/salmonella.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/mini.mat -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/invalid0.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/test/data/mini_fbc2.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/test/data
copying cobra/VERSION -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra
running build_ext
building 'cobra.solvers.cglpk' extension
creating build
creating build/temp.linux-armhf-2.7
creating build/temp.linux-armhf-2.7/cobra
creating build/temp.linux-armhf-2.7/cobra/solvers
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -c cobra/solvers/cglpk.c -o build/temp.linux-armhf-2.7/cobra/solvers/cglpk.o
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-LSpDd8/python2.7-2.7.14=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-2.7/cobra/solvers/cglpk.o -lglpk -o /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/solvers/cglpk.so
I: pybuild base:184: /usr/bin/python3.5 setup.py build 
Could not autodetect include and library dirs: Command '['which', 'glpsol']' returned non-zero exit status 1
[1/1] Cythonizing cobra/solvers/cglpk.pyx
running build
running build_py
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra
copying cobra/version.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra
copying cobra/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/topology
copying cobra/topology/reporter_metabolites.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/topology
copying cobra/topology/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/topology
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/flux_analysis
copying cobra/flux_analysis/single_deletion.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/flux_analysis
copying cobra/flux_analysis/variability.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/flux_analysis
copying cobra/flux_analysis/parsimonious.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/flux_analysis
copying cobra/flux_analysis/summary.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/flux_analysis
copying cobra/flux_analysis/moma.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/flux_analysis
copying cobra/flux_analysis/double_deletion.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/flux_analysis
copying cobra/flux_analysis/reaction.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/flux_analysis
copying cobra/flux_analysis/essentiality.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/flux_analysis
copying cobra/flux_analysis/deletion_worker.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/flux_analysis
copying cobra/flux_analysis/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/flux_analysis
copying cobra/flux_analysis/loopless.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/flux_analysis
copying cobra/flux_analysis/gapfilling.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/flux_analysis
copying cobra/flux_analysis/phenotype_phase_plane.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/flux_analysis
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/core
copying cobra/core/Species.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/core
copying cobra/core/Solution.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/core
copying cobra/core/ArrayBasedModel.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/core
copying cobra/core/Formula.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/core
copying cobra/core/Gene.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/core
copying cobra/core/Object.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/core
copying cobra/core/Reaction.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/core
copying cobra/core/Model.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/core
copying cobra/core/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/core
copying cobra/core/Metabolite.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/core
copying cobra/core/DictList.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/core
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/design
copying cobra/design/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/design
copying cobra/design/design_algorithms.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/design
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test
copying cobra/test/test_design.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test
copying cobra/test/test_dictlist.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test
copying cobra/test/test_model.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test
copying cobra/test/test_flux_analysis.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test
copying cobra/test/conftest.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test
copying cobra/test/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test
copying cobra/test/test_solvers.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test
copying cobra/test/test_io.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test
copying cobra/test/test_manipulation.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/manipulation
copying cobra/manipulation/validate.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/manipulation
copying cobra/manipulation/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/manipulation
copying cobra/manipulation/annotate.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/manipulation
copying cobra/manipulation/modify.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/manipulation
copying cobra/manipulation/delete.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/manipulation
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/solvers
copying cobra/solvers/cplex_solver.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/solvers
copying cobra/solvers/coin.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/solvers
copying cobra/solvers/glpk_solver_java.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/solvers
copying cobra/solvers/cplex_solver_java.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/solvers
copying cobra/solvers/wrappers.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/solvers
copying cobra/solvers/mosek.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/solvers
copying cobra/solvers/gurobi_solver_java.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/solvers
copying cobra/solvers/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/solvers
copying cobra/solvers/esolver.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/solvers
copying cobra/solvers/parameters.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/solvers
copying cobra/solvers/gurobi_solver.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/solvers
copying cobra/solvers/glpk_solver.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/solvers
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/io
copying cobra/io/json.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/io
copying cobra/io/sbml.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/io
copying cobra/io/sbml3.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/io
copying cobra/io/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/io
copying cobra/io/mat.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/io
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/mini_fbc2.xml.bz2 -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/iJO1366.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/mini_cobra.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/mini_fbc2.xml.gz -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/invalid1.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/invalid2.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/mini.json -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/textbook.xml.gz -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/salmonella.pickle -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/textbook_fva.json -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/raven.mat -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/raven.pickle -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/textbook_solution.pickle -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/salmonella.media -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/iJO1366.pickle -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/salmonella.genes -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/update_pickles.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/mini.pickle -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/mini_fbc1.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/salmonella.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/mini.mat -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/invalid0.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/test/data/mini_fbc2.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/test/data
copying cobra/VERSION -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra
running build_ext
building 'cobra.solvers.cglpk' extension
creating build/temp.linux-armhf-3.5
creating build/temp.linux-armhf-3.5/cobra
creating build/temp.linux-armhf-3.5/cobra/solvers
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.5m -c cobra/solvers/cglpk.c -o build/temp.linux-armhf-3.5/cobra/solvers/cglpk.o
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.5/cobra/solvers/cglpk.o -lglpk -o /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/solvers/cglpk.cpython-35m-arm-linux-gnueabihf.so
I: pybuild base:184: /usr/bin/python3 setup.py build 
Could not autodetect include and library dirs: Command '['which', 'glpsol']' returned non-zero exit status 1.
[1/1] Cythonizing cobra/solvers/cglpk.pyx
