Author: plessy Date: 2012-04-05 02:04:15 +0000 (Thu, 05 Apr 2012) New Revision: 2214
Modified: packages-metadata/a/alien-hunter.upstream packages-metadata/a/autodocksuite.upstream packages-metadata/d/dialign-t.upstream packages-metadata/d/dialign.upstream packages-metadata/e/elastix.upstream packages-metadata/e/exonerate.upstream packages-metadata/g/glam2.upstream packages-metadata/g/gmap.upstream packages-metadata/g/gromacs.upstream packages-metadata/m/mafft.upstream packages-metadata/m/mummer.upstream packages-metadata/r/r-bioc-hilbertvis.upstream Log: Updated triggered by scanning the blends control files. No time to set up cron job today, sorry... Modified: packages-metadata/a/alien-hunter.upstream =================================================================== --- packages-metadata/a/alien-hunter.upstream 2012-04-05 01:03:16 UTC (rev 2213) +++ packages-metadata/a/alien-hunter.upstream 2012-04-05 02:04:15 UTC (rev 2214) @@ -1,8 +1,6 @@ -Contact : George Vernikos <[email protected]> -Reference-DOI: 10.1093/bioinformatics/btl369 +Contact: George Vernikos <[email protected]> Homepage: http://www.sanger.ac.uk/resources/software/alien_hunter.html Name: Alien_hunter -Reference-PMID: 16837528 Reference: author: Vernikos, Georgios S. and Parkhill, Julian title: > @@ -13,6 +11,7 @@ pages: 2196-2203 doi: 10.1093/bioinformatics/btl369 year: 2006 + PMID: 16837528 URL: http://bioinformatics.oxfordjournals.org/cgi/content/abstract/22/18/2196 eprint: http://bioinformatics.oxfordjournals.org/cgi/reprint/22/18/2196.pdf Watch: http://www.sanger.ac.uk/Software/analysis/alien_hunter/alien_hunter-([.\d]+)\.tar\.gz Modified: packages-metadata/a/autodocksuite.upstream =================================================================== --- packages-metadata/a/autodocksuite.upstream 2012-04-05 01:03:16 UTC (rev 2213) +++ packages-metadata/a/autodocksuite.upstream 2012-04-05 02:04:15 UTC (rev 2214) @@ -1,8 +1,6 @@ Donation: http://autodock.scripps.edu/downloads/autodock-registration/autodock-4-2-download-page/ -Reference-DOI: 10.1002/jcc.21256 Homepage: http://autodock.scripps.edu/ Name: AutoDock -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: > @@ -12,6 +10,8 @@ Number: 16 Pages: 2785-2791 Year: 2009 + PMID: 19399780 + DOI: 10.1002/jcc.21256 URL: http://www3.interscience.wiley.com/journal/122365050/abstract Registration: http://autodock.scripps.edu/downloads/autodock-registration Watch: | Modified: packages-metadata/d/dialign-t.upstream =================================================================== --- packages-metadata/d/dialign-t.upstream 2012-04-05 01:03:16 UTC (rev 2213) +++ packages-metadata/d/dialign-t.upstream 2012-04-05 02:04:15 UTC (rev 2214) @@ -2,7 +2,7 @@ Homepage: http://dialign-tx.gobics.de/ Name: DIALIGN-T Reference: - AUTHOR: Subramanian, Amarendran and Kaufmann, Michael and Morgenstern, Burkhard + AUTHOR: Subramanian, Amarendran R. and Kaufmann, Michael and Morgenstern, Burkhard TITLE: > DIALIGN-TX: greedy and progressive approaches for segment-based multiple sequence alignment JOURNAL: Algorithms for Molecular Biology Modified: packages-metadata/d/dialign.upstream =================================================================== --- packages-metadata/d/dialign.upstream 2012-04-05 01:03:16 UTC (rev 2213) +++ packages-metadata/d/dialign.upstream 2012-04-05 02:04:15 UTC (rev 2214) @@ -1,9 +1,7 @@ -Reference-DOI: 10.1093/bioinformatics/15.3.211 Name: DIALIGN Homepage: http://dialign.gobics.de/ -Reference-PMID: 10222408 Reference: - Author: Morgenstern, B + Author: Burkhard Morgenstern Title: > DIALIGN 2: improvement of the segment-to-segment approach to multiple sequence alignment Journal: Bioinformatics @@ -11,6 +9,8 @@ Number: 3 Pages: 211-218 Year: 1999 + DOI: 10.1093/bioinformatics/15.3.211 + PMID: 10222408 URL: http://bioinformatics.oxfordjournals.org/cgi/content/abstract/15/3/211 Eprint: http://bioinformatics.oxfordjournals.org/cgi/reprint/15/3/211.pdf Watch: http://dialign.gobics.de/download/dialign-(.