[Debian-med-packaging] embassy-phylip_3.68-1_amd64.changes is NEW
charles-listes-med-packaging at plessy.org
Sat Aug 8 14:42:50 UTC 2009
Le Sat, Aug 08, 2009 at 04:34:52PM +0200, Andreas Tille a écrit :
> On Sat, Aug 08, 2009 at 01:02:04PM +0000, Archive Administrator wrote:
> > PHYLIP (the PHYLogeny Inference Package) is a package of programs for
> > inferring phylogenies (evolutionary trees). Methods that are available
> > in the package include parsimony, distance matrix, and likelihood
> > methods, including bootstrapping and consensus trees. Data types that
> > can be handled include molecular sequences, gene frequencies,
> > restriction sites and fragments, distance matrices, and discrete
> > characters.
> > .
> > The EMBASSY PHYLIP programs all have the prefix "f" to distinguish them
> > from the original programs and avoid namespace conflict.
> What exactly is the difference between phylip and embassy-phylip?
> I did not got it out of the description. Could some command line switch
> or something like this which might be acceptable by phylip authors and
> that way avoid potential duplication of code?
Embassy-philip provides the same functionalities but with an emboss command
line interface, which gives the possibility to get sequences directly from
databases, for instance. The embassy-phylip have a prefix to their name, so
both versions can be installed together. I have seen at least one phylogeny
pipeline that was specifically depending on embassy-phylip. I was about to use
it last week, which is why I took opportunity to close this old ITP bug.
I do not think that we can do much for the code duplication, but it is very
unlikely that it causes us some problems.
Have a nice day,
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