[med-svn] r1514 - trunk/packages/seaview/trunk/debian

Wed Mar 5 12:33:34 UTC 2008

Author: charles-guest
Date: 2008-03-05 12:33:32 +0000 (Wed, 05 Mar 2008)
New Revision: 1514

Modified:
   trunk/packages/seaview/trunk/debian/changelog
   trunk/packages/seaview/trunk/debian/seaview.1
   trunk/packages/seaview/trunk/debian/seaview.1.xml
Log:
new upstream release

Modified: trunk/packages/seaview/trunk/debian/changelog
===================================================================

--- trunk/packages/seaview/trunk/debian/changelog	2008-03-05 11:34:12 UTC (rev 1513)
+++ trunk/packages/seaview/trunk/debian/changelog	2008-03-05 12:33:32 UTC (rev 1514)
@@ -1,5 +1,9 @@
-seaview (1:2.2-2) unstable; urgency=low
+seaview (1:2.4-1) UNRELEASED; urgency=low
 
+  * New upstream version:
+    - Version 2.3: corrrected bug if adding/deleting/moving sequences when in
+      'view as proteins' mode.
+    - Version 2.4: PHYLIP format: user can customize the max length of names.
   * debian/control:
     - Suggests: muscle, clustalw (non-free). Seaview detects if they
      are not present and grays the corresponding option.
@@ -11,6 +15,9 @@
       text/x-clustalw-alignment, debian/seaview.mime and
       debian/seaview.desktop associate seaview with this MIME type.
     - debian/rules executes dh_installmime.
+  * debian/seaview.1.xml: increased version number to 2.4 (no other changes
+    needed)
+  * debian/seaview.1: rebuilt with DocBook XSL Stylesheets v1.73.2.
 
  -- Charles Plessy <charles-debian-nospam at plessy.org>  Sat, 12 Jan 2008 15:30:07 +0900
 

