[Debian-med-packaging] Bug#458926: probcons contains incorrect probcons-RNA sub-program

[Benjamin Redelings]

Package: probcons
Version: 1.12-3
Severity: normal

The probcons package contains a binary probcons-RNA that is very 
different than the one that is provided at this page:

   http://probcons.stanford.edu/download.html

It gives very different result when applied to a collection of diverse 
5S RNAs, producing a huge alignment that is mostly gaps.  Attempts to 
train it (using the -t option) produce a parameter file that contains an 
amino-acid transition matrix, NOT a nucleic-acid transition matrix.
-- System Information:
Debian Release: lenny/sid
  APT prefers unstable
  APT policy: (500, 'unstable'), (1, 'experimental')
Architecture: amd64 (x86_64)

Kernel: Linux 2.6.22-3-amd64 (SMP w/2 CPU cores)
Locale: LANG=en_US.UTF-8, LC_CTYPE=en_US.UTF-8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/bash

Versions of packages probcons depends on:
ii  libc6                   2.7-5            GNU C Library: Shared libraries
ii  libgcc1                 1:4.3-20071130-1 GCC support library
ii  libstdc++6              4.3-20071130-1   The GNU Standard C++ Library v3

probcons recommends no packages.

-- no debconf information