Hi Céline,
cool! Thanks a lot for the quick response
Andreas.
On Thu, Aug 06, 2015 at 02:40:36PM +0200, Céline Mercier wrote:
> Hi!
> I rewrote the documentation in Markdown (I wanted to do it eventually
> anyway!), included the source in the archive, increased the version number to
> 1.0.10 and added a ‘Latest Updates’ section in the wiki, for both Sumatra and
> Sumaclust.
> Thanks!
> Céline
>
>
> > Le 5 août 2015 à 22:18, Andreas Tille <andr...@fam-tille.de> a écrit :
> >
> > Hi,
> >
> > I'm writing you on behalf of the Debian Med team that has the goal to
> > package free software of the field of biology and medicine for official
> > Debian. Since we want to upgrade QIIME to version 1.9.1 we also need
> > to package sumatry which I just announced (see below).
> >
> > The packaging is nearly finished but there is a remaining issue. The
> > manual sumatra_user_manual.pdf is only available as PDF. In Debian a
> > PDF without source (LaTeX, etc.) is considered as binary without source
> > and can not be distributed. Would you mind to add the source of the PDF
> > manual to the release tarball. As an intermediate solution any place to
> > download the source would be fine.
> >
> > BTW, I have tried to convert the output of sumatra into a manpage:
> >
> >
> > https://anonscm.debian.org/viewvc/debian-med/trunk/packages/sumatra/trunk/debian/sumatra.1?view=markup
> >
> > Feel free to take this over into your distribution.
> >
> > Since it might be that we also will package sumaclust: Also here we
> > would need the source for the PDF.
> >
> > BTW, while in sumatra download tarball 1.0.01 both tools were included
> > in one download tarball, a split was done in 1.0.03. From my naive
> > point of view the split of these tools would rectify a higher increase
> > of the version number and also some documentation file (say NEWS) would
> > help the user to realise what happened.
> >
> > Kind regards
> >
> > Andreas.
> >
> > On Wed, Aug 05, 2015 at 09:41:20PM +0200, Andreas Tille wrote:
> >> Package: wnpp
> >> Severity: wishlist
> >> Owner: Andreas Tille <ti...@debian.org>
> >>
> >> * Package name : sumatra
> >> Version : 1.0.03
> >> Upstream Author : Tiayyba Riaz e.a
> >> * URL : http://metabarcoding.org/sumatra
> >> * License : CeCILL-2
> >> Programming Lang: C
> >> Description : fast and exact comparison and clustering of sequences
> >> With the development of next-generation sequencing, efficient tools are
> >> needed to handle millions of sequences in reasonable amounts of time.
> >> Sumatra is a program developed by the LECA. Sumatra aims to compare
> >> sequences in a way that is fast and exact at the same time. This tool
> >> has been developed to be adapted to the type of data generated by DNA
> >> metabarcoding, i.e. entirely sequenced, short markers. Sumatra computes
> >> the pairwise alignment scores from one dataset or between two datasets,
> >> with the possibility to specify a similarity threshold under which pairs
> >> of sequences that have a lower similarity are not reported. The output
> >> can then go through a classification process with programs such as MCL
> >> or MOTHUR.
> >>
> >>
> >> Remark: This package was prepared by Tim Booth for BioLinux as a
> >> predependency for QIIME 1.9.1. It is taken over by Debian Med and
> >> maintained at
> >> svn://anonscm.debian.org/debian-med/trunk/packages/sumatra/trunk/
> >>
> >> _______________________________________________
> >> Debian-med-packaging mailing list
> >> debian-med-packag...@lists.alioth.debian.org
> >> http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-packaging
> >>
> >
> > --
> > http://fam-tille.de
>
>
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