Fri Mar 2 00:07:41 UTC 2012

Author: plessy
Date: 2012-03-02 00:07:41 +0000 (Fri, 02 Mar 2012)
New Revision: 9849

Modified:
   trunk/packages/R/r-cran-genabel/trunk/debian/upstream
   trunk/packages/R/r-cran-qtl/trunk/debian/upstream
   trunk/packages/R/r-other-bio3d/trunk/debian/upstream
   trunk/packages/adun.app/trunk/debian/upstream
   trunk/packages/alien-hunter/trunk/debian/upstream
   trunk/packages/altree/trunk/debian/upstream
   trunk/packages/autodock-vina/trunk/debian/upstream
   trunk/packages/autodocksuite/trunk/debian/upstream
   trunk/packages/biomaj/trunk/debian/upstream
   trunk/packages/cd-hit/trunk/debian/upstream
   trunk/packages/circos/trunk/debian/upstream
   trunk/packages/dialign-t/trunk/debian/upstream
   trunk/packages/dialign/trunk/debian/upstream
   trunk/packages/elastix/trunk/debian/upstream
   trunk/packages/epigrass/trunk/debian/upstream
   trunk/packages/gassst/trunk/debian/upstream
   trunk/packages/infernal/trunk/debian/upstream
   trunk/packages/kalign/trunk/debian/upstream
   trunk/packages/libhmsbeagle/trunk/debian/upstream
   trunk/packages/libtfbs-perl/trunk/debian/upstream
   trunk/packages/maude/trunk/debian/upstream
   trunk/packages/mgltools/autodocktools/trunk/debian/upstream
   trunk/packages/mothur/trunk/debian/upstream
   trunk/packages/mustang/trunk/debian/upstream
   trunk/packages/phy-spread/trunk/debian/upstream
   trunk/packages/primer3/trunk/debian/upstream
   trunk/packages/probalign/trunk/debian/upstream
   trunk/packages/probcons/trunk/debian/upstream
   trunk/packages/python-pynast/trunk/debian/upstream
   trunk/packages/raxml/trunk/debian/upstream
   trunk/packages/rostlab/libzerg-perl/trunk/debian/upstream
   trunk/packages/rostlab/libzerg/trunk/debian/upstream
   trunk/packages/seaview/trunk/debian/upstream
   trunk/packages/sigma-align/trunk/debian/upstream
   trunk/packages/t-coffee/trunk/debian/upstream
   trunk/packages/tm-align/trunk/debian/upstream
   trunk/packages/treeviewx/trunk/debian/upstream
   trunk/packages/velvet/trunk/debian/upstream
Log:
Corrected the files that did not validate with YAML::XS.


Modified: trunk/packages/R/r-cran-genabel/trunk/debian/upstream
===================================================================

--- trunk/packages/R/r-cran-genabel/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/R/r-cran-genabel/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -5,7 +5,8 @@
 Homepage: http://www.genabel.org/
 Reference:
  author: Aulchenko, Yurii S. and Ripke, Stephan and Isaacs, Aaron and van Duijn, Cornelia M.
- title: GenABEL: an R library for genome-wide association analysis
+ title: >
+  GenABEL: an R library for genome-wide association analysis
  volume: 23
  number: 10
  pages: 1294-1296

Modified: trunk/packages/R/r-cran-qtl/trunk/debian/upstream
===================================================================
--- trunk/packages/R/r-cran-qtl/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/R/r-cran-qtl/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -1,8 +1,9 @@
 Homepage: http://www.rqtl.org
-Name: R/qtl: A QTL mapping environment
+Name: "R/qtl: A QTL mapping environment"
 Reference:
  Author: K. W. Broman, H. Wu, S. Sen, G. A. Churchill
- Title: R/qtl: QTL mapping in experimental crosses.
+ Title: >
+  R/qtl: QTL mapping in experimental crosses.
  Journal: Bioinformatics
  Number: 19
  Pages: 889-890

