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
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
|
<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd">
<html>
<head>
<META http-equiv="Content-Type" content="text/html; charset=UTF-8">
<title>
Instructions for Linux and UNIX
</title>
<meta content="text/html; charset=iso-8859-1" http-equiv="Content-Type">
<meta content="Sequin" name="keywords">
<meta content="Sequin is a stand-alone software tool developed by the NCBI for submitting and updating entries to the GenBank, EMBL, or DDBJ sequence databases." name="description">
<link href="ncbi_sequin.css" rel="stylesheet">
<link rel="stylesheet" type="text/css" href="seq_unix_download.css">
<SCRIPT SRC="sniff.js" LANGUAGE="JavaScript"></SCRIPT>
</head>
<body alt="background">
<table class="TOPTITLEBAR" summary="Downloading Sequin" cellpadding="0" cellspacing="0" cellmargin="0" border="0">
<tbody>
<tr>
<td width="130"><a href="http://www.ncbi.nlm.nih.gov"><img alt="NCBI Logo" border="0" height="45" width="130" src="left.GIF"></a></td><td class="TOPTITLE">
<h1>Downloading and Installing Sequin</h1>
<H2>
Instructions for Linux and UNIX
</H2>
</td>
</tr>
</tbody>
</table>
<table summary="Links to several NCBI services" bgcolor="#000000" cellpadding="3" cellspacing="0" width="600" border="0" class="TEXT">
<tbody>
<tr align="center" class="TEXT">
<td width="100"><a class="BAR" href="index.html">Sequin</a></td><td width="100"><a class="BAR" href="http://www.ncbi.nlm.nih.gov/Entrez/">Entrez</a></td><td width="100"><a class="BAR" href="http://www.ncbi.nlm.nih.gov/BLAST/">
BLAST
</a></td><td width="100"><a class="BAR" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=OMIM">
OMIM
</a></td><td width="100"><a class="BAR" href="http://www.ncbi.nlm.nih.gov/Taxonomy/taxonomyhome.html">Taxonomy</a></td><td width="100"><a class="BAR" href="http://www.ncbi.nlm.nih.gov/Structure/">Structure</a></td>
</tr>
</tbody>
</table>
<img height="15" width="100%" alt="spacer" src="spacer10.GIF"><br>
<table cellpadding="0" cellspacing="0" width="600" border="0">
<tbody>
<tr valign="top">
<td width="145">
<p>
<a class="GUTTER1" href="http://ncbi.nlm.nih.gov/Sequin/index.html">Sequin home</a>
<br>
</p>
<p>
<a class="GUTTER1" href="http://ncbi.nlm.nih.gov/Sequin/QuickGuide/sequin.htm">Quick Guide</a>
<br>
</p>
<p>
<a class="GUTTER1" href="http://ncbi.nlm.nih.gov/Sequin/faq.html">FAQs</a>
<br>
</p>
<p>
<a class="GUTTER1" href="http://ncbi.nlm.nih.gov/Sequin/sequin.hlp.html">Help Documentation</a>
<br>
</p>
<p>
<a class="GUTTER1" href="seq_download.html">
Download Sequin</a>
<br>
<div style="margin-left: 10px; margin-top: 10px;">
<a title="Download instructions for Windows" href="seq_win_download.html" class="GUTTER2">
<div style="height: 10px">
Windows
</div>
</a>
<br>
<a title="Download instructions for Macintosh" href="seq_mac_download.html" class="GUTTER2">
<div style="height: 10px">
Macintosh
</div>
</a>
<br>
<a title="Download instructions for Unix" href="seq_unix_download.html" class="GUTTER2">
<div style="height: 10px">
Unix
</div>
</a>
<br>
<a title="Download instructions for all platforms using ftp" href="seq_ftp_download.html" class="GUTTER2">
<div style="height: 15px">
Download using ftp
</div>
</a>
<br>
<a title="Get help with problems" href="seq_trouble.html" class="GUTTER2">
<div style="height: 10px">
Troubleshooting
</div>
</a>
</div>
</p>
</td><td width="455">
<h4 class="c8">System Requirements</h4>
<p>
The current version of
Sequin works with the following UNIX variants:
</p>
<ul>
<li>Solaris/Sparc</li>
<li>Solaris/Intel</li>
<li>Linux</li>
<li>SGI Irix5.X</li>
<li>SGI Irix6.2 and higher</li>
<li>DEC Alpha OSF1/Digital Unix</li>
</ul>
<h4 class="c8">Downloading Sequin</h4>
<ol>
<li class="c10">Create an installation directory for
sequin using the UNIX command <span class="c9">mkdir</span>, or using your graphical file
manager.</li>
<li class="c10">Clicking on the link corresponding to
your version of UNIX, and the type of compression you
prefer. See <a href="#Notes">Notes</a> below for help
in choosing compression type.
