[MOBY-guts] biomoby commit

senger@ebi.ac.uk senger at pub.open-bio.org
Mon Mar 3 01:03:19 UTC 2003 

senger
Sun Mar  2 15:48:24 EST 2003
Update of /home/repository/moby/moby-live/Java/docs/API
In directory pub.open-bio.org:/tmp/cvs-serv25704/docs/API

Modified Files:
	TestingCentral.html allclasses-frame.html 
	allclasses-noframe.html constant-values.html help-doc.html 
	index-all.html index.html overview-frame.html 
	overview-summary.html overview-tree.html package-frame.html 
	package-list packages.html serialized-form.html 
Added Files:
	MobyCmdLineClient.html 
Removed Files:
	ClientUtils.html MobyCentral.html MobyCentralDeser.html 
	MobyCentralDeserFactory.html MobyCentralSer.html 
	MobyCentralSerFactory.html TestingWSDL.html 
Log Message:
updated Moby in Java, add new client, add documentation
moby-live/Java/docs/API MobyCmdLineClient.html,NONE,1.1 TestingCentral.html,1.1,1.2 allclasses-frame.html,1.1,1.2 allclasses-noframe.html,1.1,1.2 constant-values.html,1.1,1.2 help-doc.html,1.1,1.2 index-all.html,1.1,1.2 index.html,1.1,1.2 overview-frame.html,1.1,1.2 overview-summary.html,1.1,1.2 overview-tree.html,1.1,1.2 package-frame.html,1.1,1.2 package-list,1.1,1.2 packages.html,1.1,1.2 serialized-form.html,1.1,1.2 ClientUtils.html,1.1,NONE MobyCentral.html,1.1,NONE MobyCentralDeser.html,1.1,NONE MobyCentralDeserFactory.html,1.1,NONE MobyCentralSer.html,1.1,NONE MobyCentralSerFactory.html,1.1,NONE TestingWSDL.html,1.1,NONE
===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/API/TestingCentral.html,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/docs/API/TestingCentral.html	2002/12/02 19:38:15	1.1
+++ /home/repository/moby/moby-live/Java/docs/API/TestingCentral.html	2003/03/02 20:48:24	1.2
@@ -2,16 +2,17 @@
 <!--NewPage-->
 <HTML>
 <HEAD>
-<!-- Generated by javadoc on Mon Dec 02 19:08:00 GMT 2002 -->
+<!-- Generated by javadoc on Sun Mar 02 18:52:09 GMT 2003 -->
 <TITLE>
-TestingCentral (MOBY Services in Java)
+TestingCentral (MOBY Registry in Java)
 </TITLE>
+<META NAME="keywords" CONTENT="TestingCentral,TestingCentral class">
 <LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">
 </HEAD>
 <SCRIPT>
 function asd()
 {
-parent.document.title="TestingCentral (MOBY Services in Java)";
+parent.document.title="TestingCentral (MOBY Registry in Java)";
 }
 </SCRIPT>
 <BODY BGCOLOR="white" onload="asd();">
@@ -35,13 +36,13 @@
 </TABLE>
 </TD>
 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>
-<font size="-1">Generated: Mon Dec  2 19:07:57 GMT 2002</font></EM>
+<font size="-1">Generated: Sun Mar  2 18:52:04 GMT 2003</font></EM>
 </TD>
 </TR>
 
 <TR>
 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">
-&nbsp;<A HREF="MobyCentralSerFactory.html"><B>PREV CLASS</B></A>&nbsp;
+&nbsp;<A HREF="MobyCmdLineClient.html"><B>PREV CLASS</B></A>&nbsp;
 &nbsp;NEXT CLASS</FONT></TD>
 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">
   <A HREF="index.html" TARGET="_top"><B>FRAMES</B></A>  &nbsp;
@@ -71,7 +72,7 @@
 <HR>
 <!-- ======== START OF CLASS DATA ======== -->
 <H2>
-Class  TestingCentral</H2>
+Class TestingCentral</H2>
 <PRE>
 java.lang.Object
   |
@@ -82,36 +83,59 @@
 <DT>public class <B>TestingCentral</B><DT>extends java.lang.Object</DL>
 
 <P>
-An example how to call Moby Central services. It uses dynamic
- invocation - which means that it does not use any WSDL. It is
- written for <a href="http://xml.apache.org/axis/" target="_top">Apache Axis</a>
+An example how to call Moby registry directly.
+ It is written using <a href="http://xml.apache.org/axis/" target="_top">Apache Axis</a>
  (tested with Axis version 1.0).
 <p>
 
- This is a testing client that calls all "pasive" services (those
- that do not change the Moby Central database) using some hard-coded
- values. Its main purpose is to show how to do it, especially how to
- deal with deserialization/serialization of the Moby Central object.
-<P>
+ This is a testing client that calls as many Moby method as possible
+ in order to test whether they return an error or not. Many pieces are
+ there hard-coded - so there is no much sense to use it for anything
+ else than just testing.
+<p>
 
  The command-line arguments for this client are:
  <pre>
     -e &lt;endpoint&gt;
     -u &lt;uri&gt;
  </pre>
- where <em>endpoint</em> is a URL of a Moby Central service (default
- value is <tt>http://mobycentral.cbr.nrc.ca/cgi-bin/MOBY-Central.pl</tt>),
- and where <em>uri</em> is a namespace used by that service (default
- value is <tt>http://mobycentral.cbr.nrc.ca/MOBY/Central</tt>).
+ where <em>endpoint</em> is a URL of a Moby Central service
+ and <em>uri</em> is a namespace used by that service (some default
+ values applied if not given on the command-line).
 <p>
+
+ By default it does all tests. But you can signal not to do any tests
+ by the command-line option <tt>-na</tt>, or by one or more specific
+ command-line options:
+<pre>
+  -no   ... do not test object type
+  -nt   ... do not test service type
+  -ns   ... do not test service
+  -ms   ... do not test namespace
+  -nl   ... do not do retrieval tests
+</pre>
+ Of course, this makes sense only if you specify what tests you really
+ want to do using one or more other command-line options:
+<pre>
+  -o    ... do object test
+  -t    ... do service type test
+  -m    ... do namespace test
+  -s    ... do service test
+  -l    ... do all retrieval tests
+  -ls   ... do service names retrieval
+  -lt   ... do service types retrieval
+  -lp   ... do providers retrieval
+  -ln   ... do namespaces retrieval
+  -lo   ... do object retrieval
+</pre>
 <P>
 
 <P>
 <DL>
-<DT><B>Version:</B><DD>$Id$</DD>
-</DD>
-<DT><B>Author:</B><DD><A HREF="mailto:senger at ebi.ac.uk">Martin Senger</A></DD>
-</DD>
+<DT><B>Version:</B></DT>
+  <DD>$Id$</DD>
+<DT><B>Author:</B></DT>
+  <DD><A HREF="mailto:senger at ebi.ac.uk">Martin Senger</A></DD>
 </DL>
 <HR>
 
@@ -235,13 +259,13 @@
 </TABLE>
 </TD>
 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>
-<font size="-1">Generated: Mon Dec  2 19:07:57 GMT 2002</font></EM>
+<font size="-1">Generated: Sun Mar  2 18:52:04 GMT 2003</font></EM>
 </TD>
 </TR>
 
 <TR>
 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">
-&nbsp;<A HREF="MobyCentralSerFactory.html"><B>PREV CLASS</B></A>&nbsp;
+&nbsp;<A HREF="MobyCmdLineClient.html"><B>PREV CLASS</B></A>&nbsp;
 &nbsp;NEXT CLASS</FONT></TD>
 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">
   <A HREF="index.html" TARGET="_top"><B>FRAMES</B></A>  &nbsp;
@@ -269,6 +293,6 @@
 <!-- =========== END OF NAVBAR =========== -->
 
 <HR>
-<font size="-1"><a href="mailto:Mark Wilkinson <mwilkinson at gene.pbi.nrc.ca>,senger at ebi.ac.uk">Submit a bug or feature</a><BR>Generated: Mon Dec  2 19:07:57 GMT 2002</font>
+<font size="-1"><a href="mailto:mwilkinson at gene.pbi.nrc.ca,senger at ebi.ac.uk">Submit a bug or feature</a><BR>Generated: Sun Mar  2 18:52:04 GMT 2003</font>
 </BODY>
 </HTML>

===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/API/allclasses-frame.html,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/docs/API/allclasses-frame.html	2002/12/02 19:38:15	1.1
+++ /home/repository/moby/moby-live/Java/docs/API/allclasses-frame.html	2003/03/02 20:48:24	1.2
@@ -2,16 +2,16 @@
 <!--NewPage-->
 <HTML>
 <HEAD>
-<!-- Generated by javadoc on Mon Dec 02 19:07:59 GMT 2002 -->
+<!-- Generated by javadoc on Sun Mar 02 18:52:09 GMT 2003 -->
 <TITLE>
-All Classes
+All Classes (MOBY Registry in Java)
 </TITLE>
 <LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">
 </HEAD>
 <SCRIPT>
 function asd()
 {
-parent.document.title="All Classes";
+parent.document.title="All Classes (MOBY Registry in Java)";
 }
 </SCRIPT>
 <BODY BGCOLOR="white" onload="asd();">
@@ -21,22 +21,28 @@
 
