[Debian-med-packaging] Bug#866547: src:python-biomaj3: FTBFS with python3.6 as a supported version
Scott Kitterman
debian at kitterman.com
Fri Jun 30 01:35:46 UTC 2017
Package: src:python-biomaj3
Version: 3.0.20-1
Severity: serious
Justification: fails to build from source (but built successfully in the past)
Now FTBFS. See attached log.
: pybuild base:184: python3.6 setup.py clean
Traceback (most recent call last):
File "setup.py", line 18, in <module>
README = f.read()
File "/usr/lib/python3.6/encodings/ascii.py", line 26, in decode
return codecs.ascii_decode(input, self.errors)[0]
UnicodeDecodeError: 'ascii' codec can't decode byte 0xe2 in position 1781: ordinal not in range(128)
E: pybuild pybuild:283: clean: plugin distutils failed with: exit code=1: python3.6 setup.py clean
dh_auto_clean: pybuild --clean --test-nose -i python{version} -p 3.6 3.5 returned exit code 13
debian/rules:28: recipe for target 'clean' failed
Scott K
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I: Logging to /home/kitterma/pbuilder/sid_result/python-biomaj3_3.0.20-1_amd64.build
I: using fakeroot in build.
I: Current time: Thu Jun 29 21:25:22 EDT 2017
I: pbuilder-time-stamp: 1498785922
I: Building the build Environment
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-> Creating pbuilder-satisfydepends-dummy package
Package: pbuilder-satisfydepends-dummy
Version: 0.invalid.0
Architecture: amd64
Maintainer: Debian Pbuilder Team <pbuilder-maint at lists.alioth.debian.org>
Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder
This package was created automatically by pbuilder to satisfy the
build-dependencies of the package being currently built.
Depends: debhelper (>= 9), dh-python, python-all, python-setuptools, python-mock, python-nose, python-pymongo, python-tabulate, python-ldap3, python-bcrypt, python-future, python-elasticsearch, python-pycurl, python-drmaa, python3-all, python3-setuptools, python3-mock, python3-nose, python3-pymongo, python3-tabulate, python3-ldap3, python3-bcrypt, python3-future, python3-elasticsearch, python3-pycurl
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dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested:
pbuilder-satisfydepends-dummy depends on debhelper (>= 9); however:
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pbuilder-satisfydepends-dummy depends on dh-python; however:
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pbuilder-satisfydepends-dummy depends on python-ldap3; however:
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pbuilder-satisfydepends-dummy depends on python-future; however:
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pbuilder-satisfydepends-dummy depends on python3-all; however:
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pbuilder-satisfydepends-dummy depends on python3-setuptools; however:
Package python3-setuptools is not installed.
pbuilder-satisfydepends-dummy depends on python3-mock; however:
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pbuilder-satisfydepends-dummy depends on python3-pymongo; however:
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pbuilder-satisfydepends-dummy depends on python3-tabulate; however:
Package python3-tabulate is not installed.
pbuilder-satisfydepends-dummy depends on python3-ldap3; however:
Package python3-ldap3 is not installed.
pbuilder-satisfydepends-dummy depends on python3-bcrypt; however:
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pbuilder-satisfydepends-dummy depends on python3-future; however:
Package python3-future is not installed.
pbuilder-satisfydepends-dummy depends on python3-elasticsearch; however:
Package python3-elasticsearch is not installed.
pbuilder-satisfydepends-dummy depends on python3-pycurl; however:
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The following packages are RECOMMENDED but will NOT be installed:
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Setting up libpipeline1:amd64 (1.4.1-2) ...
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Setting up libbsd0:amd64 (0.8.5-1) ...
Setting up libxml2:amd64 (2.9.4+dfsg1-2.2) ...
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Setting up libmagic1:amd64 (1:5.30-1) ...
Setting up libhogweed4:amd64 (3.3-1+b1) ...
Setting up libpython3.6-minimal:amd64 (3.6.2~rc1-1) ...
Setting up libssh2-1:amd64 (1.8.0-1) ...
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Setting up autotools-dev (20161112.1) ...
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update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
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Setting up libpsl5:amd64 (0.17.0-4) ...
Setting up libglib2.0-0:amd64 (2.52.3-1) ...
No schema files found: doing nothing.
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Setting up python3.6-minimal (3.6.2~rc1-1) ...
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Setting up man-db (2.7.6.1-2) ...
Building database of manual pages ...
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Setting up python-pkg-resources (36.0.1-1) ...
Setting up python-ldap3 (1.2.2-1) ...
Setting up python-configparser (3.3.0r2-2) ...
Setting up intltool-debian (0.35.0+20060710.4) ...
Setting up python-cffi-backend (1.9.1-2) ...
Setting up python-six (1.10.0-4) ...
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update-alternatives: using /usr/bin/python2-pbr to provide /usr/bin/pbr (pbr) in auto mode
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Setting up python-nose (1.3.7-2) ...
Setting up python-all (2.7.13-2) ...
Setting up python-future (0.15.2-4) ...
update-alternatives: using /usr/bin/python2-futurize to provide /usr/bin/futurize (futurize) in auto mode
update-alternatives: using /usr/bin/python2-pasteurize to provide /usr/bin/pasteurize (pasteurize) in auto mode
Setting up python-tabulate (0.7.7-1) ...
Setting up python-bcrypt (3.1.2-1) ...
Setting up python-setuptools (36.0.1-1) ...
Setting up python-urllib3 (1.19.1-1) ...
