[med-svn] r23513 - in trunk/packages/meme/trunk/debian: . upstream

Wed Jan 4 13:58:32 UTC 2017

Author: tille
Date: 2017-01-04 13:58:31 +0000 (Wed, 04 Jan 2017)
New Revision: 23513

Modified:
   trunk/packages/meme/trunk/debian/compat
   trunk/packages/meme/trunk/debian/control
   trunk/packages/meme/trunk/debian/copyright
   trunk/packages/meme/trunk/debian/upstream/metadata
   trunk/packages/meme/trunk/debian/watch
Log:
Normalised packaging


Modified: trunk/packages/meme/trunk/debian/compat
===================================================================

--- trunk/packages/meme/trunk/debian/compat	2017-01-04 13:42:42 UTC (rev 23512)
+++ trunk/packages/meme/trunk/debian/compat	2017-01-04 13:58:31 UTC (rev 23513)
@@ -1 +1 @@
-9
+10

Modified: trunk/packages/meme/trunk/debian/control
===================================================================
--- trunk/packages/meme/trunk/debian/control	2017-01-04 13:42:42 UTC (rev 23512)
+++ trunk/packages/meme/trunk/debian/control	2017-01-04 13:58:31 UTC (rev 23513)
@@ -1,27 +1,33 @@
 Source: meme
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Andreas Tille <tille at debian.org>,
+           H. Soon Gweon <soonio at gmail.com>,
+           Thorsten Alteholz <debian at alteholz.de>
 Section: non-free/science
+XS-Autobuild: no
 Priority: optional
-Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
-Uploaders: Andreas Tille <tille at debian.org>,
- H. Soon Gweon <soonio at gmail.com>,
- Thorsten Alteholz <debian at alteholz.de>
-Build-Depends: debhelper (>= 9), 
-  dh-autoreconf, 
-  libxslt1-dev, 
-  python-all (>= 2.6.6-3~),
-  zlib1g-dev,
-  elinks,
-  help2man,
-  ghostscript
-Standards-Version: 3.9.4
-Homepage: http://meme.nbcr.net/meme/
-Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/meme/trunk/
-Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/meme/trunk/
+Build-Depends: debhelper (>= 10),
+               dh-autoreconf,
+               libxslt1-dev,
+               python-all,
+               zlib1g-dev,
+               elinks,
+               help2man,
+               ghostscript
+Standards-Version: 3.9.8
+Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/meme/trunk/
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/meme/trunk/
+Homepage: http://meme-suite.org/tools/meme
 
 Package: meme
 Architecture: any
-Depends: ${python:Depends}, ${shlibs:Depends}, ${misc:Depends}, csh, readseq,
-  ghostscript, imagemagick | graphicsmagick
+Depends: ${python:Depends},
+         ${shlibs:Depends},
+         ${misc:Depends},
+         csh,
+         readseq,
+         ghostscript,
+         imagemagick | graphicsmagick
 Description: search for common motifs in DNA or protein sequences
  MEME (Multiple EM for Motif Elicitation) is a tool for discovering
  motifs in a group of related DNA or protein sequences.  A motif is a
@@ -39,8 +45,8 @@
 
 Package: meme-examples
 Architecture: all
+Depends: ${misc:Depends}
 Recommends: meme
-Depends: ${misc:Depends}
 Description: Example files for the MEME motif searcher
  This package includes the example files that come with MEME. They can be used
  to either check the functionality of the software or play around with the
@@ -48,7 +54,9 @@
 
 Package: glam2
 Architecture: any
-Depends: ${shlibs:Depends}, ${misc:Depends}, ${python:Depends}
+Depends: ${shlibs:Depends},
+         ${misc:Depends},
+         ${python:Depends}
 Description: gapped protein motifs from unaligned sequences
  GLAM2 is a software package for finding motifs in sequences, typically
  amino-acid or nucleotide sequences. A motif is a re-occurring sequence
@@ -63,4 +71,3 @@
  .
  In this binary package, the fast Fourier algorithm (FFT) was enabled for the
  glam2 program.
-

Modified: trunk/packages/meme/trunk/debian/copyright
===================================================================
--- trunk/packages/meme/trunk/debian/copyright	2017-01-04 13:42:42 UTC (rev 23512)
+++ trunk/packages/meme/trunk/debian/copyright	2017-01-04 13:58:31 UTC (rev 23513)
@@ -1,7 +1,7 @@
-Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
 Upstream-Name: MEME
-Upstream-Contact: meme at nbcr.net
-Source: ftp://ftp.sdsc.edu/pub/sdsc/biology/meme/
+Upstream-Contact: meme-suite at uw.edu
+Source: http://meme-suite.org/doc/download.html?man_type=web
 
 Files: *
 Copyright: © 1994-2010 The Regents of the University of California. All Rights Reserved.