 <TABLE BORDER="0" WIDTH="100%">
 <TR>
-<TD NOWRAP><FONT CLASS="FrameItemFont"><A HREF="org/biomoby/registry/Central.html" TARGET="classFrame"><I>Central</I></A>
+<TD NOWRAP><FONT CLASS="FrameItemFont"><A HREF="org/biomoby/shared/Central.html" TARGET="classFrame"><I>Central</I></A>
 <BR>
-<A HREF="ClientUtils.html" TARGET="classFrame">ClientUtils</A>
+<A HREF="org/biomoby/client/CentralImpl.html" TARGET="classFrame">CentralImpl</A>
 <BR>
-<A HREF="org/biomoby/registry/MobyCentral.html" TARGET="classFrame">MobyCentral</A>
+<A HREF="MobyCmdLineClient.html" TARGET="classFrame">MobyCmdLineClient</A>
 <BR>
-<A HREF="MobyCentralDeser.html" TARGET="classFrame">MobyCentralDeser</A>
+<A HREF="org/biomoby/shared/MobyDataType.html" TARGET="classFrame">MobyDataType</A>
 <BR>
-<A HREF="MobyCentralDeserFactory.html" TARGET="classFrame">MobyCentralDeserFactory</A>
+<A HREF="org/biomoby/shared/MobyException.html" TARGET="classFrame">MobyException</A>
 <BR>
-<A HREF="MobyCentralSer.html" TARGET="classFrame">MobyCentralSer</A>
+<A HREF="org/biomoby/shared/MobyNamespace.html" TARGET="classFrame">MobyNamespace</A>
 <BR>
-<A HREF="MobyCentralSerFactory.html" TARGET="classFrame">MobyCentralSerFactory</A>
+<A HREF="org/biomoby/shared/MobyService.html" TARGET="classFrame">MobyService</A>
+<BR>
+<A HREF="org/biomoby/shared/MobyServiceType.html" TARGET="classFrame">MobyServiceType</A>
+<BR>
+<A HREF="org/biomoby/shared/NoSuccessException.html" TARGET="classFrame">NoSuccessException</A>
 <BR>
 <A HREF="TestingCentral.html" TARGET="classFrame">TestingCentral</A>
 <BR>
+<A HREF="org/biomoby/shared/Utils.html" TARGET="classFrame">Utils</A>
+<BR>
 </FONT></TD>
 </TR>
 </TABLE>

===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/API/allclasses-noframe.html,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/docs/API/allclasses-noframe.html	2002/12/02 19:38:15	1.1
+++ /home/repository/moby/moby-live/Java/docs/API/allclasses-noframe.html	2003/03/02 20:48:24	1.2
@@ -2,16 +2,16 @@
 <!--NewPage-->
 <HTML>
 <HEAD>
-<!-- Generated by javadoc on Mon Dec 02 19:07:59 GMT 2002 -->
+<!-- Generated by javadoc on Sun Mar 02 18:52:09 GMT 2003 -->
 <TITLE>
-All Classes
+All Classes (MOBY Registry in Java)
 </TITLE>
 <LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">
 </HEAD>
 <SCRIPT>
 function asd()
 {
-parent.document.title="All Classes";
+parent.document.title="All Classes (MOBY Registry in Java)";
 }
 </SCRIPT>
 <BODY BGCOLOR="white" onload="asd();">
@@ -21,22 +21,28 @@
 
 <TABLE BORDER="0" WIDTH="100%">
 <TR>
-<TD NOWRAP><FONT CLASS="FrameItemFont"><A HREF="org/biomoby/registry/Central.html" TARGET=""><I>Central</I></A>
+<TD NOWRAP><FONT CLASS="FrameItemFont"><A HREF="org/biomoby/shared/Central.html" TARGET=""><I>Central</I></A>
 <BR>
-<A HREF="ClientUtils.html" TARGET="">ClientUtils</A>
+<A HREF="org/biomoby/client/CentralImpl.html" TARGET="">CentralImpl</A>
 <BR>
-<A HREF="org/biomoby/registry/MobyCentral.html" TARGET="">MobyCentral</A>
+<A HREF="MobyCmdLineClient.html" TARGET="">MobyCmdLineClient</A>
 <BR>
-<A HREF="MobyCentralDeser.html" TARGET="">MobyCentralDeser</A>
+<A HREF="org/biomoby/shared/MobyDataType.html" TARGET="">MobyDataType</A>
 <BR>
-<A HREF="MobyCentralDeserFactory.html" TARGET="">MobyCentralDeserFactory</A>
+<A HREF="org/biomoby/shared/MobyException.html" TARGET="">MobyException</A>
 <BR>
-<A HREF="MobyCentralSer.html" TARGET="">MobyCentralSer</A>
+<A HREF="org/biomoby/shared/MobyNamespace.html" TARGET="">MobyNamespace</A>
 <BR>
-<A HREF="MobyCentralSerFactory.html" TARGET="">MobyCentralSerFactory</A>
+<A HREF="org/biomoby/shared/MobyService.html" TARGET="">MobyService</A>
+<BR>
+<A HREF="org/biomoby/shared/MobyServiceType.html" TARGET="">MobyServiceType</A>
+<BR>
+<A HREF="org/biomoby/shared/NoSuccessException.html" TARGET="">NoSuccessException</A>
 <BR>
 <A HREF="TestingCentral.html" TARGET="">TestingCentral</A>
 <BR>
+<A HREF="org/biomoby/shared/Utils.html" TARGET="">Utils</A>
+<BR>
 </FONT></TD>
 </TR>
 </TABLE>

===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/API/constant-values.html,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/docs/API/constant-values.html	2002/12/02 19:38:15	1.1
+++ /home/repository/moby/moby-live/Java/docs/API/constant-values.html	2003/03/02 20:48:24	1.2
@@ -2,16 +2,16 @@
 <!--NewPage-->
 <HTML>
 <HEAD>
-<!-- Generated by javadoc on Mon Dec 02 19:07:59 GMT 2002 -->
+<!-- Generated by javadoc on Sun Mar 02 18:52:08 GMT 2003 -->
 <TITLE>
-Constant Field Values
+Constant Field Values (MOBY Registry in Java)
 </TITLE>
 <LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">
 </HEAD>
 <SCRIPT>
 function asd()
 {
-parent.document.title="Constant Field Values";
+parent.document.title="Constant Field Values (MOBY Registry in Java)";
 }
 </SCRIPT>
 <BODY BGCOLOR="white" onload="asd();">
@@ -34,7 +34,7 @@
 </TABLE>
 </TD>
 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>
-<font size="-1">Generated: Mon Dec  2 19:07:57 GMT 2002</font></EM>
+<font size="-1">Generated: Sun Mar  2 18:52:04 GMT 2003</font></EM>
 </TD>
 </TR>
 
@@ -68,8 +68,66 @@
 </CENTER>
 <HR SIZE="4" NOSHADE>
 <B>Contents</B><UL>
+<LI><A HREF="#org.biomoby">org.biomoby.*</A>
 </UL>
 
+<A NAME="org.biomoby"><!-- --></A>
+<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" WIDTH="100%">
+<TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
+<TD ALIGN="left"><FONT SIZE="+2">
+<B>org.biomoby.*</B></FONT></TD>
+</TR>
+</TABLE>
+
+<P>
+
+<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0">
+<TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">
+<TD COLSPAN=3><B>org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A></B></TD>
+</TR>
+<TR BGCOLOR="white" CLASS="TableRowColor">
+<A NAME="org.biomoby.client.CentralImpl.DEFAULT_ENDPOINT"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">
+<CODE>public&nbsp;static&nbsp;final&nbsp;java.lang.String</CODE></FONT></TD>
+<TD ALIGN="left"><CODE><A HREF="org/biomoby/client/CentralImpl.html#DEFAULT_ENDPOINT">DEFAULT_ENDPOINT</A></CODE></TD>
+<TD ALIGN="right"><CODE>"http://mobycentral.cbr.nrc.ca/cgi-bin/MOBY-Central.pl"</CODE></TD>
+</TR>
+<TR BGCOLOR="white" CLASS="TableRowColor">
+<A NAME="org.biomoby.client.CentralImpl.DEFAULT_NAMESPACE"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">
+<CODE>public&nbsp;static&nbsp;final&nbsp;java.lang.String</CODE></FONT></TD>
+<TD ALIGN="left"><CODE><A HREF="org/biomoby/client/CentralImpl.html#DEFAULT_NAMESPACE">DEFAULT_NAMESPACE</A></CODE></TD>
+<TD ALIGN="right"><CODE>"http://mobycentral.cbr.nrc.ca/MOBY/Central"</CODE></TD>
+</TR>
+</FONT></TD>
+</TR>
+</TABLE>
+
+<P>
+
+<P>
+
+<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0">
+<TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">
+<TD COLSPAN=3><B>org.biomoby.shared.<A HREF="org/biomoby/shared/Utils.html">Utils</A></B></TD>
+</TR>
+<TR BGCOLOR="white" CLASS="TableRowColor">
+<A NAME="org.biomoby.shared.Utils.DEFAULT_PARSER_WRAPPER"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">
+<CODE>public&nbsp;static&nbsp;final&nbsp;java.lang.String</CODE></FONT></TD>
+<TD ALIGN="left"><CODE><A HREF="org/biomoby/shared/Utils.html#DEFAULT_PARSER_WRAPPER">DEFAULT_PARSER_WRAPPER</A></CODE></TD>
+<TD ALIGN="right"><CODE>"org.biomoby.shared.dom.wrappers.Xerces"</CODE></TD>
+</TR>
+<TR BGCOLOR="white" CLASS="TableRowColor">
+<A NAME="org.biomoby.shared.Utils.PROP_PARSER_WRAPPER"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">
+<CODE>public&nbsp;static&nbsp;final&nbsp;java.lang.String</CODE></FONT></TD>
+<TD ALIGN="left"><CODE><A HREF="org/biomoby/shared/Utils.html#PROP_PARSER_WRAPPER">PROP_PARSER_WRAPPER</A></CODE></TD>
+<TD ALIGN="right"><CODE>"dom.parser"</CODE></TD>
+</TR>
+</FONT></TD>
+</TR>
+</TABLE>
+
+<P>
+
+<P>
 <HR>
 
 <!-- ========== START OF NAVBAR ========== -->
@@ -90,7 +148,7 @@
 </TABLE>
 </TD>
 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>
-<font size="-1">Generated: Mon Dec  2 19:07:57 GMT 2002</font></EM>
+<font size="-1">Generated: Sun Mar  2 18:52:04 GMT 2003</font></EM>
 </TD>
 </TR>
 
@@ -118,6 +176,6 @@
 <!-- =========== END OF NAVBAR =========== -->
 
 <HR>
-<font size="-1"><a href="mailto:Mark Wilkinson <mwilkinson at gene.pbi.nrc.ca>,senger at ebi.ac.uk">Submit a bug or feature</a><BR>Generated: Mon Dec  2 19:07:57 GMT 2002</font>
+<font size="-1"><a href="mailto:mwilkinson at gene.pbi.nrc.ca,senger at ebi.ac.uk">Submit a bug or feature</a><BR>Generated: Sun Mar  2 18:52:04 GMT 2003</font>
 </BODY>
 </HTML>

