From kawas at dev.open-bio.org  Tue Dec  1 11:05:12 2009
From: kawas at dev.open-bio.org (Eddie Kawas)
Date: Tue, 1 Dec 2009 11:05:12 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912011605.nB1G5CrH017869@dev.open-bio.org>


kawas
Tue Dec  1 11:05:11 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/biomoby/registry/meta
In directory dev.open-bio.org:/tmp/cvs-serv17832/src/main/org/biomoby/registry/meta

Modified Files:
	RegistriesList.java 
Log Message:
updated the test registry information
moby-live/Java/src/main/org/biomoby/registry/meta RegistriesList.java,1.5,1.6
===================================================================
RCS file: /home/repository/moby/moby-live/Java/src/main/org/biomoby/registry/meta/RegistriesList.java,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Java/src/main/org/biomoby/registry/meta/RegistriesList.java	2007/12/10 22:01:32	1.5
+++ /home/repository/moby/moby-live/Java/src/main/org/biomoby/registry/meta/RegistriesList.java	2009/12/01 16:05:11	1.6
@@ -65,12 +65,12 @@
 
 	new Registry
 	("testing",
-	 "http://bioinfo.icapture.ubc.ca/cgi-bin/mobycentral/MOBY-Central.pl",
-	 "http://bioinfo.icapture.ubc.ca/MOBY/Central",
+	 "http://mobytest.biordf.net/MOBY-Central.pl",
+	 "http://mobytest.biordf.net/MOBY/Central",
 	 "Testing BioMoby registry",
 	 "Edward Kawas (edward.kawas at gmail.com)",
 	 true,
-	 ""),
+	 "The MOBY test registry"),
     };
 
     /*********************************************************************


From kawas at dev.open-bio.org  Tue Dec  1 11:15:33 2009
From: kawas at dev.open-bio.org (Eddie Kawas)
Date: Tue, 1 Dec 2009 11:15:33 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912011615.nB1GFXPQ018163@dev.open-bio.org>


kawas
Tue Dec  1 11:15:33 EST 2009
Update of /home/repository/moby/moby-live/Java/docs
In directory dev.open-bio.org:/tmp/cvs-serv18128/docs

Modified Files:
	CmdLineClients.html 
Log Message:
updated the test registry information
moby-live/Java/docs CmdLineClients.html,1.6,1.7
===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/CmdLineClients.html,v
retrieving revision 1.6
retrieving revision 1.7
diff -u -r1.6 -r1.7
--- /home/repository/moby/moby-live/Java/docs/CmdLineClients.html	2008/06/09 12:52:18	1.6
+++ /home/repository/moby/moby-live/Java/docs/CmdLineClients.html	2009/12/01 16:15:33	1.7
@@ -372,8 +372,8 @@
 
 <pre>
    run-cmdline-client \
-      -e http://bioinfo.icapture.ubc.ca/cgi-bin/mobycentral/MOBY-Central.pl \
-      -uri http://mobycentral.cbr.nrc.ca:8080/MOBY/Central \
+      -e http://mobytest.biordf.net/MOBY-Central.pl \
+      -uri http://mobytest.biordf.net/MOBY/Central \
       -rd-name ColouredString \
       -rd-desc 'A string representing a colour' \
       -rd-auth uk.ac.ebi.martin.senger \
@@ -386,7 +386,7 @@
 
 <pre>
    run-cmdline-client \
-      -e http://bioinfo.icapture.ubc.ca/cgi-bin/mobycentral/MOBY-Central.pl \
+      -e http://mobytest.biordf.net/MOBY-Central.pl \
       -uri http://mobycentral.cbr.nrc.ca:8080/MOBY/Central \
       -data ColouredString
 </pre>
@@ -630,7 +630,7 @@
 
 <pre>
    run-cmdline-client \   
-      -e http://bioinfo.icapture.ubc.ca/cgi-bin/mobycentral/MOBY-Central.pl  \
+      -e http://mobytest.biordf.net/MOBY-Central.pl  \
       -uri http://mobycentral.cbr.nrc.ca:8080/MOBY/Central                 \
       -rs-name Testing_getAlleleFreq                                       \
       -rs-type Retrieval                                                   \
@@ -650,7 +650,7 @@
 
 <pre>
    run-cmdline-client \   
-      -e http://bioinfo.icapture.ubc.ca/cgi-bin/mobycentral/MOBY-Central.pl  \
+      -e http://mobytest.biordf.net/MOBY-Central.pl  \
       -uri http://mobycentral.cbr.nrc.ca:8080/MOBY/Central                 \
       -fn Testing_getAlleleFreq
 </pre>
@@ -689,7 +689,7 @@
 
 <pre>
    run-cmdline-client \
-      -e http://bioinfo.icapture.ubc.ca/cgi-bin/mobycentral/MOBY-Central.pl \
+      -e http://mobytest.biordf.net/MOBY-Central.pl \
       -uri http://mobycentral.cbr.nrc.ca:8080/MOBY/Central                \
       -us Testing_getAlleleFreq                                           \
       -ud ColouredString
@@ -1011,7 +1011,7 @@
 
 <pre>
    run-testing-central \
-      -e http://bioinfo.icapture.ubc.ca/cgi-bin/mobycentral/MOBY-Central.pl \
+      -e http://mobytest.biordf.net/MOBY-Central.pl \
       -uri http://mobycentral.cbr.nrc.ca:8080/MOBY/Central
 </pre>
 


From drepchevski at dev.open-bio.org  Wed Dec 16 09:22:17 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 09:22:17 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161422.nBGEMHti004661@dev.open-bio.org>


drepchevski
Wed Dec 16 09:22:17 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/model
In directory dev.open-bio.org:/tmp/cvs-serv4627/model

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/model added to the repository

moby-live/Java/src/main/org/inb/biomoby/central/model - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/model/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/model/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/model/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Wed Dec 16 09:22:34 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 09:22:34 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161422.nBGEMYVt004703@dev.open-bio.org>


drepchevski
Wed Dec 16 09:22:34 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/cache
In directory dev.open-bio.org:/tmp/cvs-serv4669/cache

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/cache added to the repository

moby-live/Java/src/main/org/inb/biomoby/central/cache - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/cache/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/cache/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/cache/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Wed Dec 16 09:23:02 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 09:23:02 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161423.nBGEN2O7004745@dev.open-bio.org>


drepchevski
Wed Dec 16 09:23:02 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel
In directory dev.open-bio.org:/tmp/cvs-serv4711/mobycentralmodel

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel added to the repository

moby-live/Java/src/config/inb/mobycentralmodel - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Wed Dec 16 09:23:13 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 09:23:13 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161423.nBGENDg7004787@dev.open-bio.org>


drepchevski
Wed Dec 16 09:23:13 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel/META-INF
In directory dev.open-bio.org:/tmp/cvs-serv4753/META-INF

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel/META-INF added to the repository

moby-live/Java/src/config/inb/mobycentralmodel/META-INF - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel/META-INF/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel/META-INF/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel/META-INF/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Wed Dec 16 09:24:52 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 09:24:52 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161424.nBGEOqbi004851@dev.open-bio.org>


drepchevski
Wed Dec 16 09:24:51 EST 2009
Update of /home/repository/moby/moby-live/Java/xmls
In directory dev.open-bio.org:/tmp/cvs-serv4816

Modified Files:
	inbMoby.xml 
Log Message:
Added INB MobyCentralModel library into the build
moby-live/Java/xmls inbMoby.xml,1.3,1.4
===================================================================
RCS file: /home/repository/moby/moby-live/Java/xmls/inbMoby.xml,v
retrieving revision 1.3
retrieving revision 1.4
diff -u -r1.3 -r1.4
--- /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/09/11 06:55:24	1.3
+++ /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/16 14:24:51	1.4
@@ -12,6 +12,7 @@
 <property name="inb.config.dir" location="${src.config}/inb"/>
 <property name="inb.core.jar" value="MobyCore.jar"/>
 <property name="inb.central.jar" value="MobyCentral.jar"/>
+<property name="inb.central.model.jar" value="MobyCentralModel.jar"/>
 
 <!-- ================================================================== -->
 <!-- Initialize (whatever needs to be done)                             -->
@@ -46,6 +47,22 @@
   </jar>
 </target>
 
+<!-- ================================================================== -->
+<!-- Build INB MobyCentralModel                                              -->
+<!-- ================================================================== -->
+<target name="build-central-model" depends="build-central, inb-central-model-compile"
+  description="Build MobyCentral">
+  <property name="released.date" value="${TODAY_SHORT}"/>
+  <jar destfile="${build.lib}/${inb.central.model.jar}">
+    <manifest>
+      <attribute name="Built-By"      value="${user.name}"/>
+      <attribute name="Released-Date" value="${released.date}"/>
+    </manifest>
+    <fileset dir="${inb.config.dir}/mobycentralmodel"/>
+    <fileset dir="${build.inb.model}"/>
+  </jar>
+</target>
+
   <!-- ================================================================== -->
   <!-- Compiles inb core source                                           -->
   <!-- ================================================================== -->
@@ -101,3 +118,33 @@
       <compilerarg value="${xlint.param}"/>
     </javac>
   </target>
+
+  <!-- ================================================================== -->
+  <!-- Compiles inb central source                                        -->
+  <!-- ================================================================== -->
+  <target name="inb-central-model-compile" depends="inb-init"
+    description="Compile all inb central model source code">
+
+    <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
+      <istrue value="${compile.warnings}"/>
+    </condition>
+
+    <javac
+      sourcepath=""
+      srcdir="${src.main}"
+      destdir="${build.inb.model}"
+      classpath="${build.lib}/${inb.core.jar};${build.lib}/${inb.central.jar}"
+      verbose="${compile.verbose}"
+      debug="${compile.debug}"
+      debuglevel="lines,vars,source"
+      deprecation="${compile.deprecation}"
+      optimize="${compile.optimize}"
+      includes="org/inb/biomoby/central/cache/*,org/inb/biomoby/central/model/*"
+      excludes="org/inb/biomoby/shared/*">
+      
+      <classpath refid="build.classpath"/>
+      <classpath refid="dependency.classpath"/>
+      
+      <compilerarg value="${xlint.param}"/>
+    </javac>
+  </target>


From drepchevski at dev.open-bio.org  Wed Dec 16 09:25:47 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 09:25:47 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161425.nBGEPloL004914@dev.open-bio.org>


drepchevski
Wed Dec 16 09:25:47 EST 2009
Update of /home/repository/moby/moby-live/Java
In directory dev.open-bio.org:/tmp/cvs-serv4879

Modified Files:
	build.xml 
Log Message:
INB build-central-model added
moby-live/Java build.xml,1.77,1.78
===================================================================
RCS file: /home/repository/moby/moby-live/Java/build.xml,v
retrieving revision 1.77
retrieving revision 1.78
diff -u -r1.77 -r1.78
--- /home/repository/moby/moby-live/Java/build.xml	2009/09/09 19:26:47	1.77
+++ /home/repository/moby/moby-live/Java/build.xml	2009/12/16 14:25:47	1.78
@@ -75,6 +75,7 @@
   <property name="build.others"      location="${build.dir}/others"/>
   <property name="build.test"        location="${build.dir}/test"/>
   <property name="build.inb.central" location="${build.dir}/inb/central"/>
+  <property name="build.inb.model" location="${build.dir}/inb/model"/>
   <property name="build.inb.core"    location="${build.dir}/inb/core"/>
   <!-- log4j properties -->
   <property name="log4j.configuration"  location="${build.classes}/log4j.properties"/>
@@ -182,6 +183,7 @@
     <mkdir dir="${build.test}"/>
     <mkdir dir="${build.inb.core}"/>
     <mkdir dir="${build.inb.central}"/>
+    <mkdir dir="${build.inb.model}"/>
     
     <!-- Create .cvsignore files -->
     <!-- [TBD: How can I do this by traversing directory tree automatically?] -->


From drepchevski at dev.open-bio.org  Wed Dec 16 10:24:23 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 10:24:23 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161524.nBGFONft005944@dev.open-bio.org>


drepchevski
Wed Dec 16 10:24:23 EST 2009
Update of /home/repository/moby/moby-live/Java/xmls
In directory dev.open-bio.org:/tmp/cvs-serv5909

Modified Files:
	inbMoby.xml 
Log Message:

moby-live/Java/xmls inbMoby.xml,1.4,1.5
===================================================================
RCS file: /home/repository/moby/moby-live/Java/xmls/inbMoby.xml,v
retrieving revision 1.4
retrieving revision 1.5
diff -u -r1.4 -r1.5
--- /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/16 14:24:51	1.4
+++ /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/16 15:24:23	1.5
@@ -52,6 +52,7 @@
 <!-- ================================================================== -->
 <target name="build-central-model" depends="build-central, inb-central-model-compile"
   description="Build MobyCentral">
+
   <property name="released.date" value="${TODAY_SHORT}"/>
   <jar destfile="${build.lib}/${inb.central.model.jar}">
     <manifest>


From drepchevski at dev.open-bio.org  Wed Dec 16 10:24:29 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 10:24:29 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161524.nBGFOT8V005983@dev.open-bio.org>


drepchevski
Wed Dec 16 10:24:29 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel/META-INF
In directory dev.open-bio.org:/tmp/cvs-serv5952

Added Files:
	MobyCentralList.xml 
Log Message:

moby-live/Java/src/config/inb/mobycentralmodel/META-INF MobyCentralList.xml,NONE,1.1

From drepchevski at dev.open-bio.org  Wed Dec 16 10:24:36 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 10:24:36 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161524.nBGFOa9N006036@dev.open-bio.org>


drepchevski
Wed Dec 16 10:24:36 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/model
In directory dev.open-bio.org:/tmp/cvs-serv5991/model

Added Files:
	AbstractModel.java DatatypesModel.java MobyCentralModel.java 
	ModelListener.java NamespacesModel.java ServicesModel.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/central/model AbstractModel.java,NONE,1.1 DatatypesModel.java,NONE,1.1 MobyCentralModel.java,NONE,1.1 ModelListener.java,NONE,1.1 NamespacesModel.java,NONE,1.1 ServicesModel.java,NONE,1.1

From drepchevski at dev.open-bio.org  Wed Dec 16 10:24:36 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 10:24:36 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161524.nBGFOa4R006022@dev.open-bio.org>


drepchevski
Wed Dec 16 10:24:36 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/cache
In directory dev.open-bio.org:/tmp/cvs-serv5991/cache

Added Files:
	CacheConfig.java IMobyCentralCache.java 
	MobyCentralFileCache.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/central/cache CacheConfig.java,NONE,1.1 IMobyCentralCache.java,NONE,1.1 MobyCentralFileCache.java,NONE,1.1

From drepchevski at dev.open-bio.org  Wed Dec 16 12:40:05 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 12:40:05 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161740.nBGHe5NU007972@dev.open-bio.org>


drepchevski
Wed Dec 16 12:40:05 EST 2009
Update of /home/repository/moby/moby-live/Java/docs
In directory dev.open-bio.org:/tmp/cvs-serv7937

Modified Files:
	inb_moby.html 
Added Files:
	inb_moby_central_model.html 
Log Message:
added a documentation for MobyCentralModel library
moby-live/Java/docs inb_moby_central_model.html,NONE,1.1 inb_moby.html,1.1,1.2
===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/inb_moby.html,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/09/15 17:16:50	1.1
+++ /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/12/16 17:40:05	1.2
@@ -68,6 +68,11 @@
   </p>
 
   <p>
+    <a href="inb_moby_central.html">MobyCentralModel</a> is an auxiliary library that provides a cache implementation for BioMoby Registry.
+    The library can be build using <span class="command"> ant build-central-model </span> command.
+  </p>
+
+  <p>
     Generated libraries could be found in
     <span class="command"> /moby-live/Java/build/lib/ </span> directory.
   </p>


From drepchevski at dev.open-bio.org  Wed Dec 16 12:41:15 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 12:41:15 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161741.nBGHfFsb008055@dev.open-bio.org>


drepchevski
Wed Dec 16 12:41:15 EST 2009
Update of /home/repository/moby/moby-live/Java/docs
In directory dev.open-bio.org:/tmp/cvs-serv8020

Modified Files:
	inb_moby.html 
Log Message:

moby-live/Java/docs inb_moby.html,1.2,1.3
===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/inb_moby.html,v
retrieving revision 1.2
retrieving revision 1.3
diff -u -r1.2 -r1.3
--- /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/12/16 17:40:05	1.2
+++ /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/12/16 17:41:15	1.3
@@ -69,7 +69,7 @@
 
   <p>
     <a href="inb_moby_central.html">MobyCentralModel</a> is an auxiliary library that provides a cache implementation for BioMoby Registry.
-    The library can be build using <span class="command"> ant build-central-model </span> command.
+    The library can be built using <span class="command"> ant build-central-model </span> command.
   </p>
 
   <p>


From drepchevski at dev.open-bio.org  Wed Dec 16 12:42:25 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 12:42:25 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161742.nBGHgPsF008098@dev.open-bio.org>


drepchevski
Wed Dec 16 12:42:25 EST 2009
Update of /home/repository/moby/moby-live/Java/docs
In directory dev.open-bio.org:/tmp/cvs-serv8063

Modified Files:
	inb_moby.html 
Log Message:

moby-live/Java/docs inb_moby.html,1.3,1.4
===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/inb_moby.html,v
retrieving revision 1.3
retrieving revision 1.4
diff -u -r1.3 -r1.4
--- /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/12/16 17:41:15	1.3
+++ /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/12/16 17:42:25	1.4
@@ -68,7 +68,7 @@
   </p>
 
   <p>
-    <a href="inb_moby_central.html">MobyCentralModel</a> is an auxiliary library that provides a cache implementation for BioMoby Registry.
+    <a href="inb_moby_central_model.html">MobyCentralModel</a> is an auxiliary library that provides a cache implementation for BioMoby Registry.
     The library can be built using <span class="command"> ant build-central-model </span> command.
   </p>
 


From drepchevski at dev.open-bio.org  Thu Dec 17 06:37:39 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:37:39 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171137.nBHBbdOH022921@dev.open-bio.org>


drepchevski
Thu Dec 17 06:37:39 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/swing
In directory dev.open-bio.org:/tmp/cvs-serv22887/swing

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/swing added to the repository

moby-live/Java/src/main/org/inb/swing - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/swing/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/swing/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/swing/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 06:37:53 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:37:53 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171137.nBHBbrIF022963@dev.open-bio.org>


drepchevski
Thu Dec 17 06:37:53 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui
In directory dev.open-bio.org:/tmp/cvs-serv22929/gui

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui added to the repository

moby-live/Java/src/main/org/inb/biomoby/central/gui - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 06:38:29 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:38:29 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171138.nBHBcTgZ023005@dev.open-bio.org>


drepchevski
Thu Dec 17 06:38:29 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/dnd
In directory dev.open-bio.org:/tmp/cvs-serv22971/dnd

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/dnd added to the repository

moby-live/Java/src/main/org/inb/biomoby/central/gui/dnd - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/dnd/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/dnd/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/dnd/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 06:38:29 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:38:29 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171138.nBHBcTP4023041@dev.open-bio.org>


drepchevski
Thu Dec 17 06:38:29 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/renderer
In directory dev.open-bio.org:/tmp/cvs-serv22971/renderer

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/renderer added to the repository

moby-live/Java/src/main/org/inb/biomoby/central/gui/renderer - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/renderer/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/renderer/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/renderer/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 06:38:29 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:38:29 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171138.nBHBcT8K023022@dev.open-bio.org>


drepchevski
Thu Dec 17 06:38:29 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/model
In directory dev.open-bio.org:/tmp/cvs-serv22971/model

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/model added to the repository

moby-live/Java/src/main/org/inb/biomoby/central/gui/model - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/model/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/model/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/model/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 06:39:31 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:39:31 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171139.nBHBdVsk023153@dev.open-bio.org>


drepchevski
Thu Dec 17 06:39:31 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui
In directory dev.open-bio.org:/tmp/cvs-serv23119/mobycentralgui

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui added to the repository

moby-live/Java/src/config/inb/mobycentralgui - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 06:39:42 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:39:42 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171139.nBHBdgBO023195@dev.open-bio.org>


drepchevski
Thu Dec 17 06:39:42 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui/images
In directory dev.open-bio.org:/tmp/cvs-serv23161/images

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui/images added to the repository

moby-live/Java/src/config/inb/mobycentralgui/images - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui/images/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui/images/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui/images/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 06:40:49 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:40:49 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171140.nBHBenN6023316@dev.open-bio.org>


drepchevski
Thu Dec 17 06:40:49 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui/images
In directory dev.open-bio.org:/tmp/cvs-serv23226/src/config/inb/mobycentralgui/images

Added Files:
	add.png delete.png moby_datatypes.png moby_services.png 
	reload.png save.png 
Log Message:

moby-live/Java/src/config/inb/mobycentralgui/images add.png,NONE,1.1 delete.png,NONE,1.1 moby_datatypes.png,NONE,1.1 moby_services.png,NONE,1.1 reload.png,NONE,1.1 save.png,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 06:40:49 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:40:49 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171140.nBHBenuF023350@dev.open-bio.org>


drepchevski
Thu Dec 17 06:40:49 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/dnd
In directory dev.open-bio.org:/tmp/cvs-serv23226/src/main/org/inb/biomoby/central/gui/dnd

Added Files:
	ObjectTypeTransferHandler.java ObjectTypeTransferable.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/central/gui/dnd ObjectTypeTransferHandler.java,NONE,1.1 ObjectTypeTransferable.java,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 06:40:49 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:40:49 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171140.nBHBenoZ023302@dev.open-bio.org>


drepchevski
Thu Dec 17 06:40:49 EST 2009
Update of /home/repository/moby/moby-live/Java/xmls
In directory dev.open-bio.org:/tmp/cvs-serv23226/xmls

