[Debian-med-packaging] Bug#820060: Debian Bug#820060: python-biom-format: broken on big-endian architectures

[Greg Caporaso]

Thanks for sharing this.

Daniel, Yoshiki - any ideas about this?

Greg
---------- Forwarded message ----------
From: Andreas Tille <andreas at an3as.eu>
Date: Mon, Apr 4, 2016 at 11:18 PM
Subject: Debian Bug#820060: python-biom-format: broken on big-endian
architectures
To: Greg Caporaso <gregcaporaso at gmail.com>, 820060 at bugs.debian.org


Hi Greg,

I'm hereby forwarding a bug report against the Debian packaged
biom-format.  It would be great if you can either fix the issue (which
would be the prefered solution) or explain that for some reason
big-endian is not supported and we need to exclude these architectures
from the build.

Kind regards

       Andreas.

On Mon, Apr 04, 2016 at 10:44:51PM -0700, Steve Langasek wrote:
> Package: python-biom-format
> Version: 2.1.4+dfsg-1
> Severity: serious
>
> As seen at http://buildd.debian.org/python-biom-format, this package fails
> to build on all big-endian architectures in the archive (mips, powerpc,
> s390x).  While this build failure has only appeared with the upload of
> 2.1.5+dfsg-1, this is not a regression in that version of the upstream
> source; instead, the package was already broken, but what has changed now
is
> that a new version of dh-python correctly finds the tests and runs them at
> build time where before dh_auto_test was silently passing.
>
> I'm not sure if this points to breakage in python-biom-format, or in
> something lower down the stack that it depends on.  I've confirmed that
> python-numpy autopkgtests run ok on powerpc (except for openblas - and the
> tests can't be run on s390x because openblas is not built for that
> architecture), and h5py autopkgtests run ok on s390x.  python-scipy's
> autopkgtests fail with SIGABRT on both powerpc and s390x, maybe related,
> maybe not (test_random_complex_exact (test_basic.TestLstsq) ... *** Error
in
> `python3.5': free(): invalid pointer: 0x1172c2a8 ***).
>
> And hdf5 itself doesn't have any autopkgtests, and any build-time tests
> pass; and h5py in any case should catch any bugs with its own testsuite
> before python-biom-format.
>
> So it seems most likely that this is a bug in python-biom-format itself
> rather than any of its dependencies, thus assigning here.
>
> --
> Steve Langasek                   Give me a lever long enough and a Free OS
> Debian Developer                   to set it on, and I can move the world.
> Ubuntu Developer                                    http://www.debian.org/
> slangasek at ubuntu.com                                     vorlon at debian.org



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