[med-svn] r5958 - trunk/packages/clonalframe/trunk/debian

Sat Feb 12 12:59:45 UTC 2011

Author: tille
Date: 2011-02-12 12:59:42 +0000 (Sat, 12 Feb 2011)
New Revision: 5958

Modified:
   trunk/packages/clonalframe/trunk/debian/ClonalFrame.1
   trunk/packages/clonalframe/trunk/debian/copyright
Log:
Fix cut-n-pastos


Modified: trunk/packages/clonalframe/trunk/debian/ClonalFrame.1
===================================================================

--- trunk/packages/clonalframe/trunk/debian/ClonalFrame.1	2011-02-11 23:25:09 UTC (rev 5957)
+++ trunk/packages/clonalframe/trunk/debian/ClonalFrame.1	2011-02-12 12:59:42 UTC (rev 5958)
@@ -1,11 +1,13 @@
-.TH ClonalFrame "1" "February 2011" "This is ClonalFrame version 1.2" "User Commands"
+.TH ClonalFrame "1" "1.2" "February 2011"
 .SH NAME
-ClonalFrame \- manual page for This is ClonalFrame version 1.2
-.SH USAGE
+ClonalFrame \- inference of bacterial microevolution using multilocus sequence data
+.SH SYNOPSIS
 ClonalFrame [OPTIONS] inputfile outputfile
 .SH DESCRIPTION
-This is ClonalFrame version 1.2
-.IP
+ClonalFrame identifies the clonal relationships between the members of
+a sample, while also estimating the chromosomal position of homologous
+recombination events that have disrupted the clonal inheritance.
+
 Options:
 .TP
 \fB\-x\fR NUM
@@ -75,15 +77,8 @@
 \fB\-L\fR          Clean\-up the alignment before running ClonalFrame
 \fB\-l\fR          Minimum distance between two reference sites (default is 50)
 \fB\-v\fR          Verbose mode
-.SH "SEE ALSO"
-The full documentation for
-.B This
-is maintained as a Texinfo manual.  If the
-.B info
-and
-.B This
-programs are properly installed at your site, the command
-.IP
-.B info This
+.SH AUTHOR
+\fBClonalFrame\fP was written by Xavier Didelot.
 .PP
-should give you access to the complete manual.
+This manual page was written by Andreas Tille <tille at debian.org>,
+for the Debian project (but may be used by others).

Modified: trunk/packages/clonalframe/trunk/debian/copyright
===================================================================
--- trunk/packages/clonalframe/trunk/debian/copyright	2011-02-11 23:25:09 UTC (rev 5957)
+++ trunk/packages/clonalframe/trunk/debian/copyright	2011-02-12 12:59:42 UTC (rev 5958)
@@ -1,63 +1,29 @@
 Format: http://dep.debian.net/deps/dep5/
-Upstream-Name: Bowtie
-Upstream-Contact: Ben Langmead <blangmea at jhsph.edu>
-Source: http://sourceforge.net/projects/bowtie-bio/files/bowtie/
+Upstream-Name: ClonalFrame
+Upstream-Contact: Xavier Didelot <xavier.didelot at gmail.com>
+Source: http://www.xavierdidelot.xtreemhost.com/clonalframe.htm 
 
 Files: *
-Copyright: © 2009-2010 Ben Langmead, C. Trapnell, M. Pop, Steven L. Salzberg
-License:
-    This program is free software; you can redistribute it and/or modify it
-    under the terms of the "Artistic License" which comes with Debian.
+Copyright: © 2009-2010  Xavier Didelot <xavier.didelot at gmail.com>
+License: GPL-2+
+        ClonalFrame is free software; you can redistribute it and/or modify
+        it under the terms of the GNU General Public License as published by
+        the Free Software Foundation; either version 2 of the License, or
+        (at your option) any later version.
 
-    THIS PACKAGE IS PROVIDED "AS IS" AND WITHOUT ANY EXPRESS OR IMPLIED
-    WARRANTIES, INCLUDING, WITHOUT LIMITATION, THE IMPLIED WARRANTIES
-    OF MERCHANTIBILITY AND FITNESS FOR A PARTICULAR PURPOSE.
- 
- On Debian systems, the complete text of the Artistic License
- can be found in "/usr/share/common-licenses/Artistic".
+        Velvet is distributed in the hope that it will be useful,
+        but WITHOUT ANY WARRANTY; without even the implied warranty of
+        MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+        GNU General Public License for more details.
 
-Files: SeqAn-1.1
-Upstream Authors:
-    Andreas Döring <doering at inf.fu-berlin.de>
-    David Weese <weese at inf.fu-berlin.de>
-    Tobias Rausch <rausch at inf.fu-berlin.de>
-    Stephan Aiche <aiche at inf.fu-berlin.de>
-    Anne-Katrin Emde <emde at inf.fu-berlin.de>
-    Carsten Kemena <kemena at inf.fu-berlin.de>
-    Konrad Ludwig Moritz Rudolph <krudolph at inf.fu-berlin.de>
-    Marcel H. Schulz. <marcel.schulz at molgen.mpg.de>
-Copyright:
-    If not otherwise stated Copyright (C) 2007-2009 the Seqan authors.
-License:
-    This library is free software; you can redistribute it and/or
-    modify it under the terms of the GNU Lesser General Public
-    License as published by the Free Software Foundation; either
-    version 3 of the License, or (at your option) any later version.
+        You should have received a copy of the GNU General Public License
+        along with Velvet; if not, write to the Free Software
+        Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA  02110-1301  USA
 
-    This library is distributed in the hope that it will be useful,
-    but WITHOUT ANY WARRANTY; without even the implied warranty of
-    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
-    Lesser General Public License for more details.
+On Debian systems, the complete text of the GNU General Public
+License version 2 can be found in ‘/usr/share/common-licenses/GPL-2’.
 
-    On Debian systems, you can find the LGPL license in:
-    /usr/share/common-licenses/LGPL
-
-File: SeqAn-1.1/seqan/index/index_sa_lss.h
-Copyright:
-     Copyright 1999 N. Jesper Larsson <jesper at cs.lth.se>
-     Copyright 2007 David Weese.
-License:
-    This software may be used freely for any purpose. However, when
-    distributed, the original source must be clearly stated, and, when
-    the source code is distributed, the copyright notice must be retained
-    and any alterations in the code must be clearly marked. No warranty
-    is given regarding the quality of this software.
-
-
 Files: debian/*
-Copyright: © 2010 Files: *
-Copyright: © 2011 Steffen Moeller <moeller at debian.org>,
-             Yask Gupta <yask.gupta87 at gmail.com>
-           © 2011 Andreas Tille <tille at debian.org>
+Copyright: © 2011 Andreas Tille <tille at debian.org>
 License: PD
  The packaging work is in the public domain unless stated otherwise.