Modified Files:
	inbMoby.xml 
Log Message:

moby-live/Java/xmls inbMoby.xml,1.5,1.6
===================================================================
RCS file: /home/repository/moby/moby-live/Java/xmls/inbMoby.xml,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/16 15:24:23	1.5
+++ /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/17 11:40:49	1.6
@@ -13,6 +13,7 @@
 <property name="inb.core.jar" value="MobyCore.jar"/>
 <property name="inb.central.jar" value="MobyCentral.jar"/>
 <property name="inb.central.model.jar" value="MobyCentralModel.jar"/>
+<property name="inb.central.gui.jar" value="MobyGUIComponents.jar"/>
 
 <!-- ================================================================== -->
 <!-- Initialize (whatever needs to be done)                             -->
@@ -51,7 +52,7 @@
 <!-- Build INB MobyCentralModel                                              -->
 <!-- ================================================================== -->
 <target name="build-central-model" depends="build-central, inb-central-model-compile"
-  description="Build MobyCentral">
+  description="Build MobyCentralModel">
 
   <property name="released.date" value="${TODAY_SHORT}"/>
   <jar destfile="${build.lib}/${inb.central.model.jar}">
@@ -64,6 +65,23 @@
   </jar>
 </target>
 
+<!-- ================================================================== -->
+<!-- Build INB MobyGUIComponents                                        -->
+<!-- ================================================================== -->
+<target name="build-central-gui" depends="build-central-model, inb-central-gui-compile"
+  description="Build MobyGUIComponents">
+
+  <property name="released.date" value="${TODAY_SHORT}"/>
+  <jar destfile="${build.lib}/${inb.central.gui.jar}">
+    <manifest>
+      <attribute name="Built-By"      value="${user.name}"/>
+      <attribute name="Released-Date" value="${released.date}"/>
+    </manifest>
+    <fileset dir="${inb.config.dir}/mobycentralgui"/>
+    <fileset dir="${build.inb.model.gui}"/>
+  </jar>
+</target>
+
   <!-- ================================================================== -->
   <!-- Compiles inb core source                                           -->
   <!-- ================================================================== -->
@@ -121,7 +139,7 @@
   </target>
 
   <!-- ================================================================== -->
-  <!-- Compiles inb central source                                        -->
+  <!-- Compiles inb central model source                                        -->
   <!-- ================================================================== -->
   <target name="inb-central-model-compile" depends="inb-init"
     description="Compile all inb central model source code">
@@ -149,3 +167,33 @@
       <compilerarg value="${xlint.param}"/>
     </javac>
   </target>
+
+  <!-- ================================================================== -->
+  <!-- Compiles inb central model source                                        -->
+  <!-- ================================================================== -->
+  <target name="inb-central-gui-compile" depends="inb-init"
+    description="Compile all inb central gui components source code">
+
+    <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
+      <istrue value="${compile.warnings}"/>
+    </condition>
+
+    <javac
+      sourcepath=""
+      srcdir="${src.main}"
+      destdir="${build.inb.model.gui}"
+      classpath="${build.lib}/${inb.core.jar};${build.lib}/${inb.central.jar};;${build.lib}/${inb.central.model.jar};"
+      verbose="${compile.verbose}"
+      debug="${compile.debug}"
+      debuglevel="lines,vars,source"
+      deprecation="${compile.deprecation}"
+      optimize="${compile.optimize}"
+      includes="org/inb/swing/*,org/inb/biomoby/central/gui/*,org/inb/biomoby/central/gui/dnd/*,org/inb/biomoby/central/gui/model/*,org/inb/biomoby/central/gui/renderer/*"
+      excludes="org/inb/biomoby/shared/*">
+      
+      <classpath refid="build.classpath"/>
+      <classpath refid="dependency.classpath"/>
+      
+      <compilerarg value="${xlint.param}"/>
+    </javac>
+  </target>


From drepchevski at dev.open-bio.org  Thu Dec 17 06:40:49 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:40:49 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171140.nBHBen1t023332@dev.open-bio.org>


drepchevski
Thu Dec 17 06:40:49 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui
In directory dev.open-bio.org:/tmp/cvs-serv23226/src/main/org/inb/biomoby/central/gui

Added Files:
	AbstractEntityTreePanel.java 
	AbstractMobyDatatypesTreePanel.java 
	AbstractMobyObjectPropertyTable.java 
	AbstractMobyPropertyTable.java 
	AbstractMobyServicesTreePanel.java MobyPropertyTable.java 
	ObjectTypeAnnotationPanel.java RegistryComboBox.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/central/gui AbstractEntityTreePanel.java,NONE,1.1 AbstractMobyDatatypesTreePanel.java,NONE,1.1 AbstractMobyObjectPropertyTable.java,NONE,1.1 AbstractMobyPropertyTable.java,NONE,1.1 AbstractMobyServicesTreePanel.java,NONE,1.1 MobyPropertyTable.java,NONE,1.1 ObjectTypeAnnotationPanel.java,NONE,1.1 RegistryComboBox.java,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 06:40:49 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:40:49 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171140.nBHBenhC023383@dev.open-bio.org>


drepchevski
Thu Dec 17 06:40:49 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/model
In directory dev.open-bio.org:/tmp/cvs-serv23226/src/main/org/inb/biomoby/central/gui/model

Added Files:
	AbstractEntityTreeNode.java DataTypesTreeModel.java 
	MobyObjectPropertiesTableModel.java 
	MobyPropertiesTableModel.java RegistryComboBoxModel.java 
	ServicesTreeModel.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/central/gui/model AbstractEntityTreeNode.java,NONE,1.1 DataTypesTreeModel.java,NONE,1.1 MobyObjectPropertiesTableModel.java,NONE,1.1 MobyPropertiesTableModel.java,NONE,1.1 RegistryComboBoxModel.java,NONE,1.1 ServicesTreeModel.java,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 06:40:50 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:40:50 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171140.nBHBeo7t023403@dev.open-bio.org>


drepchevski
Thu Dec 17 06:40:49 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/renderer
In directory dev.open-bio.org:/tmp/cvs-serv23226/src/main/org/inb/biomoby/central/gui/renderer

Added Files:
	AbstractCellRenderer.java AbstractTableCellRenderer.java 
	AbstractTreeCellRenderer.java CardinalityTableCellEditor.java 
	CardinalityTableCellRenderer.java ClassNameTreeCellEditor.java 
	EntityTreeCellRenderer.java MobyNameCellEditor.java 
	ObjectTypeListCellRenderer.java ObjectTypeTableCellEditor.java 
	ObjectTypeTableCellRenderer.java 
	PropertyNameTableCellEditor.java 
	PropertyNameTableCellRenderer.java 
	PropertyTableCellRenderer.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/central/gui/renderer AbstractCellRenderer.java,NONE,1.1 AbstractTableCellRenderer.java,NONE,1.1 AbstractTreeCellRenderer.java,NONE,1.1 CardinalityTableCellEditor.java,NONE,1.1 CardinalityTableCellRenderer.java,NONE,1.1 ClassNameTreeCellEditor.java,NONE,1.1 EntityTreeCellRenderer.java,NONE,1.1 MobyNameCellEditor.java,NONE,1.1 ObjectTypeListCellRenderer.java,NONE,1.1 ObjectTypeTableCellEditor.java,NONE,1.1 ObjectTypeTableCellRenderer.java,NONE,1.1 PropertyNameTableCellEditor.java,NONE,1.1 PropertyNameTableCellRenderer.java,NONE,1.1 PropertyTableCellRenderer.java,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 06:40:49 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:40:49 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171140.nBHBenAC023281@dev.open-bio.org>


drepchevski
Thu Dec 17 06:40:49 EST 2009
Update of /home/repository/moby/moby-live/Java
In directory dev.open-bio.org:/tmp/cvs-serv23226

Modified Files:
	build.xml 
Log Message:

moby-live/Java build.xml,1.78,1.79
===================================================================
RCS file: /home/repository/moby/moby-live/Java/build.xml,v
retrieving revision 1.78
retrieving revision 1.79
diff -u -r1.78 -r1.79
--- /home/repository/moby/moby-live/Java/build.xml	2009/12/16 14:25:47	1.78
+++ /home/repository/moby/moby-live/Java/build.xml	2009/12/17 11:40:49	1.79
@@ -184,6 +184,7 @@
     <mkdir dir="${build.inb.core}"/>
     <mkdir dir="${build.inb.central}"/>
     <mkdir dir="${build.inb.model}"/>
+    <mkdir dir="${build.inb.model.gui}"/>
     
     <!-- Create .cvsignore files -->
     <!-- [TBD: How can I do this by traversing directory tree automatically?] -->


From drepchevski at dev.open-bio.org  Thu Dec 17 07:00:01 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 07:00:01 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171200.nBHC01nc023635@dev.open-bio.org>


drepchevski
Thu Dec 17 07:00:01 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/swing
In directory dev.open-bio.org:/tmp/cvs-serv23604

Added Files:
	DecoratedJScrollPane.java ImageLoader.java LabelButton.java 
	RegExDocumentFilter.java StatusBar.java 
Log Message:

moby-live/Java/src/main/org/inb/swing DecoratedJScrollPane.java,NONE,1.1 ImageLoader.java,NONE,1.1 LabelButton.java,NONE,1.1 RegExDocumentFilter.java,NONE,1.1 StatusBar.java,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 08:58:06 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:58:06 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171358.nBHDw6IJ025363@dev.open-bio.org>


drepchevski
Thu Dec 17 08:58:06 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/generator
In directory dev.open-bio.org:/tmp/cvs-serv25329/generator

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/generator added to the repository

moby-live/Java/src/config/inb/generator - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/generator/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/generator/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/generator/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 08:58:19 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:58:19 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171358.nBHDwJKe025405@dev.open-bio.org>


drepchevski
Thu Dec 17 08:58:19 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/generator/resources
In directory dev.open-bio.org:/tmp/cvs-serv25371/resources

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/generator/resources added to the repository

moby-live/Java/src/config/inb/generator/resources - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/generator/resources/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/generator/resources/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/generator/resources/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 08:58:52 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:58:52 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171358.nBHDwq53025489@dev.open-bio.org>


drepchevski
Thu Dec 17 08:58:51 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore
In directory dev.open-bio.org:/tmp/cvs-serv25455/mobycore

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore added to the repository

moby-live/Java/src/config/inb/mobycore - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 08:59:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:59:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171359.nBHDx3LH025531@dev.open-bio.org>


drepchevski
Thu Dec 17 08:59:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org
In directory dev.open-bio.org:/tmp/cvs-serv25497/org

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org added to the repository

moby-live/Java/src/config/inb/mobycore/org - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 08:59:13 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:59:13 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171359.nBHDxDjg025573@dev.open-bio.org>


drepchevski
Thu Dec 17 08:59:13 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb
In directory dev.open-bio.org:/tmp/cvs-serv25539/inb

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 08:59:25 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:59:25 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171359.nBHDxPav025632@dev.open-bio.org>


drepchevski
Thu Dec 17 08:59:25 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/lsae
In directory dev.open-bio.org:/tmp/cvs-serv25581/lsae

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/lsae added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/lsae - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/lsae/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/lsae/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/lsae/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 08:59:35 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:59:35 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171359.nBHDxZxu025699@dev.open-bio.org>


drepchevski
Thu Dec 17 08:59:35 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared
In directory dev.open-bio.org:/tmp/cvs-serv25665/shared

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 08:59:25 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:59:25 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171359.nBHDxP4S025615@dev.open-bio.org>


drepchevski
Thu Dec 17 08:59:25 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby
In directory dev.open-bio.org:/tmp/cvs-serv25581/biomoby

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/biomoby - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 08:59:25 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:59:25 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171359.nBHDxPkc025651@dev.open-bio.org>


drepchevski
Thu Dec 17 08:59:25 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf
In directory dev.open-bio.org:/tmp/cvs-serv25581/wsrf

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/wsrf - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 08:59:50 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:59:50 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171359.nBHDxoxr025781@dev.open-bio.org>


drepchevski
Thu Dec 17 08:59:50 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/datatypes
In directory dev.open-bio.org:/tmp/cvs-serv25747/datatypes

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/datatypes added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/datatypes - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/datatypes/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/datatypes/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/datatypes/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 08:59:50 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:59:50 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171359.nBHDxohA025817@dev.open-bio.org>


drepchevski
Thu Dec 17 08:59:50 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/wsrf
In directory dev.open-bio.org:/tmp/cvs-serv25747/wsrf

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/wsrf added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/wsrf - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/wsrf/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/wsrf/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/wsrf/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 08:59:50 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:59:50 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171359.nBHDxoLS025798@dev.open-bio.org>


drepchevski
Thu Dec 17 08:59:50 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/message
In directory dev.open-bio.org:/tmp/cvs-serv25747/message

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/message added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/message - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/message/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/message/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/message/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:00:48 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:00:48 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171400.nBHE0mqm025928@dev.open-bio.org>


drepchevski
Thu Dec 17 09:00:48 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/bf2
In directory dev.open-bio.org:/tmp/cvs-serv25894/bf2

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/bf2 added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/bf2 - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/bf2/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/bf2/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/bf2/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:00:48 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:00:48 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171400.nBHE0m9u025964@dev.open-bio.org>


drepchevski
Thu Dec 17 09:00:48 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rl2
In directory dev.open-bio.org:/tmp/cvs-serv25894/rl2

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rl2 added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rl2 - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rl2/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rl2/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rl2/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:00:48 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:00:48 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171400.nBHE0mgs025985@dev.open-bio.org>


drepchevski
Thu Dec 17 09:00:48 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rp2
In directory dev.open-bio.org:/tmp/cvs-serv25894/rp2

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rp2 added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rp2 - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rp2/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rp2/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rp2/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:00:48 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:00:48 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171400.nBHE0mNQ025945@dev.open-bio.org>


drepchevski
Thu Dec 17 09:00:48 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/r2
In directory dev.open-bio.org:/tmp/cvs-serv25894/r2

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/r2 added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/r2 - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/r2/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/r2/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/r2/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:02:22 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:02:22 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171402.nBHE2MUu026140@dev.open-bio.org>


drepchevski
Thu Dec 17 09:02:22 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org
In directory dev.open-bio.org:/tmp/cvs-serv26106/org

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org added to the repository

moby-live/Java/src/config/inb/mobycentral/org - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:02:32 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:02:32 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171402.nBHE2Wo2026182@dev.open-bio.org>


drepchevski
Thu Dec 17 09:02:31 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb
In directory dev.open-bio.org:/tmp/cvs-serv26148/inb

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb added to the repository

moby-live/Java/src/config/inb/mobycentral/org/inb - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:02:41 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:02:41 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171402.nBHE2fuX026224@dev.open-bio.org>


drepchevski
Thu Dec 17 09:02:41 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby
In directory dev.open-bio.org:/tmp/cvs-serv26190/biomoby

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby added to the repository

moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:02:55 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:02:55 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171402.nBHE2t95026266@dev.open-bio.org>


drepchevski
Thu Dec 17 09:02:55 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central
In directory dev.open-bio.org:/tmp/cvs-serv26232/central

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central added to the repository

moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:03:04 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:03:04 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171403.nBHE348D026308@dev.open-bio.org>


drepchevski
Thu Dec 17 09:03:04 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory
In directory dev.open-bio.org:/tmp/cvs-serv26274/factory

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory added to the repository

moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:03:14 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:03:14 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171403.nBHE3EGd026350@dev.open-bio.org>


drepchevski
Thu Dec 17 09:03:14 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb
In directory dev.open-bio.org:/tmp/cvs-serv26316/jaxb

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb added to the repository

moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:03:23 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:03:23 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171403.nBHE3Nuj026392@dev.open-bio.org>


drepchevski
Thu Dec 17 09:03:23 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/registry
In directory dev.open-bio.org:/tmp/cvs-serv26358/registry

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/registry added to the repository

moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/registry - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/registry/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/registry/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/registry/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:04:04 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:04:04 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171404.nBHE44Ah026455@dev.open-bio.org>


drepchevski
Thu Dec 17 09:04:04 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/util
In directory dev.open-bio.org:/tmp/cvs-serv26421/util

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/util added to the repository

moby-live/Java/src/main/org/inb/util - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/util/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/util/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/util/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:04:48 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:04:48 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171404.nBHE4mv3026520@dev.open-bio.org>


drepchevski
Thu Dec 17 09:04:47 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator
In directory dev.open-bio.org:/tmp/cvs-serv26486/generator

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator added to the repository

moby-live/Java/src/main/org/inb/biomoby/generator - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:05:00 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:05:00 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171405.nBHE50NK026600@dev.open-bio.org>


drepchevski
Thu Dec 17 09:05:00 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui
In directory dev.open-bio.org:/tmp/cvs-serv26566/gui

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui added to the repository

moby-live/Java/src/main/org/inb/biomoby/generator/gui - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:05:12 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:05:12 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171405.nBHE5CCJ026759@dev.open-bio.org>


drepchevski
Thu Dec 17 09:05:12 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui/worker
In directory dev.open-bio.org:/tmp/cvs-serv26725/worker

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui/worker added to the repository

moby-live/Java/src/main/org/inb/biomoby/generator/gui/worker - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui/worker/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui/worker/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui/worker/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE63fU026873@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/registry
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/registry

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/registry jaxb.index,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 09:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE632F026823@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java
In directory dev.open-bio.org:/tmp/cvs-serv26788

Modified Files:
	build.xml 
Log Message:

moby-live/Java build.xml,1.79,1.80
===================================================================
RCS file: /home/repository/moby/moby-live/Java/build.xml,v
retrieving revision 1.79
retrieving revision 1.80
diff -u -r1.79 -r1.80
--- /home/repository/moby/moby-live/Java/build.xml	2009/12/17 11:40:49	1.79
+++ /home/repository/moby/moby-live/Java/build.xml	2009/12/17 14:06:03	1.80
@@ -185,6 +185,7 @@
     <mkdir dir="${build.inb.central}"/>
     <mkdir dir="${build.inb.model}"/>
     <mkdir dir="${build.inb.model.gui}"/>
+    <mkdir dir="${build.inb.generator}"/>
     
     <!-- Create .cvsignore files -->
     <!-- [TBD: How can I do this by traversing directory tree automatically?] -->


From drepchevski at dev.open-bio.org  Thu Dec 17 09:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE6342026857@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/generator/resources
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/generator/resources

Added Files:
	datatype.xsl ejb3.xsl ejb3local.xsl package-info.clazz 
	package-info.txt services.xsl template.wsdl 
Log Message:

moby-live/Java/src/config/inb/generator/resources datatype.xsl,NONE,1.1 ejb3.xsl,NONE,1.1 ejb3local.xsl,NONE,1.1 package-info.clazz,NONE,1.1 package-info.txt,NONE,1.1 services.xsl,NONE,1.1 template.wsdl,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 09:06:04 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:04 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE64td027093@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:04 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/util
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/main/org/inb/util

Added Files:
	CompilerProvider.java MemoryFileManager.java 
	TemplateInputStream.java 
Log Message:

moby-live/Java/src/main/org/inb/util CompilerProvider.java,NONE,1.1 MemoryFileManager.java,NONE,1.1 TemplateInputStream.java,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 09:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE63qT026843@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/xmls
In directory dev.open-bio.org:/tmp/cvs-serv26788/xmls

Modified Files:
	inbMoby.xml 
Log Message:

moby-live/Java/xmls inbMoby.xml,1.6,1.7
===================================================================
RCS file: /home/repository/moby/moby-live/Java/xmls/inbMoby.xml,v
retrieving revision 1.6
retrieving revision 1.7
diff -u -r1.6 -r1.7
--- /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/17 11:40:49	1.6
+++ /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/17 14:06:03	1.7
@@ -14,6 +14,7 @@
 <property name="inb.central.jar" value="MobyCentral.jar"/>
 <property name="inb.central.model.jar" value="MobyCentralModel.jar"/>
 <property name="inb.central.gui.jar" value="MobyGUIComponents.jar"/>
+<property name="inb.generator.jar" value="MobyGenerator.jar"/>
 
 <!-- ================================================================== -->
 <!-- Initialize (whatever needs to be done)                             -->
@@ -27,8 +28,10 @@
 <!-- ================================================================== -->
 <target name="build-core" depends="inb-core-compile"
   description="Build MobyCore">
-<jar destfile="${build.lib}/${inb.core.jar}">
+  <jar destfile="${build.lib}/${inb.core.jar}">
+
     <fileset dir="${build.inb.core}"/>
+    <fileset dir="${inb.config.dir}/mobycore"/>
   </jar>
 </target>
 
@@ -82,6 +85,25 @@
   </jar>
 </target>
 
+<!-- ================================================================== -->
+<!-- Build INB MobyGenerator                                            -->
+<!-- ================================================================== -->
+<target name="build-generator" depends="build-central-gui, inb-generator-compile"
+  description="Build MobyGenerator">
+
+  <property name="released.date" value="${TODAY_SHORT}"/>
+  <jar destfile="${build.lib}/${inb.generator.jar}">
+    <manifest>
+      <attribute name="Built-By"      value="${user.name}"/>
+      <attribute name="Released-Date" value="${released.date}"/>
+      <attribute name="Class-Path" value="MobyCore.jar MobyCentral.jar MobyCentralModel.jar MobyGUIComponents.jar"/> 
+      <attribute name="Main-Class" value="org.inb.biomoby.generator.gui.Main"/>
+    </manifest>
+    <fileset dir="${inb.config.dir}/generator"/>
+    <fileset dir="${build.inb.generator}"/>
+  </jar>
+</target>
+
   <!-- ================================================================== -->
   <!-- Compiles inb core source                                           -->
   <!-- ================================================================== -->
@@ -197,3 +219,33 @@
       <compilerarg value="${xlint.param}"/>
     </javac>
   </target>
+
+  <!-- ================================================================== -->
+  <!-- Compiles inb central model source                                        -->
+  <!-- ================================================================== -->
+  <target name="inb-generator-compile" depends="inb-init"
+    description="Compile generator applet source code">
+
+    <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
+      <istrue value="${compile.warnings}"/>
+    </condition>
+
+    <javac
+      sourcepath=""
+      srcdir="${src.main}"
+      destdir="${build.inb.generator}"
+      classpath="${build.lib}/${inb.core.jar};${build.lib}/${inb.central.jar};${build.lib}/${inb.central.model.jar};${build.lib}/${inb.central.gui.jar};"
+      verbose="${compile.verbose}"
+      debug="${compile.debug}"
+      debuglevel="lines,vars,source"
+      deprecation="${compile.deprecation}"
+      optimize="${compile.optimize}"
+      includes="org/inb/util/*,org/inb/biomoby/generator/*,org/inb/biomoby/generator/gui/*,org/inb/biomoby/generator/gui/worker/*"
+      excludes="org/inb/biomoby/shared/*">
+      
+      <classpath refid="build.classpath"/>
+      <classpath refid="dependency.classpath"/>
+      
+      <compilerarg value="${xlint.param}"/>
+    </javac>
+  </target>