Modified: trunk/packages/R/r-other-bio3d/trunk/debian/upstream
===================================================================
--- trunk/packages/R/r-other-bio3d/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/R/r-other-bio3d/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -6,7 +6,8 @@
 Reference-PMID: 16940322
 Reference: 
  author: Grant, Barry J. and Rodrigues, Ana P. C. and ElSawy, Karim M. and McCammon, J. Andrew and Caves, Leo S. D.
- title: Bio3d: an R package for the comparative analysis of protein structures
+ title: >
+  Bio3d: an R package for the comparative analysis of protein structures
  journal: Bioinformatics
  volume: 22
  number: 21

Modified: trunk/packages/adun.app/trunk/debian/upstream
===================================================================
--- trunk/packages/adun.app/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/adun.app/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -5,7 +5,8 @@
 Reference-PMID: 16175583
 Reference:
  Author: Michael A. Johnston, Ignacio Fdez. Galván and Jordi Villà-Freixa
- Title: Framework-based design of a new all-purpose molecular simulation application: The Adun simulator
+ Title: >
+  Framework-based design of a new all-purpose molecular simulation application: The Adun simulator
  Journal: J. Comp. Chem.
  Volume: 26
  Number: 15

Modified: trunk/packages/alien-hunter/trunk/debian/upstream
===================================================================
--- trunk/packages/alien-hunter/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/alien-hunter/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -5,7 +5,8 @@
 Reference-PMID: 16837528
 Reference:
  author: Vernikos, Georgios S. and Parkhill, Julian
- title: Interpolated variable order motifs for identification of horizontally acquired DNA: revisiting the Salmonella pathogenicity islands
+ title: >
+  Interpolated variable order motifs for identification of horizontally acquired DNA: revisiting the Salmonella pathogenicity islands
  journal: Bioinformatics
  volume: 22
  number: 18

Modified: trunk/packages/altree/trunk/debian/upstream
===================================================================
--- trunk/packages/altree/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/altree/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -7,7 +7,8 @@
 Reference-Journal: Bioinformatics
 Reference-Number: 11
 Reference-Pages: 1402-1403
-Reference-Title: ALTree: association detection and localization of susceptibility sites using haplotype phylogenetic trees
+Reference-Title: >
+ ALTree: association detection and localization of susceptibility sites using haplotype phylogenetic trees
 Reference-URL: http://bioinformatics.oxfordjournals.org/cgi/content/abstract/22/11/1402
 Reference-Volume: 22
 Reference-Year: 2006

Modified: trunk/packages/autodock-vina/trunk/debian/upstream
===================================================================
--- trunk/packages/autodock-vina/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/autodock-vina/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -4,7 +4,8 @@
 Name: AutoDock Vina
 Reference:
   author: Oleg Trott, Arthur J. Olson
-  title: AutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading
+  title: >
+    AutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading
   journal: Journal of Computational Chemistry
   volume: 31
   number: 2

Modified: trunk/packages/autodocksuite/trunk/debian/upstream
===================================================================
--- trunk/packages/autodocksuite/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/autodocksuite/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -5,7 +5,8 @@
 Reference-PMID: 19399780
 Reference:
  Author: Garrett M. Morris, Ruth Huey, William Lindstrom, Michel F. Sanner, Richard K. Belew, David S. Goodsell and Arthur J. Olson.
- Title: AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility
+ Title: >
+  AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility
  Journal: Journal of Computational Chemistry
  Volume: 30
  Number: 16

Modified: trunk/packages/biomaj/trunk/debian/upstream
===================================================================
--- trunk/packages/biomaj/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/biomaj/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -2,7 +2,8 @@
 Homepage: http://biomaj.genouest.org
 Reference: 
  Author: Olivier Filangi, Yoann Beausse, Anthony Assi, Ludovic Legrand, Jean-Marc Larré, Véronique Martin, Olivier Collin, Christophe Caron, Hugues Leroy and David Allouche
- Title: BioMAJ: a flexible framework for databanks synchronization and processing
+ Title: >
+  BioMAJ: a flexible framework for databanks synchronization and processing
  Journal: Oxford Journals Bioinformatics
  Year: 2008
  URL: http://bioinformatics.oxfordjournals.org/content/24/16/1823.abstract

Modified: trunk/packages/cd-hit/trunk/debian/upstream
===================================================================
--- trunk/packages/cd-hit/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/cd-hit/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -5,7 +5,8 @@
 Reference-PMID: 16731699
 Reference:
  author: Weizhong Li, Adam Godzik
- title: Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences.
+ title: >
+  Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences.
  journal: Bioinformatics
  volume: 22
  year: 2006

