[Debian-med-packaging] Installation of binary tools inside MEME

[Charles Plessy]

[re-sent to all recipients]

Le Wed, Feb 13, 2013 at 10:18:58AM +1000, James Johnson a écrit :
> 
> The program "tree" can probably be renamed (maybe mhmm_tree) for
> future releases to avoid this problem because I don't believe any
> work has been published referencing that name. I don't think we can
> do that with "purge" ( Neuwald /et al./, "Gibbs motif sampling:
> detection of bacterial outer membrane protein repeats", Protein
> Science, *4*:1618--1632, 1995. ) or "dust" (
> http://www.liebertonline.com/doi/abs/10.1089/cmb.2006.13.1028 )
> though because they're someone else's published programs. It's
> possible they don't need to be included at all though we do have
> documentation for purge so maybe it's part of some people's workflow
> ( http://xkcd.com/1172/ ). They were originally used as filters for
> sequences on the MEME webservice though they were disabled before I
> started working on the MEME Suite (I have no idea why).

Hi James,

maybe 'purge' came with GLAM2 when it was merged in the MEME suite ?

In Debian, we actually distribute GLAM2's 'purge' program (Neuwald /et al./) as
/usr/bin/glam2-purge...

Have a nice day,

--
Charles Plessy
Debian Med packaging team,
http://www.debian.org/devel/debian-med
Tsurumi, Kanagawa, Japan