[Biojava-l] AMOScmp problem

[Spencer Bliven]

Janier,

Biojava 1 is only receiving bug fixes currently. There are a couple changes
since 1.8.2, which can be incorporated by using the 1.8.3-SNAPSHOT from the
maven repository. There is no release date for 3.0.6 yet, but again you can
use the latest SNAPSHOT from maven if you need new features.


-Spencer


On Tue, May 7, 2013 at 12:31 PM, Janier J. Ramírez <
jjramirez at estudiantes.uci.cu> wrote:

> When Biojaba 1.8.3 will be released ?
>
> cheers
>
>
> ----- Mensaje original -----
> De: "Spencer Bliven" <sbliven at ucsd.edu>
> Para: "Janier J. Ramírez" <jjramirez at estudiantes.uci.cu>
> CC: "Biojava-l at lists.open-bio.org" <biojava-l at lists.open-bio.org>
> Enviados: Martes, 7 de Mayo 2013 21:00:44
> Asunto: Re: [Biojava-l] AMOScmp problem
>
>
>
>
> Hey Janier,
>
> Sorry no one responded to your last question. Biojava doesn't currently do
> full-blown assembly, although the basic pairwise alignment algorithms are
> there.
>
> I've never used AMOScmp myself, and so can't advise you on your problem.
>
> -Spencer
>
>
>
>
> On Mon, May 6, 2013 at 6:41 PM, Janier J. Ramírez <
> jjramirez at estudiantes.uci.cu > wrote:
>
>
> Hi !
> I'm interested in the reference based assemblies using AMOScmp, I used
> tarchive2Amos to obtain the .afg file an I have the reference (.fasta
> file), but the problem is that the output files (.fasta and .contig) are
> empty. In the log files there is a WARNING which says that the file FRG.ifo
> was not found and could not retrieve mate pairs information.
> This is very important to me and won't have many time for that.
>
> Please any sugestion for this proble ?
>
> Thanks in advance
>
> --
>
>
> Universidad de las Ciencias Informáticas
> Janier J. Ramírez Landaburo
> Facultad - 6
> Tel-837-3121
> http://www.uci.cu
>
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