kineticstools →
0.6.1+git20220223.1326a4d+dfsg-1 →
armhf → 2022-04-13 12:37:45
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on bm-wb-01
Negative repeat count does nothing at /usr/share/perl5/Sbuild/Build.pm line 2740.
+==============================================================================+
Negative repeat count does nothing at /usr/share/perl5/Sbuild/Base.pm line 124.
| kineticstools 0.6.1+git20220223.1326a4d+dfsg-1 (armhf) Wed, 13 Apr 2022 12:14:03 +0000 |
+==============================================================================+
Package: kineticstools
Version: 0.6.1+git20220223.1326a4d+dfsg-1
Source Version: 0.6.1+git20220223.1326a4d+dfsg-1
Distribution: bookworm-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/run/schroot/mount/bookworm-staging-armhf-sbuild-7237385c-16ae-4b9a-a3cb-84d709c10f3e' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.4.1/private bookworm-staging InRelease [11.3 kB]
Get:2 http://172.17.4.1/private bookworm-staging/main Sources [12.9 MB]
Get:3 http://172.17.4.1/private bookworm-staging/main armhf Packages [13.9 MB]
Fetched 26.8 MB in 28s (953 kB/s)
Reading package lists...
W: http://172.17.4.1/private/dists/bookworm-staging/InRelease: Key is stored in legacy trusted.gpg keyring (/etc/apt/trusted.gpg), see the DEPRECATION section in apt-key(8) for details.
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'kineticstools' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/kineticstools.git
Please use:
git clone https://salsa.debian.org/med-team/kineticstools.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 21.8 MB of source archives.
Get:1 http://172.17.4.1/private bookworm-staging/main kineticstools 0.6.1+git20220223.1326a4d+dfsg-1 (dsc) [2739 B]
Get:2 http://172.17.4.1/private bookworm-staging/main kineticstools 0.6.1+git20220223.1326a4d+dfsg-1 (tar) [21.8 MB]
Get:3 http://172.17.4.1/private bookworm-staging/main kineticstools 0.6.1+git20220223.1326a4d+dfsg-1 (diff) [10.3 kB]
Fetched 21.8 MB in 2s (11.7 MB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/kineticstools-Swl6Xk/kineticstools-0.6.1+git20220223.1326a4d+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/kineticstools-Swl6Xk' 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-rfbrfj/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-rfbrfj/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-rfbrfj/gpg/trustdb.gpg: trustdb created
gpg: key 35506D9A48F77B2E: 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 35506D9A48F77B2E: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 35506D9A48F77B2E: 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-rfbrfj/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-rfbrfj/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-rfbrfj/apt_archive ./ Release.gpg [370 B]
Ign:3 copy:/<<BUILDDIR>>/resolver-rfbrfj/apt_archive ./ Release.gpg
Get:4 copy:/<<BUILDDIR>>/resolver-rfbrfj/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-rfbrfj/apt_archive ./ Packages [432 B]
Fetched 2108 B in 1s (1827 B/s)
Reading package lists...
W: copy:/<<BUILDDIR>>/resolver-rfbrfj/apt_archive/./Release.gpg: The key(s) in the keyring /etc/apt/trusted.gpg.d/sbuild-build-depends-archive.gpg are ignored as the file is not readable by user '_apt' executing apt-key.
W: GPG error: copy:/<<BUILDDIR>>/resolver-rfbrfj/apt_archive ./ Release: The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 35506D9A48F77B2E
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:
netbase sensible-utils
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 30 not upgraded.
Need to get 856 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-rfbrfj/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [856 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 856 B in 0s (14.9 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12608 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) ...
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any all)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 13), dh-python, python3-all, python3-setuptools, python3-docutils, python3-pbcore, python3-pbcommand, python3-numpy, python3-h5py, python3-scipy, python3-uritools, python3-pytest, python3-pytest-runner, python3-pytest-xdist
Filtered Build-Depends: debhelper-compat (= 13), dh-python, python3-all, python3-setuptools, python3-docutils, python3-pbcore, python3-pbcommand, python3-numpy, python3-h5py, python3-scipy, python3-uritools, python3-pytest, python3-pytest-runner, python3-pytest-xdist
dpkg-deb: building package 'sbuild-build-depends-kineticstools-dummy' in '/<<BUILDDIR>>/resolver-rfbrfj/apt_archive/sbuild-build-depends-kineticstools-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-kineticstools-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-rfbrfj/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-rfbrfj/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-rfbrfj/apt_archive ./ Release.gpg [370 B]
Ign:3 copy:/<<BUILDDIR>>/resolver-rfbrfj/apt_archive ./ Release.gpg
Get:4 copy:/<<BUILDDIR>>/resolver-rfbrfj/apt_archive ./ Sources [584 B]
Get:5 copy:/<<BUILDDIR>>/resolver-rfbrfj/apt_archive ./ Packages [654 B]
Fetched 2571 B in 1s (2261 B/s)
Reading package lists...
W: copy:/<<BUILDDIR>>/resolver-rfbrfj/apt_archive/./Release.gpg: The key(s) in the keyring /etc/apt/trusted.gpg.d/sbuild-build-depends-archive.gpg are ignored as the file is not readable by user '_apt' executing apt-key.
W: GPG error: copy:/<<BUILDDIR>>/resolver-rfbrfj/apt_archive ./ Release: The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 35506D9A48F77B2E
Reading package lists...
Install kineticstools build dependencies (apt-based resolver)
-------------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following package was automatically installed and is no longer required:
netbase
Use 'apt autoremove' to remove it.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils ca-certificates
debhelper dh-autoreconf dh-python dh-strip-nondeterminism docutils-common
dwz file fonts-urw-base35 gcc-12-base gettext gettext-base groff-base
intltool-debian libaec0 libarchive-zip-perl libblas3 libbrotli1 libbsd0
libcurl3-gnutls libcurl4 libdebhelper-perl libdeflate0 libelf1 libexpat1
libfile-stripnondeterminism-perl libfreetype6 libfribidi0 libgfortran5
libglib2.0-0 libgraphite2-3 libharfbuzz0b libhdf5-103-1 libhdf5-hl-100
libhts3 libhtscodecs2 libicu67 libimagequant0 libjbig0 libjpeg62-turbo
