[Debian-med-packaging] [biopython] Building Debian jessie packages for 1.65 fails during tests (#540)

[Andreas Tille]

Hi Peter,

On Sat, May 09, 2015 at 12:48:35AM -0700, Peter Cock wrote:
> Good to know both @kblin and @tillea could reproduce a path mis-match issue within the Debian packaging test framework. I suspect this could be something about the paths and/or chroot used - can you point me at details of this setup? I may be need to try it locally to reproduce it and then debug it.

The build is done in a minimal chroot without internet access.

Another specific thing is that the test is run by

set -e; \
                             mkdir -p {build_dir}/home; \
                             mkdir -p {build_dir}/Doc/examples; \
                             cp -a Doc/Tutorial.tex {build_dir}/Doc; \
                             cp -a Doc/examples/nmr {build_dir}/Doc/examples; \
                             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

while {build_dir} will be replaced by the target install dir fitting
the used interpreter.
 
> P.S. The issue with ``test_NCBI_blast.py`` was fixed after Biopython 1.65 https://github.com/biopython/biopython/commit/08c72f8778a87701586a03dffcce33c7589bc6d7 and was due to the NCBI database changing. i.e. Harmless.

Thanks for the information.

Hope this helps reproducing

         Andreas.

-- 
http://fam-tille.de