running build
running build_py
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra
copying cobra/version.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra
copying cobra/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/topology
copying cobra/topology/reporter_metabolites.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/topology
copying cobra/topology/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/topology
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/flux_analysis
copying cobra/flux_analysis/single_deletion.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/flux_analysis
copying cobra/flux_analysis/variability.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/flux_analysis
copying cobra/flux_analysis/parsimonious.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/flux_analysis
copying cobra/flux_analysis/summary.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/flux_analysis
copying cobra/flux_analysis/moma.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/flux_analysis
copying cobra/flux_analysis/double_deletion.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/flux_analysis
copying cobra/flux_analysis/reaction.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/flux_analysis
copying cobra/flux_analysis/essentiality.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/flux_analysis
copying cobra/flux_analysis/deletion_worker.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/flux_analysis
copying cobra/flux_analysis/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/flux_analysis
copying cobra/flux_analysis/loopless.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/flux_analysis
copying cobra/flux_analysis/gapfilling.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/flux_analysis
copying cobra/flux_analysis/phenotype_phase_plane.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/flux_analysis
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/core
copying cobra/core/Species.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/core
copying cobra/core/Solution.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/core
copying cobra/core/ArrayBasedModel.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/core
copying cobra/core/Formula.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/core
copying cobra/core/Gene.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/core
copying cobra/core/Object.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/core
copying cobra/core/Reaction.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/core
copying cobra/core/Model.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/core
copying cobra/core/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/core
copying cobra/core/Metabolite.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/core
copying cobra/core/DictList.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/core
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/design
copying cobra/design/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/design
copying cobra/design/design_algorithms.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/design
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test
copying cobra/test/test_design.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test
copying cobra/test/test_dictlist.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test
copying cobra/test/test_model.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test
copying cobra/test/test_flux_analysis.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test
copying cobra/test/conftest.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test
copying cobra/test/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test
copying cobra/test/test_solvers.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test
copying cobra/test/test_io.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test
copying cobra/test/test_manipulation.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/manipulation
copying cobra/manipulation/validate.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/manipulation
copying cobra/manipulation/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/manipulation
copying cobra/manipulation/annotate.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/manipulation
copying cobra/manipulation/modify.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/manipulation
copying cobra/manipulation/delete.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/manipulation
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/solvers
copying cobra/solvers/cplex_solver.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/solvers
copying cobra/solvers/coin.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/solvers
copying cobra/solvers/glpk_solver_java.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/solvers
copying cobra/solvers/cplex_solver_java.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/solvers
copying cobra/solvers/wrappers.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/solvers
copying cobra/solvers/mosek.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/solvers
copying cobra/solvers/gurobi_solver_java.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/solvers
copying cobra/solvers/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/solvers
copying cobra/solvers/esolver.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/solvers
copying cobra/solvers/parameters.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/solvers
copying cobra/solvers/gurobi_solver.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/solvers
copying cobra/solvers/glpk_solver.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/solvers
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/io
copying cobra/io/json.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/io
copying cobra/io/sbml.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/io
copying cobra/io/sbml3.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/io
copying cobra/io/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/io
copying cobra/io/mat.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/io
creating /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/mini_fbc2.xml.bz2 -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/iJO1366.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/mini_cobra.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/mini_fbc2.xml.gz -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/invalid1.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/invalid2.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/mini.json -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/textbook.xml.gz -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/salmonella.pickle -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/textbook_fva.json -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/raven.mat -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/raven.pickle -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/textbook_solution.pickle -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/salmonella.media -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/iJO1366.pickle -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/salmonella.genes -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/update_pickles.py -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/mini.pickle -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/mini_fbc1.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/salmonella.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/mini.mat -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/invalid0.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/test/data/mini_fbc2.xml -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/test/data
copying cobra/VERSION -> /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra
running build_ext
building 'cobra.solvers.cglpk' extension
creating build/temp.linux-armhf-3.6
creating build/temp.linux-armhf-3.6/cobra
creating build/temp.linux-armhf-3.6/cobra/solvers
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.6m -c cobra/solvers/cglpk.c -o build/temp.linux-armhf-3.6/cobra/solvers/cglpk.o
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,relro -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.6/cobra/solvers/cglpk.o -lglpk -o /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.6/build/cobra/solvers/cglpk.cpython-36m-arm-linux-gnueabihf.so
   dh_auto_test -a -O--buildsystem=pybuild
I: pybuild base:184: cd /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build; python2.7 -m pytest 
============================= test session starts ==============================
platform linux2 -- Python 2.7.14, pytest-3.2.1, py-1.4.34, pluggy-0.4.0
rootdir: /<<PKGBUILDDIR>>, inifile:
/<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/core/__init__.py:19: UserWarning: ArrayBasedModel requires scipy
  warn("ArrayBasedModel requires scipy")
/<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/io/sbml3.py:24: UserWarning: Install lxml for faster SBML I/O
  warn("Install lxml for faster SBML I/O")
/<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/io/__init__.py:12: UserWarning: cobra.io.sbml requires libsbml
  warn("cobra.io.sbml requires libsbml")
/<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/io/__init__.py:21: UserWarning: cobra.io.mat requires scipy
  warn("cobra.io.mat requires scipy")
/<<PKGBUILDDIR>>/.pybuild/pythonX.Y_2.7/build/cobra/flux_analysis/essentiality.py:5: UserWarning: moma does not appear to be functional on your system
  warn("moma does not appear to be functional on your system")
collected 149 items

