updated javadoc
[jabaws.git] / website / full_javadoc / compbio / ws / server / package-summary.html
1 <!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd">\r
2 <!--NewPage-->\r
3 <HTML>\r
4 <HEAD>\r
5 <!-- Generated by javadoc (build 1.6.0_24) on Fri Aug 12 14:32:36 BST 2011 -->\r
6 <TITLE>\r
7 compbio.ws.server\r
8 </TITLE>\r
9 \r
10 <META NAME="date" CONTENT="2011-08-12">\r
11 \r
12 <LINK REL ="stylesheet" TYPE="text/css" HREF="../../../stylesheet.css" TITLE="Style">\r
13 \r
14 <SCRIPT type="text/javascript">\r
15 function windowTitle()\r
16 {\r
17     if (location.href.indexOf('is-external=true') == -1) {\r
18         parent.document.title="compbio.ws.server";\r
19     }\r
20 }\r
21 </SCRIPT>\r
22 <NOSCRIPT>\r
23 </NOSCRIPT>\r
24 \r
25 </HEAD>\r
26 \r
27 <BODY BGCOLOR="white" onload="windowTitle();">\r
28 <HR>\r
29 \r
30 \r
31 <!-- ========= START OF TOP NAVBAR ======= -->\r
32 <A NAME="navbar_top"><!-- --></A>\r
33 <A HREF="#skip-navbar_top" title="Skip navigation links"></A>\r
34 <TABLE BORDER="0" WIDTH="100%" CELLPADDING="1" CELLSPACING="0" SUMMARY="">\r
35 <TR>\r
36 <TD COLSPAN=2 BGCOLOR="#EEEEFF" CLASS="NavBarCell1">\r
37 <A NAME="navbar_top_firstrow"><!-- --></A>\r
38 <TABLE BORDER="0" CELLPADDING="0" CELLSPACING="3" SUMMARY="">\r
39   <TR ALIGN="center" VALIGN="top">\r
40   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="../../../overview-summary.html"><FONT CLASS="NavBarFont1"><B>Overview</B></FONT></A>&nbsp;</TD>\r
41   <TD BGCOLOR="#FFFFFF" CLASS="NavBarCell1Rev"> &nbsp;<FONT CLASS="NavBarFont1Rev"><B>Package</B></FONT>&nbsp;</TD>\r
42   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <FONT CLASS="NavBarFont1">Class</FONT>&nbsp;</TD>\r
43   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="package-use.html"><FONT CLASS="NavBarFont1"><B>Use</B></FONT></A>&nbsp;</TD>\r
44   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="package-tree.html"><FONT CLASS="NavBarFont1"><B>Tree</B></FONT></A>&nbsp;</TD>\r
45   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="../../../deprecated-list.html"><FONT CLASS="NavBarFont1"><B>Deprecated</B></FONT></A>&nbsp;</TD>\r
46   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="../../../index-files/index-1.html"><FONT CLASS="NavBarFont1"><B>Index</B></FONT></A>&nbsp;</TD>\r
47   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="../../../help-doc.html"><FONT CLASS="NavBarFont1"><B>Help</B></FONT></A>&nbsp;</TD>\r
48   </TR>\r
49 </TABLE>\r
50 </TD>\r
51 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>\r
52 </EM>\r
53 </TD>\r
54 </TR>\r
55 \r
56 <TR>\r
57 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">\r
58 &nbsp;<A HREF="../../../compbio/ws/client/package-summary.html"><B>PREV PACKAGE</B></A>&nbsp;\r
59 &nbsp;NEXT PACKAGE</FONT></TD>\r
60 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">\r
61   <A HREF="../../../index.html?compbio/ws/server/package-summary.html" target="_top"><B>FRAMES</B></A>  &nbsp;\r
62 &nbsp;<A HREF="package-summary.html" target="_top"><B>NO FRAMES</B></A>  &nbsp;\r
63 &nbsp;<SCRIPT type="text/javascript">\r
64   <!--\r
65   if(window==top) {\r
66     document.writeln('<A HREF="../../../allclasses-noframe.html"><B>All Classes</B></A>');\r
67   }\r
68   //-->\r
69 </SCRIPT>\r
70 <NOSCRIPT>\r
71   <A HREF="../../../allclasses-noframe.html"><B>All Classes</B></A>\r
72 </NOSCRIPT>\r
73 \r
74 \r
75 </FONT></TD>\r
76 </TR>\r
77 </TABLE>\r
78 <A NAME="skip-navbar_top"></A>\r
79 <!-- ========= END OF TOP NAVBAR ========= -->\r
80 \r
81 <HR>\r
82 <H2>\r
83 Package compbio.ws.server\r
84 </H2>\r
85 \r
86 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
87 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
88 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">\r
89 <B>Class Summary</B></FONT></TH>\r
90 </TR>\r
91 <TR BGCOLOR="white" CLASS="TableRowColor">\r
92 <TD WIDTH="15%"><B><A HREF="../../../compbio/ws/server/_MsaService.html" title="class in compbio.ws.server">_MsaService&lt;T&gt;</A></B></TD>\r
93 <TD>TODO to complete after the approach is tested with SequenceAnnotation!