libjs-jquery libjs-sphinxdoc libjs-underscore liblapack3 liblbfgsb0
liblcms2-2 liblzf1 libmagic-mgc libmagic1 libmd0 libmpdec3 libnghttp2-14
libopenjp2-7 libpipeline1 libpng16-16 libpsl5 libpython3-stdlib
libpython3.10-minimal libpython3.10-stdlib libpython3.9-minimal
libpython3.9-stdlib libraqm0 librtmp1 libsigsegv2 libssh2-1
libsub-override-perl libsz2 libtiff5 libtool libuchardet0 libwebp7
libwebpdemux2 libwebpmux3 libxau6 libxcb1 libxdmcp6 libxml2 m4 mailcap
man-db media-types mime-support openssl po-debconf python3 python3-all
python3-attr python3-avro python3-biopython python3-certifi python3-chardet
python3-charset-normalizer python3-decorator python3-distutils
python3-docutils python3-execnet python3-h5py python3-h5py-serial
python3-idna python3-iniconfig python3-iso8601 python3-lib2to3
python3-minimal python3-more-itertools python3-numpy python3-packaging
python3-pbcommand python3-pbcore python3-pil python3-pkg-resources
python3-pluggy python3-py python3-pyparsing python3-pysam python3-pytest
python3-pytest-forked python3-pytest-runner python3-pytest-xdist
python3-renderpm python3-reportlab python3-reportlab-accel python3-requests
python3-roman python3-scipy python3-setuptools python3-six python3-toml
python3-tz python3-uritools python3-urllib3 python3.10 python3.10-minimal
python3.9 python3.9-minimal sgml-base xml-core
Suggested packages:
autoconf-archive gnu-standards autoconf-doc dh-make flit python3-build
python3-tomli python3-installer fonts-freefont-otf | fonts-freefont-ttf
fonts-texgyre gettext-doc libasprintf-dev libgettextpo-dev groff
liblcms2-utils libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc
apparmor less www-browser libmail-box-perl python3-doc python3-tk
python3-venv python-attr-doc bwa clustalo clustalw dialign dssp emboss
fasttree mafft muscle phylip phyml prank probcons python3-mysqldb
python3-matplotlib python3-mmtf python3-rdflib python3-psycopg2 raxml
samtools t-coffee wise w3-dtd-mathml docutils-doc fonts-linuxlibertine
| ttf-linux-libertine texlive-lang-french texlive-latex-base
texlive-latex-recommended execnet-doc python-h5py-doc gfortran
python-numpy-doc python3-dev python-pbcore-doc python-pil-doc subversion
python-pyparsing-doc pdf-viewer python3-egenix-mxtexttools
python-reportlab-doc python3-cryptography python3-openssl python3-socks
python-requests-doc python-scipy-doc python-setuptools-doc python3-brotli
python3.10-venv python3.10-doc binfmt-support python3.9-venv python3.9-doc
sgml-base-doc
Recommended packages:
curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info
xdg-user-dirs javascript-common publicsuffix libltdl-dev
libmail-sendmail-perl python-biopython-doc ncbi-blast+ libpaper-utils
python3-pygments python3-olefile
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils ca-certificates
debhelper dh-autoreconf dh-python dh-strip-nondeterminism docutils-common
dwz file fonts-urw-base35 gcc-12-base gettext gettext-base groff-base
intltool-debian libaec0 libarchive-zip-perl libblas3 libbrotli1 libbsd0
libcurl3-gnutls libcurl4 libdebhelper-perl libdeflate0 libelf1 libexpat1
libfile-stripnondeterminism-perl libfreetype6 libfribidi0 libgfortran5
libglib2.0-0 libgraphite2-3 libharfbuzz0b libhdf5-103-1 libhdf5-hl-100
libhts3 libhtscodecs2 libicu67 libimagequant0 libjbig0 libjpeg62-turbo
libjs-jquery libjs-sphinxdoc libjs-underscore liblapack3 liblbfgsb0
liblcms2-2 liblzf1 libmagic-mgc libmagic1 libmd0 libmpdec3 libnghttp2-14
libopenjp2-7 libpipeline1 libpng16-16 libpsl5 libpython3-stdlib
libpython3.10-minimal libpython3.10-stdlib libpython3.9-minimal
libpython3.9-stdlib libraqm0 librtmp1 libsigsegv2 libssh2-1
libsub-override-perl libsz2 libtiff5 libtool libuchardet0 libwebp7
libwebpdemux2 libwebpmux3 libxau6 libxcb1 libxdmcp6 libxml2 m4 mailcap
man-db media-types mime-support openssl po-debconf python3 python3-all
python3-attr python3-avro python3-biopython python3-certifi python3-chardet
python3-charset-normalizer python3-decorator python3-distutils
python3-docutils python3-execnet python3-h5py python3-h5py-serial
python3-idna python3-iniconfig python3-iso8601 python3-lib2to3
python3-minimal python3-more-itertools python3-numpy python3-packaging
python3-pbcommand python3-pbcore python3-pil python3-pkg-resources
python3-pluggy python3-py python3-pyparsing python3-pysam python3-pytest
python3-pytest-forked python3-pytest-runner python3-pytest-xdist
python3-renderpm python3-reportlab python3-reportlab-accel python3-requests
python3-roman python3-scipy python3-setuptools python3-six python3-toml
python3-tz python3-uritools python3-urllib3 python3.10 python3.10-minimal
python3.9 python3.9-minimal sbuild-build-depends-kineticstools-dummy
sgml-base xml-core
0 upgraded, 142 newly installed, 0 to remove and 30 not upgraded.
Need to get 73.6 MB of archives.
After this operation, 290 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-rfbrfj/apt_archive ./ sbuild-build-depends-kineticstools-dummy 0.invalid.0 [940 B]
Get:2 http://172.17.4.1/private bookworm-staging/main armhf libpython3.9-minimal armhf 3.9.12-1+rpi1 [794 kB]
Get:3 http://172.17.4.1/private bookworm-staging/main armhf libexpat1 armhf 2.4.8-1 [84.1 kB]
Get:4 http://172.17.4.1/private bookworm-staging/main armhf python3.9-minimal armhf 3.9.12-1+rpi1 [1595 kB]
Get:5 http://172.17.4.1/private bookworm-staging/main armhf python3-minimal armhf 3.9.8-1 [38.5 kB]
Get:6 http://172.17.4.1/private bookworm-staging/main armhf media-types all 7.0.0 [32.9 kB]
Get:7 http://172.17.4.1/private bookworm-staging/main armhf mailcap all 3.70+nmu1 [32.0 kB]
Get:8 http://172.17.4.1/private bookworm-staging/main armhf mime-support all 3.66 [10.9 kB]
Get:9 http://172.17.4.1/private bookworm-staging/main armhf libmpdec3 armhf 2.5.1-2+rpi1 [73.5 kB]
Get:10 http://172.17.4.1/private bookworm-staging/main armhf libpython3.9-stdlib armhf 3.9.12-1+rpi1 [1611 kB]
Get:11 http://172.17.4.1/private bookworm-staging/main armhf python3.9 armhf 3.9.12-1+rpi1 [492 kB]
Get:12 http://172.17.4.1/private bookworm-staging/main armhf libpython3-stdlib armhf 3.9.8-1 [21.6 kB]
Get:13 http://172.17.4.1/private bookworm-staging/main armhf python3 armhf 3.9.8-1 [38.1 kB]
Get:14 http://172.17.4.1/private bookworm-staging/main armhf libpython3.10-minimal armhf 3.10.4-1 [811 kB]
Get:15 http://172.17.4.1/private bookworm-staging/main armhf python3.10-minimal armhf 3.10.4-1 [1633 kB]
Get:16 http://172.17.4.1/private bookworm-staging/main armhf sgml-base all 1.30 [15.1 kB]