From drepchevski at dev.open-bio.org  Thu Dec 17 09:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE63Dk026945@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/lsae
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/mobycore/org/inb/lsae

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/mobycore/org/inb/lsae jaxb.index,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 09:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE635l026891@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/datatypes
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/mobycore/org/inb/biomoby/shared/datatypes

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/datatypes jaxb.index,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 09:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE63jO026911@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/message
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/mobycore/org/inb/biomoby/shared/message

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/message jaxb.index,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 09:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE636m026979@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/r2
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/mobycore/org/inb/wsrf/r2

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/r2 jaxb.index,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 09:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE63ni026927@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/wsrf
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/mobycore/org/inb/biomoby/shared/wsrf

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/wsrf jaxb.index,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 09:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE6381026959@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/bf2
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/mobycore/org/inb/wsrf/bf2

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/bf2 jaxb.index,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 09:27:30 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:27:30 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171427.nBHERUg6027611@dev.open-bio.org>


drepchevski
Thu Dec 17 09:27:30 EST 2009
Update of /home/repository/moby/moby-live/Java
In directory dev.open-bio.org:/tmp/cvs-serv27576

Modified Files:
	build.xml 
Log Message:

moby-live/Java build.xml,1.80,1.81
===================================================================
RCS file: /home/repository/moby/moby-live/Java/build.xml,v
retrieving revision 1.80
retrieving revision 1.81
diff -u -r1.80 -r1.81
--- /home/repository/moby/moby-live/Java/build.xml	2009/12/17 14:06:03	1.80
+++ /home/repository/moby/moby-live/Java/build.xml	2009/12/17 14:27:30	1.81
@@ -65,18 +65,21 @@
   <property name="dir.generated" location="${project.home}/generated"/>
     
   <!-- Temporary build directories -->
-  <property name="build.dir"         location="build"/>
-  <property name="build.classes"     location="${build.dir}/classes"/>
-  <property name="build.lib"         location="${build.dir}/lib"/>
-  <property name="build.clients"     location="${build.dir}/Clients"/>
-  <property name="build.servlets"    location="${build.dir}/registry_servlets"/>
-  <property name="build.webapps"     location="${build.dir}/webapps/jmoby"/>
-  <property name="build.run"         location="${build.dir}/run"/>
-  <property name="build.others"      location="${build.dir}/others"/>
-  <property name="build.test"        location="${build.dir}/test"/>
-  <property name="build.inb.central" location="${build.dir}/inb/central"/>
-  <property name="build.inb.model" location="${build.dir}/inb/model"/>
-  <property name="build.inb.core"    location="${build.dir}/inb/core"/>
+  <property name="build.dir"             location="build"/>
+  <property name="build.classes"         location="${build.dir}/classes"/>
+  <property name="build.lib"             location="${build.dir}/lib"/>
+  <property name="build.clients"         location="${build.dir}/Clients"/>
+  <property name="build.servlets"        location="${build.dir}/registry_servlets"/>
+  <property name="build.webapps"         location="${build.dir}/webapps/jmoby"/>
+  <property name="build.run"             location="${build.dir}/run"/>
+  <property name="build.others"          location="${build.dir}/others"/>
+  <property name="build.test"            location="${build.dir}/test"/>
+  <property name="build.inb.central"     location="${build.dir}/inb/central"/>
+  <property name="build.inb.core"        location="${build.dir}/inb/core"/>
+  <property name="build.inb.model"       location="${build.dir}/inb/model"/>
+  <property name="build.inb.model.gui"   location="${build.dir}/inb/modelgui"/>
+  <property name="build.inb.generator"   location="${build.dir}/inb/generator"/>
+
   <!-- log4j properties -->
   <property name="log4j.configuration"  location="${build.classes}/log4j.properties"/>
   


From drepchevski at dev.open-bio.org  Thu Dec 17 09:27:30 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:27:30 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171427.nBHERULH027626@dev.open-bio.org>


drepchevski
Thu Dec 17 09:27:30 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/factory/jaxb/registry
In directory dev.open-bio.org:/tmp/cvs-serv27576/src/main/org/inb/biomoby/central/factory/jaxb/registry

Removed Files:
	jaxb.index 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/central/factory/jaxb/registry jaxb.index,1.1,NONE
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/factory/jaxb/registry/RCS/jaxb.index,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:27:30 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:27:30 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171427.nBHERUqK027704@dev.open-bio.org>


drepchevski
Thu Dec 17 09:27:30 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/lsae
In directory dev.open-bio.org:/tmp/cvs-serv27576/src/main/org/inb/lsae

Removed Files:
	jaxb.index 
Log Message:

moby-live/Java/src/main/org/inb/lsae jaxb.index,1.1,NONE
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/lsae/RCS/jaxb.index,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:27:31 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:27:31 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171427.nBHERVjO027736@dev.open-bio.org>


drepchevski
Thu Dec 17 09:27:31 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/wsrf/rl2
In directory dev.open-bio.org:/tmp/cvs-serv27576/src/main/org/inb/wsrf/rl2

Removed Files:
	jaxb.index 
Log Message:

moby-live/Java/src/main/org/inb/wsrf/rl2 jaxb.index,1.1,NONE
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/wsrf/rl2/RCS/jaxb.index,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:27:31 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:27:31 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171427.nBHERVpQ027751@dev.open-bio.org>


drepchevski
Thu Dec 17 09:27:31 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/wsrf/rp2
In directory dev.open-bio.org:/tmp/cvs-serv27576/src/main/org/inb/wsrf/rp2

Removed Files:
	jaxb.index 
Log Message:

moby-live/Java/src/main/org/inb/wsrf/rp2 jaxb.index,1.1,NONE
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/wsrf/rp2/RCS/jaxb.index,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:27:31 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:27:31 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171427.nBHERVvW027719@dev.open-bio.org>


drepchevski
Thu Dec 17 09:27:31 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/wsrf/r2
In directory dev.open-bio.org:/tmp/cvs-serv27576/src/main/org/inb/wsrf/r2

Removed Files:
	jaxb.index 
Log Message:

moby-live/Java/src/main/org/inb/wsrf/r2 jaxb.index,1.1,NONE
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/wsrf/r2/RCS/jaxb.index,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:27:30 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:27:30 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171427.nBHERULj027656@dev.open-bio.org>


drepchevski
Thu Dec 17 09:27:30 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/message
In directory dev.open-bio.org:/tmp/cvs-serv27576/src/main/org/inb/biomoby/shared/message

Removed Files:
	jaxb.index 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/shared/message jaxb.index,1.1,NONE
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/message/RCS/jaxb.index,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:27:30 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:27:30 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171427.nBHERU2m027677@dev.open-bio.org>


drepchevski
Thu Dec 17 09:27:30 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/wsrf
In directory dev.open-bio.org:/tmp/cvs-serv27576/src/main/org/inb/biomoby/shared/wsrf

Removed Files:
	jaxb.index 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/shared/wsrf jaxb.index,1.1,NONE
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/wsrf/RCS/jaxb.index,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:27:30 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:27:30 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171427.nBHERUKO027641@dev.open-bio.org>


drepchevski
Thu Dec 17 09:27:30 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/datatypes
In directory dev.open-bio.org:/tmp/cvs-serv27576/src/main/org/inb/biomoby/shared/datatypes

Removed Files:
	jaxb.index 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/shared/datatypes jaxb.index,1.1,NONE
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/datatypes/RCS/jaxb.index,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 09:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE632w026993@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rl2
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/mobycore/org/inb/wsrf/rl2

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rl2 jaxb.index,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 09:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE6328027015@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rp2
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/mobycore/org/inb/wsrf/rp2

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rp2 jaxb.index,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 09:06:04 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:04 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE6471027073@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui/worker
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/main/org/inb/biomoby/generator/gui/worker

Added Files:
	DatatypesGenerationWorker.java 
	ServiceAccessorGenerationWorker.java 
	ServicesGenerationWorker.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/generator/gui/worker DatatypesGenerationWorker.java,NONE,1.1 ServiceAccessorGenerationWorker.java,NONE,1.1 ServicesGenerationWorker.java,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 09:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE63t1027035@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/main/org/inb/biomoby/generator

Added Files:
	DatatypeGenerator.java GeneratorUtil.java 
	ServiceAccessorGenerator.java ServiceGenerator.java 
	TemplateFilter.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/generator DatatypeGenerator.java,NONE,1.1 GeneratorUtil.java,NONE,1.1 ServiceAccessorGenerator.java,NONE,1.1 ServiceGenerator.java,NONE,1.1 TemplateFilter.java,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 09:06:04 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:04 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE64be027053@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/main/org/inb/biomoby/generator/gui

Added Files:
	AbstractServiceModelPanel.java DatatypesGeneratorPanel.java 
	Main.java MainPanel.java ServiceAccessorGeneratorPanel.java 
	ServicesGeneratorPanel.java StatusBarHandler.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/generator/gui AbstractServiceModelPanel.java,NONE,1.1 DatatypesGeneratorPanel.java,NONE,1.1 Main.java,NONE,1.1 MainPanel.java,NONE,1.1 ServiceAccessorGeneratorPanel.java,NONE,1.1 ServicesGeneratorPanel.java,NONE,1.1 StatusBarHandler.java,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 11:49:35 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 11:49:35 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171649.nBHGnZgu029645@dev.open-bio.org>


drepchevski
Thu Dec 17 11:49:35 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service
In directory dev.open-bio.org:/tmp/cvs-serv29611/service

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service added to the repository

moby-live/Java/src/main/org/inb/biomoby/service - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 11:49:47 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 11:49:47 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171649.nBHGnlEi029687@dev.open-bio.org>


drepchevski
Thu Dec 17 11:49:47 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service/resolver
In directory dev.open-bio.org:/tmp/cvs-serv29653/resolver

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service/resolver added to the repository

moby-live/Java/src/main/org/inb/biomoby/service/resolver - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service/resolver/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service/resolver/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service/resolver/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Thu Dec 17 12:21:05 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 12:21:05 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171721.nBHHL5RY030210@dev.open-bio.org>


drepchevski
Thu Dec 17 12:21:05 EST 2009
Update of /home/repository/moby/moby-live/Java
In directory dev.open-bio.org:/tmp/cvs-serv30175

Modified Files:
	build.xml 
Log Message:

moby-live/Java build.xml,1.81,1.82
===================================================================
RCS file: /home/repository/moby/moby-live/Java/build.xml,v
retrieving revision 1.81
retrieving revision 1.82
diff -u -r1.81 -r1.82
--- /home/repository/moby/moby-live/Java/build.xml	2009/12/17 14:27:30	1.81
+++ /home/repository/moby/moby-live/Java/build.xml	2009/12/17 17:21:05	1.82
@@ -65,20 +65,21 @@
   <property name="dir.generated" location="${project.home}/generated"/>
     
   <!-- Temporary build directories -->
-  <property name="build.dir"             location="build"/>
-  <property name="build.classes"         location="${build.dir}/classes"/>
-  <property name="build.lib"             location="${build.dir}/lib"/>
-  <property name="build.clients"         location="${build.dir}/Clients"/>
-  <property name="build.servlets"        location="${build.dir}/registry_servlets"/>
-  <property name="build.webapps"         location="${build.dir}/webapps/jmoby"/>
-  <property name="build.run"             location="${build.dir}/run"/>
-  <property name="build.others"          location="${build.dir}/others"/>
-  <property name="build.test"            location="${build.dir}/test"/>
-  <property name="build.inb.central"     location="${build.dir}/inb/central"/>
-  <property name="build.inb.core"        location="${build.dir}/inb/core"/>
-  <property name="build.inb.model"       location="${build.dir}/inb/model"/>
-  <property name="build.inb.model.gui"   location="${build.dir}/inb/modelgui"/>
-  <property name="build.inb.generator"   location="${build.dir}/inb/generator"/>
+  <property name="build.dir"              location="build"/>
+  <property name="build.classes"          location="${build.dir}/classes"/>
+  <property name="build.lib"              location="${build.dir}/lib"/>
+  <property name="build.clients"          location="${build.dir}/Clients"/>
+  <property name="build.servlets"         location="${build.dir}/registry_servlets"/>
+  <property name="build.webapps"          location="${build.dir}/webapps/jmoby"/>
+  <property name="build.run"              location="${build.dir}/run"/>
+  <property name="build.others"           location="${build.dir}/others"/>
+  <property name="build.test"             location="${build.dir}/test"/>
+  <property name="build.inb.central"      location="${build.dir}/inb/central"/>
+  <property name="build.inb.core"         location="${build.dir}/inb/core"/>
+  <property name="build.inb.core.service" location="${build.dir}/inb/coreservice"/>
+  <property name="build.inb.model"        location="${build.dir}/inb/model"/>
+  <property name="build.inb.model.gui"    location="${build.dir}/inb/modelgui"/>
+  <property name="build.inb.generator"    location="${build.dir}/inb/generator"/>
 
   <!-- log4j properties -->
   <property name="log4j.configuration"  location="${build.classes}/log4j.properties"/>
@@ -185,6 +186,7 @@
     <mkdir dir="${build.others}"/>
     <mkdir dir="${build.test}"/>
     <mkdir dir="${build.inb.core}"/>
+    <mkdir dir="${build.inb.core.service}"/>
     <mkdir dir="${build.inb.central}"/>
     <mkdir dir="${build.inb.model}"/>
     <mkdir dir="${build.inb.model.gui}"/>


From drepchevski at dev.open-bio.org  Thu Dec 17 12:21:05 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 12:21:05 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171721.nBHHL5QG030230@dev.open-bio.org>


drepchevski
Thu Dec 17 12:21:05 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/generator/resources
In directory dev.open-bio.org:/tmp/cvs-serv30175/src/config/inb/generator/resources

Modified Files:
	ejb3.xsl 
Log Message:

moby-live/Java/src/config/inb/generator/resources ejb3.xsl,1.1,1.2
===================================================================
RCS file: /home/repository/moby/moby-live/Java/src/config/inb/generator/resources/ejb3.xsl,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/src/config/inb/generator/resources/ejb3.xsl	2009/12/17 14:06:03	1.1
+++ /home/repository/moby/moby-live/Java/src/config/inb/generator/resources/ejb3.xsl	2009/12/17 17:21:05	1.2
@@ -20,7 +20,7 @@
 import org.inb.biomoby.shared.ontology.*;
 import org.inb.biomoby.shared.datatypes.*;
 import org.inb.biomoby.shared.message.*;
-import org.inb.biomoby.server.MobyProvider;
+import org.inb.biomoby.service.MobyProvider;
 
 @WebServiceProvider(serviceName="<xsl:value-of select='@clazz'/>", 
                     portName="<xsl:value-of select='@clazz'/>Port", 


From drepchevski at dev.open-bio.org  Thu Dec 17 12:21:06 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 12:21:06 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171721.nBHHL6fa030284@dev.open-bio.org>


drepchevski
Thu Dec 17 12:21:05 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service/resolver
In directory dev.open-bio.org:/tmp/cvs-serv30175/src/main/org/inb/biomoby/service/resolver

Added Files:
	MobyWSRFScope.java MobyWSRFScopeFeature.java 
	WSRFOperation.java WSRFResourceInstanceResolver.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/service/resolver MobyWSRFScope.java,NONE,1.1 MobyWSRFScopeFeature.java,NONE,1.1 WSRFOperation.java,NONE,1.1 WSRFResourceInstanceResolver.java,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 12:21:06 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 12:21:06 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171721.nBHHL69Y030268@dev.open-bio.org>


drepchevski
Thu Dec 17 12:21:05 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service
In directory dev.open-bio.org:/tmp/cvs-serv30175/src/main/org/inb/biomoby/service

Added Files:
	AbstractAsyncMobyImpl.java AbstractAsyncMobyService.java 
	IAsyncMobyImpl.java IAsyncMobyService.java MobyProvider.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/service AbstractAsyncMobyImpl.java,NONE,1.1 AbstractAsyncMobyService.java,NONE,1.1 IAsyncMobyImpl.java,NONE,1.1 IAsyncMobyService.java,NONE,1.1 MobyProvider.java,NONE,1.1

From drepchevski at dev.open-bio.org  Thu Dec 17 12:21:05 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 12:21:05 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171721.nBHHL5BV030252@dev.open-bio.org>


drepchevski
Thu Dec 17 12:21:05 EST 2009
Update of /home/repository/moby/moby-live/Java/xmls
In directory dev.open-bio.org:/tmp/cvs-serv30175/xmls

Modified Files:
	inbMoby.xml 
Log Message:

moby-live/Java/xmls inbMoby.xml,1.7,1.8
===================================================================
RCS file: /home/repository/moby/moby-live/Java/xmls/inbMoby.xml,v
retrieving revision 1.7
retrieving revision 1.8
diff -u -r1.7 -r1.8
--- /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/17 14:06:03	1.7
+++ /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/17 17:21:05	1.8
@@ -11,6 +11,7 @@
 
 <property name="inb.config.dir" location="${src.config}/inb"/>
 <property name="inb.core.jar" value="MobyCore.jar"/>
+<property name="inb.core.service.jar" value="MobyCoreService.jar"/>
 <property name="inb.central.jar" value="MobyCentral.jar"/>
 <property name="inb.central.model.jar" value="MobyCentralModel.jar"/>
 <property name="inb.central.gui.jar" value="MobyGUIComponents.jar"/>
@@ -36,6 +37,21 @@
 </target>
 
 <!-- ================================================================== -->
+<!-- Build INB MobyCoreService                                          -->
+<!-- ================================================================== -->
+<target name="build-core-service" depends="build-core, inb-core-service-compile"
+  description="Build MobyCoreService">
+  <property name="released.date" value="${TODAY_SHORT}"/>
+  <jar destfile="${build.lib}/${inb.core.service.jar}">
+    <manifest>
+      <attribute name="Built-By"      value="${user.name}"/>
+      <attribute name="Released-Date" value="${released.date}"/>
+    </manifest>
+    <fileset dir="${build.inb.core.service}"/>
+  </jar>
+</target>
+
+<!-- ================================================================== -->
 <!-- Build INB MobyCentral                                              -->
 <!-- ================================================================== -->
 <target name="build-central" depends="build-core, inb-central-compile"
@@ -221,7 +237,7 @@
   </target>
 
   <!-- ================================================================== -->
-  <!-- Compiles inb central model source                                        -->
+  <!-- Compiles inb generator utility source                              -->
   <!-- ================================================================== -->
   <target name="inb-generator-compile" depends="inb-init"
     description="Compile generator applet source code">
@@ -249,3 +265,33 @@
       <compilerarg value="${xlint.param}"/>
     </javac>
   </target>
+
+  <!-- ================================================================== -->
+  <!-- Compiles inb core server source                                    -->
+  <!-- ================================================================== -->
+  <target name="inb-core-service-compile" depends="inb-init"
+    description="Compile core service source code">
+
+    <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
+      <istrue value="${compile.warnings}"/>
+    </condition>
+
+    <javac
+      sourcepath=""
+      srcdir="${src.main}"
+      destdir="${build.inb.core.service}"
+      classpath="${build.lib}/${inb.core.jar}"
+      verbose="${compile.verbose}"
+      debug="${compile.debug}"
+      debuglevel="lines,vars,source"
+      deprecation="${compile.deprecation}"
+      optimize="${compile.optimize}"
+      includes="org/inb/biomoby/service/*,org/inb/biomoby/service/resolver/*"
+      excludes="org/inb/biomoby/shared/*">
+      
+      <classpath refid="build.classpath"/>
+      <classpath refid="dependency.classpath"/>
+      
+      <compilerarg value="${xlint.param}"/>
+    </javac>
+  </target>


From drepchevski at dev.open-bio.org  Thu Dec 17 13:05:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 13:05:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171805.nBHI53bK030925@dev.open-bio.org>


drepchevski
Thu Dec 17 13:05:03 EST 2009
Update of /home/repository/moby/moby-live/Java/docs
In directory dev.open-bio.org:/tmp/cvs-serv30886

Modified Files:
	inb_moby.html inb_moby_core.html 
Added Files:
	inb_moby_central_gui.html inb_moby_core_async_service.html 
	inb_moby_core_service.html inb_moby_generator.html 
Log Message:
some documentation added
moby-live/Java/docs inb_moby_central_gui.html,NONE,1.1 inb_moby_core_async_service.html,NONE,1.1 inb_moby_core_service.html,NONE,1.1 inb_moby_generator.html,NONE,1.1 inb_moby.html,1.4,1.5 inb_moby_core.html,1.3,1.4
===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/inb_moby.html,v
retrieving revision 1.4
retrieving revision 1.5
diff -u -r1.4 -r1.5
--- /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/12/16 17:42:25	1.4
+++ /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/12/17 18:05:03	1.5
@@ -68,11 +68,26 @@
   </p>
 
   <p>
+    <a href="inb_moby_core_service.html">MobyCoreSrevice</a> library helps developers to implement a BioMoby web services based on JAX-WS specification.
+    The library is built using an <span class="command"> ant build-core-service </span> command.
+  </p>
+
+  <p>
     <a href="inb_moby_central_model.html">MobyCentralModel</a> is an auxiliary library that provides a cache implementation for BioMoby Registry.
     The library can be built using <span class="command"> ant build-central-model </span> command.
   </p>
 
   <p>
+    Some developers could find interesting a <a href="inb_moby_central_gui.html">MobyGUIComponents</a> that is a set of Swing components to work with a BioMoby Registry.
+    To build the library use <span class="command"> ant build-central-gui </span> command.
+  </p>
+
+  <p>
+    <a href="inb_moby_core.html">MobyCore</a> can work with generated by <a href="inb_moby_generator.html">MobyGenerator</a> utility java ontology classes.
+    To create an utility library use <span class="command"> ant build-generator </span> command.
+  </p>
+
+  <p>
     Generated libraries could be found in
     <span class="command"> /moby-live/Java/build/lib/ </span> directory.
   </p>

===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/inb_moby_core.html,v
retrieving revision 1.3
retrieving revision 1.4
diff -u -r1.3 -r1.4
--- /home/repository/moby/moby-live/Java/docs/inb_moby_core.html	2009/10/16 12:18:46	1.3
+++ /home/repository/moby/moby-live/Java/docs/inb_moby_core.html	2009/12/17 18:05:03	1.4
@@ -135,8 +135,8 @@
   <h2> Generating JAXB-annotated ontology classes </h2>
 
   <p>
-    Even MobyCore may work without generated ontology classes, they facilitate a development.
-    Generated classes are nothing more than JAXB annotated beans with properties.
+    Even <span class="highlight">MobyCore</span> may work without generated ontology classes, they facilitate a development.
+    Generated by <a class="highlight" href="inb_moby_generator.html">MobyGenerator</a> classes are nothing more than JAXB annotated beans with properties.
 