94  
95  Common methods for all SequenceAnnotation web services</TD>\r
96 </TR>\r
97 <TR BGCOLOR="white" CLASS="TableRowColor">\r
98 <TD WIDTH="15%"><B><A HREF="../../../compbio/ws/server/_WSLogger.html" title="class in compbio.ws.server">_WSLogger</A></B></TD>\r
99 <TD><B>Deprecated.</B></TD>\r
100 </TR>\r
101 <TR BGCOLOR="white" CLASS="TableRowColor">\r
102 <TD WIDTH="15%"><B><A HREF="../../../compbio/ws/server/AAConWS.html" title="class in compbio.ws.server">AAConWS</A></B></TD>\r
103 <TD>&nbsp;</TD>\r
104 </TR>\r
105 <TR BGCOLOR="white" CLASS="TableRowColor">\r
106 <TD WIDTH="15%"><B><A HREF="../../../compbio/ws/server/ClustalOWS.html" title="class in compbio.ws.server">ClustalOWS</A></B></TD>\r
107 <TD>&nbsp;</TD>\r
108 </TR>\r
109 <TR BGCOLOR="white" CLASS="TableRowColor">\r
110 <TD WIDTH="15%"><B><A HREF="../../../compbio/ws/server/ClustalWS.html" title="class in compbio.ws.server">ClustalWS</A></B></TD>\r
111 <TD>&nbsp;</TD>\r
112 </TR>\r
113 <TR BGCOLOR="white" CLASS="TableRowColor">\r
114 <TD WIDTH="15%"><B><A HREF="../../../compbio/ws/server/DisemblWS.html" title="class in compbio.ws.server">DisemblWS</A></B></TD>\r
115 <TD>&nbsp;</TD>\r
116 </TR>\r
117 <TR BGCOLOR="white" CLASS="TableRowColor">\r
118 <TD WIDTH="15%"><B><A HREF="../../../compbio/ws/server/GenericMetadataService.html" title="class in compbio.ws.server">GenericMetadataService&lt;T&gt;</A></B></TD>\r
119 <TD>&nbsp;</TD>\r
120 </TR>\r
121 <TR BGCOLOR="white" CLASS="TableRowColor">\r
122 <TD WIDTH="15%"><B><A HREF="../../../compbio/ws/server/GlobPlotWS.html" title="class in compbio.ws.server">GlobPlotWS</A></B></TD>\r
123 <TD>&nbsp;</TD>\r
124 </TR>\r
125 <TR BGCOLOR="white" CLASS="TableRowColor">\r
126 <TD WIDTH="15%"><B><A HREF="../../../compbio/ws/server/IUPredWS.html" title="class in compbio.ws.server">IUPredWS</A></B></TD>\r
127 <TD>&nbsp;</TD>\r
128 </TR>\r
129 <TR BGCOLOR="white" CLASS="TableRowColor">\r
130 <TD WIDTH="15%"><B><A HREF="../../../compbio/ws/server/JronnWS.html" title="class in compbio.ws.server">JronnWS</A></B></TD>\r
131 <TD>&nbsp;</TD>\r
132 </TR>\r
133 <TR BGCOLOR="white" CLASS="TableRowColor">\r
134 <TD WIDTH="15%"><B><A HREF="../../../compbio/ws/server/MafftWS.html" title="class in compbio.ws.server">MafftWS</A></B></TD>\r
135 <TD>&nbsp;</TD>\r
136 </TR>\r
137 <TR BGCOLOR="white" CLASS="TableRowColor">\r
138 <TD WIDTH="15%"><B><A HREF="../../../compbio/ws/server/MuscleWS.html" title="class in compbio.ws.server">MuscleWS</A></B></TD>\r
139 <TD>&nbsp;</TD>\r
140 </TR>\r
141 <TR BGCOLOR="white" CLASS="TableRowColor">\r
142 <TD WIDTH="15%"><B><A HREF="../../../compbio/ws/server/ProbconsWS.html" title="class in compbio.ws.server">ProbconsWS</A></B></TD>\r
143 <TD>&nbsp;</TD>\r
144 </TR>\r
145 <TR BGCOLOR="white" CLASS="TableRowColor">\r
146 <TD WIDTH="15%"><B><A HREF="../../../compbio/ws/server/RegistryWS.html" title="class in compbio.ws.server">RegistryWS</A></B></TD>\r
147 <TD>JABAWS services registry</TD>\r
148 </TR>\r
149 <TR BGCOLOR="white" CLASS="TableRowColor">\r
150 <TD WIDTH="15%"><B><A HREF="../../../compbio/ws/server/SequenceAnnotationService.html" title="class in compbio.ws.server">SequenceAnnotationService&lt;T&gt;</A></B></TD>\r
151 <TD>Common methods for all SequenceAnnotation web services</TD>\r
152 </TR>\r
153 <TR BGCOLOR="white" CLASS="TableRowColor">\r
154 <TD WIDTH="15%"><B><A HREF="../../../compbio/ws/server/ShutdownEngines.html" title="class in compbio.ws.server">ShutdownEngines</A></B></TD>\r
155 <TD>Switch off engines if JABAWS web application is undeployed, or web server is