<table border="0" class="c13" cellpadding="4" cellspacing="2">
<tbody>
<tr>
<td class="c11" rowspan="1" colspan="1">
Linux</td>
<td class="c12" rowspan="1" colspan="1">
<a href="ftp://ftp.ncbi.nih.gov/sequin/CURRENT/sequin.linux.tar.Z">
sequin.linux.tar.Z</a>
<br>
<a href="ftp://ftp.ncbi.nih.gov/sequin/CURRENT/sequin.linux.tar.gz">
sequin.linux.tar.gz</a></td>
</tr>
<tr>
<td class="c11" rowspan="1" colspan="1">SGI
Irix<br>
</td>
<td class="c12" rowspan="1" colspan="1">
<a href="ftp://ftp.ncbi.nih.gov/sequin/CURRENT/sequin.sgi.tar.Z">
sequin.sgi.tar.Z</a>
<br>
<a href="ftp://ftp.ncbi.nih.gov/sequin/CURRENT/sequin.sgi.tar.gz">
sequin.sgi.tar.gz</a></td>
</tr>
<tr>
<td class="c11" rowspan="1" colspan="1">
Solaris/Sparc<br>
</td>
<td class="c12" rowspan="1" colspan="1">
<a href="ftp://ftp.ncbi.nih.gov/sequin/CURRENT/sequin.solaris.tar.Z">
sequin.solaris.tar.Z</a>
<br>
<a href="ftp://ftp.ncbi.nih.gov/sequin/CURRENT/sequin.solaris.tar.gz">
sequin.solaris.tar.gz</a></td>
</tr>
<tr>
<td class="c11" rowspan="1" colspan="1">
Solaris/Intel<br>
</td>
<td class="c12" rowspan="1" colspan="1">
<a href="ftp://ftp.ncbi.nih.gov/sequin/CURRENT/sequin.solarisintel.tar.Z">
sequin.solarisintel.tar.Z</a>
<br>
<a href="ftp://ftp.ncbi.nih.gov/sequin/CURRENT/sequin.solarisintel.tar.gz">
sequin.solarisintel.tar.gz</a></td>
</tr>
</tbody>
</table>
</li>
<li class="c10">Your Web browser may show a dialog box
asking if you want to run the program, or save it to
disk. Choose <span class="c1"><span class="c2">S</span>ave to disk...</span> and save the file to
your installation directory.</li>
<li class="c10">If your Web browser can't download the
file for some reason, see <a href="seq_trouble.html">Troubleshooting</a>. If the browser
automatically downloads the file without asking for a
directory to save to, find the downloaded file and move
it to the installation directory.</li>
</ol>
<h4 class="c8">Installing Sequin</h4>
<p>
Follow these instructions to install Sequin on
UNIX:
</p>
<ol>
<li class="c10">Create an installation directory for
the program; for example, <span class="c9">C:\Program
Files\Sequin</span>. This directory may be anywhere on
any hard drive in your system.</li>
<li class="c10">In the installation directory,
type:<br>
<strong><code> uncompress
sequin.*.tar.Z</code></strong>
<br>
or:<br>
<strong><code> gzip -d
sequin.*.tar.gz</code></strong>
<br>
depending on which file you downloaded.<br>
</li>
<li class="c10">Type<span class="c9"><span class="c1">:</span></span>
<br>
<strong><code>tar xvf
sequin.*.tar</code></strong>
<br>
This command will create a number of files and
directories within the installation directory. </li>
<li class="c10">Run an X window manager, if one is not
already running. Note that your system must be
configured for the appropriate version of the X Window
System (X11R4 or X11R5).</li>
<li class="c10">Start <code>sequin</code> by clicking
the sequin icon ion the installation
directory.<br>
</li>
</ol>
<br>
<h4 class="c8">
<a name="Notes" id="Notes"></a>Notes</h4>
<ul>
<li class="exdent">
<span class="c3">Choosing a compression type</span>.
The standard UNIX file compression program
<span class="c9">compress</span> squeezes a file to
make it smaller, and indicates that the file is
compressed by adding a <span class="c9">.Z</span>
suffix to the filename. The <span class="c9">uncompress</span> program unsqueezes the file
and removes the .Z suffix. Downloading and
uncompressing a "<span class="c9">.Z</span> file"
should work on any UNIX or Linux system. If your UNIX
or Linux system has the program gzip, you can
download the .gz version of sequin instead of the .Z
version. A <span class="c9">.gz</span> file is
smaller than an equivalent <span class="c9">.Z</span>
file, so it downloads more quickly. Uncompress (or
"unzip") a .gz file using the command:<br>
<span class="c14">gzip -d file.gz</span>
</li>
</ul>
</td>
</tr>
</tbody>
</table>
<table cellpadding="0" cellspacing="0" border="0">
<tr>
<td width="145"></td><td width="455">
<hr style="width: 100%; height: 2px;">
<div style="text-align: center;">
<b>Questions or Comments?</b>
<p class="medium1">Write to the
<a href="mailto:info@ncbi.nlm.nih.gov">
NCBI Service Desk
</a>
</p>
<p class="medium1">Revised Feb 27, 2004</p>
</div>
</td>
</tr>
</table>
<br>
</body>
</html>
|
