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From: Nilesh Patra <npatra974@gmail.com>
Newsgroups: linux.debian.devel.mentors,linux.debian.maint.python
Subject: [RFC] python-cobra, python3-sbml5
Date: Sat, 04 Apr 2020 15:50:01 +0200
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Hi,
Currently python-cobra FTBFS reported here [1].

>From the logs, in the last message[2] it looks like an import-error for
'_libsbml' file which corresponds to libsbml (with python3-sbml5 as a
provide) package. When I dug into looking at libsbml, I noticed that the
relevant file (libsbml.py) which throws error
is generated with swig-3.0 by the upstream [3]

While the same file in the apt archive (observed after $apt source
python3-sbml5) seems to be generated with swig-4.0, and that's the current
swig version in Debian now.

When I compared, the one generated with swig 4.0 looks pretty different
from the one generated by swig 3.0.
I "suspect" that the error is due to the swig version change to 4.0, and
corresponding API changes.

I would really appreciate if I could have more folks "confirm" that this is
the case, and I'm not missing out on anything else.
I'll then file a report upstream then, asking for corresponding code
changes needed for swig 4.0.

[1]: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=955656

[2]: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=955656#10

[3]:
https://salsa.debian.org/med-team/libsbml/-/blob/master/src/bindings/python/libsbml.py?expanded=true&viewer=simple

Thanks and regards
Nilesh

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<div dir=3D"auto">Hi,<div dir=3D"auto">Currently python-cobra FTBFS reporte=
d here [1].</div><div dir=3D"auto"><br></div><div dir=3D"auto">From the log=
s, in the last message[2] it looks like an import-error for &#39;_libsbml&#=
39; file which corresponds to libsbml (with python3-sbml5 as a provide) pac=
kage. When I dug into looking at libsbml, I noticed that the relevant file =
(libsbml.py) which throws error=C2=A0</div><div dir=3D"auto">is generated w=
ith swig-3.0 by the upstream [3]</div><div dir=3D"auto"><br></div><div dir=
=3D"auto">While the same file in the apt archive (observed after $apt sourc=
e python3-sbml5) seems to be generated with swig-4.0, and that&#39;s the cu=
rrent swig version in Debian now.</div><div dir=3D"auto"><br></div><div dir=
=3D"auto">When I compared, the one generated with swig 4.0 looks pretty dif=
ferent from the one generated by swig 3.0.</div><div dir=3D"auto">I &quot;s=
uspect&quot; that the error is due to the swig version change to 4.0, and c=
orresponding API changes.</div><div dir=3D"auto"><br></div><div dir=3D"auto=
">I would really appreciate if I could have more folks &quot;confirm&quot; =
that this is the case, and I&#39;m not missing out on anything else.</div><=
div dir=3D"auto">I&#39;ll then file a report upstream then, asking for corr=
esponding code changes needed for swig 4.0.</div><div dir=3D"auto"><br></di=
v><div dir=3D"auto">[1]:=C2=A0<a href=3D"https://bugs.debian.org/cgi-bin/bu=
greport.cgi?bug=3D955656">https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=
=3D955656</a></div><div dir=3D"auto"><br></div><div dir=3D"auto">[2]:=C2=A0=
<a href=3D"https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=3D955656#10">h=
ttps://bugs.debian.org/cgi-bin/bugreport.cgi?bug=3D955656#10</a></div><div =
dir=3D"auto"><br></div><div dir=3D"auto">[3]:=C2=A0<a href=3D"https://salsa=
.debian.org/med-team/libsbml/-/blob/master/src/bindings/python/libsbml.py?e=
xpanded=3Dtrue&amp;viewer=3Dsimple">https://salsa.debian.org/med-team/libsb=
ml/-/blob/master/src/bindings/python/libsbml.py?expanded=3Dtrue&amp;viewer=
=3Dsimple</a></div><div dir=3D"auto"><br></div><div dir=3D"auto">Thanks and=
 regards</div><div dir=3D"auto">Nilesh</div><div dir=3D"auto"><br></div></d=
iv>

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