156  shutdown</TD>\r
157 </TR>\r
158 <TR BGCOLOR="white" CLASS="TableRowColor">\r
159 <TD WIDTH="15%"><B><A HREF="../../../compbio/ws/server/SimpleWSPublisher.html" title="class in compbio.ws.server">SimpleWSPublisher</A></B></TD>\r
160 <TD><B>Deprecated.</B></TD>\r
161 </TR>\r
162 <TR BGCOLOR="white" CLASS="TableRowColor">\r
163 <TD WIDTH="15%"><B><A HREF="../../../compbio/ws/server/TcoffeeWS.html" title="class in compbio.ws.server">TcoffeeWS</A></B></TD>\r
164 <TD>&nbsp;</TD>\r
165 </TR>\r
166 <TR BGCOLOR="white" CLASS="TableRowColor">\r
167 <TD WIDTH="15%"><B><A HREF="../../../compbio/ws/server/WSUtil.html" title="class in compbio.ws.server">WSUtil</A></B></TD>\r
168 <TD>&nbsp;</TD>\r
169 </TR>\r
170 </TABLE>\r
171 &nbsp;\r
172 \r
173 <P>\r
174 <DL>\r
175 </DL>\r
176 <HR>\r
177 \r
178 \r
179 <!-- ======= START OF BOTTOM NAVBAR ====== -->\r
180 <A NAME="navbar_bottom"><!-- --></A>\r
181 <A HREF="#skip-navbar_bottom" title="Skip navigation links"></A>\r
182 <TABLE BORDER="0" WIDTH="100%" CELLPADDING="1" CELLSPACING="0" SUMMARY="">\r
183 <TR>\r
184 <TD COLSPAN=2 BGCOLOR="#EEEEFF" CLASS="NavBarCell1">\r
185 <A NAME="navbar_bottom_firstrow"><!-- --></A>\r
186 <TABLE BORDER="0" CELLPADDING="0" CELLSPACING="3" SUMMARY="">\r
187   <TR ALIGN="center" VALIGN="top">\r
188   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="../../../overview-summary.html"><FONT CLASS="NavBarFont1"><B>Overview</B></FONT></A>&nbsp;</TD>\r
189   <TD BGCOLOR="#FFFFFF" CLASS="NavBarCell1Rev"> &nbsp;<FONT CLASS="NavBarFont1Rev"><B>Package</B></FONT>&nbsp;</TD>\r
190   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <FONT CLASS="NavBarFont1">Class</FONT>&nbsp;</TD>\r
191   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="package-use.html"><FONT CLASS="NavBarFont1"><B>Use</B></FONT></A>&nbsp;</TD>\r
192   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="package-tree.html"><FONT CLASS="NavBarFont1"><B>Tree</B></FONT></A>&nbsp;</TD>\r
193   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="../../../deprecated-list.html"><FONT CLASS="NavBarFont1"><B>Deprecated</B></FONT></A>&nbsp;</TD>\r
194   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="../../../index-files/index-1.html"><FONT CLASS="NavBarFont1"><B>Index</B></FONT></A>&nbsp;</TD>\r
195   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="../../../help-doc.html"><FONT CLASS="NavBarFont1"><B>Help</B></FONT></A>&nbsp;</TD>\r
196   </TR>\r
197 </TABLE>\r
198 </TD>\r
199 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>\r
200 </EM>\r
201 </TD>\r
202 </TR>\r
203 \r
204 <TR>\r
205 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">\r
206 &nbsp;<A HREF="../../../compbio/ws/client/package-summary.html"><B>PREV PACKAGE</B></A>&nbsp;\r
207 &nbsp;NEXT PACKAGE</FONT></TD>\r
208 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">\r
209   <A HREF="../../../index.html?compbio/ws/server/package-summary.html" target="_top"><B>FRAMES</B></A>  &nbsp;\r
210 &nbsp;<A HREF="package-summary.html" target="_top"><B>NO FRAMES</B></A>  &nbsp;\r
211 &nbsp;<SCRIPT type="text/javascript">\r
212   <!--\r
213   if(window==top) {\r
214     document.writeln('<A HREF="../../../allclasses-noframe.html"><B>All Classes</B></A>');\r
215   }\r
216   //-->\r
217 </SCRIPT>\r
218 <NOSCRIPT>\r
219   <A HREF="../../../allclasses-noframe.html"><B>All Classes</B></A>\r
220 </NOSCRIPT>\r
221 \r
222 \r
223 </FONT></TD>\r
224 </TR>\r
225 </TABLE>\r
226 <A NAME="skip-navbar_bottom"></A>\r
227 <!-- ======== END OF BOTTOM NAVBAR ======= -->\r
228 \r
229 <HR>\r
230 \r
231 </BODY>\r
232 </HTML>\r