[Blends-commit] r3351 - /projects/med/trunk/debian-med/tasks/bio

[tille at users.alioth.debian.org]

Author: tille
Date: Thu May 24 07:38:17 2012
New Revision: 3351

URL: http://svn.debian.org/wsvn/blends/?sc=1&rev=3351
Log:
Strip now redundant information about pal2nal

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=3351&op=diff
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio (original)
+++ projects/med/trunk/debian-med/tasks/bio Thu May 24 07:38:17 2012
@@ -338,6 +338,8 @@
  The upload of the package is somehow blocked because the last binary
  Jar which is included inside the source (mtj.jar) is quite hard to
  package.
+
+Depends: pal2nal
 
 X-Mark: The information below needs to be checked whether it can be obtained from Vcs or needs to stay here
 
@@ -2687,28 +2689,6 @@
  curves.  It provides a GUI for the Debian packaged r-bioc-hilbertvis and is thus
  interesting for giving users some comfort.  Until this software is not yet packaged
  you can follow the hint at the homepage how to use it with R.
-
-Depends: pal2nal
-WNPP: 604701
-Responsible: Steffen Moeller <moeller at debian.org>
-Homepage: http://www.bork.embl.de/pal2nal/
-License: to be clarified
-Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/pal2nal/trunk/
-Pkg-Description: converts proteins to genomic DNA alignment
- PAL2NAL is a program that converts a multiple sequence alignment
- of proteins and the corresponding DNA (or mRNA) sequences into
- a codon-based DNA alignment. The program automatically assigns
- the corresponding codon sequence even if the input DNA sequence
- has mismatches with the input protein sequence, or contains UTRs,
- polyA tails. It can also deal with frame shifts in the input
- alignment, which is suitable for the analysis of pseudogenes.
- The resulting codon-based DNA alignment can further be subjected
- to the calculation of synonymous (Ks) and non-synonymous (Ka)
- substitution rates.
-Published-Title: PAL2NAL: robust conversion of protein sequence alignment into the corresponding codon alignments.
-Published-Authors: Mikita Suyama, David Torrents, and Peer Bork
-Published-In: Nucleic Acids Res. 34:W609-W612
-Published-Year: 2006
 
 Depends: sra-sdk
 Homepage: http://trace.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?cmd=show&f=software&m=software&s=software