   </p>
   


From drepchevski at dev.open-bio.org  Fri Dec 18 05:47:01 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:47:01 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181047.nBIAl1KF019730@dev.open-bio.org>


drepchevski
Fri Dec 18 05:47:01 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui
In directory dev.open-bio.org:/tmp/cvs-serv19696/gui

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui added to the repository

moby-live/Java/src/main/org/inb/biomoby/client/gui - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Fri Dec 18 05:47:21 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:47:21 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181047.nBIAlLR0019786@dev.open-bio.org>


drepchevski
Fri Dec 18 05:47:21 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/auxiliary
In directory dev.open-bio.org:/tmp/cvs-serv19750/auxiliary

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/auxiliary added to the repository

moby-live/Java/src/main/org/inb/biomoby/client/gui/auxiliary - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/auxiliary/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/auxiliary/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/auxiliary/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Fri Dec 18 05:47:22 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:47:22 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181047.nBIAlMMw019805@dev.open-bio.org>


drepchevski
Fri Dec 18 05:47:22 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/ontology
In directory dev.open-bio.org:/tmp/cvs-serv19750/ontology

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/ontology added to the repository

moby-live/Java/src/main/org/inb/biomoby/client/gui/ontology - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/ontology/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/ontology/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/ontology/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Fri Dec 18 05:47:22 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:47:22 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181047.nBIAlMl6019826@dev.open-bio.org>


drepchevski
Fri Dec 18 05:47:22 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing
In directory dev.open-bio.org:/tmp/cvs-serv19750/swing

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing added to the repository

moby-live/Java/src/main/org/inb/biomoby/client/gui/swing - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Fri Dec 18 05:48:37 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:48:37 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181048.nBIAmbFQ020000@dev.open-bio.org>


drepchevski
Fri Dec 18 05:48:36 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/border
In directory dev.open-bio.org:/tmp/cvs-serv19964/border

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/border added to the repository

moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/border - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/border/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/border/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/border/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Fri Dec 18 05:52:22 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:52:22 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181052.nBIAqMdv020206@dev.open-bio.org>


drepchevski
Fri Dec 18 05:52:22 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui
In directory dev.open-bio.org:/tmp/cvs-serv20171

Added Files:
	AbstractMobyComponent.java DefaultMobyComponent.java 
	DynamicMobyComponent.java IDynamicComponent.java 
	ISequenceCoordinateTransformer.java ISequenceDependent.java 
	ISequenceTransformer.java ITransformable.java 
	MobyMessageQueue.java SequenceTransformerBean.java 
	StringPainter.java Subsequence.java 
Log Message:
added inb biomoby swing visualizer components
moby-live/Java/src/main/org/inb/biomoby/client/gui AbstractMobyComponent.java,NONE,1.1 DefaultMobyComponent.java,NONE,1.1 DynamicMobyComponent.java,NONE,1.1 IDynamicComponent.java,NONE,1.1 ISequenceCoordinateTransformer.java,NONE,1.1 ISequenceDependent.java,NONE,1.1 ISequenceTransformer.java,NONE,1.1 ITransformable.java,NONE,1.1 MobyMessageQueue.java,NONE,1.1 SequenceTransformerBean.java,NONE,1.1 StringPainter.java,NONE,1.1 Subsequence.java,NONE,1.1

From drepchevski at dev.open-bio.org  Fri Dec 18 05:52:23 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:52:23 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181052.nBIAqNEI020236@dev.open-bio.org>


drepchevski
Fri Dec 18 05:52:23 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/ontology
In directory dev.open-bio.org:/tmp/cvs-serv20171/ontology

Added Files:
	AminoAcidSequenceComponent.java 
	AnnotatedAASequenceComponent.java 
	AnnotatedNASequenceComponent.java 
	AnnotatedStructureComponent.java AnnotationComponent.java 
	AnnotationHitsComponent.java 
	AntigenicAnnotatedAASequenceComponent.java 
	AntigenicReportComponent.java ArrayXYDataComponent.java 
	BlocksAnnotatedAASequenceComponent.java 
	CommentedAASequenceComponent.java 
	CommentedAASubsequenceComponent.java 
	CommentedNASequenceComponent.java DigestReportComponent.java 
	EquicktandemAnnotatedNASequenceComponent.java 
	EquicktandemReportComponent.java 
	FeatureAASequenceComponent.java 
	FeatureAnnotatedAASequenceComponent.java 
	FeatureAnnotationComponent.java GenericSequenceComponent.java 
	GenericSubsequenceComponent.java HMMPfam_ReportComponent.java 
	Image_EncodedComponent.java 
	InterProMotifAnnotatedAASequenceComponent.java 
	MobyComponentFactory.java MobyObjectComponent.java 
	MolWeightsAnnotatedAASequenceComponent.java 
	MotifAnnotatedAASequenceComponent.java 
	MotifMatrixComponent.java OMIMComponent.java 
	PDB__TextComponent.java PPSearchReportComponent.java 
	PatmatdbReportComponent.java PatmatmotifsReportComponent.java 
	PatternComponent.java Pepcoil_TextComponent.java 
	PepinfoReportComponent.java Pepstats_TextComponent.java 
	PrositeMotifComponent.java 
	RestrictAnnotatedNASequenceComponent.java 
	RestrictReportComponent.java RulesComponent.java 
	ScoredMotifAnnotatedAASequenceComponent.java 
	Sequence_alignment_reportComponent.java 
	SigcleaveAnnotatedAASequenceComponent.java 
	SigcleaveReportComponent.java Stockholm_TextComponent.java 
	StructureBoundariesComponent.java 
	StructureDomainComponent.java StructureFragmentComponent.java 
	Text__formattedComponent.java Text__plainComponent.java 
	TransmembraneAnnotatedAASequenceComponent.java 
	TransmembraneReportComponent.java 
Log Message:
added inb biomoby swing visualizer components
moby-live/Java/src/main/org/inb/biomoby/client/gui/ontology AminoAcidSequenceComponent.java,NONE,1.1 AnnotatedAASequenceComponent.java,NONE,1.1 AnnotatedNASequenceComponent.java,NONE,1.1 AnnotatedStructureComponent.java,NONE,1.1 AnnotationComponent.java,NONE,1.1 AnnotationHitsComponent.java,NONE,1.1 AntigenicAnnotatedAASequenceComponent.java,NONE,1.1 AntigenicReportComponent.java,NONE,1.1 ArrayXYDataComponent.java,NONE,1.1 BlocksAnnotatedAASequenceComponent.java,NONE,1.1 CommentedAASequenceComponent.java,NONE,1.1 CommentedAASubsequenceComponent.java,NONE,1.1 CommentedNASequenceComponent.java,NONE,1.1 DigestReportComponent.java,NONE,1.1 EquicktandemAnnotatedNASequenceComponent.java,NONE,1.1 EquicktandemReportComponent.java,NONE,1.1 FeatureAASequenceComponent.java,NONE,1.1 FeatureAnnotatedAASequenceComponent.java,NONE,1.1 FeatureAnnotationComponent.java,NONE,1.1 GenericSequenceComponent.java,NONE,1.1 GenericSubsequenceComponent.java,NONE,1.1 HMMPfam_ReportComponent.java,NONE,1!
 .1 Image_EncodedComponent.java,NONE,1.1 InterProMotifAnnotatedAASequenceComponent.java,NONE,1.1 MobyComponentFactory.java,NONE,1.1 MobyObjectComponent.java,NONE,1.1 MolWeightsAnnotatedAASequenceComponent.java,NONE,1.1 MotifAnnotatedAASequenceComponent.java,NONE,1.1 MotifMatrixComponent.java,NONE,1.1 OMIMComponent.java,NONE,1.1 PDB__TextComponent.java,NONE,1.1 PPSearchReportComponent.java,NONE,1.1 PatmatdbReportComponent.java,NONE,1.1 PatmatmotifsReportComponent.java,NONE,1.1 PatternComponent.java,NONE,1.1 Pepcoil_TextComponent.java,NONE,1.1 PepinfoReportComponent.java,NONE,1.1 Pepstats_TextComponent.java,NONE,1.1 PrositeMotifComponent.java,NONE,1.1 RestrictAnnotatedNASequenceComponent.java,NONE,1.1 RestrictReportComponent.java,NONE,1.1 RulesComponent.java,NONE,1.1 ScoredMotifAnnotatedAASequenceComponent.java,NONE,1.1 Sequence_alignment_reportComponent.java,NONE,1.1 SigcleaveAnnotatedAASequenceComponent.java,NONE,1.1 SigcleaveReportComponent.java,NONE,1.1 Stockholm_TextCompo!
 nent.java,NONE,1.1 StructureBoundariesComponent.java,NONE,1.1 !
 Structur
eDomainComponent.java,NONE,1.1 StructureFragmentComponent.java,NONE,1.1 Text__formattedComponent.java,NONE,1.1 Text__plainComponent.java,NONE,1.1 TransmembraneAnnotatedAASequenceComponent.java,NONE,1.1 TransmembraneReportComponent.java,NONE,1.1

From drepchevski at dev.open-bio.org  Fri Dec 18 05:52:23 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:52:23 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181052.nBIAqNOo020272@dev.open-bio.org>


drepchevski
Fri Dec 18 05:52:23 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/border
In directory dev.open-bio.org:/tmp/cvs-serv20171/swing/border

Added Files:
	HRBorder.java HeaderBorder.java RoundedBorder.java 
Log Message:
added inb biomoby swing visualizer components
moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/border HRBorder.java,NONE,1.1 HeaderBorder.java,NONE,1.1 RoundedBorder.java,NONE,1.1

From drepchevski at dev.open-bio.org  Fri Dec 18 05:52:23 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:52:23 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181052.nBIAqNjF020254@dev.open-bio.org>


drepchevski
Fri Dec 18 05:52:23 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing
In directory dev.open-bio.org:/tmp/cvs-serv20171/swing

Added Files:
	CollapsablePanel.java RoundedButton.java 
	RoundedMultilineLabel.java 
Log Message:
added inb biomoby swing visualizer components
moby-live/Java/src/main/org/inb/biomoby/client/gui/swing CollapsablePanel.java,NONE,1.1 RoundedButton.java,NONE,1.1 RoundedMultilineLabel.java,NONE,1.1

From drepchevski at dev.open-bio.org  Fri Dec 18 05:52:23 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:52:23 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181052.nBIAqNhV020220@dev.open-bio.org>


drepchevski
Fri Dec 18 05:52:22 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/auxiliary
In directory dev.open-bio.org:/tmp/cvs-serv20171/auxiliary

Added Files:
	AbstractAnnotationListPane.java 
	AbstractDescriptionMobyComponent.java 
	AbstractMultilineDescriptionMobyComponent.java 
	AbstractPopupMobyComponent.java 
	AbstractTransformableMobyPanel.java 
	AntigenicAnnotationListPane.java ArrayFloatChartPane.java 
	AssertedWrapperComponent.java Base64.java 
	DummyMobyObjectFactory.java DynamicMobyPanel.java 
	EquicktandemAnnotationListPane.java 
	FamilyBLOCKAnnotationPane.java FeatureAnnotationListPane.java 
	ImageComponent.java InterProMotifAnnotationListPane.java 
	JmolPane.java LabeledAnnotationListPane.java 
	MolWeightAnnotationListPane.java MotifAnnotationListPane.java 
	MultilineCommentedAASequenceDescriptionPane.java 
	MultilineCommentedNASequenceDescriptionMobyComponent.java 
	RestrictAnnotationListPane.java 
	ScoredMotifAnnotationListPane.java ScrollableTextPane.java 
	SigcleaveAnnotationListPane.java 
	StructureBoundariesListPane.java 
	StructureFragmentListPane.java 
	TransmembraneAnnotationListPane.java 
Log Message:
added inb biomoby swing visualizer components
moby-live/Java/src/main/org/inb/biomoby/client/gui/auxiliary AbstractAnnotationListPane.java,NONE,1.1 AbstractDescriptionMobyComponent.java,NONE,1.1 AbstractMultilineDescriptionMobyComponent.java,NONE,1.1 AbstractPopupMobyComponent.java,NONE,1.1 AbstractTransformableMobyPanel.java,NONE,1.1 AntigenicAnnotationListPane.java,NONE,1.1 ArrayFloatChartPane.java,NONE,1.1 AssertedWrapperComponent.java,NONE,1.1 Base64.java,NONE,1.1 DummyMobyObjectFactory.java,NONE,1.1 DynamicMobyPanel.java,NONE,1.1 EquicktandemAnnotationListPane.java,NONE,1.1 FamilyBLOCKAnnotationPane.java,NONE,1.1 FeatureAnnotationListPane.java,NONE,1.1 ImageComponent.java,NONE,1.1 InterProMotifAnnotationListPane.java,NONE,1.1 JmolPane.java,NONE,1.1 LabeledAnnotationListPane.java,NONE,1.1 MolWeightAnnotationListPane.java,NONE,1.1 MotifAnnotationListPane.java,NONE,1.1 MultilineCommentedAASequenceDescriptionPane.java,NONE,1.1 MultilineCommentedNASequenceDescriptionMobyComponent.java,NONE,1.1 RestrictAnnotationListPane!
 .java,NONE,1.1 ScoredMotifAnnotationListPane.java,NONE,1.1 ScrollableTextPane.java,NONE,1.1 SigcleaveAnnotationListPane.java,NONE,1.1 StructureBoundariesListPane.java,NONE,1.1 StructureFragmentListPane.java,NONE,1.1 TransmembraneAnnotationListPane.java,NONE,1.1

From drepchevski at dev.open-bio.org  Fri Dec 18 06:18:17 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 06:18:17 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181118.nBIBIHpu021794@dev.open-bio.org>


drepchevski
Fri Dec 18 06:18:17 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/ontology
In directory dev.open-bio.org:/tmp/cvs-serv21760/ontology

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/ontology added to the repository

moby-live/Java/src/main/org/inb/biomoby/shared/ontology - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/ontology/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/ontology/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/ontology/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Fri Dec 18 06:20:57 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 06:20:57 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181120.nBIBKv9g021958@dev.open-bio.org>


drepchevski
Fri Dec 18 06:20:57 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/ontology
In directory dev.open-bio.org:/tmp/cvs-serv21923

