[Collab-qa-commits] r2214 - in packages-metadata: a d e g m r
Charles Plessy
plessy at alioth.debian.org
Thu Apr 5 02:04:16 UTC 2012
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 <gsv at sanger.ac.uk>
-Reference-DOI: 10.1093/bioinformatics/btl369
+Contact: George Vernikos <gsv at sanger.ac.uk>
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 <martin at cbrc.jp> and Timothy L Bailey <t.bailey at imb.uq.edu.au>
-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
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