[Blends-commit] r3067 - /projects/med/trunk/debian-med/tasks/bio

[tille at users.alioth.debian.org]

Author: tille
Date: Tue Nov 29 07:51:08 2011
New Revision: 3067

URL: http://svn.debian.org/wsvn/blends/?sc=1&rev=3067
Log:
denoiser now bundled together with qiime

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=3067&op=diff
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio (original)
+++ projects/med/trunk/debian-med/tasks/bio Tue Nov 29 07:51:08 2011
@@ -195,7 +195,7 @@
 
 Depends: last-align, maq, ssake, velvet
 
-Depends: qiime
+Depends: qiime, qiime-denoiser
 
 X-End-Category: high-throughput sequencing
 
@@ -2992,8 +2992,6 @@
  TreeTime is controlled by input files in nexus format and does
  bayesian sampling of phylogenetic trees from these data.
 
-Depends: qiime
-
 Depends: biomaj
 
 Depends: abacas
@@ -3032,22 +3030,6 @@
 Published-Year: 2004
 
 Depends: vcftools
-
-Depends: denoiser
-WNPP: 587274
-Homepage:  http://www.microbio.me/denoiser/
-License: GPL
-Language: Haskell
-Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/denoiser/trunk/?rev=0&sc=0
-Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/denoiser/trunk/
-Responsible: Steffen Moeller <steffen_moeller at gmx.de>
-Pkg-Description: Rapid denoising of pyrosequencing amplicon data
- To denoise pyrosequencing amplicon data, the package exploits the
- rank-abundance distribution.  PyroNoise uses an expectation maximization
- (EM) algorithm to figure out the most likely sequence for every read. We,
- instead, use a greedy scheme that can be seen as an approximation to
- PyroNoise. According to several test data sets, the approximation gives
- very similar results in a fraction of the time.
 
 Suggests: mobyle
 License: GPL-2+