*)-linux\.i586\.tar\.gz Modified: packages-metadata/e/elastix.upstream =================================================================== --- packages-metadata/e/elastix.upstream 2012-04-05 01:03:16 UTC (rev 2213) +++ packages-metadata/e/elastix.upstream 2012-04-05 02:04:15 UTC (rev 2214) @@ -2,7 +2,7 @@ Homepage: http://elastix.isi.uu.nl/ Name: Elastix Reference: - author: S. Klein, M. Staring, K. Murphy, M. A. Viergever, J. Pluim + author: S. Klein, M. Staring, K. Murphy, M. A. Viergever, J. P. W. Pluim title: > elastix: A Toolbox for Intensity-Based Medical Image Registration journal: IEEE Transactions on Medical Imaging Modified: packages-metadata/e/exonerate.upstream =================================================================== --- packages-metadata/e/exonerate.upstream 2012-04-05 01:03:16 UTC (rev 2213) +++ packages-metadata/e/exonerate.upstream 2012-04-05 02:04:15 UTC (rev 2214) @@ -1,16 +1,16 @@ Contact: Guy St.C. Slater <guy AT ebi.ac.uk> -Reference-DOI: 10.1186/1471-2105-6-31 Name: Exonerate Homepage: http://www.ebi.ac.uk/~guy/exonerate/ -Reference-PMID: 15713233 Reference: - Author: Slater, Guy and Birney, Ewan + Author: Slater, Guy C. and Birney, Ewan Title: Automated generation of heuristics for biological sequence comparison Journal: BMC Bioinformatics Volume: 6 Year: 2005 Number: 1 Pages: 31 + DOI: 10.1186/1471-2105-6-31 + PMID: 15713233 URL: http://www.biomedcentral.com/1471-2105/6/31 ISSN: 1471-2105 Watch: http://www.ebi.ac.uk/~guy/exonerate/exonerate-([0-9.]*)\.tar\.gz Modified: packages-metadata/g/glam2.upstream =================================================================== --- packages-metadata/g/glam2.upstream 2012-04-05 01:03:16 UTC (rev 2213) +++ packages-metadata/g/glam2.upstream 2012-04-05 02:04:15 UTC (rev 2214) @@ -1,16 +1,16 @@ Contact: Martin C Frith <[email protected]> and Timothy L Bailey <[email protected]> -Reference-DOI: 10.1371/journal.pcbi.1000071 Homepage: http://bioinformatics.org.au/glam2/ Name: GLAM2 -Reference-PMID: 18437229 Reference: author: Frith, Martin C. AND Saunders, Neil F. W. AND Kobe, Bostjan AND Bailey, Timothy L. - journal: PLoS Comput Biol + journal: PLoS Computational Biology publisher: Public Library of Science title: Discovering Sequence Motifs with Arbitrary Insertions and Deletions year: 2008 month: 05 volume: 4 + DOI: 10.1371/journal.pcbi.1000071 + PMID: 18437229 url: http://dx.plos.org/10.1371/journal.pcbi.1000071 pages: e1000071 number: 5 Modified: packages-metadata/g/gmap.upstream =================================================================== --- packages-metadata/g/gmap.upstream 2012-04-05 01:03:16 UTC (rev 2213) +++ packages-metadata/g/gmap.upstream 2012-04-05 02:04:15 UTC (rev 2214) @@ -1,7 +1,7 @@ Name: GMAP Reference: Title: "GMAP: a genomic mapping and alignment program for mRNA and EST sequences" - Authors: Thomas D. Wu, Colin K. Watanabe + Author: Thomas D. Wu, Colin K. Watanabe Journal: Bioinformatics Year: 2005 Volume: 21 Modified: packages-metadata/g/gromacs.upstream =================================================================== --- packages-metadata/g/gromacs.upstream 2012-04-05 01:03:16 UTC (rev 2213) +++ packages-metadata/g/gromacs.upstream 2012-04-05 02:04:15 UTC (rev 2214) @@ -10,7 +10,7 @@ URL: http://pubs.acs.org/doi/abs/10.1021/ct700301q DOI: 10.1021/ct700301q - Author: Lindahl E, Hess B, van der Spoel D. - Title: "GROMACS 3.0: A Package for Molecular Simulation and Trajectory Analysis + Title: "GROMACS 3.0: A Package for Molecular Simulation and Trajectory Analysis" Journal: J Mol Model. Year: 2001 Volume: 7 Modified: packages-metadata/m/mafft.upstream =================================================================== --- packages-metadata/m/mafft.upstream 2012-04-05 01:03:16 UTC (rev 2213) +++ packages-metadata/m/mafft.upstream 2012-04-05 02:04:15 UTC (rev 2214) @@ -2,15 +2,25 @@ Name: MAFFT Homepage: http://mafft.cbrc.jp/alignment/software/ Reference: - DOI: 10.1093/bib/bbn013 - PMID: 18372315 - Author: Katoh, Kazutaka and Toh, Hiroyuki - Journal: Brief Bioinform - Number: 4 - Pages: 286-298 - Title: Recent developments in the MAFFT multiple sequence alignment program - URL: http://bib.oxfordjournals.org/cgi/content/abstract/9/4/286 - Volume: 9 - Year: 2008 + - Author: Katoh, Kazutaka and Toh, Hiroyuki + Title: Recent developments in the MAFFT multiple sequence alignment program + Journal: Brief Bioinform + Year: 2008 + Volume: 9 + Number: 4 + Pages: 286-298 + DOI: 10.1093/bib/bbn013 + PMID: 18372315 + URL: http://bib.oxfordjournals.org/cgi/content/abstract/9/4/286 + - Author: K. Katoh, G. Asimenos, H. Toh + Title: Multiple alignment of DNA sequences with MAFFT + Journal: Methods Mol Biol. + Volume: 537 + Pages: 39-64 + Year: 2009 + PMID: 19378139 + DOI: 10.1007/978-1-59745-251-9_3 + URL: http://www.springerprotocols.com/Abstract/doi/10.1007/978-1-59745-251-9_3 + eprint: http://www.springerprotocols.com/Pdf/doi/10.1007/978-1-59745-251-9_3?encCode=RklCOjNfOS0xNTItNTQ3OTUtMS04Nzk= Watch: | http://mafft.cbrc.jp/alignment/software/source.html mafft-(.*)-with-extensions-src.tgz Modified: packages-metadata/m/mummer.upstream =================================================================== --- packages-metadata/m/mummer.upstream 2012-04-05 01:03:16 UTC (rev 2213) +++ packages-metadata/m/mummer.upstream 2012-04-05 02:04:15 UTC (rev 2214) @@ -1,7 +1,7 @@ Archive: SourceForge Homepage: http://mummer.sourceforge.net/ Reference: - Author: Kurtz, Stefan and Phillippy, Adam and Delcher, Arthur and Smoot, Michael and Shumway, Martin and Antonescu, Corina and Salzberg, Steven + Author: Kurtz, Stefan and Phillippy, Adam and Delcher, Arthur L. and Smoot, Michael and Shumway, Martin and Antonescu, Corina and Salzberg, Steven L. Title: Versatile and open software for comparing large genomes Journal: Genome Biology Volume: 5 Modified: packages-metadata/r/r-bioc-hilbertvis.upstream =================================================================== --- packages-metadata/r/r-bioc-hilbertvis.upstream 2012-04-05 01:03:16 UTC (rev 2213) +++ packages-metadata/r/r-bioc-hilbertvis.upstream 2012-04-05 02:04:15 UTC (rev 2214) @@ -4,7 +4,7 @@ Homepage: http://www.ebi.ac.uk/huber-srv/hilbert Name: HilbertVis Reference: - Title: Visualisation of genomic data with the Hilbert curve + Title: Visualization of genomic data with the Hilbert curve Author: Simon Anders volume: 25 number: 10 _______________________________________________ Collab-qa-commits mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/collab-qa-commits