===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/API/help-doc.html,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/docs/API/help-doc.html	2002/12/02 19:38:15	1.1
+++ /home/repository/moby/moby-live/Java/docs/API/help-doc.html	2003/03/02 20:48:24	1.2
@@ -2,16 +2,16 @@
 <!--NewPage-->
 <HTML>
 <HEAD>
-<!-- Generated by javadoc on Mon Dec 02 19:08:00 GMT 2002 -->
+<!-- Generated by javadoc on Sun Mar 02 18:52:10 GMT 2003 -->
 <TITLE>
-API Help (MOBY Services in Java)
+API Help (MOBY Registry in Java)
 </TITLE>
 <LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">
 </HEAD>
 <SCRIPT>
 function asd()
 {
-parent.document.title="API Help (MOBY Services in Java)";
+parent.document.title="API Help (MOBY Registry in Java)";
 }
 </SCRIPT>
 <BODY BGCOLOR="white" onload="asd();">
@@ -34,7 +34,7 @@
 </TABLE>
 </TD>
 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>
-<font size="-1">Generated: Mon Dec  2 19:07:57 GMT 2002</font></EM>
+<font size="-1">Generated: Sun Mar  2 18:52:04 GMT 2003</font></EM>
 </TD>
 </TR>
 
@@ -137,7 +137,7 @@
 </TABLE>
 </TD>
 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>
-<font size="-1">Generated: Mon Dec  2 19:07:57 GMT 2002</font></EM>
+<font size="-1">Generated: Sun Mar  2 18:52:04 GMT 2003</font></EM>
 </TD>
 </TR>
 
@@ -165,6 +165,6 @@
 <!-- =========== END OF NAVBAR =========== -->
 
 <HR>
-<font size="-1"><a href="mailto:Mark Wilkinson <mwilkinson at gene.pbi.nrc.ca>,senger at ebi.ac.uk">Submit a bug or feature</a><BR>Generated: Mon Dec  2 19:07:57 GMT 2002</font>
+<font size="-1"><a href="mailto:mwilkinson at gene.pbi.nrc.ca,senger at ebi.ac.uk">Submit a bug or feature</a><BR>Generated: Sun Mar  2 18:52:04 GMT 2003</font>
 </BODY>
 </HTML>

===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/API/index-all.html,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/docs/API/index-all.html	2002/12/02 19:38:15	1.1
+++ /home/repository/moby/moby-live/Java/docs/API/index-all.html	2003/03/02 20:48:24	1.2
@@ -2,16 +2,16 @@
 <!--NewPage-->
 <HTML>
 <HEAD>
-<!-- Generated by javadoc on Mon Dec 02 19:07:59 GMT 2002 -->
+<!-- Generated by javadoc on Sun Mar 02 18:52:08 GMT 2003 -->
 <TITLE>
-Index (MOBY Services in Java)
+Index (MOBY Registry in Java)
 </TITLE>
 <LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">
 </HEAD>
 <SCRIPT>
 function asd()
 {
-parent.document.title="Index (MOBY Services in Java)";
+parent.document.title="Index (MOBY Registry in Java)";
 }
 </SCRIPT>
 <BODY BGCOLOR="white" onload="asd();">
@@ -34,7 +34,7 @@
 </TABLE>
 </TD>
 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>
-<font size="-1">Generated: Mon Dec  2 19:07:57 GMT 2002</font></EM>
+<font size="-1">Generated: Sun Mar  2 18:52:04 GMT 2003</font></EM>
 </TD>
 </TR>
 
