Re: Bug#493977: ITP: embassy-phylip -- EMBOSS conversions of the programs in the phylip package
Hi Vincent,
How about:
This package is the adaptation of the PHYLIP package in which its
programs can operate with the biological sequence formats and databases
of the European Molecular Biology Open Software Suite (EMBOSS). The
software packages adapted for EMBOSS are called EMBASSY.
.
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.
> Moreover, reading your part on EMBASSY, I understand that EMBOSS is GPL
> but not necessarily EMBASSY. Am I right ? (I cannot because PHYLIP is not
> free, so either PHYLIP is not a part of EMBOSS or EMBOSS is not all GPL)
Sorry for the confusion. EMBOSS applications are GPL and EMBOSS
libraries are LGPL.
As Andreas pointed out, there is a lot of source duplication between the
PHYLIP and its EMBASSY fork. But building one from the other seems to be
a lot of complication for no benefit, as the EMBASSY PHYLIP programs are
not wrappers..
Have a nice day,
--
Charles Plessy
Debian Med packaging team,
Tsurumi, Kanagawa, Japan
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