[Biopython-dev] Bug#746484: file not distributable

[Peter Cock]

On Wed, Apr 30, 2014 at 2:30 PM, Andreas Tille <tille at debian.org> wrote:
> Hi Peter,
>
> thanks for your super-fast response.
>
> On Wed, Apr 30, 2014 at 02:24:42PM +0100, Peter Cock wrote:
>> Are you specifically asking about Biopython 1.63 here?
>
> Yes.  Since I have added python3 binary packages Biopython 1.63 went
> through manual inspection by ftpmaster and this issue was noticed.

Very through of them - thanks! Also thank you for doing the Debian
Python3 packaging of Biopython :)

>> I think you
>> can reasonable exclude this DTD file (and any others under the
>> Bio/Entrez/DTD file). Biopython 1.63 will warn if they are missing
>> but attempt to download them automatically.
>
> OK.
>
>> We're looking at dropping all the NCBI Entrez related DTD files,
>> since the next Biopython release (v1.64) will automatically download
>> AND cache them - see recent discussion, e.g.
>>
>> http://lists.open-bio.org/pipermail/biopython-dev/2014-March/011205.html
>
> That's fine.
>
>> We haven't actually removed the files on GitHub yet, but this
>> might be an incentive to do so.
>
> OK, meanwhile (as long as 1.64 is not yet released) I will remove the
> file from the Debian archive.
>
> Thanks for the clarification
>
>      Andreas.

Great,

Peter

P.S. I'm skimming over the Debian patches to see what we can fix:
http://anonscm.debian.org/viewvc/debian-med/trunk/packages/python-biopython/trunk/debian/patches/
e.g. https://github.com/biopython/biopython/commit/2f098ac5311e0eec3d6737f4fff60e18c50b9481