1<table border cellspacing=0 cellpadding=3 bgcolor="#ccccff">
2<tr bgcolor="#FFFFCC">
3<th align="left">Qualifier</th>
4<th align="left">Type</th>
5<th align="left">Description</th>
6<th align="left">Allowed values</th>
7<th align="left">Default</th>
8</tr>
9
10<tr bgcolor="#FFFFCC">
11<th align="left" colspan=5>Standard (Mandatory) qualifiers</th>
12</tr>
13
14<tr bgcolor="#FFFFCC">
15<td>[-cachefile]<br>(Parameter 1)</td>
16<td>outfile</td>
17<td>Server cache output file</td>
18<td>Output file</td>
19<td>server.$(servername)</td>
20</tr>
21
22<tr bgcolor="#FFFFCC">
23<th align="left" colspan=5>Additional (Optional) qualifiers</th>
24</tr>
25
26<tr bgcolor="#FFFFCC">
27<td>-sequencesourcesonly</td>
28<td>boolean</td>
29<td>Display DAS sequence sources only</td>
30<td>Boolean value Yes/No</td>
31<td>No</td>
32</tr>
33
34<tr bgcolor="#FFFFCC">
35<td>-outfile</td>
36<td>outfile</td>
37<td>Output file name</td>
38<td>Output file</td>
39<td>stdout</td>
40</tr>
41
42<tr bgcolor="#FFFFCC">
43<th align="left" colspan=5>Advanced (Unprompted) qualifiers</th>
44</tr>
45
46<tr bgcolor="#FFFFCC">
47<td>-host</td>
48<td>string</td>
49<td>DAS registry/server host location</td>
50<td>Any string</td>
51<td>www.dasregistry.org</td>
52</tr>
53
54<tr bgcolor="#FFFFCC">
55<td>-path</td>
56<td>string</td>
57<td>DAS registry/server path on registry/server host</td>
58<td>Any string</td>
59<td>/das</td>
60</tr>
61
62<tr bgcolor="#FFFFCC">
63<td>-port</td>
64<td>integer</td>
65<td>DAS registry/server port on registry/server host</td>
66<td>Any integer value</td>
67<td>80</td>
68</tr>
69
70<tr bgcolor="#FFFFCC">
71<td>-servername</td>
72<td>string</td>
73<td>Name of a DAS server defined in EMBOSS resource files</td>
74<td>Any string</td>
75<td>das</td>
76</tr>
77
78<tr bgcolor="#FFFFCC">
79<th align="left" colspan=5>Associated qualifiers</th>
80</tr>
81
82<tr bgcolor="#FFFFCC">
83<td align="left" colspan=5>"-outfile" associated outfile qualifiers
84</td>
85</tr>
86
87<tr bgcolor="#FFFFCC">
88<td> -odirectory</td>
89<td>string</td>
90<td>Output directory</td>
91<td>Any string</td>
92<td>&nbsp;</td>
93</tr>
94
95<tr bgcolor="#FFFFCC">
96<td align="left" colspan=5>"-cachefile" associated outfile qualifiers
97</td>
98</tr>
99
100<tr bgcolor="#FFFFCC">
101<td> -odirectory1<br>-odirectory_cachefile</td>
102<td>string</td>
103<td>Output directory</td>
104<td>Any string</td>
105<td>&nbsp;</td>
106</tr>
107
108<tr bgcolor="#FFFFCC">
109<th align="left" colspan=5>General qualifiers</th>
110</tr>
111
112<tr bgcolor="#FFFFCC">
113<td> -auto</td>
114<td>boolean</td>
115<td>Turn off prompts</td>
116<td>Boolean value Yes/No</td>
117<td>N</td>
118</tr>
119
120<tr bgcolor="#FFFFCC">
121<td> -stdout</td>
122<td>boolean</td>
123<td>Write first file to standard output</td>
124<td>Boolean value Yes/No</td>
125<td>N</td>
126</tr>
127
128<tr bgcolor="#FFFFCC">
129<td> -filter</td>
130<td>boolean</td>
131<td>Read first file from standard input, write first file to standard output</td>
132<td>Boolean value Yes/No</td>
133<td>N</td>
134</tr>
135
136<tr bgcolor="#FFFFCC">
137<td> -options</td>
138<td>boolean</td>
139<td>Prompt for standard and additional values</td>
140<td>Boolean value Yes/No</td>
141<td>N</td>
142</tr>
143
144<tr bgcolor="#FFFFCC">
145<td> -debug</td>
146<td>boolean</td>
147<td>Write debug output to program.dbg</td>
148<td>Boolean value Yes/No</td>
149<td>N</td>
150</tr>
151
152<tr bgcolor="#FFFFCC">
153<td> -verbose</td>
154<td>boolean</td>
155<td>Report some/full command line options</td>
156<td>Boolean value Yes/No</td>
157<td>Y</td>
158</tr>
159
160<tr bgcolor="#FFFFCC">
161<td> -help</td>
162<td>boolean</td>
163<td>Report command line options and exit. More information on associated and general qualifiers can be found with -help -verbose</td>
164<td>Boolean value Yes/No</td>
165<td>N</td>
166</tr>
167
168<tr bgcolor="#FFFFCC">
169<td> -warning</td>
170<td>boolean</td>
171<td>Report warnings</td>
172<td>Boolean value Yes/No</td>
173<td>Y</td>
174</tr>
175
176<tr bgcolor="#FFFFCC">
177<td> -error</td>
178<td>boolean</td>
179<td>Report errors</td>
180<td>Boolean value Yes/No</td>
181<td>Y</td>
182</tr>
183
184<tr bgcolor="#FFFFCC">
185<td> -fatal</td>
186<td>boolean</td>
187<td>Report fatal errors</td>
188<td>Boolean value Yes/No</td>
189<td>Y</td>
190</tr>
191
192<tr bgcolor="#FFFFCC">
193<td> -die</td>
194<td>boolean</td>
195<td>Report dying program messages</td>
196<td>Boolean value Yes/No</td>
197<td>Y</td>
198</tr>
199
200<tr bgcolor="#FFFFCC">
201<td> -version</td>
202<td>boolean</td>
203<td>Report version number and exit</td>
204<td>Boolean value Yes/No</td>
205<td>N</td>
206</tr>
207
208</table>
209