@@ -61,65 +61,240 @@
 </TABLE>
 <!-- =========== END OF NAVBAR =========== -->
 
-<A HREF="#_C_">C</A> <A HREF="#_F_">F</A> <A HREF="#_G_">G</A> <A HREF="#_L_">L</A> <A HREF="#_M_">M</A> <A HREF="#_O_">O</A> <A HREF="#_R_">R</A> <A HREF="#_S_">S</A> <A HREF="#_T_">T</A> <A HREF="#_W_">W</A> <HR>
+<A HREF="#_A_">A</A> <A HREF="#_C_">C</A> <A HREF="#_D_">D</A> <A HREF="#_E_">E</A> <A HREF="#_F_">F</A> <A HREF="#_G_">G</A> <A HREF="#_M_">M</A> <A HREF="#_N_">N</A> <A HREF="#_O_">O</A> <A HREF="#_P_">P</A> <A HREF="#_R_">R</A> <A HREF="#_S_">S</A> <A HREF="#_T_">T</A> <A HREF="#_U_">U</A> <HR>
+<A NAME="_A_"><!-- --></A><H2>
+<B>A</B></H2>
+<DL>
+<DT><A HREF="org/biomoby/shared/MobyService.html#addInput(java.lang.String, java.lang.String)"><B>addInput(String, String)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyService.html#addOutputType(java.lang.String)"><B>addOutputType(String)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyServiceType.html#addParentName(java.lang.String)"><B>addParentName(String)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyServiceType.html">MobyServiceType</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyDataType.html#addParentName(java.lang.String)"><B>addParentName(String)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyDataType.html">MobyDataType</A>
+<DD>&nbsp;
+</DL>
+<HR>
 <A NAME="_C_"><!-- --></A><H2>
 <B>C</B></H2>
 <DL>
-<DT><A HREF="org/biomoby/registry/Central.html"><B>Central</B></A> - interface org.biomoby.registry.<A HREF="org/biomoby/registry/Central.html">Central</A>.<DD>An interface to the Moby Registry service.<DT><A HREF="ClientUtils.html"><B>ClientUtils</B></A> - class <A HREF="ClientUtils.html">ClientUtils</A>.<DD>This is a set of several utility methods which may be useful for
- writting client code.<DT><A HREF="ClientUtils.html#ClientUtils()"><B>ClientUtils()</B></A> - 
-Constructor for class <A HREF="ClientUtils.html">ClientUtils</A>
-<DD>&nbsp;
-<DT><A HREF="org/biomoby/registry/Central.html#create(java.util.Map)"><B>create(Map)</B></A> - 
-Method in interface org.biomoby.registry.<A HREF="org/biomoby/registry/Central.html">Central</A>
-<DD>It connects to a Moby Central Registry.
+<DT><A HREF="org/biomoby/shared/Central.html#call(java.lang.String, java.lang.String)"><B>call(String, String)</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Call Moby registry's method with given XML as input and return whatever
+ you get back.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#call(java.lang.String, java.lang.String)"><B>call(String, String)</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/Central.html"><B>Central</B></A> - interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>.<DD>An interface to the Moby Registry.<DT><A HREF="org/biomoby/client/CentralImpl.html"><B>CentralImpl</B></A> - class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>.<DD>A default implementation of the
+ interface <A HREF="org/biomoby/shared/Central.html"><CODE>Central</CODE></A>
+ allowing access to a Moby registry.<DT><A HREF="org/biomoby/client/CentralImpl.html#CentralImpl()"><B>CentralImpl()</B></A> - 
+Constructor for class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>Default constructor.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#CentralImpl(java.lang.String)"><B>CentralImpl(String)</B></A> - 
+Constructor for class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>Constructor allowing to specify which Moby Registry to use.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#CentralImpl(java.lang.String, java.lang.String)"><B>CentralImpl(String, String)</B></A> - 
+Constructor for class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>Constructor allowing to specify which Moby Registry and what
+ namespace to use.
+</DL>
+<HR>
+<A NAME="_D_"><!-- --></A><H2>
+<B>D</B></H2>
+<DL>
+<DT><A HREF="org/biomoby/client/CentralImpl.html#DEFAULT_ENDPOINT"><B>DEFAULT_ENDPOINT</B></A> - 
+Static variable in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>Default location (endpoint) of a Moby registry.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#DEFAULT_NAMESPACE"><B>DEFAULT_NAMESPACE</B></A> - 
+Static variable in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>Default namespace used by the contacted Moby registry.
+<DT><A HREF="org/biomoby/shared/Utils.html#DEFAULT_PARSER_WRAPPER"><B>DEFAULT_PARSER_WRAPPER</B></A> - 
+Static variable in class org.biomoby.shared.<A HREF="org/biomoby/shared/Utils.html">Utils</A>
+<DD>Default parser wrapper.
+</DL>
+<HR>
+<A NAME="_E_"><!-- --></A><H2>
+<B>E</B></H2>
+<DL>
+<DT><A HREF="org/biomoby/shared/MobyService.html#equals(org.biomoby.shared.MobyService)"><B>equals(MobyService)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
 </DL>
 <HR>
 <A NAME="_F_"><!-- --></A><H2>
 <B>F</B></H2>
 <DL>
-<DT><A HREF="ClientUtils.html#formatFault(AxisFault, java.io.PrintStream)"><B>formatFault(AxisFault, PrintStream)</B></A> - 
-Static method in class <A HREF="ClientUtils.html">ClientUtils</A>
-<DD>Format an exception 'e' and send it into the stream 'out'.
-<DT><A HREF="ClientUtils.html#formatFault(AxisFault, java.io.PrintStream, java.lang.String, QName)"><B>formatFault(AxisFault, PrintStream, String, QName)</B></A> - 
-Static method in class <A HREF="ClientUtils.html">ClientUtils</A>
-<DD>Format an exception 'e', send it into the stream 'out' and print
- also few additional details taken from 'endpoint' (where is the
- called service) and 'method' (what method caused this exception).
+<DT><A HREF="org/biomoby/shared/Central.html#findService(org.biomoby.shared.MobyService)"><B>findService(MobyService)</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Find services by their input and/or output data types.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#findService(org.biomoby.shared.MobyService)"><B>findService(MobyService)</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/Central.html#findService(java.lang.String)"><B>findService(String)</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Find services of the given type and its sub-types.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#findService(java.lang.String)"><B>findService(String)</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/Central.html#findService(java.lang.String[])"><B>findService(String[])</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Find services by given keywords.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#findService(java.lang.String[])"><B>findService(String[])</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/Utils.html#formatFault(org.apache.axis.AxisFault)"><B>formatFault(AxisFault)</B></A> - 
+Static method in class org.biomoby.shared.<A HREF="org/biomoby/shared/Utils.html">Utils</A>
+<DD>Format an exception 'e' and return it back.
+<DT><A HREF="org/biomoby/shared/Utils.html#formatFault(org.apache.axis.AxisFault, java.lang.String, javax.xml.namespace.QName)"><B>formatFault(AxisFault, String, QName)</B></A> - 
+Static method in class org.biomoby.shared.<A HREF="org/biomoby/shared/Utils.html">Utils</A>
+<DD>Return a nicely formatted exception 'e' with few additional details
+ taken from 'endpoint' (where is the called service) and 'method'
+ (what method caused this exception).
 </DL>
 <HR>
 <A NAME="_G_"><!-- --></A><H2>
 <B>G</B></H2>
 <DL>
-<DT><A HREF="MobyCentralDeserFactory.html#getDeserializerAs(java.lang.String)"><B>getDeserializerAs(String)</B></A> - 
-Method in class <A HREF="MobyCentralDeserFactory.html">MobyCentralDeserFactory</A>
+<DT><A HREF="org/biomoby/shared/MobyService.html#getAuthority()"><B>getAuthority()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
 <DD>&nbsp;
-<DT><A HREF="MobyCentralSer.html#getMechanismType()"><B>getMechanismType()</B></A> - 
-Method in class <A HREF="MobyCentralSer.html">MobyCentralSer</A>
+<DT><A HREF="org/biomoby/shared/MobyNamespace.html#getAuthority()"><B>getAuthority()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyNamespace.html">MobyNamespace</A>
 <DD>&nbsp;
-<DT><A HREF="MobyCentralSerFactory.html#getSerializerAs(java.lang.String)"><B>getSerializerAs(String)</B></A> - 
-Method in class <A HREF="MobyCentralSerFactory.html">MobyCentralSerFactory</A>
+<DT><A HREF="org/biomoby/shared/MobyDataType.html#getAuthority()"><B>getAuthority()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyDataType.html">MobyDataType</A>
 <DD>&nbsp;
-<DT><A HREF="MobyCentralDeserFactory.html#getSupportedMechanismTypes()"><B>getSupportedMechanismTypes()</B></A> - 
-Method in class <A HREF="MobyCentralDeserFactory.html">MobyCentralDeserFactory</A>
+<DT><A HREF="org/biomoby/shared/MobyService.html#getCategory()"><B>getCategory()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
 <DD>&nbsp;
-<DT><A HREF="MobyCentralSerFactory.html#getSupportedMechanismTypes()"><B>getSupportedMechanismTypes()</B></A> - 
-Method in class <A HREF="MobyCentralSerFactory.html">MobyCentralSerFactory</A>
+<DT><A HREF="org/biomoby/shared/NoSuccessException.html#getCulprit()"><B>getCulprit()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/NoSuccessException.html">NoSuccessException</A>
+<DD>Retrieve the culprit.
+<DT><A HREF="org/biomoby/shared/Central.html#getDataType(java.lang.String)"><B>getDataType(String)</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Get XML Schema definition of the given data type.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#getDataType(java.lang.String)"><B>getDataType(String)</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/Central.html#getDataTypeNames()"><B>getDataTypeNames()</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Get the list of all registered data types.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#getDataTypeNames()"><B>getDataTypeNames()</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyServiceType.html#getDescription()"><B>getDescription()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyServiceType.html">MobyServiceType</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyService.html#getDescription()"><B>getDescription()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyNamespace.html#getDescription()"><B>getDescription()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyNamespace.html">MobyNamespace</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyDataType.html#getDescription()"><B>getDescription()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyDataType.html">MobyDataType</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/Utils.html#getDOMParser()"><B>getDOMParser()</B></A> - 
+Static method in class org.biomoby.shared.<A HREF="org/biomoby/shared/Utils.html">Utils</A>
+<DD>Find and return an instance of a DOM parser wrapper.
+<DT><A HREF="org/biomoby/shared/Utils.html#getDOMParser(java.lang.String)"><B>getDOMParser(String)</B></A> - 
+Static method in class org.biomoby.shared.<A HREF="org/biomoby/shared/Utils.html">Utils</A>
+<DD>Find and return an instance of a DOM parser wrapper.
+<DT><A HREF="org/biomoby/shared/MobyServiceType.html#getId()"><B>getId()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyServiceType.html">MobyServiceType</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyService.html#getId()"><B>getId()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyNamespace.html#getId()"><B>getId()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyNamespace.html">MobyNamespace</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyDataType.html#getId()"><B>getId()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyDataType.html">MobyDataType</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyService.html#getInputNamespaces()"><B>getInputNamespaces()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyService.html#getInputTypes()"><B>getInputTypes()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyServiceType.html#getName()"><B>getName()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyServiceType.html">MobyServiceType</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyService.html#getName()"><B>getName()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyNamespace.html#getName()"><B>getName()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyNamespace.html">MobyNamespace</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyDataType.html#getName()"><B>getName()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyDataType.html">MobyDataType</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/Central.html#getNamespaces()"><B>getNamespaces()</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Get the list of all registered namespaces.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#getNamespaces()"><B>getNamespaces()</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyException.html#getOriginalException()"><B>getOriginalException()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyException.html">MobyException</A>
+<DD>Retrieve the original exception.
+<DT><A HREF="org/biomoby/shared/MobyService.html#getOutputTypes()"><B>getOutputTypes()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyServiceType.html#getParentNames()"><B>getParentNames()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyServiceType.html">MobyServiceType</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyDataType.html#getParentNames()"><B>getParentNames()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyDataType.html">MobyDataType</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/Central.html#getProviders()"><B>getProviders()</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Get the list of all providers (each provider is represented by an
+ authority's URI.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#getProviders()"><B>getProviders()</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/Central.html#getServiceNames()"><B>getServiceNames()</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Get a (redundant) list of all registered service names.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#getServiceNames()"><B>getServiceNames()</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/Central.html#getServiceTypes()"><B>getServiceTypes()</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Get the list of all registered service types.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#getServiceTypes()"><B>getServiceTypes()</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/Central.html#getServiceWSDL(java.lang.String)"><B>getServiceWSDL(String)</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Get WSDL defining a service given by its name.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#getServiceWSDL(java.lang.String)"><B>getServiceWSDL(String)</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/Central.html#getServiceWSDL(java.lang.String, java.lang.String)"><B>getServiceWSDL(String, String)</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Get WSDL defining a service given by its name and its authority.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#getServiceWSDL(java.lang.String, java.lang.String)"><B>getServiceWSDL(String, String)</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyService.html#getType()"><B>getType()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyService.html#getURL()"><B>getURL()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
+<DT><A HREF="MobyCmdLineClient.html#getUsage()"><B>getUsage()</B></A> - 
+Static method in class <A HREF="MobyCmdLineClient.html">MobyCmdLineClient</A>
+<DD>Return a help text how to use this client.
+<DT><A HREF="org/biomoby/shared/MobyDataType.html#getXSD()"><B>getXSD()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyDataType.html">MobyDataType</A>
 <DD>&nbsp;
-</DL>
-<HR>
-<A NAME="_L_"><!-- --></A><H2>
-<B>L</B></H2>
-<DL>
-<DT><A HREF="org/biomoby/registry/Central.html#locateServiceByInput(org.biomoby.registry.MobyCentral, java.lang.String[], java.lang.String[], java.lang.String, java.lang.String, int, int, int)"><B>locateServiceByInput(MobyCentral, String[], String[], String, String, int, int, int)</B></A> - 
-Method in interface org.biomoby.registry.<A HREF="org/biomoby/registry/Central.html">Central</A>
-<DD>Get the names/descriptions for services that use certain INPUT's.
-<DT><A HREF="org/biomoby/registry/Central.html#locateServiceByoutput(org.biomoby.registry.MobyCentral, java.lang.String, java.lang.String[], java.lang.String, java.lang.String, int, int, int)"><B>locateServiceByoutput(MobyCentral, String, String[], String, String, int, int, int)</B></A> - 
-Method in interface org.biomoby.registry.<A HREF="org/biomoby/registry/Central.html">Central</A>
-<DD>Get the names/descriptions for services that use certain OUTPUT.
-<DT><A HREF="org/biomoby/registry/Central.html#locateServiceByType(org.biomoby.registry.MobyCentral, java.lang.String, int, int)"><B>locateServiceByType(MobyCentral, String, int, int)</B></A> - 
-Method in interface org.biomoby.registry.<A HREF="org/biomoby/registry/Central.html">Central</A>
-<DD>Get the service names/descriptions for a particular type of
- Service (and child-types).
 </DL>
 <HR>
 <A NAME="_M_"><!-- --></A><H2>
@@ -128,85 +303,212 @@
 <DT><A HREF="TestingCentral.html#main(java.lang.String[])"><B>main(String[])</B></A> - 
 Static method in class <A HREF="TestingCentral.html">TestingCentral</A>
 <DD>Entry point...
-<DT><A HREF="org/biomoby/registry/MobyCentral.html"><B>MobyCentral</B></A> - class org.biomoby.registry.<A HREF="org/biomoby/registry/MobyCentral.html">MobyCentral</A>.<DD>A representation of a Moby Central object, as received
- from a Moby Central service.<DT><A HREF="org/biomoby/registry/MobyCentral.html#MobyCentral()"><B>MobyCentral()</B></A> - 
-Constructor for class org.biomoby.registry.<A HREF="org/biomoby/registry/MobyCentral.html">MobyCentral</A>
-<DD>&nbsp;
-<DT><A HREF="MobyCentralDeser.html"><B>MobyCentralDeser</B></A> - class <A HREF="MobyCentralDeser.html">MobyCentralDeser</A>.<DD>A deserializer for a Moby Central object (an event handler).<DT><A HREF="MobyCentralDeser.html#MobyCentralDeser()"><B>MobyCentralDeser()</B></A> - 
-Constructor for class <A HREF="MobyCentralDeser.html">MobyCentralDeser</A>
-<DD>&nbsp;
-<DT><A HREF="MobyCentralDeserFactory.html"><B>MobyCentralDeserFactory</B></A> - class <A HREF="MobyCentralDeserFactory.html">MobyCentralDeserFactory</A>.<DD>DeserializerFactory for MobyCentralDeser.<DT><A HREF="MobyCentralDeserFactory.html#MobyCentralDeserFactory()"><B>MobyCentralDeserFactory()</B></A> - 
-Constructor for class <A HREF="MobyCentralDeserFactory.html">MobyCentralDeserFactory</A>
-<DD>&nbsp;
-<DT><A HREF="MobyCentralSer.html"><B>MobyCentralSer</B></A> - class <A HREF="MobyCentralSer.html">MobyCentralSer</A>.<DD>A serializer for a Moby Central object.<DT><A HREF="MobyCentralSer.html#MobyCentralSer()"><B>MobyCentralSer()</B></A> - 
