1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
|
<?xml version='1.0' encoding='UTF-8'?>
<?xml-stylesheet type="text/xsl"
href="http://docbook.sourceforge.net/release/xsl/current/manpages/docbook.xsl"?>
<!DOCTYPE refentry PUBLIC "-//OASIS//DTD DocBook XML V4.4//EN"
"http://www.oasis-open.org/docbook/xml/4.4/docbookx.dtd" [
<!-- See /usr/share/doc/docbook-xsl/examples/foo.1.example_manpage.xml.gz -->
<!-- Process this file with an XSLT processor, e.g. xsltproc: -->
<!-- `xsltproc \
-''-nonet \
-''-param man.charmap.use.subset "0" \
-''-param make.year.ranges "1" \
-''-param make.single.year.ranges "1" \
manpage.xml' -->
<!ENTITY debian "<productname>Debian</productname>">
<!ENTITY gnu "<acronym>GNU</acronym>">
<!ENTITY gpl "&gnu; <acronym>GPL</acronym>">
<!-- Fill in your name for FIRSTNAME and SURNAME. -->
<!ENTITY dhfirstname "Charles">
<!ENTITY dhsurname "Plessy">
<!ENTITY dhemail "plessy@debian.org">
<!ENTITY dhemail "daniel.leidert@wgdd.de">
<!-- dhusername could also be set to "&firstname; &surname;". -->
<!ENTITY dhusername "&dhfirstname; &dhsurname;">
<!-- The version information can also be suppressed (just -->
<!-- remove it or comment it out. -->
<!ENTITY dhrelease "0.5">
<!-- TITLE should be something like "User commands", -->
<!-- "&dhpackage; command-line reference" or similar (see e.g. -->
<!-- http://www.tldp.org/HOWTO/Man-Page/q2.html). But limit -->
<!-- the length to 30 chars. -->
<!ENTITY dhtitle "User Manuals">
<!-- This is the application/package name. -->
<!ENTITY dhucpackage "TREEVIEW X">
<!ENTITY dhpackage "TreeView X">
<!-- If the application e.g. belongs to a package like X.org, -->
<!-- this should be set to the package/suite name instead of -->
<!-- dhpackage. -->
<!ENTITY dhproduct "&dhpackage;">
<!-- SECTION should be 1-8, maybe w/ subsection other -->
<!-- parameters are allowed: see man(7), man(1) and -->
<!-- http://www.tldp.org/HOWTO/Man-Page/q2.html. -->
<!ENTITY dhsection "1">
]>
<!-- Process this file with an XSLT processor, e.g. xsltproc: -->
<!-- `xsltproc \
-''-nonet \
-''-param man.charmap.use.subset "0" \
-''-param make.year.ranges "1" \
-''-param make.single.year.ranges "1" \
manpage.xml' -->
<refentry>
<refentryinfo>
<title>&dhtitle;</title>
<!-- Better put a suite name instead of &dhpackage; into productname -->
<productname>&dhproduct;</productname>
<releaseinfo role="version">&dhrelease;</releaseinfo>
<!--
<author>
<firstname>&dhfirstname;</firstname>
<surname>&dhsurname;</surname>
<contrib>Wrote this manpage in DocBook XML for the Debian distribution.</contrib>
<address>
<email>&dhemail;</email>
</address>
</author>
<copyright>
<year>2006</year>
<year>2008</year>
<year>2011</year>
<holder>&dhusername;</holder>
</copyright>
-->
</refentryinfo>
<refmeta>
<refentrytitle>&dhucpackage;</refentrytitle>
<manvolnum>&dhsection;</manvolnum>
</refmeta>
<refnamediv>
<refname>&dhpackage;</refname>
<refpurpose>displays and prints phylogenetic trees</refpurpose>
</refnamediv>
<refsynopsisdiv>
<cmdsynopsis>
<command>tv</command> <arg choice="opt"><replaceable>filename</replaceable></arg>
</cmdsynopsis>
</refsynopsisdiv>
<refsect1>
<title>DESCRIPTION</title>
<para><command>tv</command> is the program that starts the
TreeView X GUI.</para>
<para>TreeView X is an open source and multi-platform program to
display phylogenetic trees. It can read and display NEXUS and
Newick format tree files (such as those output by PAUP*,
ClustalX, TREE-PUZZLE, and other programs). It allows one to order
the branches of the trees, and to export the trees in SVG
format.</para>
<para>If started from the command line with
<filename>filename</filename> as an argument, TreeView X
will open the tree stored in <filename>filename</filename>.</para>
</refsect1>
<refsect1>
<title>SEE ALSO</title>
<para>
At present there is is no documentation for TreeView X. In the
meantime please see the online documentation for TreeView
(remember that TreeView X has only a subset of the features of
TreeView). http://taxonomy.zoology.gla.ac.uk/rod/treeview/treeview_manual.html
</para>
</refsect1>
<refsect1>
<title>REFERENCE</title>
<para>Page, R. D. M. 1996. TREEVIEW: An application to display phylogenetic trees on personal computers. Computer Applications in the Biosciences 12: 357-358.</para>
</refsect1>
<refsect1>
<title>AUTHOR</title>
<para><application>TreeView X</application> was written by Rod
Page (r.page@bio.gla.ac.uk) URL:
http://darwin.zoology.gla.ac.uk/~rpage/treeviewx.</para>
<para>This manual page was written by &dhusername; (&dhemail;) for
the &debian; system (but may be used by others).</para>
<!-- You can copy, distribute and/or modify this document under the same terms as TreeView X itself. -->
<para>
Permission is granted to copy, distribute and/or modify TreeView X and this document under the terms of the &gnu; General Public License, Version 2 or any later version published by the Free Software Foundation.
</para>
<para>
On Debian systems, the complete text of the GNU General Public
License version 2 can be found in /usr/share/common-licenses/GPL-2.
</para>
</refsect1>
</refentry>
|
