[Blends-commit] r3424 - /projects/med/trunk/debian-med/tasks/bio

[tille at users.alioth.debian.org]

Author: tille
Date: Sat Jun 16 19:47:46 2012
New Revision: 3424

URL: http://svn.debian.org/wsvn/blends/?sc=1&rev=3424
Log:
bio-mauve was just mentioned as mauvealigner

Modified:
    projects/med/trunk/debian-med/tasks/bio

Modified: projects/med/trunk/debian-med/tasks/bio
URL: http://svn.debian.org/wsvn/blends/projects/med/trunk/debian-med/tasks/bio?rev=3424&op=diff
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio (original)
+++ projects/med/trunk/debian-med/tasks/bio Sat Jun 16 19:47:46 2012
@@ -350,6 +350,11 @@
 
 Depends: mauvealigner
 Pkg-URL: http://people.debian.org/~tille/packages/mauvealigner/
+Language: C++ and Java
+X-Category: Multiple genome alignment
+X-Importance: efficient
+Remark: There are instructions for compiling Mauve from source available at
+ http://asap.ahabs.wisc.edu/mauve/mauve-developer-guide/compiling-mauvealigner-from-source.html
 
 Depends: meme
 License: non-free for commercial purpose (http://meme.nbcr.net/meme/COPYRIGHT.html)
@@ -575,38 +580,6 @@
 Remark: Successor for ssaha2 available: smalt
  The program smalt is from the same author is according to its author
  faster and more precise than ssaha2 (except for sequences > 2000bp)
-
-Depends: bio-mauve
-Homepage: http://asap.ahabs.wisc.edu/mauve/
-Responsible: Andreas Tille <tille at debian.org>
-License: GPL
-Language: C++ and Java
-X-Category: Multiple genome alignment
-X-Importance: efficient
-Pkg-Description: multiple genome alignment
- Mauve is a system for efficiently constructing multiple genome alignments
- in the presence of large-scale evolutionary events such as rearrangement
- and inversion. Multiple genome alignment provides a basis for research
- into comparative genomics and the study of evolutionary dynamics.  Aligning
- whole genomes is a fundamentally different problem than aligning short
- sequences.
- .
- Mauve has been developed with the idea that a multiple genome aligner
- should require only modest computational resources. It employs algorithmic
- techniques that scale well in the amount of sequence being aligned. For
- example, a pair of Y. pestis genomes can be aligned in under a minute,
- while a group of 9 divergent Enterobacterial genomes can be aligned in
- a few hours.
- .
- Mauve computes and interactively visualizes genome sequence comparisons.
- Using FastA or GenBank sequence data, Mauve constructs multiple genome
- alignments that identify large-scale rearrangement, gene gain, gene loss,
- indels, and nucleotide substutition.
- .
- Mauve is developed at the University of Wisconsin.
- .
- Note: There are instructions for compiling Mauve from source available at
- http://asap.ahabs.wisc.edu/mauve/mauve-developer-guide/compiling-mauvealigner-from-source.html
 
 Depends: phylographer
 Homepage: http://www.atgc.org/PhyloGrapher/PhyloGrapher_Welcome.html