Get:17 http://172.17.4.1/private bookworm-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:18 http://172.17.4.1/private bookworm-staging/main armhf groff-base armhf 1.22.4-8 [793 kB]
Get:19 http://172.17.4.1/private bookworm-staging/main armhf bsdextrautils armhf 2.37.3-1 [136 kB]
Get:20 http://172.17.4.1/private bookworm-staging/main armhf libpipeline1 armhf 1.5.5-1 [32.9 kB]
Get:21 http://172.17.4.1/private bookworm-staging/main armhf man-db armhf 2.10.2-1 [1362 kB]
Get:22 http://172.17.4.1/private bookworm-staging/main armhf openssl armhf 1.1.1n-1 [816 kB]
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Get:24 http://172.17.4.1/private bookworm-staging/main armhf libmagic-mgc armhf 1:5.41-2 [295 kB]
Get:25 http://172.17.4.1/private bookworm-staging/main armhf libmagic1 armhf 1:5.41-2 [119 kB]
Get:26 http://172.17.4.1/private bookworm-staging/main armhf file armhf 1:5.41-2 [65.8 kB]
Get:27 http://172.17.4.1/private bookworm-staging/main armhf gettext-base armhf 0.21-6 [171 kB]
Get:28 http://172.17.4.1/private bookworm-staging/main armhf libsigsegv2 armhf 2.14-1 [36.6 kB]
Get:29 http://172.17.4.1/private bookworm-staging/main armhf m4 armhf 1.4.18-5 [186 kB]
Get:30 http://172.17.4.1/private bookworm-staging/main armhf autoconf all 2.71-2 [343 kB]
Get:31 http://172.17.4.1/private bookworm-staging/main armhf autotools-dev all 20220109.1 [51.6 kB]
Get:32 http://172.17.4.1/private bookworm-staging/main armhf automake all 1:1.16.5-1.3 [823 kB]
Get:33 http://172.17.4.1/private bookworm-staging/main armhf autopoint all 0.21-6 [510 kB]
Get:34 http://172.17.4.1/private bookworm-staging/main armhf libdebhelper-perl all 13.6 [193 kB]
Get:35 http://172.17.4.1/private bookworm-staging/main armhf libtool all 2.4.7-3 [526 kB]
Get:36 http://172.17.4.1/private bookworm-staging/main armhf dh-autoreconf all 20 [17.1 kB]
Get:37 http://172.17.4.1/private bookworm-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:38 http://172.17.4.1/private bookworm-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:39 http://172.17.4.1/private bookworm-staging/main armhf libfile-stripnondeterminism-perl all 1.13.0-1 [26.6 kB]
Get:40 http://172.17.4.1/private bookworm-staging/main armhf dh-strip-nondeterminism all 1.13.0-1 [15.8 kB]
Get:41 http://172.17.4.1/private bookworm-staging/main armhf libelf1 armhf 0.186-1 [174 kB]
Get:42 http://172.17.4.1/private bookworm-staging/main armhf dwz armhf 0.14-1 [83.0 kB]
Get:43 http://172.17.4.1/private bookworm-staging/main armhf libicu67 armhf 67.1-7 [8291 kB]
Get:44 http://172.17.4.1/private bookworm-staging/main armhf libxml2 armhf 2.9.13+dfsg-1 [593 kB]
Get:45 http://172.17.4.1/private bookworm-staging/main armhf gettext armhf 0.21-6 [1214 kB]
Get:46 http://172.17.4.1/private bookworm-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:47 http://172.17.4.1/private bookworm-staging/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get:48 http://172.17.4.1/private bookworm-staging/main armhf debhelper all 13.6 [1054 kB]
Get:49 http://172.17.4.1/private bookworm-staging/main armhf python3-lib2to3 all 3.9.12-1 [79.9 kB]
Get:50 http://172.17.4.1/private bookworm-staging/main armhf python3-distutils all 3.9.12-1 [146 kB]
Get:51 http://172.17.4.1/private bookworm-staging/main armhf dh-python all 5.20220403 [113 kB]
Get:52 http://172.17.4.1/private bookworm-staging/main armhf xml-core all 0.18+nmu1 [23.8 kB]
Get:53 http://172.17.4.1/private bookworm-staging/main armhf docutils-common all 0.17.1+dfsg-2 [127 kB]
Get:54 http://172.17.4.1/private bookworm-staging/main armhf fonts-urw-base35 all 20200910-1 [6367 kB]
Get:55 http://172.17.4.1/private bookworm-staging/main armhf gcc-12-base armhf 12-20220319-1+rpi1 [207 kB]
Get:56 http://172.17.4.1/private bookworm-staging/main armhf libaec0 armhf 1.0.6-1 [19.3 kB]
Get:57 http://172.17.4.1/private bookworm-staging/main armhf libblas3 armhf 3.10.0-2 [109 kB]
Get:58 http://172.17.4.1/private bookworm-staging/main armhf libbrotli1 armhf 1.0.9-2+b1 [261 kB]
Get:59 http://172.17.4.1/private bookworm-staging/main armhf libmd0 armhf 1.0.4-1 [28.9 kB]
Get:60 http://172.17.4.1/private bookworm-staging/main armhf libbsd0 armhf 0.11.6-1 [109 kB]
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Get:62 http://172.17.4.1/private bookworm-staging/main armhf libpsl5 armhf 0.21.0-1.2 [56.2 kB]
Get:63 http://172.17.4.1/private bookworm-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [54.2 kB]
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Get:65 http://172.17.4.1/private bookworm-staging/main armhf libcurl3-gnutls armhf 7.82.0-2 [313 kB]
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Get:68 http://172.17.4.1/private bookworm-staging/main armhf libpng16-16 armhf 1.6.37-3 [276 kB]
Get:69 http://172.17.4.1/private bookworm-staging/main armhf libfreetype6 armhf 2.11.1+dfsg-1 [334 kB]
Get:70 http://172.17.4.1/private bookworm-staging/main armhf libfribidi0 armhf 1.0.8-2.1 [63.7 kB]
Get:71 http://172.17.4.1/private bookworm-staging/main armhf libgfortran5 armhf 12-20220319-1+rpi1 [238 kB]
Get:72 http://172.17.4.1/private bookworm-staging/main armhf libglib2.0-0 armhf 2.72.0-1 [1229 kB]
Get:73 http://172.17.4.1/private bookworm-staging/main armhf libgraphite2-3 armhf 1.3.14-1 [70.3 kB]
Get:74 http://172.17.4.1/private bookworm-staging/main armhf libharfbuzz0b armhf 2.7.4-1 [1422 kB]
Get:75 http://172.17.4.1/private bookworm-staging/main armhf libsz2 armhf 1.0.6-1 [7452 B]
Get:76 http://172.17.4.1/private bookworm-staging/main armhf libhdf5-103-1 armhf 1.10.7+repack-4+rpi1 [1246 kB]
Get:77 http://172.17.4.1/private bookworm-staging/main armhf libhdf5-hl-100 armhf 1.10.7+repack-4+rpi1 [82.1 kB]
Get:78 http://172.17.4.1/private bookworm-staging/main armhf libhtscodecs2 armhf 1.2.1-1 [52.7 kB]
Get:79 http://172.17.4.1/private bookworm-staging/main armhf libhts3 armhf 1.13+ds-2 [339 kB]
Get:80 http://172.17.4.1/private bookworm-staging/main armhf libimagequant0 armhf 2.17.0-1 [28.0 kB]
Get:81 http://172.17.4.1/private bookworm-staging/main armhf libjbig0 armhf 2.1-3.1+b2 [27.6 kB]
Get:82 http://172.17.4.1/private bookworm-staging/main armhf libjpeg62-turbo armhf 1:2.1.2-1 [144 kB]
Get:83 http://172.17.4.1/private bookworm-staging/main armhf libjs-jquery all 3.6.0+dfsg+~3.5.13-1 [316 kB]
Get:84 http://172.17.4.1/private bookworm-staging/main armhf libjs-underscore all 1.13.2~dfsg-2 [116 kB]
