Source: python-biopython Version: 1.66+dfsg-1 Severity: serious Justification: fails to build from source User: reproducible-bui...@lists.alioth.debian.org Usertags: ftbfs X-Debbugs-Cc: reproducible-bui...@lists.alioth.debian.org
Dear Maintainer,
python-biopython fails to build from source in unstable/amd64:
[..]
======================================================================
ERROR: test_phyml (test_phyml_tool.AppTests)
Run PhyML using the wrapper.
----------------------------------------------------------------------
Traceback (most recent call last):
File
"/home/lamby/temp/cdt.20160130233124.nsZ8IkBTDh/python-biopython-1.66+dfsg/.pybuild/pythonX.Y_2.7/build/Tests/test_phyml_tool.py",
line 46, in test_phyml
out, err = cmd()
File
"/home/lamby/temp/cdt.20160130233124.nsZ8IkBTDh/python-biopython-1.66+dfsg/.pybuild/pythonX.Y_2.7/build/Bio/Application/__init__.py",
line 517, in __call__
stdout_str, stderr_str)
ApplicationError: Non-zero return code 255 from 'phyml -i
Phylip/interlaced2.phy -d aa', message 'beignet-opencl-icd: no supported GPU
found, this is probably the wrong opencl-icd package for this hardware'
----------------------------------------------------------------------
Ran 229 tests in 103.372 seconds
FAILED (failures = 1)
Skipping any tests requiring internet access
Python version: 2.7.11 (default, Jan 11 2016, 21:04:40)
[GCC 5.3.1 20160101]
Operating system: posix linux2
E: pybuild pybuild:274: test: plugin custom failed with: exit code=1: set -e;
\
mkdir -p
/home/lamby/temp/cdt.20160130233124.nsZ8IkBTDh/python-biopython-1.66+dfsg/.pybuild/pythonX.Y_2.7/build/home;
\
mkdir -p
/home/lamby/temp/cdt.20160130233124.nsZ8IkBTDh/python-biopython-1.66+dfsg/.pybuild/pythonX.Y_2.7/build/Doc/examples;
\
cp -a Doc/Tutorial.tex
/home/lamby/temp/cdt.20160130233124.nsZ8IkBTDh/python-biopython-1.66+dfsg/.pybuild/pythonX.Y_2.7/build/Doc;
\
cp -a Doc/Tutorial
/home/lamby/temp/cdt.20160130233124.nsZ8IkBTDh/python-biopython-1.66+dfsg/.pybuild/pythonX.Y_2.7/build/Doc;
\
cp -a Doc/examples
/home/lamby/temp/cdt.20160130233124.nsZ8IkBTDh/python-biopython-1.66+dfsg/.pybuild/pythonX.Y_2.7/build/Doc;
\
cp -a Tests
/home/lamby/temp/cdt.20160130233124.nsZ8IkBTDh/python-biopython-1.66+dfsg/.pybuild/pythonX.Y_2.7/build;
\
cd
/home/lamby/temp/cdt.20160130233124.nsZ8IkBTDh/python-biopython-1.66+dfsg/.pybuild/pythonX.Y_2.7/build/Tests;
\
env DIALIGN2_DIR=/usr/share/dialign
EMBOSS_ROOT=/usr/lib/emboss
HOME=/home/lamby/temp/cdt.20160130233124.nsZ8IkBTDh/python-biopython-1.66+dfsg/.pybuild/pythonX.Y_2.7/build/home
python2.7 run_tests.py --offline
dh_auto_test: pybuild --test -i python{version} -p 2.7 --test --system=custom
--test-args=set -e; \
mkdir -p {build_dir}/home; \
mkdir -p {build_dir}/Doc/examples; \
cp -a Doc/Tutorial.tex {build_dir}/Doc; \
cp -a Doc/Tutorial {build_dir}/Doc; \
cp -a Doc/examples {build_dir}/Doc; \
cp -a Tests {build_dir}; \
cd {build_dir}/Tests; \
env DIALIGN2_DIR=/usr/share/dialign
EMBOSS_ROOT=/usr/lib/emboss HOME={build_dir}/home {interpreter} run_tests.py
--offline --dir . returned exit code 13
debian/rules:67: recipe for target 'override_dh_auto_test' failed
make[1]: *** [override_dh_auto_test] Error 25
make[1]: Leaving directory
'/home/lamby/temp/cdt.20160130233124.nsZ8IkBTDh/python-biopython-1.66+dfsg'
debian/rules:49: recipe for target 'build' failed
make: *** [build] Error 2
[..]
The full build log is attached.
Regards,
--
,''`.
: :' : Chris Lamb
`. `'` la...@debian.org / chris-lamb.co.uk
`-
python-biopython.1.66+dfsg-1.unstable.amd64.log.txt.gz
Description: Binary data