-Constructor for class <A HREF="MobyCentralSer.html">MobyCentralSer</A>
-<DD>&nbsp;
-<DT><A HREF="MobyCentralSerFactory.html"><B>MobyCentralSerFactory</B></A> - class <A HREF="MobyCentralSerFactory.html">MobyCentralSerFactory</A>.<DD>SerializerFactory for MobyCentralSer.<DT><A HREF="MobyCentralSerFactory.html#MobyCentralSerFactory()"><B>MobyCentralSerFactory()</B></A> - 
-Constructor for class <A HREF="MobyCentralSerFactory.html">MobyCentralSerFactory</A>
-<DD>&nbsp;
+<DT><A HREF="MobyCmdLineClient.html#main(java.lang.String[])"><B>main(String[])</B></A> - 
+Static method in class <A HREF="MobyCmdLineClient.html">MobyCmdLineClient</A>
+<DD>Entry point...
+<DT><A HREF="MobyCmdLineClient.html"><B>MobyCmdLineClient</B></A> - class <A HREF="MobyCmdLineClient.html">MobyCmdLineClient</A>.<DD>A fully-featured command-line client allowing to access a Moby
+ registry and invoke there most of Moby functions, such as retrieval
+ of various information on registered services, registering and
+ removing services etc.<DT><A HREF="MobyCmdLineClient.html#MobyCmdLineClient()"><B>MobyCmdLineClient()</B></A> - 
+Constructor for class <A HREF="MobyCmdLineClient.html">MobyCmdLineClient</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyDataType.html"><B>MobyDataType</B></A> - class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyDataType.html">MobyDataType</A>.<DD>A container representing a data type used in the Moby registry.<DT><A HREF="org/biomoby/shared/MobyDataType.html#MobyDataType(java.lang.String)"><B>MobyDataType(String)</B></A> - 
+Constructor for class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyDataType.html">MobyDataType</A>
+<DD>Default constructor.
+<DT><A HREF="org/biomoby/shared/MobyException.html"><B>MobyException</B></A> - exception org.biomoby.shared.<A HREF="org/biomoby/shared/MobyException.html">MobyException</A>.<DD>A general exception which can be used as a wrapper
+  around other exceptions.<DT><A HREF="org/biomoby/shared/MobyException.html#MobyException()"><B>MobyException()</B></A> - 
+Constructor for class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyException.html">MobyException</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyException.html#MobyException(java.lang.String)"><B>MobyException(String)</B></A> - 
+Constructor for class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyException.html">MobyException</A>
+<DD>A constructor specifying a reason for this exception.
+<DT><A HREF="org/biomoby/shared/MobyException.html#MobyException(java.lang.String, java.lang.Throwable)"><B>MobyException(String, Throwable)</B></A> - 
+Constructor for class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyException.html">MobyException</A>
+<DD>A constructor used for storing another exception in MobyException.
+<DT><A HREF="org/biomoby/shared/MobyNamespace.html"><B>MobyNamespace</B></A> - class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyNamespace.html">MobyNamespace</A>.<DD>A container representing a namespace used in the Moby registry.<DT><A HREF="org/biomoby/shared/MobyNamespace.html#MobyNamespace(java.lang.String)"><B>MobyNamespace(String)</B></A> - 
+Constructor for class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyNamespace.html">MobyNamespace</A>
+<DD>Default constructor.
+<DT><A HREF="org/biomoby/shared/MobyService.html"><B>MobyService</B></A> - class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>.<DD>A container representing a service.<DT><A HREF="org/biomoby/shared/MobyService.html#MobyService(java.lang.String)"><B>MobyService(String)</B></A> - 
+Constructor for class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>Default constructor.
+<DT><A HREF="org/biomoby/shared/MobyServiceType.html"><B>MobyServiceType</B></A> - class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyServiceType.html">MobyServiceType</A>.<DD>A container representing a service type used in the Moby registry.<DT><A HREF="org/biomoby/shared/MobyServiceType.html#MobyServiceType(java.lang.String)"><B>MobyServiceType(String)</B></A> - 
+Constructor for class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyServiceType.html">MobyServiceType</A>
+<DD>Default constructor.
+</DL>
+<HR>
+<A NAME="_N_"><!-- --></A><H2>
+<B>N</B></H2>
+<DL>
+<DT><A HREF="org/biomoby/shared/NoSuccessException.html"><B>NoSuccessException</B></A> - exception org.biomoby.shared.<A HREF="org/biomoby/shared/NoSuccessException.html">NoSuccessException</A>.<DD>A specific exception indicating that a request should not be
+ fulfilled because something was not correctly specified, or was not
+ found.<DT><A HREF="org/biomoby/shared/NoSuccessException.html#NoSuccessException()"><B>NoSuccessException()</B></A> - 
+Constructor for class org.biomoby.shared.<A HREF="org/biomoby/shared/NoSuccessException.html">NoSuccessException</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/NoSuccessException.html#NoSuccessException(java.lang.String, java.lang.Object)"><B>NoSuccessException(String, Object)</B></A> - 
+Constructor for class org.biomoby.shared.<A HREF="org/biomoby/shared/NoSuccessException.html">NoSuccessException</A>
+<DD>A constructor specifying a reason and the potential culprit for
+ this exception.
 </DL>
 <HR>
 <A NAME="_O_"><!-- --></A><H2>
 <B>O</B></H2>
 <DL>
-<DT><A HREF="MobyCentralDeser.html#onStartChild(java.lang.String, java.lang.String, java.lang.String, org.xml.sax.Attributes, DeserializationContext)"><B>onStartChild(String, String, String, Attributes, DeserializationContext)</B></A> - 
-Method in class <A HREF="MobyCentralDeser.html">MobyCentralDeser</A>
-<DD>This method is invoked when an element start tag is encountered.
-<DT><A HREF="org/biomoby/registry/package-summary.html"><B>org.biomoby.registry</B></A> - package org.biomoby.registry<DD>&nbsp;</DL>
+<DT><A HREF="org/biomoby/client/package-summary.html"><B>org.biomoby.client</B></A> - package org.biomoby.client<DD>The components used for developing Moby clients.<DT><A HREF="org/biomoby/shared/package-summary.html"><B>org.biomoby.shared</B></A> - package org.biomoby.shared<DD>The components used by packages and classes developed for both
+Moby clients and (in the future) Moby servers.</DL>
+<HR>
+<A NAME="_P_"><!-- --></A><H2>
+<B>P</B></H2>
+<DL>
+<DT><A HREF="org/biomoby/shared/Utils.html#PROP_PARSER_WRAPPER"><B>PROP_PARSER_WRAPPER</B></A> - 
+Static variable in class org.biomoby.shared.<A HREF="org/biomoby/shared/Utils.html">Utils</A>
+<DD>Java property name ('dom.parser').
+</DL>
 <HR>
 <A NAME="_R_"><!-- --></A><H2>
 <B>R</B></H2>
 <DL>
-<DT><A HREF="org/biomoby/registry/Central.html#retrieveNamespaces(org.biomoby.registry.MobyCentral)"><B>retrieveNamespaces(MobyCentral)</B></A> - 
-Method in interface org.biomoby.registry.<A HREF="org/biomoby/registry/Central.html">Central</A>
-<DD>Get the list of all registered namespaces.
-<DT><A HREF="org/biomoby/registry/Central.html#retrieveObject(org.biomoby.registry.MobyCentral, java.lang.String)"><B>retrieveObject(MobyCentral, String)</B></A> - 
-Method in interface org.biomoby.registry.<A HREF="org/biomoby/registry/Central.html">Central</A>
-<DD>Get the object xsd.
-<DT><A HREF="org/biomoby/registry/Central.html#retrieveObjectNames(org.biomoby.registry.MobyCentral)"><B>retrieveObjectNames(MobyCentral)</B></A> - 
-Method in interface org.biomoby.registry.<A HREF="org/biomoby/registry/Central.html">Central</A>
-<DD>Get the list of all registered Object types.
-<DT><A HREF="org/biomoby/registry/Central.html#retrieveService(org.biomoby.registry.MobyCentral, java.lang.String, java.lang.String)"><B>retrieveService(MobyCentral, String, String)</B></A> - 
-Method in interface org.biomoby.registry.<A HREF="org/biomoby/registry/Central.html">Central</A>
-<DD>Get the WSDL descriptions for services with this service name.
-<DT><A HREF="org/biomoby/registry/Central.html#retrieveServiceNames(org.biomoby.registry.MobyCentral)"><B>retrieveServiceNames(MobyCentral)</B></A> - 
-Method in interface org.biomoby.registry.<A HREF="org/biomoby/registry/Central.html">Central</A>
-<DD>Get a (redundant) list of all registered service names.
-<DT><A HREF="org/biomoby/registry/Central.html#retrieveServiceProviders(org.biomoby.registry.MobyCentral)"><B>retrieveServiceProviders(MobyCentral)</B></A> - 
-Method in interface org.biomoby.registry.<A HREF="org/biomoby/registry/Central.html">Central</A>
-<DD>Get the list of all provider's AuthURI's.
-<DT><A HREF="org/biomoby/registry/Central.html#retrieveServiceTypes(org.biomoby.registry.MobyCentral)"><B>retrieveServiceTypes(MobyCentral)</B></A> - 
-Method in interface org.biomoby.registry.<A HREF="org/biomoby/registry/Central.html">Central</A>
-<DD>Get the list of all registered service types.
+<DT><A HREF="org/biomoby/shared/Central.html#registerDataType(org.biomoby.shared.MobyDataType)"><B>registerDataType(MobyDataType)</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Register new data type.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#registerDataType(org.biomoby.shared.MobyDataType)"><B>registerDataType(MobyDataType)</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/Central.html#registerNamespace(org.biomoby.shared.MobyNamespace)"><B>registerNamespace(MobyNamespace)</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Register new namespace.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#registerNamespace(org.biomoby.shared.MobyNamespace)"><B>registerNamespace(MobyNamespace)</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/Central.html#registerService(org.biomoby.shared.MobyService)"><B>registerService(MobyService)</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Register a new service.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#registerService(org.biomoby.shared.MobyService)"><B>registerService(MobyService)</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/Central.html#registerServiceType(org.biomoby.shared.MobyServiceType)"><B>registerServiceType(MobyServiceType)</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Register new service type.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#registerServiceType(org.biomoby.shared.MobyServiceType)"><B>registerServiceType(MobyServiceType)</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
 </DL>
 <HR>
 <A NAME="_S_"><!-- --></A><H2>
 <B>S</B></H2>
 <DL>
-<DT><A HREF="MobyCentralSer.html#serialize(QName, org.xml.sax.Attributes, java.lang.Object, SerializationContext)"><B>serialize(QName, Attributes, Object, SerializationContext)</B></A> - 
-Method in class <A HREF="MobyCentralSer.html">MobyCentralSer</A>
-<DD>Serialize an element named name, with the indicated attributes
- and value.
+<DT><A HREF="org/biomoby/shared/MobyService.html#setAuthority(java.lang.String)"><B>setAuthority(String)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyNamespace.html#setAuthority(java.lang.String)"><B>setAuthority(String)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyNamespace.html">MobyNamespace</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyDataType.html#setAuthority(java.lang.String)"><B>setAuthority(String)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyDataType.html">MobyDataType</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyService.html#setCategory(java.lang.String)"><B>setCategory(String)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyServiceType.html#setDescription(java.lang.String)"><B>setDescription(String)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyServiceType.html">MobyServiceType</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyService.html#setDescription(java.lang.String)"><B>setDescription(String)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyNamespace.html#setDescription(java.lang.String)"><B>setDescription(String)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyNamespace.html">MobyNamespace</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyDataType.html#setDescription(java.lang.String)"><B>setDescription(String)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyDataType.html">MobyDataType</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyServiceType.html#setId(java.lang.String)"><B>setId(String)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyServiceType.html">MobyServiceType</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyService.html#setId(java.lang.String)"><B>setId(String)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyNamespace.html#setId(java.lang.String)"><B>setId(String)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyNamespace.html">MobyNamespace</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyDataType.html#setId(java.lang.String)"><B>setId(String)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyDataType.html">MobyDataType</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyService.html#setInputs(java.lang.String[], java.lang.String[])"><B>setInputs(String[], String[])</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyService.html#setOutputTypes(java.lang.String[])"><B>setOutputTypes(String[])</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyServiceType.html#setParentNames(java.lang.String[])"><B>setParentNames(String[])</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyServiceType.html">MobyServiceType</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyDataType.html#setParentNames(java.lang.String[])"><B>setParentNames(String[])</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyDataType.html">MobyDataType</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyService.html#setType(java.lang.String)"><B>setType(String)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyService.html#setURL(java.lang.String)"><B>setURL(String)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyDataType.html#setXSD(java.lang.String)"><B>setXSD(String)</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyDataType.html">MobyDataType</A>
+<DD>&nbsp;
 </DL>
 <HR>
 <A NAME="_T_"><!-- --></A><H2>
 <B>T</B></H2>
 <DL>
-<DT><A HREF="TestingCentral.html"><B>TestingCentral</B></A> - class <A HREF="TestingCentral.html">TestingCentral</A>.<DD>An example how to call Moby Central services.<DT><A HREF="TestingCentral.html#TestingCentral(java.lang.String, java.lang.String)"><B>TestingCentral(String, String)</B></A> - 
+<DT><A HREF="TestingCentral.html"><B>TestingCentral</B></A> - class <A HREF="TestingCentral.html">TestingCentral</A>.<DD>An example how to call Moby registry directly.<DT><A HREF="TestingCentral.html#TestingCentral(java.lang.String, java.lang.String)"><B>TestingCentral(String, String)</B></A> - 
 Constructor for class <A HREF="TestingCentral.html">TestingCentral</A>
 <DD>Constructor
+<DT><A HREF="org/biomoby/shared/MobyServiceType.html#toString()"><B>toString()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyServiceType.html">MobyServiceType</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyService.html#toString()"><B>toString()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html">MobyService</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyNamespace.html#toString()"><B>toString()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyNamespace.html">MobyNamespace</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/MobyDataType.html#toString()"><B>toString()</B></A> - 
+Method in class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyDataType.html">MobyDataType</A>
+<DD>&nbsp;
 </DL>
 <HR>
-<A NAME="_W_"><!-- --></A><H2>
-<B>W</B></H2>
+<A NAME="_U_"><!-- --></A><H2>
+<B>U</B></H2>
 <DL>
-<DT><A HREF="MobyCentralSer.html#writeSchema(Types)"><B>writeSchema(Types)</B></A> - 
-Method in class <A HREF="MobyCentralSer.html">MobyCentralSer</A>
-<DD>Return XML schema for the specified type, suitable for insertion into
- the <types> element of a WSDL document.
+<DT><A HREF="org/biomoby/shared/Central.html#unregisterDataType(org.biomoby.shared.MobyDataType)"><B>unregisterDataType(MobyDataType)</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Unregister given Moby data type.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#unregisterDataType(org.biomoby.shared.MobyDataType)"><B>unregisterDataType(MobyDataType)</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/Central.html#unregisterNamespace(org.biomoby.shared.MobyNamespace)"><B>unregisterNamespace(MobyNamespace)</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Unregister given Moby namespace.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#unregisterNamespace(org.biomoby.shared.MobyNamespace)"><B>unregisterNamespace(MobyNamespace)</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/Central.html#unregisterService(org.biomoby.shared.MobyService)"><B>unregisterService(MobyService)</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Unregister given Moby service.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#unregisterService(org.biomoby.shared.MobyService)"><B>unregisterService(MobyService)</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/Central.html#unregisterServiceType(org.biomoby.shared.MobyServiceType)"><B>unregisterServiceType(MobyServiceType)</B></A> - 
+Method in interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>
+<DD>Unregister given Moby service type.
+<DT><A HREF="org/biomoby/client/CentralImpl.html#unregisterServiceType(org.biomoby.shared.MobyServiceType)"><B>unregisterServiceType(MobyServiceType)</B></A> - 
+Method in class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html">CentralImpl</A>
+<DD>&nbsp;
+<DT><A HREF="org/biomoby/shared/Utils.html"><B>Utils</B></A> - class org.biomoby.shared.<A HREF="org/biomoby/shared/Utils.html">Utils</A>.<DD>This is a set of several utility methods which may be useful for
+ writing both registry and client code.<DT><A HREF="org/biomoby/shared/Utils.html#Utils()"><B>Utils()</B></A> - 
+Constructor for class org.biomoby.shared.<A HREF="org/biomoby/shared/Utils.html">Utils</A>
+<DD>&nbsp;
 </DL>
 <HR>
-<A HREF="#_C_">C</A> <A HREF="#_F_">F</A> <A HREF="#_G_">G</A> <A HREF="#_L_">L</A> <A HREF="#_M_">M</A> <A HREF="#_O_">O</A> <A HREF="#_R_">R</A> <A HREF="#_S_">S</A> <A HREF="#_T_">T</A> <A HREF="#_W_">W</A> 
+<A HREF="#_A_">A</A> <A HREF="#_C_">C</A> <A HREF="#_D_">D</A> <A HREF="#_E_">E</A> <A HREF="#_F_">F</A> <A HREF="#_G_">G</A> <A HREF="#_M_">M</A> <A HREF="#_N_">N</A> <A HREF="#_O_">O</A> <A HREF="#_P_">P</A> <A HREF="#_R_">R</A> <A HREF="#_S_">S</A> <A HREF="#_T_">T</A> <A HREF="#_U_">U</A> 
 <!-- ========== START OF NAVBAR ========== -->
 <A NAME="navbar_bottom"><!-- --></A>
 <TABLE BORDER="0" WIDTH="100%" CELLPADDING="1" CELLSPACING="0">
@@ -225,7 +527,7 @@
 </TABLE>
 </TD>
 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>
-<font size="-1">Generated: Mon Dec  2 19:07:57 GMT 2002</font></EM>
+<font size="-1">Generated: Sun Mar  2 18:52:04 GMT 2003</font></EM>
 </TD>
 </TR>
 
