[Debian-med-packaging] Bug#868919: physamp: FTBFS: AlignmentOptimizer.cpp:39:32: fatal error: Bpp/Seq/Alphabet.all: No such file or directory

[Julien Yann Dutheil]

Hi Andreas,

On Thu, Jul 20, 2017 at 11:21 AM, Andreas Tille <andreas at an3as.eu> wrote:

> Hi Julien,
>
> On Thu, Jul 20, 2017 at 10:49:10AM +0200, Julien Yann Dutheil wrote:
> > Yes, should be. But I noticed some other problems... I have made a
> version
> > 1.0.2 addressing them. Then I synchronized the upstream branch
> accordingly,
> > and then merged the master branch and the upstream branch, is that the
> > correct way to do?
>
> Not really.
>

Humm, I should have suspected that, I went a bit too fast, sorry about
that. I have now proceeded as you said.

>
>
> > I also committed a patch for bppsuite on x32 arch.
>
> Two remarks:
>
>   1. Please leave the header information inside the patch
>      (Author, Description, etc.)
>

I am not sure I understand that point :s


>   2. x32 is not a released architecture.  So its for sure
>      fine to care for this as well but it is acceptable to
>      delay uploads until there are stronger reasons for
>      a new upload.  I'll upload now but may be will not in
>      future cases and keep the target "UNRELEASED" in Git.
>
> Sorry, one more point I was not aware of. Strangely, the underlying issue
was important, and it is surprising that it only led to an error on that
architecture.


> > Will now work on maffilter.
>
> Fine.
>

As maffilter only shows the same issue on the x32 arch, I leave it as is
for now. I will fix the underlying issue upstream so that it is fixed for
the next version, is that ok?

>
> Thanks again for your cooperation
>

Next on the list was the program called "comap" (also on
github.com/jydu/comap), but it is not on the debian git yet. Shall I try to
follow carefully the Debian Med policy and see if I can come to something
acceptable? With the experience I gained on the other packages, my chance
of success should be non null... (wishful thinking I know)

Best,

Julien.

>
>       Andreas.
>
> --
> http://fam-tille.de
>



-- 
Julien Y. Dutheil, Ph-D
0 (+49) 6421 178 986 <+49%206421%20178986>

§ Max Planck Institute for Evolutionary Biology
Molecular Systems Evolution
Department of Evolutionary Genetics
Plön -- GERMANY

§ Institute of Evolutionary Sciences - Montpellier
University of Montpellier 2 -- FRANCE
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