Modified: trunk/packages/circos/trunk/debian/upstream
===================================================================
--- trunk/packages/circos/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/circos/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -2,7 +2,8 @@
 Homepage: http://circos.ca/
 Reference: 
  Author: Martin I Krzywinski, Jacqueline E Schein, Inanc Birol, Joseph Connors, Randy Gascoyne, Doug Horsman, Steven J Jones, and Marco A Marra
- Title: Circos: An information aesthetic for comparative genomics
+ Title: >
+  Circos: An information aesthetic for comparative genomics
  Journal: Genome Research
  Year: 2009
  URL: http://genome.cshlp.org/content/early/2009/06/15/gr.092759.109.full.pdf+html

Modified: trunk/packages/dialign/trunk/debian/upstream
===================================================================
--- trunk/packages/dialign/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/dialign/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -4,7 +4,8 @@
 Reference-PMID: 10222408
 Reference:
  Author: Morgenstern, B
- Title: DIALIGN 2: improvement of the segment-to-segment approach to multiple sequence alignment
+ Title: >
+  DIALIGN 2: improvement of the segment-to-segment approach to multiple sequence alignment
  Journal: Bioinformatics
  Volume: 15
  Number: 3

Modified: trunk/packages/dialign-t/trunk/debian/upstream
===================================================================
--- trunk/packages/dialign-t/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/dialign-t/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -5,7 +5,8 @@
 Name: DIALIGN-T
 Reference:
  AUTHOR: Subramanian, Amarendran and Kaufmann, Michael and Morgenstern, Burkhard
- TITLE: DIALIGN-TX: greedy and progressive approaches for segment-based multiple sequence alignment
+ TITLE: >
+  DIALIGN-TX: greedy and progressive approaches for segment-based multiple sequence alignment
  JOURNAL: Algorithms for Molecular Biology
  VOLUME: 3
  YEAR: 2008

Modified: trunk/packages/elastix/trunk/debian/upstream
===================================================================
--- trunk/packages/elastix/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/elastix/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -3,7 +3,8 @@
 Name: Elastix
 Reference:
   author: S. Klein, M. Staring, K. Murphy, M. A. Viergever, J. Pluim
-  title: elastix: A Toolbox for Intensity-Based Medical Image Registration
+  title: >
+    elastix: A Toolbox for Intensity-Based Medical Image Registration
   journal: IEEE Transactions on Medical Imaging
   volume: 29
   number: 1

Modified: trunk/packages/epigrass/trunk/debian/upstream
===================================================================
--- trunk/packages/epigrass/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/epigrass/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -5,7 +5,7 @@
 Reference:
     author:  Coelho, Flavio and Cruz, Oswaldo and Codeco, Claudia
     DOI:      10.1186/1751-0473-3-3
-    title:   Epigrass: a tool to study disease spread in complex networks
+    title:   "Epigrass: a tool to study disease spread in complex networks"
     journal: Source Code for Biology and Medicine
     volume:  3
     year:    2008

Modified: trunk/packages/gassst/trunk/debian/upstream
===================================================================
--- trunk/packages/gassst/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/gassst/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -4,7 +4,8 @@
 Name: GASSST
 Reference:
  author: Guillaume Rizk and Dominique Lavanier
- title: GASSST: global alignment short sequence search tool
+ title: >
+  GASSST: global alignment short sequence search tool
  journal: Bioinformatics
  volume: 20
  number: 36

Modified: trunk/packages/infernal/trunk/debian/upstream
===================================================================
--- trunk/packages/infernal/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/infernal/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -3,7 +3,7 @@
 Reference-PMID: 19307242
 Reference: 
  author: Nawrocki, Eric P. and Kolbe, Diana L. and Eddy, Sean R.
- title: Infernal 1.0: inference of RNA alignments
+ title: "Infernal 1.0: inference of RNA alignments"
  journal: Bioinformatics
  volume: 25
  number: 10