Setting up python-elasticsearch (1.6.0-1) ...
Setting up python-pymongo (3.4.0-1) ...
Setting up po-debconf (1.0.20) ...
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Setting up libcurl3-gnutls:amd64 (7.52.1-5) ...
Setting up python-pycurl (7.43.0-2) ...
Setting up dh-autoreconf (14) ...
Setting up python3 (3.5.3-3) ...
Setting up python3-cffi-backend (1.9.1-2) ...
Setting up python3-six (1.10.0-4) ...
Setting up python3-pkg-resources (36.0.1-1) ...
Setting up python3-pyasn1 (0.1.9-2) ...
Setting up dh-strip-nondeterminism (0.035-2) ...
Setting up python3-future (0.15.2-4) ...
Setting up python3-nose (1.3.7-2) ...
Setting up python3-all (3.5.3-3) ...
Setting up python3-tabulate (0.7.7-1) ...
Setting up python3-urllib3 (1.19.1-1) ...
Setting up python3-setuptools (36.0.1-1) ...
Setting up dh-python (2.20170125) ...
Setting up python3-bson (3.4.0-1) ...
Setting up debhelper (10.5.1) ...
Setting up python3-pbr (1.10.0-1) ...
Setting up python3-pycurl (7.43.0-2) ...
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Setting up python3-mock (2.0.0-3) ...
Setting up python3-bcrypt (3.1.2-1) ...
Setting up python3-elasticsearch (1.6.0-1) ...
Setting up python3-pymongo (3.4.0-1) ...
Processing triggers for libc-bin (2.24-12) ...
Reading package lists...
Building dependency tree...
Reading state information...
Reading extended state information...
Initializing package states...
Writing extended state information...
Building tag database...
-> Finished parsing the build-deps
Reading package lists...
Building dependency tree...
Reading state information...
The following additional packages will be installed:
libfakeroot
The following NEW packages will be installed:
fakeroot libfakeroot
debconf: delaying package configuration, since apt-utils is not installed
0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded.
Need to get 0 B/131 kB of archives.
After this operation, 374 kB of additional disk space will be used.
Selecting previously unselected package libfakeroot:amd64.
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(Reading database ... 20971 files and directories currently installed.)
Preparing to unpack .../libfakeroot_1.21-3.1_amd64.deb ...
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Selecting previously unselected package fakeroot.
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Unpacking fakeroot (1.21-3.1) ...
Processing triggers for libc-bin (2.24-12) ...
Setting up libfakeroot:amd64 (1.21-3.1) ...
Processing triggers for man-db (2.7.6.1-2) ...
Setting up fakeroot (1.21-3.1) ...
update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode
Processing triggers for libc-bin (2.24-12) ...
I: Copying back the cached apt archive contents
I: Copying source file
I: copying [python-biomaj3_3.0.20-1.dsc]
I: copying [./python-biomaj3_3.0.20.orig.tar.xz]
I: copying [./python-biomaj3_3.0.20-1.debian.tar.gz]
I: Extracting source
dpkg-source: warning: extracting unsigned source package (python-biomaj3_3.0.20-1.dsc)
dpkg-source: info: extracting python-biomaj3 in python-biomaj3-3.0.20
dpkg-source: info: unpacking python-biomaj3_3.0.20.orig.tar.xz
dpkg-source: info: unpacking python-biomaj3_3.0.20-1.debian.tar.gz
I: Building the package
I: Running cd tmp/buildd/*/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin" dpkg-buildpackage -us -uc -rfakeroot
dpkg-buildpackage: info: source package python-biomaj3
dpkg-buildpackage: info: source version 3.0.20-1
dpkg-buildpackage: info: source distribution UNRELEASED
dpkg-buildpackage: info: source changed by Scott Kitterman <scott at kitterman.com>
dpkg-source --before-build python-biomaj3-3.0.20
dpkg-buildpackage: info: host architecture amd64
fakeroot debian/rules clean
dh clean --with python2,python3 --buildsystem=pybuild
dh_testdir -O--buildsystem=pybuild
dh_auto_clean -O--buildsystem=pybuild
I: pybuild base:184: python2.7 setup.py clean
running clean
removing '/tmp/buildd/python-biomaj3-3.0.20/.pybuild/pythonX.Y_2.7/build' (and everything under it)
'build/bdist.linux-amd64' does not exist -- can't clean it
'build/scripts-2.7' does not exist -- can't clean it
I: pybuild base:184: python3.6 setup.py clean
Traceback (most recent call last):
File "setup.py", line 18, in <module>
README = f.read()
File "/usr/lib/python3.6/encodings/ascii.py", line 26, in decode
return codecs.ascii_decode(input, self.errors)[0]
UnicodeDecodeError: 'ascii' codec can't decode byte 0xe2 in position 1781: ordinal not in range(128)
E: pybuild pybuild:283: clean: plugin distutils failed with: exit code=1: python3.6 setup.py clean
dh_auto_clean: pybuild --clean --test-nose -i python{version} -p 3.6 3.5 returned exit code 13
debian/rules:28: recipe for target 'clean' failed
make: *** [clean] Error 25
dpkg-buildpackage: error: fakeroot debian/rules clean gave error exit status 2
E: Failed autobuilding of package
I: unmounting dev/pts filesystem
I: unmounting run/shm filesystem
I: unmounting proc filesystem
I: cleaning the build env
I: removing directory /var/cache/pbuilder/build//28945 and its subdirectories
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