Get:85 http://172.17.4.1/private bookworm-staging/main armhf libjs-sphinxdoc all 4.5.0-1 [142 kB]
Get:86 http://172.17.4.1/private bookworm-staging/main armhf liblapack3 armhf 3.10.0-2 [1590 kB]
Get:87 http://172.17.4.1/private bookworm-staging/main armhf liblbfgsb0 armhf 3.0+dfsg.3-10 [24.2 kB]
Get:88 http://172.17.4.1/private bookworm-staging/main armhf liblcms2-2 armhf 2.12~rc1-2 [121 kB]
Get:89 http://172.17.4.1/private bookworm-staging/main armhf liblzf1 armhf 3.6-3 [9268 B]
Get:90 http://172.17.4.1/private bookworm-staging/main armhf libopenjp2-7 armhf 2.4.0-6 [150 kB]
Get:91 http://172.17.4.1/private bookworm-staging/main armhf libpython3.10-stdlib armhf 3.10.4-1 [1625 kB]
Get:92 http://172.17.4.1/private bookworm-staging/main armhf libraqm0 armhf 0.7.0-4 [9388 B]
Get:93 http://172.17.4.1/private bookworm-staging/main armhf libwebp7 armhf 1.2.2-2 [237 kB]
Get:94 http://172.17.4.1/private bookworm-staging/main armhf libtiff5 armhf 4.3.0-6+b1 [273 kB]
Get:95 http://172.17.4.1/private bookworm-staging/main armhf libwebpdemux2 armhf 1.2.2-2 [97.1 kB]
Get:96 http://172.17.4.1/private bookworm-staging/main armhf libwebpmux3 armhf 1.2.2-2 [105 kB]
Get:97 http://172.17.4.1/private bookworm-staging/main armhf libxau6 armhf 1:1.0.9-1 [19.1 kB]
Get:98 http://172.17.4.1/private bookworm-staging/main armhf libxdmcp6 armhf 1:1.1.2-3 [25.0 kB]
Get:99 http://172.17.4.1/private bookworm-staging/main armhf libxcb1 armhf 1.14-3 [136 kB]
Get:100 http://172.17.4.1/private bookworm-staging/main armhf python3.10 armhf 3.10.4-1 [536 kB]
Get:101 http://172.17.4.1/private bookworm-staging/main armhf python3-all armhf 3.9.8-1 [1060 B]
Get:102 http://172.17.4.1/private bookworm-staging/main armhf python3-attr all 21.2.0-1 [57.5 kB]
Get:103 http://172.17.4.1/private bookworm-staging/main armhf python3-avro all 1.11.0+dfsg-1 [68.1 kB]
Get:104 http://172.17.4.1/private bookworm-staging/main armhf python3-pkg-resources all 59.6.0-1.2 [196 kB]
Get:105 http://172.17.4.1/private bookworm-staging/main armhf python3-numpy armhf 1:1.21.5-1+b1 [5157 kB]
Get:106 http://172.17.4.1/private bookworm-staging/main armhf python3-renderpm armhf 3.6.5-1 [68.8 kB]
Get:107 http://172.17.4.1/private bookworm-staging/main armhf python3-reportlab-accel armhf 3.6.5-1 [38.7 kB]
Get:108 http://172.17.4.1/private bookworm-staging/main armhf python3-pil armhf 9.0.1-1+b1 [429 kB]
Get:109 http://172.17.4.1/private bookworm-staging/main armhf python3-reportlab all 3.6.5-1 [562 kB]
Get:110 http://172.17.4.1/private bookworm-staging/main armhf python3-biopython armhf 1.79+dfsg-1 [1400 kB]
Get:111 http://172.17.4.1/private bookworm-staging/main armhf python3-certifi all 2020.6.20-1 [151 kB]
Get:112 http://172.17.4.1/private bookworm-staging/main armhf python3-chardet all 4.0.0-1 [99.0 kB]
Get:113 http://172.17.4.1/private bookworm-staging/main armhf python3-charset-normalizer all 2.0.6-2 [30.6 kB]
Get:114 http://172.17.4.1/private bookworm-staging/main armhf python3-decorator all 4.4.2-2 [15.8 kB]
Get:115 http://172.17.4.1/private bookworm-staging/main armhf python3-roman all 3.3-1 [10.7 kB]
Get:116 http://172.17.4.1/private bookworm-staging/main armhf python3-docutils all 0.17.1+dfsg-2 [393 kB]
Get:117 http://172.17.4.1/private bookworm-staging/main armhf python3-execnet all 1.9.0-1 [41.5 kB]
Get:118 http://172.17.4.1/private bookworm-staging/main armhf python3-h5py-serial armhf 3.6.0-2 [688 kB]
Get:119 http://172.17.4.1/private bookworm-staging/main armhf python3-h5py all 3.6.0-2 [13.1 kB]
Get:120 http://172.17.4.1/private bookworm-staging/main armhf python3-idna all 3.3-1 [39.4 kB]
Get:121 http://172.17.4.1/private bookworm-staging/main armhf python3-iniconfig all 1.1.1-2 [6396 B]
Get:122 http://172.17.4.1/private bookworm-staging/main armhf python3-iso8601 all 1.0.2-1 [15.7 kB]
Get:123 http://172.17.4.1/private bookworm-staging/main armhf python3-more-itertools all 8.10.0-2 [53.0 kB]
Get:124 http://172.17.4.1/private bookworm-staging/main armhf python3-pyparsing all 2.4.7-1 [109 kB]
Get:125 http://172.17.4.1/private bookworm-staging/main armhf python3-packaging all 21.3-1 [34.1 kB]
Get:126 http://172.17.4.1/private bookworm-staging/main armhf python3-six all 1.16.0-3 [17.5 kB]
Get:127 http://172.17.4.1/private bookworm-staging/main armhf python3-urllib3 all 1.26.9-1 [116 kB]
Get:128 http://172.17.4.1/private bookworm-staging/main armhf python3-requests all 2.27.1+dfsg-1 [71.9 kB]
Get:129 http://172.17.4.1/private bookworm-staging/main armhf python3-tz all 2022.1-1 [34.8 kB]
Get:130 http://172.17.4.1/private bookworm-staging/main armhf python3-pbcommand all 2.1.1+git20201023.cc0ed3d-1 [90.9 kB]
Get:131 http://172.17.4.1/private bookworm-staging/main armhf python3-pysam armhf 0.17.0+ds-2 [1411 kB]
Get:132 http://172.17.4.1/private bookworm-staging/main armhf python3-pbcore all 2.1.2+dfsg-2 [2832 kB]
Get:133 http://172.17.4.1/private bookworm-staging/main armhf python3-pluggy all 1.0.0-1 [19.6 kB]
Get:134 http://172.17.4.1/private bookworm-staging/main armhf python3-py all 1.10.0-1 [94.2 kB]
Get:135 http://172.17.4.1/private bookworm-staging/main armhf python3-toml all 0.10.2-1 [16.2 kB]
Get:136 http://172.17.4.1/private bookworm-staging/main armhf python3-pytest all 6.2.5-2 [218 kB]
Get:137 http://172.17.4.1/private bookworm-staging/main armhf python3-pytest-forked all 1.4.0-1 [7704 B]
Get:138 http://172.17.4.1/private bookworm-staging/main armhf python3-setuptools all 59.6.0-1.2 [401 kB]
Get:139 http://172.17.4.1/private bookworm-staging/main armhf python3-pytest-runner all 2.11.1-1.2 [8528 B]
Get:140 http://172.17.4.1/private bookworm-staging/main armhf python3-pytest-xdist all 2.5.0-3 [49.8 kB]
Get:141 http://172.17.4.1/private bookworm-staging/main armhf python3-scipy armhf 1.7.3-2+b1 [13.0 MB]
Get:142 http://172.17.4.1/private bookworm-staging/main armhf python3-uritools all 3.0.2-1 [25.5 kB]
debconf: delaying package configuration, since apt-utils is not installed
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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
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update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
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Not building database; man-db/auto-update is not 'true'.
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Processing triggers for libc-bin (2.33-7+rpi1) ...
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Updating certificates in /etc/ssl/certs...