cobra/test/test_design.py ....
cobra/test/test_dictlist.py ...................
cobra/test/test_flux_analysis.py ..s........ss
cobra/test/test_io.py ............ssssssssssssssss.............ssssss.ss...ssss.....
cobra/test/test_manipulation.py ............
cobra/test/test_model.py .......................ssss
cobra/test/test_solvers.py ...........s

=============================== warnings summary ===============================
.pybuild/pythonX.Y_2.7/build/cobra/test/test_manipulation.py::TestManipulation::()::test_validate_mass_balance
  cobra/core/Metabolite.py:56 UserWarning: invalid formula (has parenthesis) in '()'

-- Docs: http://doc.pytest.org/en/latest/warnings.html
============= 113 passed, 36 skipped, 1 warnings in 18.68 seconds ==============
I: pybuild base:184: cd /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build; python3.5 -m pytest 
============================= test session starts ==============================
platform linux -- Python 3.5.4, pytest-3.2.1, py-1.4.34, pluggy-0.4.0
rootdir: /<<PKGBUILDDIR>>, inifile:
collected 149 items

cobra/test/test_design.py ...F
cobra/test/test_dictlist.py ...................
cobra/test/test_flux_analysis.py ..s........ss
cobra/test/test_io.py ............ssssssssssssssss........ssss.ssssss.ss...ssss..s..
cobra/test/test_manipulation.py ............
cobra/test/test_model.py .......................ssss
cobra/test/test_solvers.py ...........s