Modified: trunk/packages/kalign/trunk/debian/upstream
===================================================================
--- trunk/packages/kalign/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/kalign/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -8,7 +8,7 @@
   Journal: Nucl. Acids Res.
   Number: 3
   Pages: 858-865
-  Title: Kalign2: high-performance multiple alignment of protein and nucleotide sequences allowing external features
+  Title: "Kalign2: high-performance multiple alignment of protein and nucleotide sequences allowing external features"
   URL: http://nar.oxfordjournals.org/cgi/content/abstract/37/3/858
   Volume: 37
   Year: 2009

Modified: trunk/packages/libhmsbeagle/trunk/debian/upstream
===================================================================
--- trunk/packages/libhmsbeagle/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/libhmsbeagle/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -5,7 +5,8 @@
 Reference-PMID: 21963610
 Reference:
   author: Daniel L. Ayres, Aaron Darling, Derrick J. Zwickl, Peter Beerli, Mark T. Holder, Paul O. Lewis, John P. Huelsenbeck, Fredrik Ronquist, David L. Swofford, Michael P. Cummings, Andrew Rambaut and Marc A. Suchard
-  title: BEAGLE: an Application Programming Interface and High-Performance Computing Library for Statistical Phylogenetics
+  title: >
+    BEAGLE: an Application Programming Interface and High-Performance Computing Library for Statistical Phylogenetics
   journal: Systematic Biology
   year: 2011
   URL: http://sysbio.oxfordjournals.org/content/early/2011/09/29/sysbio.syr100.abstract

Modified: trunk/packages/libtfbs-perl/trunk/debian/upstream
===================================================================
--- trunk/packages/libtfbs-perl/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/libtfbs-perl/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -4,7 +4,8 @@
 Name: TFBS
 Reference-PMID: 12176838
 Reference-Journal: Bioinformatics
-Reference-Title: TFBS: Computational framework for transcription factor binding site analysis
+Reference-Title: >
+ TFBS: Computational framework for transcription factor binding site analysis
 Reference-Authors: Lenhard, Boris and Wasserman, Wyeth W.
 Reference-Volume: 18
 Reference-Number: 8

Modified: trunk/packages/maude/trunk/debian/upstream
===================================================================
--- trunk/packages/maude/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/maude/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -4,7 +4,8 @@
 Name: Mersenne Twister Random Number Generator
 Reference:
   author: M. Matsumoto and T. Nishimura
-  title: Mersenne Twister: A 623-Dimensionally Equidistributed Uniform Pseudo-Random Number Generator
+  title: >
+    Mersenne Twister: A 623-Dimensionally Equidistributed Uniform Pseudo-Random Number Generator
   journal: ACM Transactions on Modeling and Computer Simulation
   volume: 8
   number: 1

Modified: trunk/packages/mgltools/autodocktools/trunk/debian/upstream
===================================================================
--- trunk/packages/mgltools/autodocktools/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/mgltools/autodocktools/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -5,7 +5,8 @@
 Reference-PMID: 19399780
 Reference:
  Author: Garrett M. Morris, Ruth Huey, William Lindstrom, Michel F. Sanner, Richard K. Belew, David S. Goodsell and Arthur J. Olson.
- Title: AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility
+ Title: >
+  AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility
  Journal: Journal of Computational Chemistry
  Volume: 30
  Number: 16
@@ -14,7 +15,8 @@
  URL: http://www3.interscience.wiley.com/journal/122365050/abstract
 Reference:
  Author: Harris R, Olson AJ, Goodsell DS.
- Title: Automated prediction of ligand-binding sites in proteins.
+ Title: >
+  Automated prediction of ligand-binding sites in proteins.
  Journal: Proteins
  Year: 2008
  Volume: 70

Modified: trunk/packages/mothur/trunk/debian/upstream
===================================================================
--- trunk/packages/mothur/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/mothur/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -5,7 +5,8 @@
 Name: Mothur
 Reference:
  AUTHOR: Schloss, P.D., et al.
- TITILE: Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities
+ TITILE: >
+  Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities
  JOURNAL: Appl Environ Microbiol
  YEAR: 2009
  PAGES: 7537-7541

