[Cdd-commits] r1058 - projects/med/trunk/debian-med/tasks

[CDD Subversion Commit]

Author: tille
Date: Fri Sep  5 13:46:27 2008
New Revision: 1058

Modified:
   projects/med/trunk/debian-med/tasks/bio
   projects/med/trunk/debian-med/tasks/bio-dev
Log:
Clean up tasks files about not yet fulfilled dependencies


Modified: projects/med/trunk/debian-med/tasks/bio
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio	(original)
+++ projects/med/trunk/debian-med/tasks/bio	Fri Sep  5 13:46:27 2008
@@ -9,7 +9,7 @@
 Depends:     molphy, phylip, treetool
 Why:         Phylogenetic analysis (Non-free, thus only suggested).
 
-Depends:     fastlink, loki, r-cran-qtl, r-other-genabel
+Depends:     fastlink, loki, r-cran-qtl
 Why:         Genetics
 
 Depends:     amap-align, blast2, boxshade, dialign, gff2aplot, emboss, hmmer, kalign, mummer, muscle, poa, probcons, proda, seaview, sim4, sibsim4, sigma-align, t-coffee, wise, exonerate
@@ -35,8 +35,6 @@
 Depends: glam2
 Why:         Motif search
 
-Suggests: pdb2pqr
-
 Suggests: biococoa.app
 Why: Only suggests, because current version in Debian breaks, has new upstream -
      at least version 1.7 might run under Linux, the new designed 2.0 seems to
@@ -45,6 +43,35 @@
 
 Depends: maq
 
+Suggest: pdb2pqr
+Homepage: http://pdb2pqr.sourceforge.net/
+Responsible: Manuel Prinz <debian at pinguinkiste.de>
+License: GPL
+WNPP: 416269
+Pkg-URL: http://svn.debian.org/wsvn/debian-med/trunk/packages/pdb2pqr/trunk/?rev=0&sc=0
+Pkg-Description: Converts Protein Data Bank (PDB) files to PQR
+ From the PDB2PQR hompage: "PDB2PQR is a Python software package that
+ automates many of the common tasks of preparing structures for
+ continuum electrostatics calculations. This includes adding a limited
+ number of missing heavy atoms to biomolecular structures, optimizing
+ the protein for favorable hydrogen bonding, determining side-chain
+ pKas, and assigning charge and radius parameters from a variety of
+ force fields, ultimately yielding a final PQR file."
+ .
+ PDB2PQR is a tool often used in conjunction with APBS, which is in
+ Debian already. I have had good contact with both upstream authors in
+ the past.
+
+Depends: r-other-genabel
+Homepage: http://mga.bionet.nsc.ru/nlru/GenABEL/
+Responsible: Steffen Moeller <steffen_moeller at gmx.de>
+License: GPL 2+
+WNPP: #492044
+Pkg-URL: http://svn.debian.org/wsvn/debian-med/trunk/packages/R/r-other-genabel/trunk/?rev=0&sc=0
+Pkg-Description: genome-wide SNP association analysis
+ A package for genome-wide association analysis between quantitative
+ or binary traits and single-nucleiotide polymorphisms (SNPs).
+
 Depends: meme
 Homepage: http://meme.nbcr.net/meme/
 Responsible: Steffen Moeller <moeller at debian.org>

Modified: projects/med/trunk/debian-med/tasks/bio-dev
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio-dev	(original)
+++ projects/med/trunk/debian-med/tasks/bio-dev	Fri Sep  5 13:46:27 2008
@@ -15,7 +15,7 @@
 
 Depends: libqsearch-dev
 
-Depends: libgenome-1.3-1
+Depends: libgenome-1.3-0
 
 Depends: libbio-mage-perl
 Why: Useful for the submission of microarray data to public repositories.