0 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.9.0-0.bpo.1-armmp armhf (armv7l)
Toolchain package versions: binutils_2.38-3+rpi1 dpkg-dev_1.21.2+rpi1 g++-11_11.2.0-16+rpi1 gcc-11_11.2.0-16+rpi1 libc6-dev_2.33-7+rpi1 libstdc++-11-dev_11.2.0-16+rpi1 libstdc++6_11.2.0-16+rpi1 linux-libc-dev_5.16.14-1+rpi1
Package versions: adduser_3.120 apt_2.4.3 autoconf_2.71-2 automake_1:1.16.5-1.3 autopoint_0.21-6 autotools-dev_20220109.1 base-files_12.2+rpi1 base-passwd_3.5.52 bash_5.1-6 binutils_2.38-3+rpi1 binutils-arm-linux-gnueabihf_2.38-3+rpi1 binutils-common_2.38-3+rpi1 bsdextrautils_2.37.3-1 bsdutils_1:2.37.3-1 build-essential_12.9 bzip2_1.0.8-5 ca-certificates_20211016 coreutils_8.32-4.1 cpp_4:11.2.0-2+rpi1 cpp-11_11.2.0-16+rpi1 dash_0.5.11+git20210903+057cd650a4ed-8 debconf_1.5.79 debhelper_13.6 debianutils_5.7-0.1 dh-autoreconf_20 dh-python_5.20220403 dh-strip-nondeterminism_1.13.0-1 diffutils_1:3.7-5 dirmngr_2.2.27-3+b1 docutils-common_0.17.1+dfsg-2 dpkg_1.21.2+rpi1 dpkg-dev_1.21.2+rpi1 dwz_0.14-1 e2fsprogs_1.46.5-2 fakeroot_1.28-1 file_1:5.41-2 findutils_4.9.0-2 fonts-urw-base35_20200910-1 g++_4:11.2.0-2+rpi1 g++-11_11.2.0-16+rpi1 gcc_4:11.2.0-2+rpi1 gcc-11_11.2.0-16+rpi1 gcc-11-base_11.2.0-16+rpi1 gcc-12-base_12-20220319-1+rpi1 gcc-7-base_7.5.0-6+rpi1+b2 gcc-8-base_8.4.0-7+rpi1 gcc-9-base_9.4.0-2+rpi1 gettext_0.21-6 gettext-base_0.21-6 gnupg_2.2.27-3 gnupg-l10n_2.2.27-3 gnupg-utils_2.2.27-3+b1 gpg_2.2.27-3+b1 gpg-agent_2.2.27-3+b1 gpg-wks-client_2.2.27-3+b1 gpg-wks-server_2.2.27-3+b1 gpgconf_2.2.27-3+b1 gpgsm_2.2.27-3+b1 gpgv_2.2.27-3+b1 grep_3.7-1 groff-base_1.22.4-8 gzip_1.10-4 hostname_3.23 init-system-helpers_1.62 intltool-debian_0.35.0+20060710.5 libacl1_2.3.1-1 libaec0_1.0.6-1 libapt-pkg6.0_2.4.3 libarchive-zip-perl_1.68-1 libasan6_11.2.0-16+rpi1 libassuan0_2.5.5-1 libatomic1_11.2.0-16+rpi1 libattr1_1:2.5.1-1 libaudit-common_1:3.0.7-1 libaudit1_1:3.0.7-1+b1 libbinutils_2.38-3+rpi1 libblas3_3.10.0-2 libblkid1_2.37.3-1 libbrotli1_1.0.9-2+b1 libbsd0_0.11.6-1 libbz2-1.0_1.0.8-5 libc-bin_2.33-7+rpi1 libc-dev-bin_2.33-7+rpi1 libc6_2.33-7+rpi1 libc6-dev_2.33-7+rpi1 libcap-ng0_0.7.9-2.2+b1 libcap2_1:2.44-1 libcc1-0_11.2.0-16+rpi1 libcom-err2_1.46.5-2 libcrypt-dev_1:4.4.27-1.1 libcrypt1_1:4.4.27-1.1 libctf-nobfd0_2.38-3+rpi1 libctf0_2.38-3+rpi1 libcurl3-gnutls_7.82.0-2 libcurl4_7.82.0-2 libdb5.3_5.3.28+dfsg1-0.8 libdebconfclient0_0.261 libdebhelper-perl_13.6 libdeflate0_1.10-2 libdpkg-perl_1.21.2+rpi1 libelf1_0.186-1 libexpat1_2.4.8-1 libext2fs2_1.46.5-2 libfakeroot_1.28-1 libffi8_3.4.2-4 libfile-stripnondeterminism-perl_1.13.0-1 libfreetype6_2.11.1+dfsg-1 libfribidi0_1.0.8-2.1 libgcc-11-dev_11.2.0-16+rpi1 libgcc-s1_11.2.0-16+rpi1 libgcrypt20_1.9.4-5 libgdbm-compat4_1.23-1 libgdbm6_1.23-1 libgfortran5_12-20220319-1+rpi1 libglib2.0-0_2.72.0-1 libgmp10_2:6.2.1+dfsg-3 libgnutls30_3.7.3-4 libgomp1_11.2.0-16+rpi1 libgpg-error0_1.43-3 libgraphite2-3_1.3.14-1 libgssapi-krb5-2_1.19.2-2+b1 libharfbuzz0b_2.7.4-1 libhdf5-103-1_1.10.7+repack-4+rpi1 libhdf5-hl-100_1.10.7+repack-4+rpi1 libhogweed6_3.7.3-1 libhts3_1.13+ds-2 libhtscodecs2_1.2.1-1 libicu67_67.1-7 libidn2-0_2.3.2-2 libimagequant0_2.17.0-1 libisl23_0.24-2 libjbig0_2.1-3.1+b2 libjpeg62-turbo_1:2.1.2-1 libjs-jquery_3.6.0+dfsg+~3.5.13-1 libjs-sphinxdoc_4.5.0-1 libjs-underscore_1.13.2~dfsg-2 libk5crypto3_1.19.2-2+b1 libkeyutils1_1.6.1-3+rpi1 libkrb5-3_1.19.2-2+b1 libkrb5support0_1.19.2-2+b1 libksba8_1.6.0-2 liblapack3_3.10.0-2 liblbfgsb0_3.0+dfsg.3-10 liblcms2-2_2.12~rc1-2 libldap-2.5-0_2.5.11+dfsg-1+rpi1 liblz4-1_1.9.3-2 liblzf1_3.6-3 liblzma5_5.2.5-2 libmagic-mgc_1:5.41-2 libmagic1_1:5.41-2 libmd0_1.0.4-1 libmount1_2.37.3-1 libmpc3_1.2.1-1 libmpdec3_2.5.1-2+rpi1 libmpfr6_4.1.0-3 libncursesw6_6.3-2 libnettle8_3.7.3-1 libnghttp2-14_1.43.0-1 libnpth0_1.6-3 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libopenjp2-7_2.4.0-6 libp11-kit0_0.24.0-6 libpam-modules_1.4.0-11 libpam-modules-bin_1.4.0-11 libpam-runtime_1.4.0-11 libpam0g_1.4.0-11 libpcre2-8-0_10.39-3 libpcre3_2:8.39-13 libperl5.34_5.34.0-3 libpipeline1_1.5.5-1 libpng16-16_1.6.37-3 libpsl5_0.21.0-1.2 libpython3-stdlib_3.9.8-1 libpython3.10-minimal_3.10.4-1 libpython3.10-stdlib_3.10.4-1 libpython3.9-minimal_3.9.12-1+rpi1 libpython3.9-stdlib_3.9.12-1+rpi1 libraqm0_0.7.0-4 libreadline8_8.1.2-1 librtmp1_2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2_2.1.28+dfsg-2+b1 libsasl2-modules-db_2.1.28+dfsg-2+b1 libseccomp2_2.5.3-2+rpi1 libselinux1_3.3-1 libsemanage-common_3.3-1 libsemanage2_3.3-1 libsepol1_3.1-1 libsepol2_3.3-1 libsigsegv2_2.14-1 libsmartcols1_2.37.3-1 libsqlite3-0_3.38.1-1 libss2_1.46.5-2 libssh2-1_1.10.0-3 libssl1.1_1.1.1n-1 libstdc++-11-dev_11.2.0-16+rpi1 libstdc++6_11.2.0-16+rpi1 libsub-override-perl_0.09-2 libsystemd0_250.4-1+rpi1 libsz2_1.0.6-1 libtasn1-6_4.18.0-4 libtiff5_4.3.0-6+b1 libtinfo6_6.3-2 libtirpc-common_1.3.2-2 libtirpc-dev_1.3.2-2 libtirpc3_1.3.2-2 libtool_2.4.7-3 libubsan1_11.2.0-16+rpi1 libuchardet0_0.0.7-1 libudev1_250.4-1+rpi1 libunistring2_1.0-1 libuuid1_2.37.3-1 libwebp7_1.2.2-2 libwebpdemux2_1.2.2-2 libwebpmux3_1.2.2-2 libxau6_1:1.0.9-1 libxcb1_1.14-3 libxdmcp6_1:1.1.2-3 libxml2_2.9.13+dfsg-1 libxxhash0_0.8.1-1 libzstd1_1.4.9+dfsg-1+rpi1 linux-libc-dev_5.16.14-1+rpi1 login_1:4.11.1+dfsg1-2 logsave_1.46.5-2 lsb-base_11.1.0+rpi1 m4_1.4.18-5 mailcap_3.70+nmu1 make_4.3-4.1 man-db_2.10.2-1 mawk_1.3.4.20200120-3 media-types_7.0.0 mime-support_3.66 mount_2.37.3-1 ncurses-base_6.3-2 ncurses-bin_6.3-2 netbase_6.3 openssl_1.1.1n-1 passwd_1:4.11.1+dfsg1-2 patch_2.7.6-7 perl_5.34.0-3 perl-base_5.34.0-3 perl-modules-5.34_5.34.0-3 pinentry-curses_1.1.0-4 po-debconf_1.0.21+nmu1 python3_3.9.8-1 python3-all_3.9.8-1 python3-attr_21.2.0-1 python3-avro_1.11.0+dfsg-1 python3-biopython_1.79+dfsg-1 python3-certifi_2020.6.20-1 python3-chardet_4.0.0-1 python3-charset-normalizer_2.0.6-2 python3-decorator_4.4.2-2 python3-distutils_3.9.12-1 python3-docutils_0.17.1+dfsg-2 python3-execnet_1.9.0-1 python3-h5py_3.6.0-2 python3-h5py-serial_3.6.0-2 python3-idna_3.3-1 python3-iniconfig_1.1.1-2 python3-iso8601_1.0.2-1 python3-lib2to3_3.9.12-1 python3-minimal_3.9.8-1 python3-more-itertools_8.10.0-2 python3-numpy_1:1.21.5-1+b1 python3-packaging_21.3-1 python3-pbcommand_2.1.1+git20201023.cc0ed3d-1 python3-pbcore_2.1.2+dfsg-2 python3-pil_9.0.1-1+b1 python3-pkg-resources_59.6.0-1.2 python3-pluggy_1.0.0-1 python3-py_1.10.0-1 python3-pyparsing_2.4.7-1 python3-pysam_0.17.0+ds-2 python3-pytest_6.2.5-2 python3-pytest-forked_1.4.0-1 python3-pytest-runner_2.11.1-1.2 python3-pytest-xdist_2.5.0-3 python3-renderpm_3.6.5-1 python3-reportlab_3.6.5-1 python3-reportlab-accel_3.6.5-1 python3-requests_2.27.1+dfsg-1 python3-roman_3.3-1 python3-scipy_1.7.3-2+b1 python3-setuptools_59.6.0-1.2 python3-six_1.16.0-3 python3-toml_0.10.2-1 python3-tz_2022.1-1 python3-uritools_3.0.2-1 python3-urllib3_1.26.9-1 python3.10_3.10.4-1 python3.10-minimal_3.10.4-1 python3.9_3.9.12-1+rpi1 python3.9-minimal_3.9.12-1+rpi1 raspbian-archive-keyring_20120528.2 readline-common_8.1.2-1 rpcsvc-proto_1.4.2-4 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-kineticstools-dummy_0.invalid.0 sed_4.8-1 sensible-utils_0.0.17 sgml-base_1.30 sysvinit-utils_3.01-1 tar_1.34+dfsg-1 tzdata_2021e-1 util-linux_2.37.3-1 xml-core_0.18+nmu1 xz-utils_5.2.5-2 zlib1g_1:1.2.11.dfsg-2
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/tmp/dpkg-verify-sig._sge85tc/trustedkeys.kbx': General error
gpgv: Signature made Sat Mar 5 12:55:32 2022 UTC
gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA
gpgv: issuer "emollier@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify signature ./kineticstools_0.6.1+git20220223.1326a4d+dfsg-1.dsc
dpkg-source: info: extracting kineticstools in /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg
dpkg-source: info: unpacking kineticstools_0.6.1+git20220223.1326a4d+dfsg.orig.tar.xz
dpkg-source: info: unpacking kineticstools_0.6.1+git20220223.1326a4d+dfsg-1.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying man-pages.patch