=================================== FAILURES ===================================
______________________ TestDesignAlgorithms.test_optknock ______________________

self = <cobra.test.test_design.TestDesignAlgorithms object at 0xf56943b0>
model = <Model e_coli_core at 0xf5720e30>

    @pytest.mark.skipif(no_mip_solver, reason="no MILP solver found")
    def test_optknock(self, model):
        model.reactions.get_by_id("EX_o2_e").lower_bound = 0
        knockable_reactions = ["ACKr", "AKGDH", "ACALD", "LDH_D"]
        optknock_problem = set_up_optknock(model, "EX_lac__D_e",
                                           knockable_reactions, n_knockouts=2,
                                           copy=False)
>       solution = run_optknock(optknock_problem, tolerance_integer=1e-9)

cobra/test/test_design.py:57: 
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
cobra/design/design_algorithms.py:170: in run_optknock
    **kwargs)
cobra/core/Model.py:272: in optimize
    solution = optimize(self, objective_sense=objective_sense, **kwargs)
cobra/solvers/__init__.py:124: in optimize
    return solver_dict[solver].solve(cobra_model, **kwargs)
cobra/solvers/cglpk.pyx:344: in cobra.solvers.cglpk.GLP.solve
    ???
cobra/solvers/cglpk.pyx:338: in cobra.solvers.cglpk.GLP.solve_problem
    ???
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 

>   ???
E   RuntimeError: glp_simplex failed with error code GLP_EROOT: root LP optimum not provided

cobra/solvers/cglpk.pyx:134: RuntimeError
=============================== warnings summary ===============================
.pybuild/pythonX.Y_3.5/build/cobra/test/test_manipulation.py::TestManipulation::()::test_validate_mass_balance
  cobra/core/Metabolite.py:56 UserWarning: invalid formula (has parenthesis) in '()'

-- Docs: http://doc.pytest.org/en/latest/warnings.html
======== 1 failed, 107 passed, 41 skipped, 1 warnings in 20.77 seconds =========
/<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/core/__init__.py:19: UserWarning: ArrayBasedModel requires scipy
  warn("ArrayBasedModel requires scipy")
/<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/io/sbml3.py:24: UserWarning: Install lxml for faster SBML I/O
  warn("Install lxml for faster SBML I/O")
/<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/io/__init__.py:12: UserWarning: cobra.io.sbml requires libsbml
  warn("cobra.io.sbml requires libsbml")
/<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/io/__init__.py:21: UserWarning: cobra.io.mat requires scipy
  warn("cobra.io.mat requires scipy")
/<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build/cobra/flux_analysis/essentiality.py:5: UserWarning: moma does not appear to be functional on your system
  warn("moma does not appear to be functional on your system")
E: pybuild pybuild:283: test: plugin distutils failed with: exit code=1: cd /<<PKGBUILDDIR>>/.pybuild/pythonX.Y_3.5/build; python3.5 -m pytest 
dh_auto_test: pybuild --test --test-pytest -i python{version} -p "3.5 3.6" returned exit code 13
debian/rules:10: recipe for target 'build-arch' failed
make: *** [build-arch] Error 25
dpkg-buildpackage: error: debian/rules build-arch gave error exit status 2
--------------------------------------------------------------------------------
Build finished at 2017-10-29T04:13:22Z

Finished
--------


+------------------------------------------------------------------------------+
| Cleanup                                                                      |
+------------------------------------------------------------------------------+

Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
E: Build failure (dpkg-buildpackage died)

+------------------------------------------------------------------------------+
| Summary                                                                      |
+------------------------------------------------------------------------------+

Build Architecture: armhf
Build-Space: 50676
Build-Time: 151
Distribution: buster-staging
Fail-Stage: build
Host Architecture: armhf
Install-Time: 509
Job: python-cobra_0.5.9-1
Machine Architecture: armhf
Package: python-cobra
Package-Time: 679
Source-Version: 0.5.9-1
Space: 50676
Status: attempted
Version: 0.5.9-1+b1
--------------------------------------------------------------------------------
Finished at 2017-10-29T04:13:22Z
Build needed 00:11:19, 50676k disk space