[Blends-commit] r2810 - in /projects/med/trunk/debian-med/tasks: bio bio-ngs bio-phylogeny

[tille at users.alioth.debian.org]

Author: tille
Date: Wed May  4 09:25:19 2011
New Revision: 2810

URL: http://svn.debian.org/wsvn/blends/?sc=1&rev=2810
Log:
Better long descriptions; clonalframe now official package

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

Modified: projects/med/trunk/debian-med/tasks/bio
URL: http://svn.debian.org/wsvn/blends/projects/med/trunk/debian-med/tasks/bio?rev=2810&op=diff
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio (original)
+++ projects/med/trunk/debian-med/tasks/bio Wed May  4 09:25:19 2011
@@ -423,6 +423,8 @@
 Suggests: pdb2pqr
 
 Depends: squizz
+
+Depends: clonalframe
 
 Depends: r-other-genabel
 Homepage: http://mga.bionet.nsc.ru/nlru/GenABEL/
@@ -3276,25 +3278,6 @@
  ancestry.
 Published-URL: http://www.genetics.org/cgi/content/abstract/genetics.110.120121v1
 
-Depends: clonalframe:
-License: GPLv3
-Homepage: http://www.xavierdidelot.xtreemhost.com/clonalframe.htm
-Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/clonalframe/trunk
-Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/clonalframe/trunk/?rev=0&sc=0
-Pkg-Description: inference of bacterial microevolution using multilocus sequence data
- ClonalFrame identifies the clonal relationships between the members of
- a sample, while also estimating the chromosomal position of homologous
- recombination events that have disrupted the clonal inheritance.
- .
- ClonalFrame can be applied to any kind of sequence data, from a single
- fragment of DNA to whole genomes. It is well suited for the analysis of
- MLST data, where 7 gene fragments have been sequenced, but becomes
- progressively more powerful as the sequenced regions increase in length
- and number up to whole genomes. However, it requires the sequences to be
- aligned. If you have genomic data that is not aligned, we recommend
- using Mauve which produces alignment of whole bacterial genomes in
- exactly the format required for analysis with ClonalFrame.
-
 Depends: zodiac
 Homepage: http://www.zeden.org/
 License: GPL

Modified: projects/med/trunk/debian-med/tasks/bio-ngs
URL: http://svn.debian.org/wsvn/blends/projects/med/trunk/debian-med/tasks/bio-ngs?rev=2810&op=diff
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio-ngs (original)
+++ projects/med/trunk/debian-med/tasks/bio-ngs Wed May  4 09:25:19 2011
@@ -3,6 +3,7 @@
  It aims at gettting packages which specializes in alignment of
  sequences produced by next generation sequencing.
 Metapackage: false
+
 Comment: Do not build a metapackage because it is not clear in how far this set of
  packages is complete regarding NGS.
 

Modified: projects/med/trunk/debian-med/tasks/bio-phylogeny
URL: http://svn.debian.org/wsvn/blends/projects/med/trunk/debian-med/tasks/bio-phylogeny?rev=2810&op=diff
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio-phylogeny (original)
+++ projects/med/trunk/debian-med/tasks/bio-phylogeny Wed May  4 09:25:19 2011
@@ -1,7 +1,11 @@
 Task: Phylogeny
 Description: Debian Med phylogeny packages
  This lists Debian packages related to phylogeny for use in life sciences.
+ The purpose of this compilation of packages is to have a handy subset of
+ from the med-bio metapackage which contains a lot more than only phylogeny
+ related software.
 Metapackage: false
+
 Comment: Do not build a metapackage because it is not clear in how far this set of
  packages is complete regarding phylogeny.