dpkg-source: info: applying tests-import.patch
dpkg-source: info: applying verbose-testing.patch
dpkg-source: info: applying deactivate-tests-requiring-unavailable-data.patch
dpkg-source: info: applying spelling.patch
dpkg-source: info: applying tests2to3.patch
dpkg-source: info: applying man-align-cols.patch
Check disc 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=bookworm-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bookworm-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bookworm-staging-armhf-sbuild-7237385c-16ae-4b9a-a3cb-84d709c10f3e
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package kineticstools
dpkg-buildpackage: info: source version 0.6.1+git20220223.1326a4d+dfsg-1
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean --with python3 --buildsystem=pybuild
debian/rules override_dh_auto_clean
make[1]: Entering directory '/<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg'
dh_auto_clean
I: pybuild base:239: python3.10 setup.py clean
running clean
removing '/<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build' (and everything under it)
'build/bdist.linux-armhf' does not exist -- can't clean it
'build/scripts-3.10' does not exist -- can't clean it
I: pybuild base:239: python3.9 setup.py clean
running clean
removing '/<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build' (and everything under it)
'build/bdist.linux-armhf' does not exist -- can't clean it
'build/scripts-3.9' does not exist -- can't clean it
rm -rf .pytest_cache
rm -rf kineticsTools.egg-info
rm -f nosetests.xml
rm -f bin/ipdSummary
make[1]: Leaving directory '/<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg'
dh_autoreconf_clean -O--buildsystem=pybuild
dh_clean -O--buildsystem=pybuild
debian/rules binary-arch
dh binary-arch --with python3 --buildsystem=pybuild
dh_update_autotools_config -a -O--buildsystem=pybuild
dh_autoreconf -a -O--buildsystem=pybuild
dh_auto_configure -a -O--buildsystem=pybuild
I: pybuild base:239: python3.10 setup.py config
running config
I: pybuild base:239: python3.9 setup.py config
running config
dh_auto_build -a -O--buildsystem=pybuild
I: pybuild base:239: /usr/bin/python3.10 setup.py build
running build
running build_py
creating /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools
copying kineticsTools/BasicLdaEnricher.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools
copying kineticsTools/KineticWorker.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools
copying kineticsTools/MedakaLdaEnricher.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools
copying kineticsTools/MixtureEstimationMethods.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools
copying kineticsTools/ModificationDecode.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools
copying kineticsTools/MultiSiteCommon.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools
copying kineticsTools/MultiSiteDetection.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools
copying kineticsTools/PositiveControlEnricher.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools
copying kineticsTools/ReferenceUtils.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools
copying kineticsTools/ResultWriter.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools
copying kineticsTools/WorkerProcess.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools
copying kineticsTools/__init__.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools
copying kineticsTools/ipdModel.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools
copying kineticsTools/ipdSummary.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools
copying kineticsTools/loader.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools
copying kineticsTools/pipelineTools.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools
copying kineticsTools/sharedArray.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools
copying kineticsTools/summarizeModifications.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools
creating /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools/internal
copying kineticsTools/internal/__init__.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools/internal
creating /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools/tasks
copying kineticsTools/tasks/__init__.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools/tasks
copying kineticsTools/tasks/gather_bigwig.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools/tasks
running egg_info
creating kineticsTools.egg-info
writing kineticsTools.egg-info/PKG-INFO
writing dependency_links to kineticsTools.egg-info/dependency_links.txt
writing entry points to kineticsTools.egg-info/entry_points.txt
writing requirements to kineticsTools.egg-info/requires.txt
writing top-level names to kineticsTools.egg-info/top_level.txt
writing manifest file 'kineticsTools.egg-info/SOURCES.txt'
reading manifest file 'kineticsTools.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
adding license file 'LICENSES.txt'
writing manifest file 'kineticsTools.egg-info/SOURCES.txt'
creating /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools/resources
copying kineticsTools/resources/P6-C4.npz.gz -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools/resources
copying kineticsTools/resources/SP2-C2.npz.gz -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools/resources
copying kineticsTools/resources/SP3-C3.npz.gz -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools/resources
copying kineticsTools/resources/unknown.npz.gz -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools/resources
running build_ext
building 'kineticsTools/tree_predict' extension
creating build
creating build/temp.linux-armhf-3.10
creating build/temp.linux-armhf-3.10/kineticsTools
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.10 -c kineticsTools/tree_predict.c -o build/temp.linux-armhf-3.10/kineticsTools/tree_predict.o -O3 -shared -std=c99
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.10/kineticsTools/tree_predict.o -o /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/kineticsTools/tree_predict.cpython-310-arm-linux-gnueabihf.so
I: pybuild base:239: /usr/bin/python3 setup.py build
running build
running build_py
creating /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools
copying kineticsTools/BasicLdaEnricher.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools
copying kineticsTools/KineticWorker.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools
copying kineticsTools/MedakaLdaEnricher.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools
copying kineticsTools/MixtureEstimationMethods.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools
copying kineticsTools/ModificationDecode.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools
copying kineticsTools/MultiSiteCommon.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools
copying kineticsTools/MultiSiteDetection.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools
copying kineticsTools/PositiveControlEnricher.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools
copying kineticsTools/ReferenceUtils.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools
copying kineticsTools/ResultWriter.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools
copying kineticsTools/WorkerProcess.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools
copying kineticsTools/__init__.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools
copying kineticsTools/ipdModel.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools
copying kineticsTools/ipdSummary.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools
copying kineticsTools/loader.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools
copying kineticsTools/pipelineTools.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools
copying kineticsTools/sharedArray.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools
copying kineticsTools/summarizeModifications.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools
creating /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools/internal
copying kineticsTools/internal/__init__.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools/internal
creating /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools/tasks
copying kineticsTools/tasks/__init__.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools/tasks
copying kineticsTools/tasks/gather_bigwig.py -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools/tasks
running egg_info
writing kineticsTools.egg-info/PKG-INFO
writing dependency_links to kineticsTools.egg-info/dependency_links.txt
writing entry points to kineticsTools.egg-info/entry_points.txt
writing requirements to kineticsTools.egg-info/requires.txt
writing top-level names to kineticsTools.egg-info/top_level.txt
reading manifest file 'kineticsTools.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
adding license file 'LICENSES.txt'
writing manifest file 'kineticsTools.egg-info/SOURCES.txt'
creating /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools/resources
copying kineticsTools/resources/P6-C4.npz.gz -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools/resources
copying kineticsTools/resources/SP2-C2.npz.gz -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools/resources
copying kineticsTools/resources/SP3-C3.npz.gz -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools/resources
copying kineticsTools/resources/unknown.npz.gz -> /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools/resources
running build_ext
building 'kineticsTools/tree_predict' extension
creating build/temp.linux-armhf-3.9
creating build/temp.linux-armhf-3.9/kineticsTools
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.9 -c kineticsTools/tree_predict.c -o build/temp.linux-armhf-3.9/kineticsTools/tree_predict.o -O3 -shared -std=c99
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.9/kineticsTools/tree_predict.o -o /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/kineticsTools/tree_predict.cpython-39-arm-linux-gnueabihf.so
debian/rules override_dh_auto_test
make[1]: Entering directory '/<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg'
cp kineticsTools/ipdSummary.py bin/ipdSummary
chmod +x bin/ipdSummary
PYTHONPATH=/<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg PATH=$PATH:/<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/bin dh_auto_test
I: pybuild base:239: cd /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build; python3.10 -m pytest test
============================= test session starts ==============================
platform linux -- Python 3.10.4, pytest-6.2.5, py-1.10.0, pluggy-1.0.0 -- /usr/bin/python3.10
cachedir: .pytest_cache
rootdir: /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg, configfile: pytest.ini
plugins: forked-1.4.0, xdist-2.5.0
gw0 I / gw1 I / gw2 I / gw3 I
[gw0] linux Python 3.10.4 cwd: /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build
[gw1] linux Python 3.10.4 cwd: /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build
[gw2] linux Python 3.10.4 cwd: /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build
[gw3] linux Python 3.10.4 cwd: /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build
[gw0] Python 3.10.4 (main, Mar 24 2022, 13:07:27) [GCC 11.2.0]
[gw1] Python 3.10.4 (main, Mar 24 2022, 13:07:27) [GCC 11.2.0]
[gw2] Python 3.10.4 (main, Mar 24 2022, 13:07:27) [GCC 11.2.0]
[gw3] Python 3.10.4 (main, Mar 24 2022, 13:07:27) [GCC 11.2.0]
gw0 [11] / gw1 [11] / gw2 [11] / gw3 [11]
scheduling tests via LoadScopeScheduling
test/test_gather_bigwig.py::TestGatherBigwig::test_gather_bigwig
test/test_integration.py::TestKineticsTools::test_help
test/test_loader.py::test_basic
test/test_outputs.py::TestOutputs::test_csv_output
[gw0] [ 9%] SKIPPED test/test_gather_bigwig.py::TestGatherBigwig::test_gather_bigwig
[gw3] [ 18%] SKIPPED test/test_outputs.py::TestOutputs::test_csv_output
test/test_gather_bigwig.py::TestGatherBigwig::test_gather_bigwig_cli
[gw2] [ 27%] PASSED test/test_loader.py::test_basic
test/test_outputs.py::TestOutputs::test_bigwig
[gw0] [ 36%] SKIPPED test/test_gather_bigwig.py::TestGatherBigwig::test_gather_bigwig_cli
test/test_summarize_modifications.py::TestSummarizeModifications::test_integration
test/test_loader.py::test_path
[gw0] [ 45%] SKIPPED test/test_summarize_modifications.py::TestSummarizeModifications::test_integration
[gw3] [ 54%] SKIPPED test/test_outputs.py::TestOutputs::test_bigwig
[gw2] [ 63%] PASSED test/test_loader.py::test_path
test/test_loader.py::test_path_with_prefixed_chem
[gw2] [ 72%] PASSED test/test_loader.py::test_path_with_prefixed_chem
test/test_loader.py::test_getResourcePathSpec
[gw2] [ 81%] PASSED test/test_loader.py::test_getResourcePathSpec
[gw1] [ 90%] PASSED test/test_integration.py::TestKineticsTools::test_help
test/test_integration.py::TestKineticsTools::test_ecoli_first_50k
[gw1] [100%] SKIPPED test/test_integration.py::TestKineticsTools::test_ecoli_first_50k
==================================== ERRORS ====================================
_ ERROR collecting .pybuild/cpython3_3.10_kineticstools/build/test/test_ReferenceUtils.py _
ImportError while importing test module '/<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/test/test_ReferenceUtils.py'.
Hint: make sure your test modules/packages have valid Python names.
Traceback:
/usr/lib/python3.10/importlib/__init__.py:126: in import_module
return _bootstrap._gcd_import(name[level:], package, level)
test/test_ReferenceUtils.py:6: in <module>
from pbcore.io import AlignmentSet
/usr/lib/python3/dist-packages/pbcore/io/__init__.py:8: in <module>
from .align import *
/usr/lib/python3/dist-packages/pbcore/io/align/__init__.py:1: in <module>
from .BamIO import *
/usr/lib/python3/dist-packages/pbcore/io/align/BamIO.py:9: in <module>
from pysam.libcalignmentfile import AlignmentFile # pylint: disable=no-name-in-module, import-error, fixme, line-too-long
/usr/lib/python3/dist-packages/pysam/__init__.py:5: in <module>
from pysam.libchtslib import *
E ModuleNotFoundError: No module named 'pysam.libchtslib'
_ ERROR collecting .pybuild/cpython3_3.10_kineticstools/build/test/test_ipdModel.py _
ImportError while importing test module '/<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/test/test_ipdModel.py'.
Hint: make sure your test modules/packages have valid Python names.
Traceback:
/usr/lib/python3.10/importlib/__init__.py:126: in import_module
return _bootstrap._gcd_import(name[level:], package, level)
test/test_ipdModel.py:5: in <module>
from pbcore.io import AlignmentSet
/usr/lib/python3/dist-packages/pbcore/io/__init__.py:8: in <module>
from .align import *
/usr/lib/python3/dist-packages/pbcore/io/align/__init__.py:1: in <module>
from .BamIO import *
/usr/lib/python3/dist-packages/pbcore/io/align/BamIO.py:9: in <module>
from pysam.libcalignmentfile import AlignmentFile # pylint: disable=no-name-in-module, import-error, fixme, line-too-long
/usr/lib/python3/dist-packages/pysam/__init__.py:5: in <module>
from pysam.libchtslib import *
E ModuleNotFoundError: No module named 'pysam.libchtslib'
- generated xml file: /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build/nosetests.xml -
============================= slowest 20 durations =============================
5.98s call .pybuild/cpython3_3.10_kineticstools/build/test/test_integration.py::TestKineticsTools::test_help
0.01s call .pybuild/cpython3_3.10_kineticstools/build/test/test_loader.py::test_basic
0.01s setup .pybuild/cpython3_3.10_kineticstools/build/test/test_gather_bigwig.py::TestGatherBigwig::test_gather_bigwig
0.01s setup .pybuild/cpython3_3.10_kineticstools/build/test/test_integration.py::TestKineticsTools::test_help
0.01s setup .pybuild/cpython3_3.10_kineticstools/build/test/test_gather_bigwig.py::TestGatherBigwig::test_gather_bigwig_cli
(15 durations < 0.005s hidden. Use -vv to show these durations.)