@@ -253,6 +555,6 @@
 <!-- =========== END OF NAVBAR =========== -->
 
 <HR>
-<font size="-1"><a href="mailto:Mark Wilkinson <mwilkinson at gene.pbi.nrc.ca>,senger at ebi.ac.uk">Submit a bug or feature</a><BR>Generated: Mon Dec  2 19:07:57 GMT 2002</font>
+<font size="-1"><a href="mailto:mwilkinson at gene.pbi.nrc.ca,senger at ebi.ac.uk">Submit a bug or feature</a><BR>Generated: Sun Mar  2 18:52:04 GMT 2003</font>
 </BODY>
 </HTML>

===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/API/index.html,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/docs/API/index.html	2002/12/02 19:38:15	1.1
+++ /home/repository/moby/moby-live/Java/docs/API/index.html	2003/03/02 20:48:24	1.2
@@ -2,9 +2,9 @@
 <!--NewPage-->
 <HTML>
 <HEAD>
-<!-- Generated by javadoc on Mon Dec 02 19:07:59 GMT 2002-->
+<!-- Generated by javadoc on Sun Mar 02 18:52:09 GMT 2003-->
 <TITLE>
-MOBY Services in Java
+MOBY Registry in Java
 </TITLE>
 </HEAD>
 <FRAMESET cols="20%,80%">

===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/API/overview-frame.html,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/docs/API/overview-frame.html	2002/12/02 19:38:15	1.1
+++ /home/repository/moby/moby-live/Java/docs/API/overview-frame.html	2003/03/02 20:48:24	1.2
@@ -2,16 +2,17 @@
 <!--NewPage-->
 <HTML>
 <HEAD>
-<!-- Generated by javadoc on Mon Dec 02 19:07:59 GMT 2002 -->
+<!-- Generated by javadoc on Sun Mar 02 18:52:09 GMT 2003 -->
 <TITLE>
-Overview (MOBY Services in Java)
+Overview (MOBY Registry in Java)
 </TITLE>
+<META NAME="keywords" CONTENT="Overview,MOBY Registry in Java">
 <LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">
 </HEAD>
 <SCRIPT>
 function asd()
 {
-parent.document.title="Overview (MOBY Services in Java)";
+parent.document.title="Overview (MOBY Registry in Java)";
 }
 </SCRIPT>
 <BODY BGCOLOR="white" onload="asd();">
@@ -19,7 +20,7 @@
 <TABLE BORDER="0" WIDTH="100%">
 <TR>
 <TD NOWRAP><FONT size="+1" CLASS="FrameTitleFont">
-<B><font size="-1">Generated: Mon Dec  2 19:07:57 GMT 2002</font></B></FONT></TD>
+<B><font size="-1">Generated: Sun Mar  2 18:52:04 GMT 2003</font></B></FONT></TD>
 </TR>
 </TABLE>
 