Modified: trunk/packages/seaview/trunk/debian/seaview.1
===================================================================
--- trunk/packages/seaview/trunk/debian/seaview.1	2008-03-05 11:34:12 UTC (rev 1513)
+++ trunk/packages/seaview/trunk/debian/seaview.1	2008-03-05 12:33:32 UTC (rev 1514)
@@ -1,42 +1,42 @@
 .\"     Title: SEAVIEW
 .\"    Author: Manolo Gouy <mgouy at biomserv.univ-lyon1.fr>
-.\" Generator: DocBook XSL Stylesheets v1.72.0 <http://docbook.sf.net/>
-.\"      Date: 11/09/2007
+.\" Generator: DocBook XSL Stylesheets v1.73.2 <http://docbook.sf.net/>
+.\"      Date: 03/05/2008
 .\"    Manual: Seaview Manual
-.\"    Source: seaview 2.2
+.\"    Source: seaview 2.4
 .\"
-.TH "SEAVIEW" "1" "11/09/2007" "seaview 2.2" "Seaview Manual"
+.TH "SEAVIEW" "1" "03/05/2008" "seaview 2.4" "Seaview Manual"
 .\" disable hyphenation
 .nh
 .\" disable justification (adjust text to left margin only)
 .ad l
 .SH "NAME"
-seaview \- a multiple sequence alignment editor
+seaview - a multiple sequence alignment editor
 .SH "SYNOPSIS"
 .HP 8
 \fBseaview\fR [\fIfilename\fR]
 .SH "DESCRIPTION"
 .PP
 \fBseaview\fR
-is the program that starts the SeaView GUI.
+is the program that starts the SeaView GUI\.
 .PP
-SeaView is a graphical multiple sequence alignment editor. SeaView is able to read various alignment formats (MSF, CLUSTAL, FASTA, PHYLIP, MASE, NEXUS). It allows one to manually edit the alignment, and also to run DOT\-PLOT, CLUSTAL or MUSCLE programs to locally improve the alignment.
+SeaView is a graphical multiple sequence alignment editor\. SeaView is able to read various alignment formats (MSF, CLUSTAL, FASTA, PHYLIP, MASE, NEXUS)\. It allows one to manually edit the alignment, and also to run DOT\-PLOT, CLUSTAL or MUSCLE programs to locally improve the alignment\.
 .PP
 If started from the command line with
 \fIfilename\fR
 as an argument, seaview will open the alignment stored in
-\fIfilename\fR.
+\fIfilename\fR\.
 .SH "OPTIONS"
 .PP
 \fB\-fast\fR
 .RS 4
-Suppresses double buffering for display. This should only accelerate display on very slow systems.
+Suppresses double buffering for display\. This should only accelerate display on very slow systems\.
 .RE
 .PP
 \fB\-fontsize\fR \fIn\fR
 .RS 4
 Sets the font size to
-\fIn\fR.
+\fIn\fR\.
 .RE
 .PP
 \fB\-inverted\fR
@@ -46,45 +46,45 @@
 .PP
 \fB\-save\fR \fIformat_name\fR
 .RS 4
-Sets the default file format for saving operations.
+Sets the default file format for saving operations\.
 \fIformat_name\fR
-can be either mase, clustal, phylip, msf, fasta, or nexus. Without this option, SeaView autodetects the format of the opened file and uses the same for saving.
+can be either mase, clustal, phylip, msf, fasta, or nexus\. Without this option, SeaView autodetects the format of the opened file and uses the same for saving\.
 .RE
 .SH "FILES"
 .PP
-\fI\fI$HOME\fR\fR\fI/.seaviewrc\fR
-holds the user's configuration for SeaView.
+\fI\fI$HOME\fR\fR\fI/\.seaviewrc\fR
+holds the user\'s configuration for SeaView\.
 .SH "SEE ALSO"
 .PP
-The program is fully documented online. Press the "help" button in the main window. On Debian systems, the text template for SeaView's help can be found in
-\fI/usr/share/seaview/seaview.help\fR
-(It is human readable).
+The program is fully documented online\. Press the "help" button in the main window\. On Debian systems, the text template for SeaView\'s help can be found in
+\fI/usr/share/seaview/seaview\.help\fR
+(It is human readable)\.
 .PP
 Two multiple alignment programs can be called from whithin SeaView:
 \fBmuscle\fR(1)
 and
-\fBclustalw\fR(1).
+\fBclustalw\fR(1)\.
 .PP
-The home page of SeaView is http://pbil.univ\-lyon1.fr/software/seaview.html.
+The home page of SeaView is http://pbil\.univ\-lyon1\.fr/software/seaview\.html\.
 .SH "REFERENCE"
 .PP
-If you use SeaView in a published work, please cite the following reference: Galtier, N., Gouy, M. and Gautier, C. (1996) SeaView and Phylo_win, two graphic tools for sequence alignment and molecular phylogeny. Comput. Applic. Biosci., 12, 543\-548.
+If you use SeaView in a published work, please cite the following reference: Galtier, N\., Gouy, M\. and Gautier, C\. (1996) SeaView and Phylo_win, two graphic tools for sequence alignment and molecular phylogeny\. Comput\. Applic\. Biosci\., 12, 543\-548\.
 .SH "AUTHORS"
 .PP
-\fBManolo Gouy\fR <\&mgouy at biomserv.univ\-lyon1.fr\&>
+\fBManolo Gouy\fR <\&mgouy at biomserv\.univ\-lyon1\.fr\&>
 .sp -1n
 .IP "" 4
-Upstream author of SeaView.
+Upstream author of SeaView\.
 .PP
-\fBStéphane Bortzmeyer\fR <\&bortzmeyer at debian.org\&>
+\fBStéphane Bortzmeyer\fR <\&bortzmeyer at debian\.org\&>
 .sp -1n
 .IP "" 4
-Wrote this manpage in DocBook XML for the Debian distribution.
+Wrote this manpage in DocBook XML for the Debian distribution\.
 .PP
-\fBCharles Plessy\fR <\&charles\-debian\-nospam at plessy.org\&>
+\fBCharles Plessy\fR <\&charles\-debian\-nospam at plessy\.org\&>
 .sp -1n
 .IP "" 4
-Updated this manpage in DocBook XML for the Debian distribution.
+Updated this manpage in DocBook XML for the Debian distribution\.
 .SH "COPYRIGHT"
 Copyright \(co 1996, 1997, 1998, 1999, 2000, 2001, 2002, 2003, 2004, 2005, 2006, 2007 Manolo Gouy
 .br
@@ -96,8 +96,8 @@
 SeaView
 is released under the GNU General Public Licence
 .PP
-You can redistribute and/or modify this manpage under same terms as SeaView itself.
+You can redistribute and/or modify this manpage under same terms as SeaView itself\.
 .PP
 On Debian systems, the complete text of the GNU General Public License can be found in
-\fI/usr/share/common\-licenses/GPL\fR.
-.br
+\fI/usr/share/common\-licenses/GPL\fR\.
+.sp

Modified: trunk/packages/seaview/trunk/debian/seaview.1.xml
===================================================================
--- trunk/packages/seaview/trunk/debian/seaview.1.xml	2008-03-05 11:34:12 UTC (rev 1513)
+++ trunk/packages/seaview/trunk/debian/seaview.1.xml	2008-03-05 12:33:32 UTC (rev 1514)
@@ -11,7 +11,7 @@
   <!ENTITY dhusername  "&dhfirstname; &dhsurname;">
   <!ENTITY dhucpackage "SEAVIEW">
   <!ENTITY dhpackage   "seaview">
-  <!ENTITY dhrelease   "2.2">
+  <!ENTITY dhrelease   "2.4">
   <!ENTITY dhtitle     "Seaview Manual">
   <!ENTITY debian      "<productname>Debian</productname>">
   <!ENTITY gnu         "<acronym>GNU</acronym>">