Modified: trunk/packages/meme/trunk/debian/upstream/metadata
===================================================================
--- trunk/packages/meme/trunk/debian/upstream/metadata	2017-01-04 13:42:42 UTC (rev 23512)
+++ trunk/packages/meme/trunk/debian/upstream/metadata	2017-01-04 13:58:31 UTC (rev 23513)
@@ -1,19 +1,27 @@
 Contact: Martin C Frith <martin at cbrc.jp> and Timothy L Bailey <t.bailey at imb.uq.edu.au>
-Homepage: http://bioinformatics.org.au/glam2/
-Name: GLAM2
 Reference:
- debian-package: glam2
- author: Frith, Martin C. AND Saunders, Neil F. W. AND Kobe, Bostjan AND Bailey, Timothy L.
- journal: PLoS Comput Biol
- publisher: Public Library of Science
- title: Discovering Sequence Motifs with Arbitrary Insertions and Deletions
- year: 2008
- month: 05
- volume: 4
- pages: e1000071
- number: 5
- DOI: 10.1371/journal.pcbi.1000071
- PMID: 18437229
- url: http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1000071
- eprint: http://www.ploscompbiol.org/article/fetchObjectAttachment.action?uri=info%3Adoi%2F10.1371%2Fjournal.pcbi.1000071&representation=PDF
-Watch: http://bioinformatics.org.au/glam2/archive/glam2-(\d+)\.zip  
+ - Author: Timothy L. Bailey and Nadya Williams and Chris Misleh and Wilfred W. Li
+   Title: "MEME: discovering and analyzing DNA and protein sequence motifs"
+   Journal: Nucleic Acids Research
+   Year: 2006
+   Volume: 34
+   Number: Web Server issue
+   Pages: W369–W373
+   DOI: 10.1093/nar/gkl198
+   PMID: 16845028
+   URL: https://academic.oup.com/nar/article-lookup/doi/10.1093/nar/gkl198
+   eprint: https://academic.oup.com/nar/article-pdf/34/suppl_2/W369/7623054/gkl198.pdf
+ - debian-package: glam2
+   author: Frith, Martin C. AND Saunders, Neil F. W. AND Kobe, Bostjan AND Bailey, Timothy L.
+   journal: PLoS Comput Biol
+   publisher: Public Library of Science
+   title: Discovering Sequence Motifs with Arbitrary Insertions and Deletions
+   year: 2008
+   month: 05
+   volume: 4
+   pages: e1000071
+   number: 5
+   DOI: 10.1371/journal.pcbi.1000071
+   PMID: 18437229
+   url: http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1000071
+   eprint: http://www.ploscompbiol.org/article/fetchObjectAttachment.action?uri=info%3Adoi%2F10.1371%2Fjournal.pcbi.1000071&representation=PDF

Modified: trunk/packages/meme/trunk/debian/watch
===================================================================
--- trunk/packages/meme/trunk/debian/watch	2017-01-04 13:42:42 UTC (rev 23512)
+++ trunk/packages/meme/trunk/debian/watch	2017-01-04 13:58:31 UTC (rev 23513)
@@ -1,3 +1,7 @@
-version=3
-opts="uversionmangle=s/_/./" \
-  http://ebi.edu.au/ftp/software/MEME/index.html .*/meme[_\-](\d.*)\.(?:tgz|tbz2|txz|tar\.(?:gz|bz2|xz))
+version=4
+
+## GRRRR, that's JavaScript and will not work :-(
+# http://meme-suite.org/doc/download.html?man_type=web .*/meme-software/(.+)/meme_(\d[\d._]+)\.tar\.gz
+
+opts=dversionmangle=s/.*/0.No-Track/ \
+ https://people.debian.org/~eriberto/ FakeWatchNoUpstreamTrackingForThisPackage-(\d\S+)\.gz