@@ -32,7 +33,9 @@
 <BR>
 <FONT CLASS="FrameItemFont"><A HREF="package-frame.html" TARGET="packageFrame">&lt;unnamed package></A></FONT>
 <BR>
-<FONT CLASS="FrameItemFont"><A HREF="org/biomoby/registry/package-frame.html" TARGET="packageFrame">org.biomoby.registry</A></FONT>
+<FONT CLASS="FrameItemFont"><A HREF="org/biomoby/client/package-frame.html" TARGET="packageFrame">org.biomoby.client</A></FONT>
+<BR>
+<FONT CLASS="FrameItemFont"><A HREF="org/biomoby/shared/package-frame.html" TARGET="packageFrame">org.biomoby.shared</A></FONT>
 <BR>
 </TD>
 </TR>

===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/API/overview-summary.html,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/docs/API/overview-summary.html	2002/12/02 19:38:15	1.1
+++ /home/repository/moby/moby-live/Java/docs/API/overview-summary.html	2003/03/02 20:48:24	1.2
@@ -2,16 +2,17 @@
 <!--NewPage-->
 <HTML>
 <HEAD>
-<!-- Generated by javadoc on Mon Dec 02 19:07:59 GMT 2002 -->
+<!-- Generated by javadoc on Sun Mar 02 18:52:09 GMT 2003 -->
 <TITLE>
-Overview (MOBY Services in Java)
+Overview (MOBY Registry in Java)
 </TITLE>
+<META NAME="keywords" CONTENT="Overview,MOBY Registry in Java">
 <LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">
 </HEAD>
 <SCRIPT>
 function asd()
 {
-parent.document.title="Overview (MOBY Services in Java)";
+parent.document.title="Overview (MOBY Registry in Java)";
 }
 </SCRIPT>
 <BODY BGCOLOR="white" onload="asd();">
@@ -34,7 +35,7 @@
 </TABLE>
 </TD>
 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>
-<font size="-1">Generated: Mon Dec  2 19:07:57 GMT 2002</font></EM>
+<font size="-1">Generated: Sun Mar  2 18:52:04 GMT 2003</font></EM>
 </TD>
 </TR>
 
@@ -64,10 +65,10 @@
 <HR>
 <CENTER>
 <H2>
-MOBY Services in Java</H2>
+MOBY Registry in Java</H2>
 </CENTER>
-Java interfaces and examples accessing and using
-<a href="http://biomoby.org" target="_top">BioMOBY</a> services.
+Java interfaces, classes, and examples allowing to access and use
+<a href="http://biomoby.org/" target="_top">BioMOBY</a> registry.
 <P>
 <B>See:</B>
 <BR>
@@ -77,11 +78,25 @@
 <TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" WIDTH="100%">
 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
 <TD COLSPAN=2><FONT SIZE="+2">
-<B>Moby Central/Registry</B></FONT></TD>
+<B>Moby Registry Client Support</B></FONT></TD>
 </TR>
 <TR BGCOLOR="white" CLASS="TableRowColor">
-<TD WIDTH="20%"><B><A HREF="org/biomoby/registry/package-summary.html">org.biomoby.registry</A></B></TD>
-<TD>&nbsp;</TD>
+<TD WIDTH="20%"><B><A HREF="org/biomoby/client/package-summary.html">org.biomoby.client</A></B></TD>
+<TD>The components used for developing Moby clients.</TD>
+</TR>
+</TABLE>
+
+<P>
+&nbsp;
+<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" WIDTH="100%">
+<TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
+<TD COLSPAN=2><FONT SIZE="+2">
+<B>Moby Registry Shared</B></FONT></TD>
+</TR>
+<TR BGCOLOR="white" CLASS="TableRowColor">
+<TD WIDTH="20%"><B><A HREF="org/biomoby/shared/package-summary.html">org.biomoby.shared</A></B></TD>
+<TD>The components used by packages and classes developed for both
+Moby clients and (in the future) Moby servers.</TD>
 </TR>
 </TABLE>
 
@@ -97,31 +112,18 @@
 <P>
 &nbsp;<A NAME="overview_description"><!-- --></A>
 <P>
-Java interfaces and examples accessing and using
-<a href="http://biomoby.org" target="_top">BioMOBY</a> services.
+Java interfaces, classes, and examples allowing to access and use
+<a href="http://biomoby.org/" target="_top">BioMOBY</a> registry.
 <p>
 
-The clients can be written either using a Dynamic Invocation - see
-<tt>TestingClient</tt> for this type, or using a
-<a href="MobyCentral.wsdl">pre-generated WSDL file</a>. The later case is
-not working yet (I have to find how to use serializer and deserializer
-classes with WSDL. Anybody has an idea?)
+The aims of the <em>BioMOBY in Java</em> project are:
+<ul>
+  <li> To test interoperability with the Perl-based Moby registry
+  <li> To give Java developers and end-users tools and ready clients
+       to access current Moby registries
+  <li> Perhaps in future, to develop a pure Java Moby server
+</ul>
 <p>
-
-The <tt>org.biomoby.registry.Central</tt> interface is included purely
-because it is used for generating a WSDL file. At the moment it
-contains only methods that do not change Moby central database (no
-registration calls).
-<p>
-
-
-<hr>
-<div align=right><font size=-2>
-<address><A HREF="mailto:senger at ebi.ac.uk">Martin Senger</A><BR></address>
-<!-- hhmts start -->
-Last modified: Mon Dec  2 19:05:02 2002
-<!-- hhmts end -->
-</font></div>
 <P>
 
 <P>
@@ -145,7 +147,7 @@
 </TABLE>
 </TD>
 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>
-<font size="-1">Generated: Mon Dec  2 19:07:57 GMT 2002</font></EM>
+<font size="-1">Generated: Sun Mar  2 18:52:04 GMT 2003</font></EM>
 </TD>
 </TR>
 
@@ -173,6 +175,6 @@
 <!-- =========== END OF NAVBAR =========== -->
 
 <HR>
-<font size="-1"><a href="mailto:Mark Wilkinson <mwilkinson at gene.pbi.nrc.ca>,senger at ebi.ac.uk">Submit a bug or feature</a><BR>Generated: Mon Dec  2 19:07:57 GMT 2002</font>
+<font size="-1"><a href="mailto:mwilkinson at gene.pbi.nrc.ca,senger at ebi.ac.uk">Submit a bug or feature</a><BR>Generated: Sun Mar  2 18:52:04 GMT 2003</font>
 </BODY>
 </HTML>

===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/API/overview-tree.html,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/docs/API/overview-tree.html	2002/12/02 19:38:15	1.1
+++ /home/repository/moby/moby-live/Java/docs/API/overview-tree.html	2003/03/02 20:48:24	1.2
@@ -2,16 +2,16 @@
 <!--NewPage-->
 <HTML>
 <HEAD>
-<!-- Generated by javadoc on Mon Dec 02 19:07:59 GMT 2002 -->
+<!-- Generated by javadoc on Sun Mar 02 18:52:08 GMT 2003 -->
 <TITLE>
-Class Hierarchy (MOBY Services in Java)
+Class Hierarchy (MOBY Registry in Java)
 </TITLE>
 <LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">
 </HEAD>
 <SCRIPT>
 function asd()
 {
-parent.document.title="Class Hierarchy (MOBY Services in Java)";
+parent.document.title="Class Hierarchy (MOBY Registry in Java)";
 }
 </SCRIPT>
 <BODY BGCOLOR="white" onload="asd();">
@@ -34,7 +34,7 @@
 </TABLE>
 </TD>
 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>
-<font size="-1">Generated: Mon Dec  2 19:07:57 GMT 2002</font></EM>
+<font size="-1">Generated: Sun Mar  2 18:52:04 GMT 2003</font></EM>
 </TD>
 </TR>
 
@@ -67,27 +67,26 @@
 Hierarchy For All Packages</H2>
 </CENTER>
 <DL>
-<DT><B>Package Hierarchies:</B><DD><A HREF="org/biomoby/registry/package-tree.html">org.biomoby.registry</A></DL>
+<DT><B>Package Hierarchies:</B><DD><A HREF="org/biomoby/client/package-tree.html">org.biomoby.client</A>, <A HREF="org/biomoby/shared/package-tree.html">org.biomoby.shared</A></DL>
 <HR>
 <H2>
 Class Hierarchy
 </H2>
 <UL>
 <LI TYPE="circle">class java.lang.Object<UL>
-<LI TYPE="circle">class <A HREF="ClientUtils.html"><B>ClientUtils</B></A><LI TYPE="circle">class DeserializerImpl<UL>
-<LI TYPE="circle">class <A HREF="MobyCentralDeser.html"><B>MobyCentralDeser</B></A></UL>
-<LI TYPE="circle">class java.util.Dictionary<UL>
-<LI TYPE="circle">class java.util.Hashtable (implements java.lang.Cloneable, java.util.Map, java.io.Serializable)
+<LI TYPE="circle">class org.biomoby.client.<A HREF="org/biomoby/client/CentralImpl.html"><B>CentralImpl</B></A> (implements org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html">Central</A>)
+<LI TYPE="circle">class <A HREF="MobyCmdLineClient.html"><B>MobyCmdLineClient</B></A><LI TYPE="circle">class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyDataType.html"><B>MobyDataType</B></A><LI TYPE="circle">class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyNamespace.html"><B>MobyNamespace</B></A><LI TYPE="circle">class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyService.html"><B>MobyService</B></A><LI TYPE="circle">class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyServiceType.html"><B>MobyServiceType</B></A><LI TYPE="circle">class <A HREF="TestingCentral.html"><B>TestingCentral</B></A><LI TYPE="circle">class java.lang.Throwable (implements java.io.Serializable)
 <UL>
-<LI TYPE="circle">class org.biomoby.registry.<A HREF="org/biomoby/registry/MobyCentral.html"><B>MobyCentral</B></A></UL>
+<LI TYPE="circle">class java.lang.Exception<UL>
+<LI TYPE="circle">class org.biomoby.shared.<A HREF="org/biomoby/shared/MobyException.html"><B>MobyException</B></A><LI TYPE="circle">class org.biomoby.shared.<A HREF="org/biomoby/shared/NoSuccessException.html"><B>NoSuccessException</B></A></UL>
 </UL>
-<LI TYPE="circle">class <A HREF="MobyCentralDeserFactory.html"><B>MobyCentralDeserFactory</B></A><LI TYPE="circle">class <A HREF="MobyCentralSer.html"><B>MobyCentralSer</B></A><LI TYPE="circle">class <A HREF="MobyCentralSerFactory.html"><B>MobyCentralSerFactory</B></A><LI TYPE="circle">class <A HREF="TestingCentral.html"><B>TestingCentral</B></A></UL>
+<LI TYPE="circle">class org.biomoby.shared.<A HREF="org/biomoby/shared/Utils.html"><B>Utils</B></A></UL>
 </UL>
 <H2>
 Interface Hierarchy
 </H2>
 <UL>
-<LI TYPE="circle">interface org.biomoby.registry.<A HREF="org/biomoby/registry/Central.html"><B>Central</B></A></UL>
+<LI TYPE="circle">interface org.biomoby.shared.<A HREF="org/biomoby/shared/Central.html"><B>Central</B></A></UL>
 <HR>
 
