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 _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