Modified: trunk/packages/mustang/trunk/debian/upstream
===================================================================
--- trunk/packages/mustang/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/mustang/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -5,8 +5,10 @@
 Reference-PMID: 16736488
 Reference:
  Author: Arun S. Konagurthu, James C. Whisstock, Peter J. Stuckey and Arthur M. Lesk
- Title: MUSTANG: A multiple structural alignment algorithm
- Journal: Proteins: Structure, Function, and Bioinformatics
+ Title: >
+  MUSTANG: A multiple structural alignment algorithm
+ Journal: >
+  Proteins: Structure, Function, and Bioinformatics
  Volume: 64
  Number: 3
  Pages: 559-574

Modified: trunk/packages/phy-spread/trunk/debian/upstream
===================================================================
--- trunk/packages/phy-spread/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/phy-spread/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -5,7 +5,8 @@
 Reference-PMID: 21911333
 Reference:
   author: Filip Bielejec, Andrew Rambaut, Marc A. Suchard and Philippe Lemey
-  title: SPREAD: spatial phylogenetic reconstruction of evolutionary dynamics
+  title: >
+    SPREAD: spatial phylogenetic reconstruction of evolutionary dynamics
   journal: Bioinformatics
   volume: 27
   number: 20

Modified: trunk/packages/primer3/trunk/debian/upstream
===================================================================
--- trunk/packages/primer3/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/primer3/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -6,7 +6,8 @@
  Author: Steve Rozen and Helen J. Skaletsky
  Year: 2000
  Title: Primer3 on the WWW for general users and for biologist programmers
- Booktitle: Bioinformatics Methods and Protocols: Methods in Molecular Biology
+ Booktitle: >
+  Bioinformatics Methods and Protocols: Methods in Molecular Biology
  Journal: Methods Mol Biol.
  Pages: 365-86
  Number: 132

Modified: trunk/packages/probalign/trunk/debian/upstream
===================================================================
--- trunk/packages/probalign/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/probalign/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -5,7 +5,8 @@
 Name: Probalign
 Reference:
  AUTHOR: Usman Roshan, Dennis R. Livesay
- TITILE: Probalign: multiple sequence alignment using partition function posterior probabilities
+ TITILE: >
+  Probalign: multiple sequence alignment using partition function posterior probabilities
  JOURNAL: Bioinformatics
  YEAR: 2006
  PAGES: 2715-21

Modified: trunk/packages/probcons/trunk/debian/upstream
===================================================================
--- trunk/packages/probcons/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/probcons/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -5,7 +5,8 @@
 Reference-PMID: 15687296
 Reference:
  author: Do, Chuong B. and Mahabhashyam, Mahathi S.P. and Brudno, Michael and Batzoglou, Serafim
- title: ProbCons: Probabilistic consistency-based multiple sequence alignment
+ title: >
+  ProbCons: Probabilistic consistency-based multiple sequence alignment
  journal: Genome Research
  volume: 15
  number: 2

Modified: trunk/packages/python-pynast/trunk/debian/upstream
===================================================================
--- trunk/packages/python-pynast/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/python-pynast/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -2,7 +2,8 @@
 Homepage: http://pynast.sourceforge.net/
 Reference:
   Author: J. Gregory Caporaso, Kyle Bittinger, Frederic D. Bushman, Todd Z. DeSantis, Gary L. Andersen, and Rob Knight
-  Title: PyNAST: a flexible tool for aligning sequences to a template alignment
+  Title: >
+    PyNAST: a flexible tool for aligning sequences to a template alignment
   Journal: Bioinformatics
   Volume: 26
   Pages: 266-267.

Modified: trunk/packages/raxml/trunk/debian/upstream
===================================================================
--- trunk/packages/raxml/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/raxml/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -5,7 +5,8 @@
 Reference-PMID: 16928733
 Reference:
   author: 16928733
-  title: RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
+  title: >
+    RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
   journal: Bioinformatics
   year: 2006
   URL: http://bioinformatics.oxfordjournals.org/content/22/21/2688.full

Modified: trunk/packages/rostlab/libzerg/trunk/debian/upstream
===================================================================
--- trunk/packages/rostlab/libzerg/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/rostlab/libzerg/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -4,7 +4,7 @@
 Name: libzerg
 Reference:
   author: Paquola, Apuã C M, Machado, Abimael A, Reis, Eduardo M, Da Silva, Aline M, and Verjovski-Almeida, Sergio
-  title: Zerg: a very fast BLAST parser library.
+  title: "Zerg: a very fast BLAST parser library."
   journal: Bioinformatics
   volume: 19
   number: 8