Added Files:
	AminoAcidSequence.java AnnotatedAASequence.java 
	AnnotatedDomain.java AnnotatedNASequence.java 
	AnnotatedStructure.java Annotation.java AnnotationHits.java 
	AntigenicAnnotatedAASequence.java AntigenicAnnotation.java 
	AntigenicReport.java Array.java ArrayFloat.java 
	ArrayInteger.java ArrayString.java ArrayXYData.java 
	BL2GAnnotation.java BLAST_XML.java BLAST__Text.java 
	BLOCKAnnotation.java BasicAnnotation.java 
	BlocksAnnotatedAASequence.java ByoDynInput.java 
	ByoDynOEDParameter.java ByoDynTarget.java CATHDomain.java 
	CathDomainDescription_XML.java Clustalw_Evaluated_Text.java 
	Clustalw_Text.java ClusterProfile_Text.java Clustering.java 
	CodcmpReport_Text.java CodonUsageTable_Text.java 
	CommentedAASequence.java CommentedAASubsequence.java 
	CommentedDNASequence.java CommentedNASequence.java 
	CommentedObject.java CommentedRNASequence.java 
	CommentedWeightedObject.java Consensus_Sequence_Text.java 
	CpGAnnotatedNASequence.java CpGAnnotation.java CpGReport.java 
	DASGFF.java DCCP_Text.java DGPI_Report.java DNASequence.java 
	DSSP_Text.java DTA_Text.java 
	DifferentialExpressionTest_Text.java 
	DifferentialExpressionTest__Text.java DigestReport.java 
	Distance_Matrix.java Domain.java DomainAnnotatedSequence.java 
	EMBL_Text.java ENSEMBLHomolog.java Element.java 
	ElementFloat.java ElementInteger.java ElementString.java 
	ElementXYData.java EmowseAnnotatedAASequence.java 
	Enzymatic_Text.java EquicktandemAnnotatedNASequence.java 
	EquicktandemAnnotation.java EquicktandemReport.java 
	ExpressionCore.java ExpressionStatistics.java FASTA.java 
	FASTA_AA.java FASTA_AA_multi.java FASTA_NA.java 
	FASTA_NA_multi.java FASTA_Text.java FASTA_pep.java 
	FSOLV_Text.java FSSP_Text.java FamilyBLOCKAnnotation.java 
	FatiGO_Text.java FatiGO__XML.java FatiScan_Text.java 
	FatiScan__XML.java FeatureAASequence.java 
	FeatureAnnotatedAASequence.java FeatureAnnotation.java 
	FunCUT_Annotation_XML.java GFF.java GFF2.java GFF3.java 
	GOGraph.java GOTerm.java GenBank_Text.java 
	GenericSequence.java HMMPfam_Report.java HMMSearch_Report.java 
	HMM_Text.java HSSP_Text.java HierarchicalClustering.java 
	ISS_Annotation_XML.java ISS_Report.java Image_Encoded.java 
	IntAct_XML.java InterProMotifAnnotatedAASequence.java 
	InterProMotifAnnotation.java Interaction.java 
	InteractionMethod.java Interactor.java List_Text.java 
	List__Text.java LutefiskAnnotatedAASequence.java 
	LutefiskAnnotation.java LutefiskReport.java MEME_Text.java 
	MSF.java MatchingPattern.java Matrix.java MatrixFloat.java 
	MatrixInteger.java MatrixString.java Meta_Alignment_Text.java 
	MicroArrayData_Text.java MicroArrayData__Text.java 
	MmCIF_Text.java MmCIF__Text.java MolWeightAnnotation.java 
	MolWeightsAnnotatedAASequence.java MolWeightsArray.java 
	MotifAnnotatedAASequence.java MotifAnnotation.java 
	MotifMatrix.java MultiParameter.java NAMD_Conf_Text.java 
	NAMD_Output.java NAMD_Structure.java NCBI_BLAST_Text.java 
	NCut_Clusters.java NCut_Matrix.java NCut_Text.java 
	NDB__Text.java Newick_Text.java Newick__Text.java 
	NucleotideSequence.java OMIM.java PDB_Enriched.java 
	PDB__Text.java PHD_Text.java PIR_Text.java PMUT_Text.java 
	PPSearchReport.java PSF_Text.java Parameter.java 
	Parameters4Values.java ParametersToVary.java 
	PatmatdbReport.java PatmatmotifsReport.java Pattern.java 
	PepNovoReport.java Pepcoil_Text.java PepinfoReport.java 
	Pepstats_Text.java Phylip_Interleaved_Text.java 
	Phylip_Text.java Phylip_tree_Text.java 
	Phylip_treefile_Text.java PredictionModel__XML.java 
	Prediction__Text.java PredictorTraining_Text.java 
	ProbMolWeightAnnotation.java 
	ProbMolWeightsAnnotatedAASequence.java ProdomMotif.java 
	PropertySequence.java PrositeDoc_Text.java PrositeMotif.java 
	RNASequence.java RefSeq_Text.java 
	RestrictAnnotatedNASequence.java RestrictAnnotation.java 
	RestrictReport.java Rules.java SCOPDomain.java 
	SCOPLayerNode.java SIAM_Annotation_XML.java 
	ScoredMotifAnnotatedAASequence.java ScoredMotifAnnotation.java 
	SequenceDescription_Text.java Sequence_alignment_report.java 
	SigcleaveAnnotatedAASequence.java SigcleaveAnnotation.java 
	SigcleaveReport.java Stockholm_Text.java 
	StructureBoundaries.java StructureDomain.java 
	StructureFragment.java Structure_Alignment_Report.java 
	SwissProt_Text.java TFscan_Text.java TTS.java Target.java 
	TargetArgument.java Text__formatted.java Text__html.java 
	Text__plain.java Text__xhtml.java Text__xml.java 
	TransmembraneAnnotatedAASequence.java 
	TransmembraneAnnotation.java TransmembraneReport.java 
	TreeDet_Annotation_HTML.java TreeDet_Annotation_XML.java 
	TreeDet_Report.java Typed_Image.java URL__Text.java 
	VirtualSequence.java WeightedAminoAcidSequences.java 
	WeightedList_Text.java WeightedList__Text.java 
	WeightedObject.java Zip_Encoded.java jaxb.index 
	package-info.java 
Log Message:
added generated by MobyGenerator java ontology classes...
moby-live/Java/src/main/org/inb/biomoby/shared/ontology AminoAcidSequence.java,NONE,1.1 AnnotatedAASequence.java,NONE,1.1 AnnotatedDomain.java,NONE,1.1 AnnotatedNASequence.java,NONE,1.1 AnnotatedStructure.java,NONE,1.1 Annotation.java,NONE,1.1 AnnotationHits.java,NONE,1.1 AntigenicAnnotatedAASequence.java,NONE,1.1 AntigenicAnnotation.java,NONE,1.1 AntigenicReport.java,NONE,1.1 Array.java,NONE,1.1 ArrayFloat.java,NONE,1.1 ArrayInteger.java,NONE,1.1 ArrayString.java,NONE,1.1 ArrayXYData.java,NONE,1.1 BL2GAnnotation.java,NONE,1.1 BLAST_XML.java,NONE,1.1 BLAST__Text.java,NONE,1.1 BLOCKAnnotation.java,NONE,1.1 BasicAnnotation.java,NONE,1.1 BlocksAnnotatedAASequence.java,NONE,1.1 ByoDynInput.java,NONE,1.1 ByoDynOEDParameter.java,NONE,1.1 ByoDynTarget.java,NONE,1.1 CATHDomain.java,NONE,1.1 CathDomainDescription_XML.java,NONE,1.1 Clustalw_Evaluated_Text.java,NONE,1.1 Clustalw_Text.java,NONE,1.1 ClusterProfile_Text.java,NONE,1.1 Clustering.java,NONE,1.1 CodcmpReport_Text.java,NONE,1.!
 1 CodonUsageTable_Text.java,NONE,1.1 CommentedAASequence.java,NONE,1.1 CommentedAASubsequence.java,NONE,1.1 CommentedDNASequence.java,NONE,1.1 CommentedNASequence.java,NONE,1.1 CommentedObject.java,NONE,1.1 CommentedRNASequence.java,NONE,1.1 CommentedWeightedObject.java,NONE,1.1 Consensus_Sequence_Text.java,NONE,1.1 CpGAnnotatedNASequence.java,NONE,1.1 CpGAnnotation.java,NONE,1.1 CpGReport.java,NONE,1.1 DASGFF.java,NONE,1.1 DCCP_Text.java,NONE,1.1 DGPI_Report.java,NONE,1.1 DNASequence.java,NONE,1.1 DSSP_Text.java,NONE,1.1 DTA_Text.java,NONE,1.1 DifferentialExpressionTest_Text.java,NONE,1.1 DifferentialExpressionTest__Text.java,NONE,1.1 DigestReport.java,NONE,1.1 Distance_Matrix.java,NONE,1.1 Domain.java,NONE,1.1 DomainAnnotatedSequence.java,NONE,1.1 EMBL_Text.java,NONE,1.1 ENSEMBLHomolog.java,NONE,1.1 Element.java,NONE,1.1 ElementFloat.java,NONE,1.1 ElementInteger.java,NONE,1.1 ElementString.java,NONE,1.1 ElementXYData.java,NONE,1.1 EmowseAnnotatedAASequence.java,NONE,1.1 E!
 nzymatic_Text.java,NONE,1.1 EquicktandemAnnotatedNASequence.ja!
 va,NONE,
1.1 EquicktandemAnnotation.java,NONE,1.1 EquicktandemReport.java,NONE,1.1 ExpressionCore.java,NONE,1.1 ExpressionStatistics.java,NONE,1.1 FASTA.java,NONE,1.1 FASTA_AA.java,NONE,1.1 FASTA_AA_multi.java,NONE,1.1 FASTA_NA.java,NONE,1.1 FASTA_NA_multi.java,NONE,1.1 FASTA_Text.java,NONE,1.1 FASTA_pep.java,NONE,1.1 FSOLV_Text.java,NONE,1.1 FSSP_Text.java,NONE,1.1 FamilyBLOCKAnnotation.java,NONE,1.1 FatiGO_Text.java,NONE,1.1 FatiGO__XML.java,NONE,1.1 FatiScan_Text.java,NONE,1.1 FatiScan__XML.java,NONE,1.1 FeatureAASequence.java,NONE,1.1 FeatureAnnotatedAASequence.java,NONE,1.1 FeatureAnnotation.java,NONE,1.1 FunCUT_Annotation_XML.java,NONE,1.1 GFF.java,NONE,1.1 GFF2.java,NONE,1.1 GFF3.java,NONE,1.1 GOGraph.java,NONE,1.1 GOTerm.java,NONE,1.1 GenBank_Text.java,NONE,1.1 GenericSequence.java,NONE,1.1 HMMPfam_Report.java,NONE,1.1 HMMSearch_Report.java,NONE,1.1 HMM_Text.java,NONE,1.1 HSSP_Text.java,NONE,1.1 HierarchicalClustering.java,NONE,1.1 ISS_Annotation_XML.java,NONE,1.1 ISS_Report.!
 java,NONE,1.1 Image_Encoded.java,NONE,1.1 IntAct_XML.java,NONE,1.1 InterProMotifAnnotatedAASequence.java,NONE,1.1 InterProMotifAnnotation.java,NONE,1.1 Interaction.java,NONE,1.1 InteractionMethod.java,NONE,1.1 Interactor.java,NONE,1.1 List_Text.java,NONE,1.1 List__Text.java,NONE,1.1 LutefiskAnnotatedAASequence.java,NONE,1.1 LutefiskAnnotation.java,NONE,1.1 LutefiskReport.java,NONE,1.1 MEME_Text.java,NONE,1.1 MSF.java,NONE,1.1 MatchingPattern.java,NONE,1.1 Matrix.java,NONE,1.1 MatrixFloat.java,NONE,1.1 MatrixInteger.java,NONE,1.1 MatrixString.java,NONE,1.1 Meta_Alignment_Text.java,NONE,1.1 MicroArrayData_Text.java,NONE,1.1 MicroArrayData__Text.java,NONE,1.1 MmCIF_Text.java,NONE,1.1 MmCIF__Text.java,NONE,1.1 MolWeightAnnotation.java,NONE,1.1 MolWeightsAnnotatedAASequence.java,NONE,1.1 MolWeightsArray.java,NONE,1.1 MotifAnnotatedAASequence.java,NONE,1.1 MotifAnnotation.java,NONE,1.1 MotifMatrix.java,NONE,1.1 MultiParameter.java,NONE,1.1 NAMD_Conf_Text.java,NONE,1.1 NAMD_Output!
 .java,NONE,1.1 NAMD_Structure.java,NONE,1.1 NCBI_BLAST_Text.ja!
 va,NONE,
1.1 NCut_Clusters.java,NONE,1.1 NCut_Matrix.java,NONE,1.1 NCut_Text.java,NONE,1.1 NDB__Text.java,NONE,1.1 Newick_Text.java,NONE,1.1 Newick__Text.java,NONE,1.1 NucleotideSequence.java,NONE,1.1 OMIM.java,NONE,1.1 PDB_Enriched.java,NONE,1.1 PDB__Text.java,NONE,1.1 PHD_Text.java,NONE,1.1 PIR_Text.java,NONE,1.1 PMUT_Text.java,NONE,1.1 PPSearchReport.java,NONE,1.1 PSF_Text.java,NONE,1.1 Parameter.java,NONE,1.1 Parameters4Values.java,NONE,1.1 ParametersToVary.java,NONE,1.1 PatmatdbReport.java,NONE,1.1 PatmatmotifsReport.java,NONE,1.1 Pattern.java,NONE,1.1 PepNovoReport.java,NONE,1.1 Pepcoil_Text.java,NONE,1.1 PepinfoReport.java,NONE,1.1 Pepstats_Text.java,NONE,1.1 Phylip_Interleaved_Text.java,NONE,1.1 Phylip_Text.java,NONE,1.1 Phylip_tree_Text.java,NONE,1.1 Phylip_treefile_Text.java,NONE,1.1 PredictionModel__XML.java,NONE,1.1 Prediction__Text.java,NONE,1.1 PredictorTraining_Text.java,NONE,1.1 ProbMolWeightAnnotation.java,NONE,1.1 ProbMolWeightsAnnotatedAASequence.java,NONE,1.1 Prod!
 omMotif.java,NONE,1.1 PropertySequence.java,NONE,1.1 PrositeDoc_Text.java,NONE,1.1 PrositeMotif.java,NONE,1.1 RNASequence.java,NONE,1.1 RefSeq_Text.java,NONE,1.1 RestrictAnnotatedNASequence.java,NONE,1.1 RestrictAnnotation.java,NONE,1.1 RestrictReport.java,NONE,1.1 Rules.java,NONE,1.1 SCOPDomain.java,NONE,1.1 SCOPLayerNode.java,NONE,1.1 SIAM_Annotation_XML.java,NONE,1.1 ScoredMotifAnnotatedAASequence.java,NONE,1.1 ScoredMotifAnnotation.java,NONE,1.1 SequenceDescription_Text.java,NONE,1.1 Sequence_alignment_report.java,NONE,1.1 SigcleaveAnnotatedAASequence.java,NONE,1.1 SigcleaveAnnotation.java,NONE,1.1 SigcleaveReport.java,NONE,1.1 Stockholm_Text.java,NONE,1.1 StructureBoundaries.java,NONE,1.1 StructureDomain.java,NONE,1.1 StructureFragment.java,NONE,1.1 Structure_Alignment_Report.java,NONE,1.1 SwissProt_Text.java,NONE,1.1 TFscan_Text.java,NONE,1.1 TTS.java,NONE,1.1 Target.java,NONE,1.1 TargetArgument.java,NONE,1.1 Text__formatted.java,NONE,1.1 Text__html.java,NONE,1.1 Text!
 __plain.java,NONE,1.1 Text__xhtml.java,NONE,1.1 Text__xml.java!
 ,NONE,1.
1 TransmembraneAnnotatedAASequence.java,NONE,1.1 TransmembraneAnnotation.java,NONE,1.1 TransmembraneReport.java,NONE,1.1 TreeDet_Annotation_HTML.java,NONE,1.1 TreeDet_Annotation_XML.java,NONE,1.1 TreeDet_Report.java,NONE,1.1 Typed_Image.java,NONE,1.1 URL__Text.java,NONE,1.1 VirtualSequence.java,NONE,1.1 WeightedAminoAcidSequences.java,NONE,1.1 WeightedList_Text.java,NONE,1.1 WeightedList__Text.java,NONE,1.1 WeightedObject.java,NONE,1.1 Zip_Encoded.java,NONE,1.1 jaxb.index,NONE,1.1 package-info.java,NONE,1.1

From drepchevski at dev.open-bio.org  Sun Dec 20 11:28:54 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Sun, 20 Dec 2009 11:28:54 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912201628.nBKGSsj6031410@dev.open-bio.org>


drepchevski
Sun Dec 20 11:28:54 EST 2009
Update of /home/repository/moby/moby-live/Java/xmls
In directory dev.open-bio.org:/tmp/cvs-serv31355/xmls

Modified Files:
	inbMoby.xml 
Log Message:

moby-live/Java/xmls inbMoby.xml,1.8,1.9
===================================================================
RCS file: /home/repository/moby/moby-live/Java/xmls/inbMoby.xml,v
retrieving revision 1.8
retrieving revision 1.9
diff -u -r1.8 -r1.9
--- /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/17 17:21:05	1.8
+++ /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/20 16:28:54	1.9
@@ -16,6 +16,8 @@
 <property name="inb.central.model.jar" value="MobyCentralModel.jar"/>
 <property name="inb.central.gui.jar" value="MobyGUIComponents.jar"/>
 <property name="inb.generator.jar" value="MobyGenerator.jar"/>
+<property name="inb.ontology.jar" value="datatypes.jar"/>
+<property name="inb.visualizers.jar" value="MobyComponents.jar"/>
 
 <!-- ================================================================== -->
 <!-- Initialize (whatever needs to be done)                             -->
@@ -39,7 +41,7 @@
 <!-- ================================================================== -->
 <!-- Build INB MobyCoreService                                          -->
 <!-- ================================================================== -->
-<target name="build-core-service" depends="build-core, inb-core-service-compile"
+<target name="build-core-service" depends="inb-core-service-compile"
   description="Build MobyCoreService">
   <property name="released.date" value="${TODAY_SHORT}"/>
   <jar destfile="${build.lib}/${inb.core.service.jar}">
@@ -54,7 +56,7 @@
 <!-- ================================================================== -->
 <!-- Build INB MobyCentral                                              -->
 <!-- ================================================================== -->
-<target name="build-central" depends="build-core, inb-central-compile"
+<target name="build-central" depends="inb-central-compile"
   description="Build MobyCentral">
   <property name="released.date" value="${TODAY_SHORT}"/>
   <jar destfile="${build.lib}/${inb.central.jar}">
@@ -70,7 +72,7 @@
 <!-- ================================================================== -->
 <!-- Build INB MobyCentralModel                                              -->
 <!-- ================================================================== -->
-<target name="build-central-model" depends="build-central, inb-central-model-compile"
+<target name="build-central-model" depends="inb-central-model-compile"
   description="Build MobyCentralModel">
 
   <property name="released.date" value="${TODAY_SHORT}"/>
@@ -87,7 +89,7 @@
 <!-- ================================================================== -->
 <!-- Build INB MobyGUIComponents                                        -->
 <!-- ================================================================== -->
-<target name="build-central-gui" depends="build-central-model, inb-central-gui-compile"
+<target name="build-central-gui" depends="inb-central-gui-compile"
   description="Build MobyGUIComponents">
 
   <property name="released.date" value="${TODAY_SHORT}"/>
@@ -104,7 +106,7 @@
 <!-- ================================================================== -->
 <!-- Build INB MobyGenerator                                            -->
 <!-- ================================================================== -->
-<target name="build-generator" depends="build-central-gui, inb-generator-compile"
+<target name="build-generator" depends="inb-generator-compile"
   description="Build MobyGenerator">
 
   <property name="released.date" value="${TODAY_SHORT}"/>
@@ -120,6 +122,39 @@
   </jar>
 </target>
 
+<!-- ================================================================== -->
+<!-- Build INB Ontology Datatypes                                       -->
+<!-- ================================================================== -->
+<target name="build-ontology" depends="inb-datatypes-ontology-compile"
+  description="Build MobyComponents">
+
+  <property name="released.date" value="${TODAY_SHORT}"/>
+  <jar destfile="${build.lib}/${inb.ontology.jar}">
+    <manifest>
+      <attribute name="Built-By"      value="${user.name}"/>
+      <attribute name="Released-Date" value="${released.date}"/>
+    </manifest>
+    <fileset dir="${inb.config.dir}/ontology"/>
+    <fileset dir="${build.inb.ontology}"/>
+  </jar>
+</target>
+
+<!-- ================================================================== -->
+<!-- Build INB Ontology Visual Components                               -->
+<!-- ================================================================== -->
+<target name="build-ontology-components" depends="inb-visualizer-components-compile"
+  description="Build MobyComponents">
+
+  <property name="released.date" value="${TODAY_SHORT}"/>
+  <jar destfile="${build.lib}/${inb.visualizers.jar}">
+    <manifest>
+      <attribute name="Built-By"      value="${user.name}"/>
+      <attribute name="Released-Date" value="${released.date}"/>
+    </manifest>
+    <fileset dir="${build.inb.visualizers}"/>
+  </jar>
+</target>
+
   <!-- ================================================================== -->
   <!-- Compiles inb core source                                           -->
   <!-- ================================================================== -->
@@ -149,7 +184,7 @@
   <!-- ================================================================== -->
   <!-- Compiles inb central source                                        -->
   <!-- ================================================================== -->
-  <target name="inb-central-compile" depends="inb-init"
+  <target name="inb-central-compile" depends="build-core"
     description="Compile all inb central source code">
 
     <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
@@ -177,9 +212,9 @@
   </target>
 
   <!-- ================================================================== -->
-  <!-- Compiles inb central model source                                        -->
+  <!-- Compiles inb central model source                                  -->
   <!-- ================================================================== -->
-  <target name="inb-central-model-compile" depends="inb-init"
+  <target name="inb-central-model-compile" depends="build-central"
     description="Compile all inb central model source code">
 
     <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
@@ -209,7 +244,7 @@
   <!-- ================================================================== -->
   <!-- Compiles inb central model source                                        -->
   <!-- ================================================================== -->
-  <target name="inb-central-gui-compile" depends="inb-init"
+  <target name="inb-central-gui-compile" depends="build-central-model"
     description="Compile all inb central gui components source code">
 
     <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
@@ -220,7 +255,7 @@
       sourcepath=""
       srcdir="${src.main}"
       destdir="${build.inb.model.gui}"
-      classpath="${build.lib}/${inb.core.jar};${build.lib}/${inb.central.jar};;${build.lib}/${inb.central.model.jar};"
+      classpath="${build.lib}/${inb.core.jar};${build.lib}/${inb.central.jar};${build.lib}/${inb.central.model.jar}"
       verbose="${compile.verbose}"
       debug="${compile.debug}"
       debuglevel="lines,vars,source"
@@ -239,7 +274,7 @@
   <!-- ================================================================== -->
   <!-- Compiles inb generator utility source                              -->
   <!-- ================================================================== -->
-  <target name="inb-generator-compile" depends="inb-init"
+  <target name="inb-generator-compile" depends="build-central-gui"
     description="Compile generator applet source code">
 
     <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
@@ -267,9 +302,9 @@
   </target>
 
   <!-- ================================================================== -->
-  <!-- Compiles inb core server source                                    -->
+  <!-- Compiles inb core service source                                    -->
   <!-- ================================================================== -->
-  <target name="inb-core-service-compile" depends="inb-init"
+  <target name="inb-core-service-compile" depends="build-core"
     description="Compile core service source code">
 
     <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
@@ -294,4 +329,67 @@
       
       <compilerarg value="${xlint.param}"/>
     </javac>
+
+  </target>
+
+  <!-- ================================================================== -->
+  <!-- Compiles inb visualizer components source                          -->
+  <!-- ================================================================== -->
+  <target name="inb-visualizer-components-compile" depends="build-ontology"
+    description="Compile swing visualizer components source code">
+
+    <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
+      <istrue value="${compile.warnings}"/>
+    </condition>
+
+    <javac
+      sourcepath=""
+      srcdir="${src.main}"
+      destdir="${build.inb.visualizers}"
+      classpath="${build.lib}/${inb.core.jar};${build.lib}/${inb.ontology.jar}"
+      verbose="${compile.verbose}"
+      debug="${compile.debug}"
+      debuglevel="lines,vars,source"
+      deprecation="${compile.deprecation}"
+      optimize="${compile.optimize}"
+      includes="org/inb/biomoby/client/gui/*,org/inb/biomoby/client/gui/swing/*,org/inb/biomoby/client/gui/swing/border/*,org/inb/biomoby/client/gui/auxiliary/*,org/inb/biomoby/client/gui/ontology/*"
+      >
+      
+      <classpath refid="build.classpath"/>
+      <classpath refid="dependency.classpath"/>
+      
+      <compilerarg value="${xlint.param}"/>
+    </javac>
+
+  </target>
+
+  <!-- ================================================================== -->
+  <!-- Compiles inb datatypes ontology objects source                     -->
+  <!-- =======	=========================================================== -->
+  <target name="inb-datatypes-ontology-compile" depends="build-core"
+    description="Compile generated ontology datatype classes source code">
+
+    <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
+      <istrue value="${compile.warnings}"/>
+    </condition>
+
+    <javac
+      sourcepath=""
+      srcdir="${src.main}"
+      destdir="${build.inb.ontology}"
+      classpath="${build.lib}/${inb.core.jar}"
+      verbose="${compile.verbose}"
+      debug="${compile.debug}"
+      debuglevel="lines,vars,source"
+      deprecation="${compile.deprecation}"
+      optimize="${compile.optimize}"
+      includes="org/inb/biomoby/shared/ontology/*"
+      >
+      
+      <classpath refid="build.classpath"/>
+      <classpath refid="dependency.classpath"/>
+      
+      <compilerarg value="${xlint.param}"/>
+    </javac>
+
   </target>


From drepchevski at dev.open-bio.org  Sun Dec 20 11:28:54 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Sun, 20 Dec 2009 11:28:54 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912201628.nBKGSsxh031390@dev.open-bio.org>


drepchevski
Sun Dec 20 11:28:54 EST 2009
Update of /home/repository/moby/moby-live/Java
In directory dev.open-bio.org:/tmp/cvs-serv31355

Modified Files:
	build.xml 
Log Message:

moby-live/Java build.xml,1.82,1.83
===================================================================
RCS file: /home/repository/moby/moby-live/Java/build.xml,v
retrieving revision 1.82
retrieving revision 1.83
diff -u -r1.82 -r1.83
--- /home/repository/moby/moby-live/Java/build.xml	2009/12/17 17:21:05	1.82
+++ /home/repository/moby/moby-live/Java/build.xml	2009/12/20 16:28:54	1.83
@@ -80,6 +80,8 @@
   <property name="build.inb.model"        location="${build.dir}/inb/model"/>
   <property name="build.inb.model.gui"    location="${build.dir}/inb/modelgui"/>
   <property name="build.inb.generator"    location="${build.dir}/inb/generator"/>
+  <property name="build.inb.ontology"     location="${build.dir}/inb/ontology"/>
+  <property name="build.inb.visualizers"  location="${build.dir}/inb/visualizers"/>
 
   <!-- log4j properties -->
   <property name="log4j.configuration"  location="${build.classes}/log4j.properties"/>
@@ -191,6 +193,8 @@
     <mkdir dir="${build.inb.model}"/>
     <mkdir dir="${build.inb.model.gui}"/>
     <mkdir dir="${build.inb.generator}"/>
+    <mkdir dir="${build.inb.ontology}"/>
+    <mkdir dir="${build.inb.visualizers}"/>
     
     <!-- Create .cvsignore files -->
     <!-- [TBD: How can I do this by traversing directory tree automatically?] -->


