[Blends-commit] r2780 - /projects/med/trunk/debian-med/tasks/bio

[tille at users.alioth.debian.org]

Author: tille
Date: Mon Apr 25 20:27:08 2011
New Revision: 2780

URL: http://svn.debian.org/wsvn/blends/?sc=1&rev=2780
Log:
Fixed more Depends values, Added missing Pkg-Descriptions, proper specification of citations

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=2780&op=diff
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio (original)
+++ projects/med/trunk/debian-med/tasks/bio Mon Apr 25 20:27:08 2011
@@ -3762,9 +3762,10 @@
 Published-In: Nucleic Acids Research
 Published-Year: 1999
 
-Depends: RMBlast 
+Depends: rmblast 
 Homepage: http://tandem.bu.edu/trf/trf.html
 License: Same as blast2
+Pkg-Description: RepeatMasker compatible version of the standard NCBI BLAST
  RMBlast is a RepeatMasker compatible version of the standard NCBI BLAST 
  suite. The primary difference between this distribution and the NCBI 
  distribution is the addition of a new program "rmblastn" for use with 
@@ -3775,10 +3776,11 @@
  scoring. Cross_match is Phil Green's seeded smith-waterman search algorithm. 
  Support for cross_match-like masklevel filtering.
 
-Depends: Augustus
+Depends: augustus
 Homepage: http://augustus.gobics.de/
 License: not explicitely specified
- AUGUSTUS is a program that predicts genes in eukaryotic genomic sequences. 
+Pkg-Description: predict genes in eukaryotic genomic sequences
+ AUGUSTUS is a program that predicts genes in eukaryotic genomic sequences.
  It can be run on this web server or be downloaded and run locally. It is 
  open source so you can compile it for your computing platform. You can now 
  run AUGUSTUS on the German MediGRID. This enables you to submit larger 
@@ -3786,21 +3788,24 @@
  prediction. The MediGRID requires an instant easy registration by email 
  for first-time users.
  
-Depends: Mugsy
+Depends: mugsy
 Homepage: http://mugsy.sourceforge.net/
 License: Artistic License 2.0
+Pkg-Description: multiple whole genome aligner
  Mugsy is a multiple whole genome aligner. Mugsy uses Nucmer for pairwise 
  alignment, a custom graph based segmentation procedure for identifying 
  collinear regions, and the segment-based progressive multiple alignment 
  strategy from Seqan::TCoffee. Mugsy accepts draft genomes in the form 
  of multi-FASTA files and does not require a reference genome. 
- To cite Mugsy, use:
- Angiuoli SV, Salzberg SL. Mugsy: fast multiple alignment of 
-  closely related whole genomes. Bioinformatics. 2011 27(3):334-42
-
-Depends: Apollo
+Published-Title: Mugsy: fast multiple alignment of closely related whole genomes
+Published-Authors: Angiuoli SV, Salzberg SL
+Published-In: Bioinformatics
+Published-Year: 2011
+
+Depends: apollo
 Homepage: http://gmod.org/wiki/Apollo
 License: Artistic License
+Pkg-Description: genome annotation viewer and editor
  Apollo is a genome annotation viewer and editor. It was developed as a 
  collaboration between the Berkeley Drosophila Genome Project (part of 
  the FlyBase consortium) and The Sanger Institute in Cambridge, UK.