Modified: trunk/packages/rostlab/libzerg-perl/trunk/debian/upstream
===================================================================
--- trunk/packages/rostlab/libzerg-perl/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/rostlab/libzerg-perl/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -4,7 +4,8 @@
 Name: libzerg-perl
 Reference:
   author: Paquola, Apuã C M, Machado, Abimael A, Reis, Eduardo M, Da Silva, Aline M, and Verjovski-Almeida, Sergio
-  title: Zerg: a very fast BLAST parser library.
+  title: >
+    Zerg: a very fast BLAST parser library.
   journal: Bioinformatics
   volume: 19
   number: 8

Modified: trunk/packages/seaview/trunk/debian/upstream
===================================================================
--- trunk/packages/seaview/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/seaview/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -5,7 +5,8 @@
 Name: SeaView
 Reference: 
  author: Gouy, Manolo and Guindon, Stephane and Gascuel, Olivier
- title: SeaView version 4 : a multiplatform graphical user interface for sequence alignment and phylogenetic tree building
+ title: >
+  SeaView version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building
  journal: Mol Biol Evol
  volume: 27
  number: 2

Modified: trunk/packages/sigma-align/trunk/debian/upstream
===================================================================
--- trunk/packages/sigma-align/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/sigma-align/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -5,7 +5,8 @@
 Name: Sigma
 Reference:
  AUTHOR: Siddharthan, Rahul
- TITLE: Sigma: multiple alignment of weakly-conserved non-coding DNA sequence
+ TITLE: >
+  Sigma: multiple alignment of weakly-conserved non-coding DNA sequence
  JOURNAL: BMC Bioinformatics
  VOLUME: 7
  YEAR: 2006

Modified: trunk/packages/t-coffee/trunk/debian/upstream
===================================================================
--- trunk/packages/t-coffee/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/t-coffee/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -7,7 +7,8 @@
 Reference-Journal: Journal of Molecular Biology
 Reference-Number: 1
 Reference-Pages: 205-217
-Reference-Title: T-coffee: a novel method for fast and accurate multiple sequence alignment
+Reference-Title: >
+ T-coffee: a novel method for fast and accurate multiple sequence alignment
 Reference-URL: http://www.sciencedirect.com/science/article/B6WK7-45F5150-7S/2/9c2fd0f2a43f877fd801b3245fe0beed
 Reference-Volume: 302
 Reference-Year: 2000

Modified: trunk/packages/tm-align/trunk/debian/upstream
===================================================================
--- trunk/packages/tm-align/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/tm-align/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -5,7 +5,8 @@
 Name: TM-align & TM-score
 Reference:
  AUTHOR: Y. Zhang, J. Skolnick
- TITILE: TM-align: A protein structure alignment algorithm based on TM-score
+ TITILE: >
+  TM-align: A protein structure alignment algorithm based on TM-score
  JOURNAL: Nucleic Acids Research
  YEAR: 2005
  PAGES: 2302-2309

Modified: trunk/packages/treeviewx/trunk/debian/upstream
===================================================================
--- trunk/packages/treeviewx/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/treeviewx/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -8,7 +8,8 @@
  Journal: Comput. Appl. Biosci.
  Number: 4
  Page: 357-8
- Title: TreeView: an application to display phylogenetic trees on personal computers
+ Title: >
+  TreeView: an application to display phylogenetic trees on personal computers
  URL: http://bioinformatics.oxfordjournals.org/cgi/content/citation/12/4/357
  Volume: 12
  Year: 1996

Modified: trunk/packages/velvet/trunk/debian/upstream
===================================================================
--- trunk/packages/velvet/trunk/debian/upstream	2012-03-01 12:49:37 UTC (rev 9848)
+++ trunk/packages/velvet/trunk/debian/upstream	2012-03-02 00:07:41 UTC (rev 9849)
@@ -5,7 +5,8 @@
 Reference-PMID: 18349386
 Reference:
   author: Zerbino, Daniel R. and Birney, Ewan
-  title: Velvet: Algorithms for de novo short read assembly using de Bruijn graphs
+  title: >
+    Velvet: Algorithms for de novo short read assembly using de Bruijn graphs
   journal: Genome Research
   volume: 18
   number: 5