From drepchevski at dev.open-bio.org  Sun Dec 20 11:57:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Sun, 20 Dec 2009 11:57:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912201657.nBKGv3CM031785@dev.open-bio.org>


drepchevski
Sun Dec 20 11:57:02 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/ontology
In directory dev.open-bio.org:/tmp/cvs-serv31751/ontology

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/ontology added to the repository

moby-live/Java/src/config/inb/ontology - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Sun Dec 20 11:57:21 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Sun, 20 Dec 2009 11:57:21 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912201657.nBKGvLQo031827@dev.open-bio.org>


drepchevski
Sun Dec 20 11:57:21 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/ontology/org
In directory dev.open-bio.org:/tmp/cvs-serv31793/org

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/ontology/org added to the repository

moby-live/Java/src/config/inb/ontology/org - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Sun Dec 20 11:57:38 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Sun, 20 Dec 2009 11:57:38 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912201657.nBKGvcnM031869@dev.open-bio.org>


drepchevski
Sun Dec 20 11:57:38 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb
In directory dev.open-bio.org:/tmp/cvs-serv31835/inb

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb added to the repository

moby-live/Java/src/config/inb/ontology/org/inb - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Sun Dec 20 11:58:01 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Sun, 20 Dec 2009 11:58:01 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912201658.nBKGw1ni031911@dev.open-bio.org>


drepchevski
Sun Dec 20 11:58:00 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby
In directory dev.open-bio.org:/tmp/cvs-serv31877/biomoby

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby added to the repository

moby-live/Java/src/config/inb/ontology/org/inb/biomoby - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Sun Dec 20 11:58:19 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Sun, 20 Dec 2009 11:58:19 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912201658.nBKGwJCx031953@dev.open-bio.org>


drepchevski
Sun Dec 20 11:58:18 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared
In directory dev.open-bio.org:/tmp/cvs-serv31919/shared

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared added to the repository

moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Sun Dec 20 11:58:35 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Sun, 20 Dec 2009 11:58:35 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912201658.nBKGwZDf031995@dev.open-bio.org>


drepchevski
Sun Dec 20 11:58:35 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/ontology
In directory dev.open-bio.org:/tmp/cvs-serv31961/ontology

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/ontology added to the repository

moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/ontology - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/ontology/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/ontology/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/ontology/RCS/directory,v: No such file or directory


From drepchevski at dev.open-bio.org  Sun Dec 20 11:59:41 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Sun, 20 Dec 2009 11:59:41 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912201659.nBKGxfbH032095@dev.open-bio.org>


drepchevski
Sun Dec 20 11:59:41 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/ontology
In directory dev.open-bio.org:/tmp/cvs-serv32064

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/ontology jaxb.index,NONE,1.1

From drepchevski at dev.open-bio.org  Mon Dec 21 05:55:49 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Mon, 21 Dec 2009 05:55:49 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912211055.nBLAtnQv013277@dev.open-bio.org>


drepchevski
Mon Dec 21 05:55:49 EST 2009
Update of /home/repository/moby/moby-live/Java/docs
In directory dev.open-bio.org:/tmp/cvs-serv13238

Modified Files:
	inb_moby.html inb_moby_central_gui.html 
Added Files:
	inb_moby_components.html 
Log Message:
some documentation...
moby-live/Java/docs inb_moby_components.html,NONE,1.1 inb_moby.html,1.5,1.6 inb_moby_central_gui.html,1.1,1.2
===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/inb_moby.html,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/12/17 18:05:03	1.5
+++ /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/12/21 10:55:49	1.6
@@ -88,6 +88,16 @@
   </p>
 
   <p>
+    If you do not want to bother with <a href="inb_moby_generator.html">MobyGenerator</a>, you cat try out a precompiled ontology from INB Repository.
+    (<span class="command"> build-ontology </span>).
+  </p>
+
+  <p>
+    Finally, there is a visualization package <a href="inb_moby_components.html">MobyComponents</a>, which is a set of Java Swing Components to visualize Java ontology classes.
+    To create the library use <span class="command"> ant build-ontology-components </span>.
+  </p>
+
+  <p>
     Generated libraries could be found in
     <span class="command"> /moby-live/Java/build/lib/ </span> directory.
   </p>

===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/inb_moby_central_gui.html,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/docs/inb_moby_central_gui.html	2009/12/17 18:05:03	1.1
+++ /home/repository/moby/moby-live/Java/docs/inb_moby_central_gui.html	2009/12/21 10:55:49	1.2
@@ -1,7 +1,7 @@
 <html>
  <head>
   <title>
-   INB MobyCentral Java API
+   BioMoby Central GUI Components Library
   </title>
   <style type="text/css">
     body {


From kawas at dev.open-bio.org  Tue Dec  1 16:05:12 2009
From: kawas at dev.open-bio.org (Eddie Kawas)
Date: Tue, 1 Dec 2009 11:05:12 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912011605.nB1G5CrH017869@dev.open-bio.org>


kawas
Tue Dec  1 11:05:11 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/biomoby/registry/meta
In directory dev.open-bio.org:/tmp/cvs-serv17832/src/main/org/biomoby/registry/meta

Modified Files:
	RegistriesList.java 
Log Message:
updated the test registry information
moby-live/Java/src/main/org/biomoby/registry/meta RegistriesList.java,1.5,1.6
===================================================================
RCS file: /home/repository/moby/moby-live/Java/src/main/org/biomoby/registry/meta/RegistriesList.java,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Java/src/main/org/biomoby/registry/meta/RegistriesList.java	2007/12/10 22:01:32	1.5
+++ /home/repository/moby/moby-live/Java/src/main/org/biomoby/registry/meta/RegistriesList.java	2009/12/01 16:05:11	1.6
@@ -65,12 +65,12 @@
 
 	new Registry
 	("testing",
-	 "http://bioinfo.icapture.ubc.ca/cgi-bin/mobycentral/MOBY-Central.pl",
-	 "http://bioinfo.icapture.ubc.ca/MOBY/Central",
+	 "http://mobytest.biordf.net/MOBY-Central.pl",
+	 "http://mobytest.biordf.net/MOBY/Central",
 	 "Testing BioMoby registry",
 	 "Edward Kawas (edward.kawas at gmail.com)",
 	 true,
-	 ""),
+	 "The MOBY test registry"),
     };
 
     /*********************************************************************



From kawas at dev.open-bio.org  Tue Dec  1 16:15:33 2009
From: kawas at dev.open-bio.org (Eddie Kawas)
Date: Tue, 1 Dec 2009 11:15:33 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912011615.nB1GFXPQ018163@dev.open-bio.org>


kawas
Tue Dec  1 11:15:33 EST 2009
Update of /home/repository/moby/moby-live/Java/docs
In directory dev.open-bio.org:/tmp/cvs-serv18128/docs

Modified Files:
	CmdLineClients.html 
Log Message:
updated the test registry information
moby-live/Java/docs CmdLineClients.html,1.6,1.7
===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/CmdLineClients.html,v
retrieving revision 1.6
retrieving revision 1.7
diff -u -r1.6 -r1.7
--- /home/repository/moby/moby-live/Java/docs/CmdLineClients.html	2008/06/09 12:52:18	1.6
+++ /home/repository/moby/moby-live/Java/docs/CmdLineClients.html	2009/12/01 16:15:33	1.7
@@ -372,8 +372,8 @@
 
 <pre>
    run-cmdline-client \
-      -e http://bioinfo.icapture.ubc.ca/cgi-bin/mobycentral/MOBY-Central.pl \
-      -uri http://mobycentral.cbr.nrc.ca:8080/MOBY/Central \
+      -e http://mobytest.biordf.net/MOBY-Central.pl \
+      -uri http://mobytest.biordf.net/MOBY/Central \
       -rd-name ColouredString \
       -rd-desc 'A string representing a colour' \
       -rd-auth uk.ac.ebi.martin.senger \
@@ -386,7 +386,7 @@
 
 <pre>
    run-cmdline-client \
-      -e http://bioinfo.icapture.ubc.ca/cgi-bin/mobycentral/MOBY-Central.pl \
+      -e http://mobytest.biordf.net/MOBY-Central.pl \
       -uri http://mobycentral.cbr.nrc.ca:8080/MOBY/Central \
       -data ColouredString
 </pre>
@@ -630,7 +630,7 @@
 
 <pre>
    run-cmdline-client \   
-      -e http://bioinfo.icapture.ubc.ca/cgi-bin/mobycentral/MOBY-Central.pl  \
+      -e http://mobytest.biordf.net/MOBY-Central.pl  \
       -uri http://mobycentral.cbr.nrc.ca:8080/MOBY/Central                 \
       -rs-name Testing_getAlleleFreq                                       \
       -rs-type Retrieval                                                   \
@@ -650,7 +650,7 @@
 
 <pre>
    run-cmdline-client \   
-      -e http://bioinfo.icapture.ubc.ca/cgi-bin/mobycentral/MOBY-Central.pl  \
+      -e http://mobytest.biordf.net/MOBY-Central.pl  \
       -uri http://mobycentral.cbr.nrc.ca:8080/MOBY/Central                 \
       -fn Testing_getAlleleFreq
 </pre>
@@ -689,7 +689,7 @@
 
 <pre>
    run-cmdline-client \
-      -e http://bioinfo.icapture.ubc.ca/cgi-bin/mobycentral/MOBY-Central.pl \
+      -e http://mobytest.biordf.net/MOBY-Central.pl \
       -uri http://mobycentral.cbr.nrc.ca:8080/MOBY/Central                \
       -us Testing_getAlleleFreq                                           \
       -ud ColouredString
@@ -1011,7 +1011,7 @@
 
 <pre>
    run-testing-central \
-      -e http://bioinfo.icapture.ubc.ca/cgi-bin/mobycentral/MOBY-Central.pl \
+      -e http://mobytest.biordf.net/MOBY-Central.pl \
       -uri http://mobycentral.cbr.nrc.ca:8080/MOBY/Central
 </pre>
 



From drepchevski at dev.open-bio.org  Wed Dec 16 14:22:17 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 09:22:17 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161422.nBGEMHti004661@dev.open-bio.org>


drepchevski
Wed Dec 16 09:22:17 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/model
In directory dev.open-bio.org:/tmp/cvs-serv4627/model

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/model added to the repository

moby-live/Java/src/main/org/inb/biomoby/central/model - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/model/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/model/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/model/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Wed Dec 16 14:22:34 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 09:22:34 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161422.nBGEMYVt004703@dev.open-bio.org>


drepchevski
Wed Dec 16 09:22:34 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/cache
In directory dev.open-bio.org:/tmp/cvs-serv4669/cache

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/cache added to the repository

moby-live/Java/src/main/org/inb/biomoby/central/cache - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/cache/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/cache/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/cache/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Wed Dec 16 14:23:02 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 09:23:02 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161423.nBGEN2O7004745@dev.open-bio.org>


drepchevski
Wed Dec 16 09:23:02 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel
In directory dev.open-bio.org:/tmp/cvs-serv4711/mobycentralmodel

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel added to the repository

moby-live/Java/src/config/inb/mobycentralmodel - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Wed Dec 16 14:23:13 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 09:23:13 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161423.nBGENDg7004787@dev.open-bio.org>


drepchevski
Wed Dec 16 09:23:13 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel/META-INF
In directory dev.open-bio.org:/tmp/cvs-serv4753/META-INF

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel/META-INF added to the repository

moby-live/Java/src/config/inb/mobycentralmodel/META-INF - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel/META-INF/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel/META-INF/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel/META-INF/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Wed Dec 16 14:24:52 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 09:24:52 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161424.nBGEOqbi004851@dev.open-bio.org>


drepchevski
Wed Dec 16 09:24:51 EST 2009
Update of /home/repository/moby/moby-live/Java/xmls
In directory dev.open-bio.org:/tmp/cvs-serv4816

Modified Files:
	inbMoby.xml 
Log Message:
Added INB MobyCentralModel library into the build
moby-live/Java/xmls inbMoby.xml,1.3,1.4
===================================================================
RCS file: /home/repository/moby/moby-live/Java/xmls/inbMoby.xml,v
retrieving revision 1.3
retrieving revision 1.4
diff -u -r1.3 -r1.4
--- /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/09/11 06:55:24	1.3
+++ /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/16 14:24:51	1.4
@@ -12,6 +12,7 @@
 <property name="inb.config.dir" location="${src.config}/inb"/>
 <property name="inb.core.jar" value="MobyCore.jar"/>
 <property name="inb.central.jar" value="MobyCentral.jar"/>
+<property name="inb.central.model.jar" value="MobyCentralModel.jar"/>
 
 <!-- ================================================================== -->
 <!-- Initialize (whatever needs to be done)                             -->
@@ -46,6 +47,22 @@
   </jar>
 </target>
 
+<!-- ================================================================== -->
+<!-- Build INB MobyCentralModel                                              -->
+<!-- ================================================================== -->
+<target name="build-central-model" depends="build-central, inb-central-model-compile"
+  description="Build MobyCentral">
+  <property name="released.date" value="${TODAY_SHORT}"/>
+  <jar destfile="${build.lib}/${inb.central.model.jar}">
+    <manifest>
+      <attribute name="Built-By"      value="${user.name}"/>
+      <attribute name="Released-Date" value="${released.date}"/>
+    </manifest>
+    <fileset dir="${inb.config.dir}/mobycentralmodel"/>
+    <fileset dir="${build.inb.model}"/>
+  </jar>
+</target>
+
   <!-- ================================================================== -->
   <!-- Compiles inb core source                                           -->
   <!-- ================================================================== -->
@@ -101,3 +118,33 @@
       <compilerarg value="${xlint.param}"/>
     </javac>
   </target>
+
+  <!-- ================================================================== -->
+  <!-- Compiles inb central source                                        -->
+  <!-- ================================================================== -->
+  <target name="inb-central-model-compile" depends="inb-init"
+    description="Compile all inb central model source code">
+
+    <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
+      <istrue value="${compile.warnings}"/>
+    </condition>
+
+    <javac
+      sourcepath=""
+      srcdir="${src.main}"
+      destdir="${build.inb.model}"
+      classpath="${build.lib}/${inb.core.jar};${build.lib}/${inb.central.jar}"
+      verbose="${compile.verbose}"
+      debug="${compile.debug}"
+      debuglevel="lines,vars,source"
+      deprecation="${compile.deprecation}"
+      optimize="${compile.optimize}"
+      includes="org/inb/biomoby/central/cache/*,org/inb/biomoby/central/model/*"
+      excludes="org/inb/biomoby/shared/*">
+      
+      <classpath refid="build.classpath"/>
+      <classpath refid="dependency.classpath"/>
+      
+      <compilerarg value="${xlint.param}"/>
+    </javac>
+  </target>



From drepchevski at dev.open-bio.org  Wed Dec 16 14:25:47 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 09:25:47 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161425.nBGEPloL004914@dev.open-bio.org>


drepchevski
Wed Dec 16 09:25:47 EST 2009
Update of /home/repository/moby/moby-live/Java
In directory dev.open-bio.org:/tmp/cvs-serv4879

Modified Files:
	build.xml 
Log Message:
INB build-central-model added
moby-live/Java build.xml,1.77,1.78
===================================================================
RCS file: /home/repository/moby/moby-live/Java/build.xml,v
retrieving revision 1.77
retrieving revision 1.78
diff -u -r1.77 -r1.78
--- /home/repository/moby/moby-live/Java/build.xml	2009/09/09 19:26:47	1.77
+++ /home/repository/moby/moby-live/Java/build.xml	2009/12/16 14:25:47	1.78
@@ -75,6 +75,7 @@
   <property name="build.others"      location="${build.dir}/others"/>
   <property name="build.test"        location="${build.dir}/test"/>
   <property name="build.inb.central" location="${build.dir}/inb/central"/>
+  <property name="build.inb.model" location="${build.dir}/inb/model"/>
   <property name="build.inb.core"    location="${build.dir}/inb/core"/>
   <!-- log4j properties -->
   <property name="log4j.configuration"  location="${build.classes}/log4j.properties"/>
@@ -182,6 +183,7 @@
     <mkdir dir="${build.test}"/>
     <mkdir dir="${build.inb.core}"/>
     <mkdir dir="${build.inb.central}"/>
+    <mkdir dir="${build.inb.model}"/>
     
     <!-- Create .cvsignore files -->
     <!-- [TBD: How can I do this by traversing directory tree automatically?] -->



From drepchevski at dev.open-bio.org  Wed Dec 16 15:24:23 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 10:24:23 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161524.nBGFONft005944@dev.open-bio.org>


drepchevski
Wed Dec 16 10:24:23 EST 2009
Update of /home/repository/moby/moby-live/Java/xmls
In directory dev.open-bio.org:/tmp/cvs-serv5909

Modified Files:
	inbMoby.xml 
Log Message:

moby-live/Java/xmls inbMoby.xml,1.4,1.5
===================================================================
RCS file: /home/repository/moby/moby-live/Java/xmls/inbMoby.xml,v
retrieving revision 1.4
retrieving revision 1.5
diff -u -r1.4 -r1.5
--- /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/16 14:24:51	1.4
+++ /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/16 15:24:23	1.5
@@ -52,6 +52,7 @@
 <!-- ================================================================== -->
 <target name="build-central-model" depends="build-central, inb-central-model-compile"
   description="Build MobyCentral">
+
   <property name="released.date" value="${TODAY_SHORT}"/>
   <jar destfile="${build.lib}/${inb.central.model.jar}">
     <manifest>



From drepchevski at dev.open-bio.org  Wed Dec 16 15:24:29 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 10:24:29 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161524.nBGFOT8V005983@dev.open-bio.org>


drepchevski
Wed Dec 16 10:24:29 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentralmodel/META-INF
In directory dev.open-bio.org:/tmp/cvs-serv5952

Added Files:
	MobyCentralList.xml 
Log Message:

moby-live/Java/src/config/inb/mobycentralmodel/META-INF MobyCentralList.xml,NONE,1.1


From drepchevski at dev.open-bio.org  Wed Dec 16 15:24:36 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 10:24:36 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161524.nBGFOa9N006036@dev.open-bio.org>


drepchevski
Wed Dec 16 10:24:36 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/model
In directory dev.open-bio.org:/tmp/cvs-serv5991/model

Added Files:
	AbstractModel.java DatatypesModel.java MobyCentralModel.java 
	ModelListener.java NamespacesModel.java ServicesModel.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/central/model AbstractModel.java,NONE,1.1 DatatypesModel.java,NONE,1.1 MobyCentralModel.java,NONE,1.1 ModelListener.java,NONE,1.1 NamespacesModel.java,NONE,1.1 ServicesModel.java,NONE,1.1


From drepchevski at dev.open-bio.org  Wed Dec 16 15:24:36 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 10:24:36 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161524.nBGFOa4R006022@dev.open-bio.org>


drepchevski
Wed Dec 16 10:24:36 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/cache
In directory dev.open-bio.org:/tmp/cvs-serv5991/cache

Added Files:
	CacheConfig.java IMobyCentralCache.java 
	MobyCentralFileCache.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/central/cache CacheConfig.java,NONE,1.1 IMobyCentralCache.java,NONE,1.1 MobyCentralFileCache.java,NONE,1.1


From drepchevski at dev.open-bio.org  Wed Dec 16 17:40:05 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 12:40:05 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161740.nBGHe5NU007972@dev.open-bio.org>


drepchevski
Wed Dec 16 12:40:05 EST 2009
Update of /home/repository/moby/moby-live/Java/docs
In directory dev.open-bio.org:/tmp/cvs-serv7937

Modified Files:
	inb_moby.html 
Added Files:
	inb_moby_central_model.html 
Log Message:
added a documentation for MobyCentralModel library
moby-live/Java/docs inb_moby_central_model.html,NONE,1.1 inb_moby.html,1.1,1.2
===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/inb_moby.html,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/09/15 17:16:50	1.1
+++ /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/12/16 17:40:05	1.2
@@ -68,6 +68,11 @@
   </p>
 
   <p>
+    <a href="inb_moby_central.html">MobyCentralModel</a> is an auxiliary library that provides a cache implementation for BioMoby Registry.
+    The library can be build using <span class="command"> ant build-central-model </span> command.
+  </p>
+
+  <p>
     Generated libraries could be found in
     <span class="command"> /moby-live/Java/build/lib/ </span> directory.
   </p>



From drepchevski at dev.open-bio.org  Wed Dec 16 17:41:15 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 12:41:15 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161741.nBGHfFsb008055@dev.open-bio.org>


drepchevski
Wed Dec 16 12:41:15 EST 2009
Update of /home/repository/moby/moby-live/Java/docs
In directory dev.open-bio.org:/tmp/cvs-serv8020

Modified Files:
	inb_moby.html 
Log Message:

moby-live/Java/docs inb_moby.html,1.2,1.3
===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/inb_moby.html,v
retrieving revision 1.2
retrieving revision 1.3
diff -u -r1.2 -r1.3
--- /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/12/16 17:40:05	1.2
+++ /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/12/16 17:41:15	1.3
@@ -69,7 +69,7 @@
 
   <p>
     <a href="inb_moby_central.html">MobyCentralModel</a> is an auxiliary library that provides a cache implementation for BioMoby Registry.
-    The library can be build using <span class="command"> ant build-central-model </span> command.
+    The library can be built using <span class="command"> ant build-central-model </span> command.
   </p>
 
   <p>



From drepchevski at dev.open-bio.org  Wed Dec 16 17:42:25 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Wed, 16 Dec 2009 12:42:25 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912161742.nBGHgPsF008098@dev.open-bio.org>


drepchevski
Wed Dec 16 12:42:25 EST 2009
Update of /home/repository/moby/moby-live/Java/docs
In directory dev.open-bio.org:/tmp/cvs-serv8063

Modified Files:
	inb_moby.html 
Log Message:

moby-live/Java/docs inb_moby.html,1.3,1.4
===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/inb_moby.html,v
retrieving revision 1.3
retrieving revision 1.4
diff -u -r1.3 -r1.4
--- /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/12/16 17:41:15	1.3
+++ /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/12/16 17:42:25	1.4
@@ -68,7 +68,7 @@
   </p>
 