=========================== short test summary info ============================
ERROR test/test_ReferenceUtils.py
ERROR test/test_ipdModel.py
=================== 5 passed, 6 skipped, 2 errors in 14.22s ====================
E: pybuild pybuild:369: test: plugin distutils failed with: exit code=1: cd /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.10_kineticstools/build; python3.10 -m pytest test
I: pybuild base:239: cd /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build; python3.9 -m pytest test
============================= test session starts ==============================
platform linux -- Python 3.9.12, pytest-6.2.5, py-1.10.0, pluggy-1.0.0 -- /usr/bin/python3.9
cachedir: .pytest_cache
rootdir: /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg, configfile: pytest.ini
plugins: forked-1.4.0, xdist-2.5.0
gw0 I / gw1 I / gw2 I / gw3 I
[gw0] linux Python 3.9.12 cwd: /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build
[gw1] linux Python 3.9.12 cwd: /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build
[gw2] linux Python 3.9.12 cwd: /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build
[gw3] linux Python 3.9.12 cwd: /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build
[gw0] Python 3.9.12 (main, Mar 27 2022, 08:01:22) -- [GCC 11.2.0]
[gw1] Python 3.9.12 (main, Mar 27 2022, 08:01:22) -- [GCC 11.2.0]
[gw2] Python 3.9.12 (main, Mar 27 2022, 08:01:22) -- [GCC 11.2.0]
[gw3] Python 3.9.12 (main, Mar 27 2022, 08:01:22) -- [GCC 11.2.0]
gw0 [19] / gw1 [19] / gw2 [19] / gw3 [19]
scheduling tests via LoadScopeScheduling
test/test_gather_bigwig.py::TestGatherBigwig::test_gather_bigwig
test/test_ipdModel.py::TestIpdModel::test_refLength
test/test_integration.py::TestKineticsTools::test_help
[gw3] [ 5%] SKIPPED test/test_ipdModel.py::TestIpdModel::test_refLength
test/test_ReferenceUtils.py::TestReferenceUtils::test_bam
test/test_ipdModel.py::TestIpdModel::test_snippetFunc
[gw1] [ 10%] SKIPPED test/test_gather_bigwig.py::TestGatherBigwig::test_gather_bigwig
[gw3] [ 15%] SKIPPED test/test_ipdModel.py::TestIpdModel::test_snippetFunc
test/test_gather_bigwig.py::TestGatherBigwig::test_gather_bigwig_cli
[gw0] [ 21%] SKIPPED test/test_ReferenceUtils.py::TestReferenceUtils::test_bam
test/test_ReferenceUtils.py::TestReferenceUtils::test_dataset
[gw0] [ 26%] SKIPPED test/test_ReferenceUtils.py::TestReferenceUtils::test_dataset
[gw1] [ 31%] SKIPPED test/test_gather_bigwig.py::TestGatherBigwig::test_gather_bigwig_cli
test/test_loader.py::test_basic
test/test_ReferenceUtils.py::TestReferenceUtils::test_parseReferenceWindow
[gw0] [ 36%] SKIPPED test/test_ReferenceUtils.py::TestReferenceUtils::test_parseReferenceWindow
[gw1] [ 42%] PASSED test/test_loader.py::test_basic
test/test_loader.py::test_path
test/test_ReferenceUtils.py::TestReferenceUtils::test_createReferenceWindows
[gw0] [ 47%] SKIPPED test/test_ReferenceUtils.py::TestReferenceUtils::test_createReferenceWindows
[gw1] [ 52%] PASSED test/test_loader.py::test_path
test/test_loader.py::test_path_with_prefixed_chem
[gw1] [ 57%] PASSED test/test_loader.py::test_path_with_prefixed_chem
test/test_ipdModel.py::TestIpdModel::test_getReferenceWindow
[gw3] [ 63%] SKIPPED test/test_ipdModel.py::TestIpdModel::test_getReferenceWindow
test/test_loader.py::test_getResourcePathSpec
test/test_ReferenceUtils.py::TestReferenceUtils::test_enumerateChunks
test/test_summarize_modifications.py::TestSummarizeModifications::test_integration
[gw1] [ 68%] PASSED test/test_loader.py::test_getResourcePathSpec
[gw3] [ 73%] SKIPPED test/test_summarize_modifications.py::TestSummarizeModifications::test_integration
[gw0] [ 78%] SKIPPED test/test_ReferenceUtils.py::TestReferenceUtils::test_enumerateChunks
[gw2] [ 84%] PASSED test/test_integration.py::TestKineticsTools::test_help
test/test_integration.py::TestKineticsTools::test_ecoli_first_50k
[gw2] [ 89%] SKIPPED test/test_integration.py::TestKineticsTools::test_ecoli_first_50k
test/test_outputs.py::TestOutputs::test_csv_output
[gw2] [ 94%] SKIPPED test/test_outputs.py::TestOutputs::test_csv_output
test/test_outputs.py::TestOutputs::test_bigwig
[gw2] [100%] SKIPPED test/test_outputs.py::TestOutputs::test_bigwig
- generated xml file: /<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg/.pybuild/cpython3_3.9_kineticstools/build/nosetests.xml -
============================= slowest 20 durations =============================
5.29s call .pybuild/cpython3_3.9_kineticstools/build/test/test_integration.py::TestKineticsTools::test_help
0.02s setup .pybuild/cpython3_3.9_kineticstools/build/test/test_gather_bigwig.py::TestGatherBigwig::test_gather_bigwig_cli
0.01s call .pybuild/cpython3_3.9_kineticstools/build/test/test_loader.py::test_getResourcePathSpec
0.01s teardown .pybuild/cpython3_3.9_kineticstools/build/test/test_ReferenceUtils.py::TestReferenceUtils::test_createReferenceWindows
0.01s setup .pybuild/cpython3_3.9_kineticstools/build/test/test_integration.py::TestKineticsTools::test_help
0.01s setup .pybuild/cpython3_3.9_kineticstools/build/test/test_gather_bigwig.py::TestGatherBigwig::test_gather_bigwig
0.01s setup .pybuild/cpython3_3.9_kineticstools/build/test/test_ReferenceUtils.py::TestReferenceUtils::test_bam
0.01s call .pybuild/cpython3_3.9_kineticstools/build/test/test_loader.py::test_basic
0.01s teardown .pybuild/cpython3_3.9_kineticstools/build/test/test_gather_bigwig.py::TestGatherBigwig::test_gather_bigwig_cli
(11 durations < 0.005s hidden. Use -vv to show these durations.)
======================== 5 passed, 14 skipped in 13.22s ========================
dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p "3.10 3.9" returned exit code 13
make[1]: *** [debian/rules:44: override_dh_auto_test] Error 25
make[1]: Leaving directory '/<<BUILDDIR>>/kineticstools-0.6.1+git20220223.1326a4d+dfsg'
make: *** [debian/rules:16: binary-arch] Error 2
dpkg-buildpackage: error: debian/rules binary-arch subprocess returned exit status 2
--------------------------------------------------------------------------------
Build finished at 2022-04-13T12:37:41Z
Finished
--------
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
E: Build failure (dpkg-buildpackage died)
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 0
Build-Time: 74
Distribution: bookworm-staging
Fail-Stage: build
Host Architecture: armhf
Install-Time: 1279
Job: kineticstools_0.6.1+git20220223.1326a4d+dfsg-1
Machine Architecture: armhf
Package: kineticstools
Package-Time: 1418
Source-Version: 0.6.1+git20220223.1326a4d+dfsg-1
Space: 0
Status: failed
Version: 0.6.1+git20220223.1326a4d+dfsg-1
--------------------------------------------------------------------------------
Finished at 2022-04-13T12:37:41Z
Build needed 00:00:00, 0k disc space