[Debian-med-packaging] [tille at debian.org: Re: Bug#820308: qiime: many unsatisfiable dependencies]

[Tim Booth]

Hi Andreas,

My e-mail address expired when I left my old job, and I've not done
anything substantial regarding Bio-Linux or Debian packaging since that
date.  My plan when I moved jobs was to take a 6 month break from
anything packaging related in order to give my full attention to my new
job, which is requiring me to learn a lot of new things.  I'm still
sticking to that plan, so you should start to hear more from me after
June.

Having said that, I don't want to leave you floundering with QIIME so
I'll try to help.  The bad news is that the upstream developers seem to
have abandoned fixing the mess that we discussed back in October, and
they are proceeding to a ground-up rewrite as QIIME 2.  This leaves us
with QIIME 1.9.1 which is a mess but nevertheless a lot of people want
to use it and it is not going to go away soon.  Plus I did have it
working under Ubuntu 14.04, even if Lintian was not entirely happy with
my packages.

The key package here is python-burrito-fillings.  It comes with a test
suite which is not comprehensive but nevertheless is useful.  I see you
modified the package so presumably you did a local test build.  What was
the result of doing that?  Did it build and self-test OK?

Cheers,

TIM

On Thu, Apr 7, 2016, at 10:02 PM, Andreas Tille wrote:
> Hi Tim,
> 
> ... and I learned that the e-mail address you are using as Uploader in
> all Debian packages just bounces a "not available" mail.  That should
> be probably changed (either by using a valid one or removing this ID
> from Uploaders ... which would be a shame since as you read below we
> really need your help).
> 
> Kind regards
> 
>       Andreas.
> 
> ----- Forwarded message from Andreas Tille <tille at debian.org> -----
> 
> Date: Thu, 7 Apr 2016 21:45:35 +0200
> From: Andreas Tille <tille at debian.org>
> To: 820308 at bugs.debian.org, Tim Booth <tbooth at ceh.ac.uk>
> Subject: Re: Bug#820308: qiime: many unsatisfiable dependencies
> 
> Hi Tim,
> 
> it seems I trapped into the pitfall to upload qiime with the
> dependencies as available in BioLinux.  The three first missing
> Dependencies (for amd64) are a real problem while the other could
> probably be fixed by restricting the architectures to amd64 only.
> 
> Our last conversation about these depencencies was IMHO here:
> 
>    https://lists.alioth.debian.org/pipermail/debian-med-packaging/2015-October/035295.html
> 
> Tim, please help.  I feel totally unable to sort this out.
> 
> Kind regards
> 
>        Andreas.
> 
> On Thu, Apr 07, 2016 at 12:01:10PM +0200, Andreas Beckmann wrote:
> > Package: qiime
> > Version: 1.9.1+dfsg-1
> > Severity: serious
> > User: debian-qa at lists.debian.org
> > Usertags: piuparts
> > 
> > Hi,
> > 
> > during a test with piuparts I noticed your package is no longer
> > installable in sid:
> > 
> > qiime/amd64 unsatisfiable Depends: python-burrito-fillings (>= 0.1.1)
> > qiime/amd64 unsatisfiable Depends: qiime-default-reference
> > qiime/amd64 unsatisfiable Depends: emperor (>= 0.9.51)
> > qiime/i386 unsatisfiable Depends: python-burrito-fillings (>= 0.1.1)
> > qiime/i386 unsatisfiable Depends: qiime-default-reference
> > qiime/i386 unsatisfiable Depends: bwa
> > qiime/i386 unsatisfiable Depends: emperor (>= 0.9.51)
> > qiime/i386 unsatisfiable Depends: swarm
> > qiime/i386 unsatisfiable Depends: vsearch (>= 1.1.1)
> > qiime/arm64 unsatisfiable Depends: python-burrito-fillings (>= 0.1.1)
> > qiime/arm64 unsatisfiable Depends: qiime-default-reference
> > qiime/arm64 unsatisfiable Depends: bwa
> > qiime/arm64 unsatisfiable Depends: emperor (>= 0.9.51)
> > qiime/arm64 unsatisfiable Depends: infernal
> > qiime/arm64 unsatisfiable Depends: raxml
> > qiime/arm64 unsatisfiable Depends: sortmerna
> > qiime/arm64 unsatisfiable Depends: swarm
> > qiime/arm64 unsatisfiable Depends: vsearch (>= 1.1.1)
> > ...
> > 
> > 
> > Cheers,
> > 
> > Andreas
> > 
> > _______________________________________________
> > Debian-med-packaging mailing list
> > Debian-med-packaging at lists.alioth.debian.org
> > http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-packaging
> > 
> 
> -- 
> http://fam-tille.de
> 
> ----- End forwarded message -----
> 
> -- 
> http://fam-tille.de


-- 
Of course I'm a technophobe; I program computers for a living!