   <p>
-    <a href="inb_moby_central.html">MobyCentralModel</a> is an auxiliary library that provides a cache implementation for BioMoby Registry.
+    <a href="inb_moby_central_model.html">MobyCentralModel</a> is an auxiliary library that provides a cache implementation for BioMoby Registry.
     The library can be built using <span class="command"> ant build-central-model </span> command.
   </p>
 



From drepchevski at dev.open-bio.org  Thu Dec 17 11:37:39 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:37:39 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171137.nBHBbdOH022921@dev.open-bio.org>


drepchevski
Thu Dec 17 06:37:39 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/swing
In directory dev.open-bio.org:/tmp/cvs-serv22887/swing

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/swing added to the repository

moby-live/Java/src/main/org/inb/swing - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/swing/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/swing/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/swing/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 11:37:53 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:37:53 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171137.nBHBbrIF022963@dev.open-bio.org>


drepchevski
Thu Dec 17 06:37:53 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui
In directory dev.open-bio.org:/tmp/cvs-serv22929/gui

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui added to the repository

moby-live/Java/src/main/org/inb/biomoby/central/gui - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 11:38:29 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:38:29 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171138.nBHBcTgZ023005@dev.open-bio.org>


drepchevski
Thu Dec 17 06:38:29 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/dnd
In directory dev.open-bio.org:/tmp/cvs-serv22971/dnd

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/dnd added to the repository

moby-live/Java/src/main/org/inb/biomoby/central/gui/dnd - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/dnd/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/dnd/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/dnd/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 11:38:29 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:38:29 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171138.nBHBcTP4023041@dev.open-bio.org>


drepchevski
Thu Dec 17 06:38:29 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/renderer
In directory dev.open-bio.org:/tmp/cvs-serv22971/renderer

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/renderer added to the repository

moby-live/Java/src/main/org/inb/biomoby/central/gui/renderer - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/renderer/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/renderer/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/renderer/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 11:38:29 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:38:29 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171138.nBHBcT8K023022@dev.open-bio.org>


drepchevski
Thu Dec 17 06:38:29 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/model
In directory dev.open-bio.org:/tmp/cvs-serv22971/model

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/model added to the repository

moby-live/Java/src/main/org/inb/biomoby/central/gui/model - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/model/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/model/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/model/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 11:39:31 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:39:31 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171139.nBHBdVsk023153@dev.open-bio.org>


drepchevski
Thu Dec 17 06:39:31 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui
In directory dev.open-bio.org:/tmp/cvs-serv23119/mobycentralgui

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui added to the repository

moby-live/Java/src/config/inb/mobycentralgui - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 11:39:42 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:39:42 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171139.nBHBdgBO023195@dev.open-bio.org>


drepchevski
Thu Dec 17 06:39:42 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui/images
In directory dev.open-bio.org:/tmp/cvs-serv23161/images

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui/images added to the repository

moby-live/Java/src/config/inb/mobycentralgui/images - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui/images/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui/images/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui/images/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 11:40:49 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:40:49 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171140.nBHBenN6023316@dev.open-bio.org>


drepchevski
Thu Dec 17 06:40:49 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentralgui/images
In directory dev.open-bio.org:/tmp/cvs-serv23226/src/config/inb/mobycentralgui/images

Added Files:
	add.png delete.png moby_datatypes.png moby_services.png 
	reload.png save.png 
Log Message:

moby-live/Java/src/config/inb/mobycentralgui/images add.png,NONE,1.1 delete.png,NONE,1.1 moby_datatypes.png,NONE,1.1 moby_services.png,NONE,1.1 reload.png,NONE,1.1 save.png,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 11:40:49 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:40:49 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171140.nBHBenuF023350@dev.open-bio.org>


drepchevski
Thu Dec 17 06:40:49 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/dnd
In directory dev.open-bio.org:/tmp/cvs-serv23226/src/main/org/inb/biomoby/central/gui/dnd

Added Files:
	ObjectTypeTransferHandler.java ObjectTypeTransferable.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/central/gui/dnd ObjectTypeTransferHandler.java,NONE,1.1 ObjectTypeTransferable.java,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 11:40:49 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:40:49 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171140.nBHBenoZ023302@dev.open-bio.org>


drepchevski
Thu Dec 17 06:40:49 EST 2009
Update of /home/repository/moby/moby-live/Java/xmls
In directory dev.open-bio.org:/tmp/cvs-serv23226/xmls

Modified Files:
	inbMoby.xml 
Log Message:

moby-live/Java/xmls inbMoby.xml,1.5,1.6
===================================================================
RCS file: /home/repository/moby/moby-live/Java/xmls/inbMoby.xml,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/16 15:24:23	1.5
+++ /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/17 11:40:49	1.6
@@ -13,6 +13,7 @@
 <property name="inb.core.jar" value="MobyCore.jar"/>
 <property name="inb.central.jar" value="MobyCentral.jar"/>
 <property name="inb.central.model.jar" value="MobyCentralModel.jar"/>
+<property name="inb.central.gui.jar" value="MobyGUIComponents.jar"/>
 
 <!-- ================================================================== -->
 <!-- Initialize (whatever needs to be done)                             -->
@@ -51,7 +52,7 @@
 <!-- Build INB MobyCentralModel                                              -->
 <!-- ================================================================== -->
 <target name="build-central-model" depends="build-central, inb-central-model-compile"
-  description="Build MobyCentral">
+  description="Build MobyCentralModel">
 
   <property name="released.date" value="${TODAY_SHORT}"/>
   <jar destfile="${build.lib}/${inb.central.model.jar}">
@@ -64,6 +65,23 @@
   </jar>
 </target>
 
+<!-- ================================================================== -->
+<!-- Build INB MobyGUIComponents                                        -->
+<!-- ================================================================== -->
+<target name="build-central-gui" depends="build-central-model, inb-central-gui-compile"
+  description="Build MobyGUIComponents">
+
+  <property name="released.date" value="${TODAY_SHORT}"/>
+  <jar destfile="${build.lib}/${inb.central.gui.jar}">
+    <manifest>
+      <attribute name="Built-By"      value="${user.name}"/>
+      <attribute name="Released-Date" value="${released.date}"/>
+    </manifest>
+    <fileset dir="${inb.config.dir}/mobycentralgui"/>
+    <fileset dir="${build.inb.model.gui}"/>
+  </jar>
+</target>
+
   <!-- ================================================================== -->
   <!-- Compiles inb core source                                           -->
   <!-- ================================================================== -->
@@ -121,7 +139,7 @@
   </target>
 
   <!-- ================================================================== -->
-  <!-- Compiles inb central source                                        -->
+  <!-- Compiles inb central model source                                        -->
   <!-- ================================================================== -->
   <target name="inb-central-model-compile" depends="inb-init"
     description="Compile all inb central model source code">
@@ -149,3 +167,33 @@
       <compilerarg value="${xlint.param}"/>
     </javac>
   </target>
+
+  <!-- ================================================================== -->
+  <!-- Compiles inb central model source                                        -->
+  <!-- ================================================================== -->
+  <target name="inb-central-gui-compile" depends="inb-init"
+    description="Compile all inb central gui components source code">
+
+    <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
+      <istrue value="${compile.warnings}"/>
+    </condition>
+
+    <javac
+      sourcepath=""
+      srcdir="${src.main}"
+      destdir="${build.inb.model.gui}"
+      classpath="${build.lib}/${inb.core.jar};${build.lib}/${inb.central.jar};;${build.lib}/${inb.central.model.jar};"
+      verbose="${compile.verbose}"
+      debug="${compile.debug}"
+      debuglevel="lines,vars,source"
+      deprecation="${compile.deprecation}"
+      optimize="${compile.optimize}"
+      includes="org/inb/swing/*,org/inb/biomoby/central/gui/*,org/inb/biomoby/central/gui/dnd/*,org/inb/biomoby/central/gui/model/*,org/inb/biomoby/central/gui/renderer/*"
+      excludes="org/inb/biomoby/shared/*">
+      
+      <classpath refid="build.classpath"/>
+      <classpath refid="dependency.classpath"/>
+      
+      <compilerarg value="${xlint.param}"/>
+    </javac>
+  </target>



From drepchevski at dev.open-bio.org  Thu Dec 17 11:40:49 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:40:49 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171140.nBHBen1t023332@dev.open-bio.org>


drepchevski
Thu Dec 17 06:40:49 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui
In directory dev.open-bio.org:/tmp/cvs-serv23226/src/main/org/inb/biomoby/central/gui

Added Files:
	AbstractEntityTreePanel.java 
	AbstractMobyDatatypesTreePanel.java 
	AbstractMobyObjectPropertyTable.java 
	AbstractMobyPropertyTable.java 
	AbstractMobyServicesTreePanel.java MobyPropertyTable.java 
	ObjectTypeAnnotationPanel.java RegistryComboBox.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/central/gui AbstractEntityTreePanel.java,NONE,1.1 AbstractMobyDatatypesTreePanel.java,NONE,1.1 AbstractMobyObjectPropertyTable.java,NONE,1.1 AbstractMobyPropertyTable.java,NONE,1.1 AbstractMobyServicesTreePanel.java,NONE,1.1 MobyPropertyTable.java,NONE,1.1 ObjectTypeAnnotationPanel.java,NONE,1.1 RegistryComboBox.java,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 11:40:49 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:40:49 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171140.nBHBenhC023383@dev.open-bio.org>


drepchevski
Thu Dec 17 06:40:49 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/model
In directory dev.open-bio.org:/tmp/cvs-serv23226/src/main/org/inb/biomoby/central/gui/model

Added Files:
	AbstractEntityTreeNode.java DataTypesTreeModel.java 
	MobyObjectPropertiesTableModel.java 
	MobyPropertiesTableModel.java RegistryComboBoxModel.java 
	ServicesTreeModel.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/central/gui/model AbstractEntityTreeNode.java,NONE,1.1 DataTypesTreeModel.java,NONE,1.1 MobyObjectPropertiesTableModel.java,NONE,1.1 MobyPropertiesTableModel.java,NONE,1.1 RegistryComboBoxModel.java,NONE,1.1 ServicesTreeModel.java,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 11:40:50 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:40:50 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171140.nBHBeo7t023403@dev.open-bio.org>


drepchevski
Thu Dec 17 06:40:49 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/gui/renderer
In directory dev.open-bio.org:/tmp/cvs-serv23226/src/main/org/inb/biomoby/central/gui/renderer

Added Files:
	AbstractCellRenderer.java AbstractTableCellRenderer.java 
	AbstractTreeCellRenderer.java CardinalityTableCellEditor.java 
	CardinalityTableCellRenderer.java ClassNameTreeCellEditor.java 
	EntityTreeCellRenderer.java MobyNameCellEditor.java 
	ObjectTypeListCellRenderer.java ObjectTypeTableCellEditor.java 
	ObjectTypeTableCellRenderer.java 
	PropertyNameTableCellEditor.java 
	PropertyNameTableCellRenderer.java 
	PropertyTableCellRenderer.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/central/gui/renderer AbstractCellRenderer.java,NONE,1.1 AbstractTableCellRenderer.java,NONE,1.1 AbstractTreeCellRenderer.java,NONE,1.1 CardinalityTableCellEditor.java,NONE,1.1 CardinalityTableCellRenderer.java,NONE,1.1 ClassNameTreeCellEditor.java,NONE,1.1 EntityTreeCellRenderer.java,NONE,1.1 MobyNameCellEditor.java,NONE,1.1 ObjectTypeListCellRenderer.java,NONE,1.1 ObjectTypeTableCellEditor.java,NONE,1.1 ObjectTypeTableCellRenderer.java,NONE,1.1 PropertyNameTableCellEditor.java,NONE,1.1 PropertyNameTableCellRenderer.java,NONE,1.1 PropertyTableCellRenderer.java,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 11:40:49 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 06:40:49 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171140.nBHBenAC023281@dev.open-bio.org>


drepchevski
Thu Dec 17 06:40:49 EST 2009
Update of /home/repository/moby/moby-live/Java
In directory dev.open-bio.org:/tmp/cvs-serv23226

Modified Files:
	build.xml 
Log Message:

moby-live/Java build.xml,1.78,1.79
===================================================================
RCS file: /home/repository/moby/moby-live/Java/build.xml,v
retrieving revision 1.78
retrieving revision 1.79
diff -u -r1.78 -r1.79
--- /home/repository/moby/moby-live/Java/build.xml	2009/12/16 14:25:47	1.78
+++ /home/repository/moby/moby-live/Java/build.xml	2009/12/17 11:40:49	1.79
@@ -184,6 +184,7 @@
     <mkdir dir="${build.inb.core}"/>
     <mkdir dir="${build.inb.central}"/>
     <mkdir dir="${build.inb.model}"/>
+    <mkdir dir="${build.inb.model.gui}"/>
     
     <!-- Create .cvsignore files -->
     <!-- [TBD: How can I do this by traversing directory tree automatically?] -->



From drepchevski at dev.open-bio.org  Thu Dec 17 12:00:01 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 07:00:01 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171200.nBHC01nc023635@dev.open-bio.org>


drepchevski
Thu Dec 17 07:00:01 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/swing
In directory dev.open-bio.org:/tmp/cvs-serv23604

Added Files:
	DecoratedJScrollPane.java ImageLoader.java LabelButton.java 
	RegExDocumentFilter.java StatusBar.java 
Log Message:

moby-live/Java/src/main/org/inb/swing DecoratedJScrollPane.java,NONE,1.1 ImageLoader.java,NONE,1.1 LabelButton.java,NONE,1.1 RegExDocumentFilter.java,NONE,1.1 StatusBar.java,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 13:58:06 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:58:06 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171358.nBHDw6IJ025363@dev.open-bio.org>


drepchevski
Thu Dec 17 08:58:06 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/generator
In directory dev.open-bio.org:/tmp/cvs-serv25329/generator

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/generator added to the repository

moby-live/Java/src/config/inb/generator - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/generator/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/generator/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/generator/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 13:58:19 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:58:19 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171358.nBHDwJKe025405@dev.open-bio.org>


drepchevski
Thu Dec 17 08:58:19 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/generator/resources
In directory dev.open-bio.org:/tmp/cvs-serv25371/resources

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/generator/resources added to the repository

moby-live/Java/src/config/inb/generator/resources - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/generator/resources/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/generator/resources/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/generator/resources/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 13:58:52 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:58:52 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171358.nBHDwq53025489@dev.open-bio.org>


drepchevski
Thu Dec 17 08:58:51 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore
In directory dev.open-bio.org:/tmp/cvs-serv25455/mobycore

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore added to the repository

moby-live/Java/src/config/inb/mobycore - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 13:59:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:59:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171359.nBHDx3LH025531@dev.open-bio.org>


drepchevski
Thu Dec 17 08:59:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org
In directory dev.open-bio.org:/tmp/cvs-serv25497/org

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org added to the repository

moby-live/Java/src/config/inb/mobycore/org - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 13:59:13 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:59:13 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171359.nBHDxDjg025573@dev.open-bio.org>


drepchevski
Thu Dec 17 08:59:13 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb
In directory dev.open-bio.org:/tmp/cvs-serv25539/inb

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 13:59:25 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:59:25 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171359.nBHDxPav025632@dev.open-bio.org>


drepchevski
Thu Dec 17 08:59:25 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/lsae
In directory dev.open-bio.org:/tmp/cvs-serv25581/lsae

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/lsae added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/lsae - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/lsae/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/lsae/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/lsae/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 13:59:35 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:59:35 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171359.nBHDxZxu025699@dev.open-bio.org>


drepchevski
Thu Dec 17 08:59:35 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared
In directory dev.open-bio.org:/tmp/cvs-serv25665/shared

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 13:59:25 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:59:25 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171359.nBHDxP4S025615@dev.open-bio.org>


drepchevski
Thu Dec 17 08:59:25 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby
In directory dev.open-bio.org:/tmp/cvs-serv25581/biomoby

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/biomoby - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 13:59:25 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:59:25 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171359.nBHDxPkc025651@dev.open-bio.org>


drepchevski
Thu Dec 17 08:59:25 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf
In directory dev.open-bio.org:/tmp/cvs-serv25581/wsrf

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/wsrf - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 13:59:50 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:59:50 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171359.nBHDxoxr025781@dev.open-bio.org>


drepchevski
Thu Dec 17 08:59:50 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/datatypes
In directory dev.open-bio.org:/tmp/cvs-serv25747/datatypes

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/datatypes added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/datatypes - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/datatypes/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/datatypes/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/datatypes/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 13:59:50 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:59:50 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171359.nBHDxohA025817@dev.open-bio.org>


drepchevski
Thu Dec 17 08:59:50 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/wsrf
In directory dev.open-bio.org:/tmp/cvs-serv25747/wsrf

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/wsrf added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/wsrf - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/wsrf/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/wsrf/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/wsrf/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 13:59:50 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 08:59:50 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171359.nBHDxoLS025798@dev.open-bio.org>


drepchevski
Thu Dec 17 08:59:50 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/message
In directory dev.open-bio.org:/tmp/cvs-serv25747/message

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/message added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/message - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/message/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/message/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/message/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:00:48 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:00:48 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171400.nBHE0mqm025928@dev.open-bio.org>


drepchevski
Thu Dec 17 09:00:48 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/bf2
In directory dev.open-bio.org:/tmp/cvs-serv25894/bf2

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/bf2 added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/bf2 - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/bf2/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/bf2/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/bf2/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:00:48 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:00:48 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171400.nBHE0m9u025964@dev.open-bio.org>


drepchevski
Thu Dec 17 09:00:48 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rl2
In directory dev.open-bio.org:/tmp/cvs-serv25894/rl2

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rl2 added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rl2 - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rl2/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rl2/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rl2/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:00:48 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:00:48 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171400.nBHE0mgs025985@dev.open-bio.org>


drepchevski
Thu Dec 17 09:00:48 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rp2
In directory dev.open-bio.org:/tmp/cvs-serv25894/rp2

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rp2 added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rp2 - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rp2/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rp2/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rp2/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:00:48 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:00:48 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171400.nBHE0mNQ025945@dev.open-bio.org>


drepchevski
Thu Dec 17 09:00:48 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/r2
In directory dev.open-bio.org:/tmp/cvs-serv25894/r2

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/r2 added to the repository

moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/r2 - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/r2/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/r2/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/r2/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:02:22 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:02:22 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171402.nBHE2MUu026140@dev.open-bio.org>


drepchevski
Thu Dec 17 09:02:22 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org
In directory dev.open-bio.org:/tmp/cvs-serv26106/org

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org added to the repository

moby-live/Java/src/config/inb/mobycentral/org - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:02:32 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:02:32 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171402.nBHE2Wo2026182@dev.open-bio.org>


drepchevski
Thu Dec 17 09:02:31 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb
In directory dev.open-bio.org:/tmp/cvs-serv26148/inb

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb added to the repository

moby-live/Java/src/config/inb/mobycentral/org/inb - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:02:41 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:02:41 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171402.nBHE2fuX026224@dev.open-bio.org>


drepchevski
Thu Dec 17 09:02:41 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby
In directory dev.open-bio.org:/tmp/cvs-serv26190/biomoby

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby added to the repository

moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:02:55 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:02:55 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171402.nBHE2t95026266@dev.open-bio.org>


drepchevski
Thu Dec 17 09:02:55 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central
In directory dev.open-bio.org:/tmp/cvs-serv26232/central

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central added to the repository

moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:03:04 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:03:04 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171403.nBHE348D026308@dev.open-bio.org>


drepchevski
Thu Dec 17 09:03:04 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory
In directory dev.open-bio.org:/tmp/cvs-serv26274/factory

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory added to the repository

moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:03:14 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:03:14 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171403.nBHE3EGd026350@dev.open-bio.org>


drepchevski
Thu Dec 17 09:03:14 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb
In directory dev.open-bio.org:/tmp/cvs-serv26316/jaxb

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb added to the repository

moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:03:23 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:03:23 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171403.nBHE3Nuj026392@dev.open-bio.org>


drepchevski
Thu Dec 17 09:03:23 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/registry
In directory dev.open-bio.org:/tmp/cvs-serv26358/registry

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/registry added to the repository

moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/registry - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/registry/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/registry/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/registry/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:04:04 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:04:04 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171404.nBHE44Ah026455@dev.open-bio.org>


drepchevski
Thu Dec 17 09:04:04 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/util
In directory dev.open-bio.org:/tmp/cvs-serv26421/util

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/util added to the repository

moby-live/Java/src/main/org/inb/util - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/util/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/util/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/util/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:04:48 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:04:48 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171404.nBHE4mv3026520@dev.open-bio.org>


drepchevski
Thu Dec 17 09:04:47 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator
In directory dev.open-bio.org:/tmp/cvs-serv26486/generator

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator added to the repository

moby-live/Java/src/main/org/inb/biomoby/generator - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:05:00 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:05:00 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171405.nBHE50NK026600@dev.open-bio.org>


drepchevski
Thu Dec 17 09:05:00 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui
In directory dev.open-bio.org:/tmp/cvs-serv26566/gui

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui added to the repository

moby-live/Java/src/main/org/inb/biomoby/generator/gui - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:05:12 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:05:12 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171405.nBHE5CCJ026759@dev.open-bio.org>


drepchevski
Thu Dec 17 09:05:12 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui/worker
In directory dev.open-bio.org:/tmp/cvs-serv26725/worker

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui/worker added to the repository

moby-live/Java/src/main/org/inb/biomoby/generator/gui/worker - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui/worker/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui/worker/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui/worker/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE63fU026873@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/registry
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/registry

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/mobycentral/org/inb/biomoby/central/factory/jaxb/registry jaxb.index,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 14:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE632F026823@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java
In directory dev.open-bio.org:/tmp/cvs-serv26788