 <!-- ========== START OF NAVBAR ========== -->
@@ -108,7 +107,7 @@
 </TABLE>
 </TD>
 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>
-<font size="-1">Generated: Mon Dec  2 19:07:57 GMT 2002</font></EM>
+<font size="-1">Generated: Sun Mar  2 18:52:04 GMT 2003</font></EM>
 </TD>
 </TR>
 
@@ -136,6 +135,6 @@
 <!-- =========== END OF NAVBAR =========== -->
 
 <HR>
-<font size="-1"><a href="mailto:Mark Wilkinson <mwilkinson at gene.pbi.nrc.ca>,senger at ebi.ac.uk">Submit a bug or feature</a><BR>Generated: Mon Dec  2 19:07:57 GMT 2002</font>
+<font size="-1"><a href="mailto:mwilkinson at gene.pbi.nrc.ca,senger at ebi.ac.uk">Submit a bug or feature</a><BR>Generated: Sun Mar  2 18:52:04 GMT 2003</font>
 </BODY>
 </HTML>

===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/API/package-frame.html,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/docs/API/package-frame.html	2002/12/02 19:38:15	1.1
+++ /home/repository/moby/moby-live/Java/docs/API/package-frame.html	2003/03/02 20:48:24	1.2
@@ -2,16 +2,17 @@
 <!--NewPage-->
 <HTML>
 <HEAD>
-<!-- Generated by javadoc on Mon Dec 02 19:07:59 GMT 2002 -->
+<!-- Generated by javadoc on Sun Mar 02 18:52:09 GMT 2003 -->
 <TITLE>
-(MOBY Services in Java)
+ (MOBY Registry in Java)
 </TITLE>
+<META NAME="keywords" CONTENT=" package">
 <LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">
 </HEAD>
 <SCRIPT>
 function asd()
 {
-parent.document.title="(MOBY Services in Java)";
+parent.document.title=" (MOBY Registry in Java)";
 }
 </SCRIPT>
 <BODY BGCOLOR="white" onload="asd();">
@@ -23,15 +24,7 @@
 Classes</FONT>&nbsp;
 <FONT CLASS="FrameItemFont">
 <BR>
-<A HREF="ClientUtils.html" TARGET="classFrame">ClientUtils</A>
-<BR>
-<A HREF="MobyCentralDeser.html" TARGET="classFrame">MobyCentralDeser</A>
-<BR>
-<A HREF="MobyCentralDeserFactory.html" TARGET="classFrame">MobyCentralDeserFactory</A>
-<BR>
-<A HREF="MobyCentralSer.html" TARGET="classFrame">MobyCentralSer</A>
-<BR>
-<A HREF="MobyCentralSerFactory.html" TARGET="classFrame">MobyCentralSerFactory</A>
+<A HREF="MobyCmdLineClient.html" TARGET="classFrame">MobyCmdLineClient</A>
 <BR>
 <A HREF="TestingCentral.html" TARGET="classFrame">TestingCentral</A></FONT></TD>
 </TR>

===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/API/package-list,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/docs/API/package-list	2002/12/02 19:38:15	1.1
+++ /home/repository/moby/moby-live/Java/docs/API/package-list	2003/03/02 20:48:24	1.2
@@ -1,2 +1,3 @@
 
-org.biomoby.registry
+org.biomoby.client
+org.biomoby.shared

===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/API/packages.html,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/docs/API/packages.html	2002/12/02 19:38:15	1.1
+++ /home/repository/moby/moby-live/Java/docs/API/packages.html	2003/03/02 20:48:24	1.2
@@ -2,16 +2,16 @@
 <!--NewPage-->
 <HTML>
 <HEAD>
-<!-- Generated by javadoc on Mon Dec 02 19:07:59 GMT 2002 -->
+<!-- Generated by javadoc on Sun Mar 02 18:52:09 GMT 2003 -->
 <TITLE>
-MOBY Services in Java
+ (MOBY Registry in Java)
 </TITLE>
 <LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">
 </HEAD>
 <SCRIPT>
 function asd()
 {
-parent.document.title="MOBY Services in Java";
+parent.document.title=" (MOBY Registry in Java)";
 }
 </SCRIPT>
 <BODY BGCOLOR="white" onload="asd();">

===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/API/serialized-form.html,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/docs/API/serialized-form.html	2002/12/02 19:38:15	1.1
+++ /home/repository/moby/moby-live/Java/docs/API/serialized-form.html	2003/03/02 20:48:24	1.2
@@ -2,16 +2,16 @@
 <!--NewPage-->
 <HTML>
 <HEAD>
-<!-- Generated by javadoc on Mon Dec 02 19:08:00 GMT 2002 -->
+<!-- Generated by javadoc on Sun Mar 02 18:52:10 GMT 2003 -->
 <TITLE>
-Serialized Form
+Serialized Form (MOBY Registry in Java)
 </TITLE>
 <LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">
 </HEAD>
 <SCRIPT>
 function asd()
 {
-parent.document.title="Serialized Form";
+parent.document.title="Serialized Form (MOBY Registry in Java)";
 }
 </SCRIPT>
 <BODY BGCOLOR="white" onload="asd();">
@@ -34,7 +34,7 @@
 </TABLE>
 </TD>
 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>
-<font size="-1">Generated: Mon Dec  2 19:07:57 GMT 2002</font></EM>
+<font size="-1">Generated: Sun Mar  2 18:52:04 GMT 2003</font></EM>
 </TD>
 </TR>
 
@@ -71,32 +71,63 @@
 <TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" WIDTH="100%">
 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">
 <TD ALIGN="center"><FONT SIZE="+2">
-<B>Package</B> <B>org.biomoby.registry</B></FONT></TD>
+<B>Package</B> <B>org.biomoby.shared</B></FONT></TD>
 </TR>
 </TABLE>
 
 <P>
-<A NAME="org.biomoby.registry.MobyCentral"><!-- --></A>
+<A NAME="org.biomoby.shared.MobyException"><!-- --></A>
 <TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" WIDTH="100%">
 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">
 <TD COLSPAN=2><FONT SIZE="+2">
-<B>Class <A HREF="org/biomoby/registry/MobyCentral.html">org.biomoby.registry.MobyCentral</A> implements Serializable</B></FONT></TD>
+<B>Class <A HREF="org/biomoby/shared/MobyException.html">org.biomoby.shared.MobyException</A> implements Serializable</B></FONT></TD>
 </TR>
 </TABLE>
 
 <P>
+<A NAME="serializedForm"><!-- --></A>
+<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" WIDTH="100%">
+<TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
+<TD COLSPAN=1><FONT SIZE="+2">
+<B>Serialized Fields</B></FONT></TD>
+</TR>
+</TABLE>
+
+<H3>
+theOriginalException</H3>
+<PRE>
+java.lang.Throwable <B>theOriginalException</B></PRE>
+<DL>
+<DT><DD>&nbsp;<DL>
+</DL>
+</DL>
 
 <P>
-<HR SIZE="4" NOSHADE>
-<A NAME="MobyCentralDeser"><!-- --></A>
+<A NAME="org.biomoby.shared.NoSuccessException"><!-- --></A>
 <TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" WIDTH="100%">
 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">
 <TD COLSPAN=2><FONT SIZE="+2">
-<B>Class <A HREF="MobyCentralDeser.html">MobyCentralDeser</A> implements Serializable</B></FONT></TD>
+<B>Class <A HREF="org/biomoby/shared/NoSuccessException.html">org.biomoby.shared.NoSuccessException</A> implements Serializable</B></FONT></TD>
 </TR>
 </TABLE>
 
 <P>
+<A NAME="serializedForm"><!-- --></A>
+<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" WIDTH="100%">
+<TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
+<TD COLSPAN=1><FONT SIZE="+2">
+<B>Serialized Fields</B></FONT></TD>
+</TR>
+</TABLE>
+
+<H3>
+culprit</H3>
+<PRE>
+java.lang.Object <B>culprit</B></PRE>
+<DL>
+<DT><DD>&nbsp;<DL>
+</DL>
+</DL>
 
 <P>
 <HR>
@@ -119,7 +150,7 @@
 </TABLE>
 </TD>
 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>
-<font size="-1">Generated: Mon Dec  2 19:07:57 GMT 2002</font></EM>
+<font size="-1">Generated: Sun Mar  2 18:52:04 GMT 2003</font></EM>
 </TD>
 </TR>
 
@@ -147,6 +178,6 @@
 <!-- =========== END OF NAVBAR =========== -->
 
 <HR>
-<font size="-1"><a href="mailto:Mark Wilkinson <mwilkinson at gene.pbi.nrc.ca>,senger at ebi.ac.uk">Submit a bug or feature</a><BR>Generated: Mon Dec  2 19:07:57 GMT 2002</font>
+<font size="-1"><a href="mailto:mwilkinson at gene.pbi.nrc.ca,senger at ebi.ac.uk">Submit a bug or feature</a><BR>Generated: Sun Mar  2 18:52:04 GMT 2003</font>
 </BODY>
 </HTML>

rcsdiff: /home/repository/moby/moby-live/Java/docs/API/RCS/ClientUtils.html,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/docs/API/RCS/MobyCentral.html,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/docs/API/RCS/MobyCentralDeser.html,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/docs/API/RCS/MobyCentralDeserFactory.html,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/docs/API/RCS/MobyCentralSer.html,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/docs/API/RCS/MobyCentralSerFactory.html,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/docs/API/RCS/TestingWSDL.html,v: No such file or directory

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