SSPACE-basic GitHub repository

[Sascha Steinbiss]

Dear Dr. Soranzo,

I am writing you on behalf of the Debian Med team, a group within the Debian 
project with the objective to package free software with relevance in biology 
and medicine for official Debian. 

I noticed that you provide a GitHub repository with the SSPACE basic source 
code [1], under the GPLv2 [2]. This version of SSPACE would in principle be 
possible to be packaged for Debian, as inclusion into the main archive requires 
such a free license, allowing for free redistribution.
I was wondering how the version that you provide relates to the non-free 
version (SSPACE standard) provided by Baseclear [3]. Is the one that you 
provide a different or reduced-functionality version compared to theirs? Most 
importantly, Baseclear make no mention of any kind of free license — on the 
contrary, they require users to contact them to obtain the software and also 
handle commercial users separately, a notion that the GPL does not have. 

I would be glad if you could clarify how this GPL-licensed version came to be? 
We would be very thankful if this was a version that the original authors of 
SSPACE released under a free license, and would be happy to package it for 
Debian.

Many thanks
Sascha Steinbiss

[1] https://github.com/nsoranzo/sspace_basic 
[2] https://github.com/nsoranzo/sspace_basic/blob/master/COPYING
[3] http://www.baseclear.com/genomics/bioinformatics/basetools/SSPACE

Re: solution for testing migration for arch:all package with missing i386 deps

[Afif Elghraoui]

على الخميس  2 حزيران 2016 ‫09:47، كتب Afif Elghraoui:
> Here is the thread where I negotiated for circlator:
> 
> This took longer because I had to explain why bwa, spades, and pysam
> could not be built for i386.
> 
> And I had to ask for exceptions again (on 5/29) recently for pbh5tools
> and smrtanalysis. That message does not appear in their list archives
> (yet?) for some reason,

Here's that second link, for the record.
 I didn't
notice that the month of May had two pages of archives...

> but that process was very quick since the
> reasons were already explained before.
> 

regards
Afif

-- 
Afif Elghraoui | عفيف الغراوي
http://afif.ghraoui.name

Re: python-cobra and rdp-readseq now reproducible

[Afif Elghraoui]

على الجمعـة  3 حزيران 2016 ‫07:11، كتب Andreas Tille:
> Uploaded both - thanks for working on this, Andreas.
> 
> On Fri, Jun 03, 2016 at 11:55:34AM +0100, Sascha Steinbiss wrote:
>> Hi,
>>
>> BTW, the two packages in the subject are now reproducible as well, could
>> someone please take a look? Changes are in git and SVN, respectively.
>>

Many thanks, Sascha and Andreas! I'll make a note to forward Sascha's
patch for python-cobra upstream.

regards
Afif

-- 
Afif Elghraoui | عفيف الغراوي
http://afif.ghraoui.name