Modified Files:
	build.xml 
Log Message:

moby-live/Java build.xml,1.79,1.80
===================================================================
RCS file: /home/repository/moby/moby-live/Java/build.xml,v
retrieving revision 1.79
retrieving revision 1.80
diff -u -r1.79 -r1.80
--- /home/repository/moby/moby-live/Java/build.xml	2009/12/17 11:40:49	1.79
+++ /home/repository/moby/moby-live/Java/build.xml	2009/12/17 14:06:03	1.80
@@ -185,6 +185,7 @@
     <mkdir dir="${build.inb.central}"/>
     <mkdir dir="${build.inb.model}"/>
     <mkdir dir="${build.inb.model.gui}"/>
+    <mkdir dir="${build.inb.generator}"/>
     
     <!-- Create .cvsignore files -->
     <!-- [TBD: How can I do this by traversing directory tree automatically?] -->



From drepchevski at dev.open-bio.org  Thu Dec 17 14:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE6342026857@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/generator/resources
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/generator/resources

Added Files:
	datatype.xsl ejb3.xsl ejb3local.xsl package-info.clazz 
	package-info.txt services.xsl template.wsdl 
Log Message:

moby-live/Java/src/config/inb/generator/resources datatype.xsl,NONE,1.1 ejb3.xsl,NONE,1.1 ejb3local.xsl,NONE,1.1 package-info.clazz,NONE,1.1 package-info.txt,NONE,1.1 services.xsl,NONE,1.1 template.wsdl,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 14:06:04 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:04 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE64td027093@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:04 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/util
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/main/org/inb/util

Added Files:
	CompilerProvider.java MemoryFileManager.java 
	TemplateInputStream.java 
Log Message:

moby-live/Java/src/main/org/inb/util CompilerProvider.java,NONE,1.1 MemoryFileManager.java,NONE,1.1 TemplateInputStream.java,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 14:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE63qT026843@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/xmls
In directory dev.open-bio.org:/tmp/cvs-serv26788/xmls

Modified Files:
	inbMoby.xml 
Log Message:

moby-live/Java/xmls inbMoby.xml,1.6,1.7
===================================================================
RCS file: /home/repository/moby/moby-live/Java/xmls/inbMoby.xml,v
retrieving revision 1.6
retrieving revision 1.7
diff -u -r1.6 -r1.7
--- /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/17 11:40:49	1.6
+++ /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/17 14:06:03	1.7
@@ -14,6 +14,7 @@
 <property name="inb.central.jar" value="MobyCentral.jar"/>
 <property name="inb.central.model.jar" value="MobyCentralModel.jar"/>
 <property name="inb.central.gui.jar" value="MobyGUIComponents.jar"/>
+<property name="inb.generator.jar" value="MobyGenerator.jar"/>
 
 <!-- ================================================================== -->
 <!-- Initialize (whatever needs to be done)                             -->
@@ -27,8 +28,10 @@
 <!-- ================================================================== -->
 <target name="build-core" depends="inb-core-compile"
   description="Build MobyCore">
-<jar destfile="${build.lib}/${inb.core.jar}">
+  <jar destfile="${build.lib}/${inb.core.jar}">
+
     <fileset dir="${build.inb.core}"/>
+    <fileset dir="${inb.config.dir}/mobycore"/>
   </jar>
 </target>
 
@@ -82,6 +85,25 @@
   </jar>
 </target>
 
+<!-- ================================================================== -->
+<!-- Build INB MobyGenerator                                            -->
+<!-- ================================================================== -->
+<target name="build-generator" depends="build-central-gui, inb-generator-compile"
+  description="Build MobyGenerator">
+
+  <property name="released.date" value="${TODAY_SHORT}"/>
+  <jar destfile="${build.lib}/${inb.generator.jar}">
+    <manifest>
+      <attribute name="Built-By"      value="${user.name}"/>
+      <attribute name="Released-Date" value="${released.date}"/>
+      <attribute name="Class-Path" value="MobyCore.jar MobyCentral.jar MobyCentralModel.jar MobyGUIComponents.jar"/> 
+      <attribute name="Main-Class" value="org.inb.biomoby.generator.gui.Main"/>
+    </manifest>
+    <fileset dir="${inb.config.dir}/generator"/>
+    <fileset dir="${build.inb.generator}"/>
+  </jar>
+</target>
+
   <!-- ================================================================== -->
   <!-- Compiles inb core source                                           -->
   <!-- ================================================================== -->
@@ -197,3 +219,33 @@
       <compilerarg value="${xlint.param}"/>
     </javac>
   </target>
+
+  <!-- ================================================================== -->
+  <!-- Compiles inb central model source                                        -->
+  <!-- ================================================================== -->
+  <target name="inb-generator-compile" depends="inb-init"
+    description="Compile generator applet source code">
+
+    <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
+      <istrue value="${compile.warnings}"/>
+    </condition>
+
+    <javac
+      sourcepath=""
+      srcdir="${src.main}"
+      destdir="${build.inb.generator}"
+      classpath="${build.lib}/${inb.core.jar};${build.lib}/${inb.central.jar};${build.lib}/${inb.central.model.jar};${build.lib}/${inb.central.gui.jar};"
+      verbose="${compile.verbose}"
+      debug="${compile.debug}"
+      debuglevel="lines,vars,source"
+      deprecation="${compile.deprecation}"
+      optimize="${compile.optimize}"
+      includes="org/inb/util/*,org/inb/biomoby/generator/*,org/inb/biomoby/generator/gui/*,org/inb/biomoby/generator/gui/worker/*"
+      excludes="org/inb/biomoby/shared/*">
+      
+      <classpath refid="build.classpath"/>
+      <classpath refid="dependency.classpath"/>
+      
+      <compilerarg value="${xlint.param}"/>
+    </javac>
+  </target>



From drepchevski at dev.open-bio.org  Thu Dec 17 14:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE63Dk026945@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/lsae
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/mobycore/org/inb/lsae

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/mobycore/org/inb/lsae jaxb.index,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 14:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE635l026891@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/datatypes
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/mobycore/org/inb/biomoby/shared/datatypes

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/datatypes jaxb.index,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 14:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE63jO026911@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/message
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/mobycore/org/inb/biomoby/shared/message

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/message jaxb.index,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 14:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE636m026979@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/r2
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/mobycore/org/inb/wsrf/r2

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/r2 jaxb.index,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 14:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE63ni026927@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/wsrf
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/mobycore/org/inb/biomoby/shared/wsrf

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/mobycore/org/inb/biomoby/shared/wsrf jaxb.index,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 14:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE6381026959@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/bf2
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/mobycore/org/inb/wsrf/bf2

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/bf2 jaxb.index,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 14:27:30 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:27:30 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171427.nBHERUg6027611@dev.open-bio.org>


drepchevski
Thu Dec 17 09:27:30 EST 2009
Update of /home/repository/moby/moby-live/Java
In directory dev.open-bio.org:/tmp/cvs-serv27576

Modified Files:
	build.xml 
Log Message:

moby-live/Java build.xml,1.80,1.81
===================================================================
RCS file: /home/repository/moby/moby-live/Java/build.xml,v
retrieving revision 1.80
retrieving revision 1.81
diff -u -r1.80 -r1.81
--- /home/repository/moby/moby-live/Java/build.xml	2009/12/17 14:06:03	1.80
+++ /home/repository/moby/moby-live/Java/build.xml	2009/12/17 14:27:30	1.81
@@ -65,18 +65,21 @@
   <property name="dir.generated" location="${project.home}/generated"/>
     
   <!-- Temporary build directories -->
-  <property name="build.dir"         location="build"/>
-  <property name="build.classes"     location="${build.dir}/classes"/>
-  <property name="build.lib"         location="${build.dir}/lib"/>
-  <property name="build.clients"     location="${build.dir}/Clients"/>
-  <property name="build.servlets"    location="${build.dir}/registry_servlets"/>
-  <property name="build.webapps"     location="${build.dir}/webapps/jmoby"/>
-  <property name="build.run"         location="${build.dir}/run"/>
-  <property name="build.others"      location="${build.dir}/others"/>
-  <property name="build.test"        location="${build.dir}/test"/>
-  <property name="build.inb.central" location="${build.dir}/inb/central"/>
-  <property name="build.inb.model" location="${build.dir}/inb/model"/>
-  <property name="build.inb.core"    location="${build.dir}/inb/core"/>
+  <property name="build.dir"             location="build"/>
+  <property name="build.classes"         location="${build.dir}/classes"/>
+  <property name="build.lib"             location="${build.dir}/lib"/>
+  <property name="build.clients"         location="${build.dir}/Clients"/>
+  <property name="build.servlets"        location="${build.dir}/registry_servlets"/>
+  <property name="build.webapps"         location="${build.dir}/webapps/jmoby"/>
+  <property name="build.run"             location="${build.dir}/run"/>
+  <property name="build.others"          location="${build.dir}/others"/>
+  <property name="build.test"            location="${build.dir}/test"/>
+  <property name="build.inb.central"     location="${build.dir}/inb/central"/>
+  <property name="build.inb.core"        location="${build.dir}/inb/core"/>
+  <property name="build.inb.model"       location="${build.dir}/inb/model"/>
+  <property name="build.inb.model.gui"   location="${build.dir}/inb/modelgui"/>
+  <property name="build.inb.generator"   location="${build.dir}/inb/generator"/>
+
   <!-- log4j properties -->
   <property name="log4j.configuration"  location="${build.classes}/log4j.properties"/>
   



From drepchevski at dev.open-bio.org  Thu Dec 17 14:27:30 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:27:30 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171427.nBHERULH027626@dev.open-bio.org>


drepchevski
Thu Dec 17 09:27:30 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/factory/jaxb/registry
In directory dev.open-bio.org:/tmp/cvs-serv27576/src/main/org/inb/biomoby/central/factory/jaxb/registry

Removed Files:
	jaxb.index 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/central/factory/jaxb/registry jaxb.index,1.1,NONE
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/central/factory/jaxb/registry/RCS/jaxb.index,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:27:30 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:27:30 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171427.nBHERUqK027704@dev.open-bio.org>


drepchevski
Thu Dec 17 09:27:30 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/lsae
In directory dev.open-bio.org:/tmp/cvs-serv27576/src/main/org/inb/lsae

Removed Files:
	jaxb.index 
Log Message:

moby-live/Java/src/main/org/inb/lsae jaxb.index,1.1,NONE
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/lsae/RCS/jaxb.index,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:27:31 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:27:31 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171427.nBHERVjO027736@dev.open-bio.org>


drepchevski
Thu Dec 17 09:27:31 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/wsrf/rl2
In directory dev.open-bio.org:/tmp/cvs-serv27576/src/main/org/inb/wsrf/rl2

Removed Files:
	jaxb.index 
Log Message:

moby-live/Java/src/main/org/inb/wsrf/rl2 jaxb.index,1.1,NONE
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/wsrf/rl2/RCS/jaxb.index,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:27:31 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:27:31 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171427.nBHERVpQ027751@dev.open-bio.org>


drepchevski
Thu Dec 17 09:27:31 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/wsrf/rp2
In directory dev.open-bio.org:/tmp/cvs-serv27576/src/main/org/inb/wsrf/rp2

Removed Files:
	jaxb.index 
Log Message:

moby-live/Java/src/main/org/inb/wsrf/rp2 jaxb.index,1.1,NONE
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/wsrf/rp2/RCS/jaxb.index,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:27:31 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:27:31 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171427.nBHERVvW027719@dev.open-bio.org>


drepchevski
Thu Dec 17 09:27:31 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/wsrf/r2
In directory dev.open-bio.org:/tmp/cvs-serv27576/src/main/org/inb/wsrf/r2

Removed Files:
	jaxb.index 
Log Message:

moby-live/Java/src/main/org/inb/wsrf/r2 jaxb.index,1.1,NONE
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/wsrf/r2/RCS/jaxb.index,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:27:30 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:27:30 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171427.nBHERULj027656@dev.open-bio.org>


drepchevski
Thu Dec 17 09:27:30 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/message
In directory dev.open-bio.org:/tmp/cvs-serv27576/src/main/org/inb/biomoby/shared/message

Removed Files:
	jaxb.index 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/shared/message jaxb.index,1.1,NONE
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/message/RCS/jaxb.index,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:27:30 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:27:30 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171427.nBHERU2m027677@dev.open-bio.org>


drepchevski
Thu Dec 17 09:27:30 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/wsrf
In directory dev.open-bio.org:/tmp/cvs-serv27576/src/main/org/inb/biomoby/shared/wsrf

Removed Files:
	jaxb.index 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/shared/wsrf jaxb.index,1.1,NONE
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/wsrf/RCS/jaxb.index,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:27:30 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:27:30 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171427.nBHERUKO027641@dev.open-bio.org>


drepchevski
Thu Dec 17 09:27:30 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/datatypes
In directory dev.open-bio.org:/tmp/cvs-serv27576/src/main/org/inb/biomoby/shared/datatypes

Removed Files:
	jaxb.index 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/shared/datatypes jaxb.index,1.1,NONE
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/datatypes/RCS/jaxb.index,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 14:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE632w026993@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rl2
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/mobycore/org/inb/wsrf/rl2

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rl2 jaxb.index,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 14:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE6328027015@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rp2
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/config/inb/mobycore/org/inb/wsrf/rp2

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/mobycore/org/inb/wsrf/rp2 jaxb.index,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 14:06:04 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:04 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE6471027073@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui/worker
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/main/org/inb/biomoby/generator/gui/worker

Added Files:
	DatatypesGenerationWorker.java 
	ServiceAccessorGenerationWorker.java 
	ServicesGenerationWorker.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/generator/gui/worker DatatypesGenerationWorker.java,NONE,1.1 ServiceAccessorGenerationWorker.java,NONE,1.1 ServicesGenerationWorker.java,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 14:06:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE63t1027035@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/main/org/inb/biomoby/generator

Added Files:
	DatatypeGenerator.java GeneratorUtil.java 
	ServiceAccessorGenerator.java ServiceGenerator.java 
	TemplateFilter.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/generator DatatypeGenerator.java,NONE,1.1 GeneratorUtil.java,NONE,1.1 ServiceAccessorGenerator.java,NONE,1.1 ServiceGenerator.java,NONE,1.1 TemplateFilter.java,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 14:06:04 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 09:06:04 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171406.nBHE64be027053@dev.open-bio.org>


drepchevski
Thu Dec 17 09:06:03 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/generator/gui
In directory dev.open-bio.org:/tmp/cvs-serv26788/src/main/org/inb/biomoby/generator/gui

Added Files:
	AbstractServiceModelPanel.java DatatypesGeneratorPanel.java 
	Main.java MainPanel.java ServiceAccessorGeneratorPanel.java 
	ServicesGeneratorPanel.java StatusBarHandler.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/generator/gui AbstractServiceModelPanel.java,NONE,1.1 DatatypesGeneratorPanel.java,NONE,1.1 Main.java,NONE,1.1 MainPanel.java,NONE,1.1 ServiceAccessorGeneratorPanel.java,NONE,1.1 ServicesGeneratorPanel.java,NONE,1.1 StatusBarHandler.java,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 16:49:35 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 11:49:35 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171649.nBHGnZgu029645@dev.open-bio.org>


drepchevski
Thu Dec 17 11:49:35 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service
In directory dev.open-bio.org:/tmp/cvs-serv29611/service

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service added to the repository

moby-live/Java/src/main/org/inb/biomoby/service - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 16:49:47 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 11:49:47 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171649.nBHGnlEi029687@dev.open-bio.org>


drepchevski
Thu Dec 17 11:49:47 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service/resolver
In directory dev.open-bio.org:/tmp/cvs-serv29653/resolver

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service/resolver added to the repository

moby-live/Java/src/main/org/inb/biomoby/service/resolver - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service/resolver/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service/resolver/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service/resolver/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Thu Dec 17 17:21:05 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 12:21:05 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171721.nBHHL5RY030210@dev.open-bio.org>


drepchevski
Thu Dec 17 12:21:05 EST 2009
Update of /home/repository/moby/moby-live/Java
In directory dev.open-bio.org:/tmp/cvs-serv30175

Modified Files:
	build.xml 
Log Message:

moby-live/Java build.xml,1.81,1.82
===================================================================
RCS file: /home/repository/moby/moby-live/Java/build.xml,v
retrieving revision 1.81
retrieving revision 1.82
diff -u -r1.81 -r1.82
--- /home/repository/moby/moby-live/Java/build.xml	2009/12/17 14:27:30	1.81
+++ /home/repository/moby/moby-live/Java/build.xml	2009/12/17 17:21:05	1.82
@@ -65,20 +65,21 @@
   <property name="dir.generated" location="${project.home}/generated"/>
     
   <!-- Temporary build directories -->
-  <property name="build.dir"             location="build"/>
-  <property name="build.classes"         location="${build.dir}/classes"/>
-  <property name="build.lib"             location="${build.dir}/lib"/>
-  <property name="build.clients"         location="${build.dir}/Clients"/>
-  <property name="build.servlets"        location="${build.dir}/registry_servlets"/>
-  <property name="build.webapps"         location="${build.dir}/webapps/jmoby"/>
-  <property name="build.run"             location="${build.dir}/run"/>
-  <property name="build.others"          location="${build.dir}/others"/>
-  <property name="build.test"            location="${build.dir}/test"/>
-  <property name="build.inb.central"     location="${build.dir}/inb/central"/>
-  <property name="build.inb.core"        location="${build.dir}/inb/core"/>
-  <property name="build.inb.model"       location="${build.dir}/inb/model"/>
-  <property name="build.inb.model.gui"   location="${build.dir}/inb/modelgui"/>
-  <property name="build.inb.generator"   location="${build.dir}/inb/generator"/>
+  <property name="build.dir"              location="build"/>
+  <property name="build.classes"          location="${build.dir}/classes"/>
+  <property name="build.lib"              location="${build.dir}/lib"/>
+  <property name="build.clients"          location="${build.dir}/Clients"/>
+  <property name="build.servlets"         location="${build.dir}/registry_servlets"/>
+  <property name="build.webapps"          location="${build.dir}/webapps/jmoby"/>
+  <property name="build.run"              location="${build.dir}/run"/>
+  <property name="build.others"           location="${build.dir}/others"/>
+  <property name="build.test"             location="${build.dir}/test"/>
+  <property name="build.inb.central"      location="${build.dir}/inb/central"/>
+  <property name="build.inb.core"         location="${build.dir}/inb/core"/>
+  <property name="build.inb.core.service" location="${build.dir}/inb/coreservice"/>
+  <property name="build.inb.model"        location="${build.dir}/inb/model"/>
+  <property name="build.inb.model.gui"    location="${build.dir}/inb/modelgui"/>
+  <property name="build.inb.generator"    location="${build.dir}/inb/generator"/>
 
   <!-- log4j properties -->
   <property name="log4j.configuration"  location="${build.classes}/log4j.properties"/>
@@ -185,6 +186,7 @@
     <mkdir dir="${build.others}"/>
     <mkdir dir="${build.test}"/>
     <mkdir dir="${build.inb.core}"/>
+    <mkdir dir="${build.inb.core.service}"/>
     <mkdir dir="${build.inb.central}"/>
     <mkdir dir="${build.inb.model}"/>
     <mkdir dir="${build.inb.model.gui}"/>



From drepchevski at dev.open-bio.org  Thu Dec 17 17:21:05 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 12:21:05 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171721.nBHHL5QG030230@dev.open-bio.org>


drepchevski
Thu Dec 17 12:21:05 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/generator/resources
In directory dev.open-bio.org:/tmp/cvs-serv30175/src/config/inb/generator/resources

Modified Files:
	ejb3.xsl 
Log Message:

moby-live/Java/src/config/inb/generator/resources ejb3.xsl,1.1,1.2
===================================================================
RCS file: /home/repository/moby/moby-live/Java/src/config/inb/generator/resources/ejb3.xsl,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/src/config/inb/generator/resources/ejb3.xsl	2009/12/17 14:06:03	1.1
+++ /home/repository/moby/moby-live/Java/src/config/inb/generator/resources/ejb3.xsl	2009/12/17 17:21:05	1.2
@@ -20,7 +20,7 @@
 import org.inb.biomoby.shared.ontology.*;
 import org.inb.biomoby.shared.datatypes.*;
 import org.inb.biomoby.shared.message.*;
-import org.inb.biomoby.server.MobyProvider;
+import org.inb.biomoby.service.MobyProvider;
 
 @WebServiceProvider(serviceName="<xsl:value-of select='@clazz'/>", 
                     portName="<xsl:value-of select='@clazz'/>Port", 



From drepchevski at dev.open-bio.org  Thu Dec 17 17:21:06 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 12:21:06 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171721.nBHHL6fa030284@dev.open-bio.org>


drepchevski
Thu Dec 17 12:21:05 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service/resolver
In directory dev.open-bio.org:/tmp/cvs-serv30175/src/main/org/inb/biomoby/service/resolver

Added Files:
	MobyWSRFScope.java MobyWSRFScopeFeature.java 
	WSRFOperation.java WSRFResourceInstanceResolver.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/service/resolver MobyWSRFScope.java,NONE,1.1 MobyWSRFScopeFeature.java,NONE,1.1 WSRFOperation.java,NONE,1.1 WSRFResourceInstanceResolver.java,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 17:21:06 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 12:21:06 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171721.nBHHL69Y030268@dev.open-bio.org>


drepchevski
Thu Dec 17 12:21:05 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/service
In directory dev.open-bio.org:/tmp/cvs-serv30175/src/main/org/inb/biomoby/service

Added Files:
	AbstractAsyncMobyImpl.java AbstractAsyncMobyService.java 
	IAsyncMobyImpl.java IAsyncMobyService.java MobyProvider.java 
Log Message:

moby-live/Java/src/main/org/inb/biomoby/service AbstractAsyncMobyImpl.java,NONE,1.1 AbstractAsyncMobyService.java,NONE,1.1 IAsyncMobyImpl.java,NONE,1.1 IAsyncMobyService.java,NONE,1.1 MobyProvider.java,NONE,1.1


From drepchevski at dev.open-bio.org  Thu Dec 17 17:21:05 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 12:21:05 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171721.nBHHL5BV030252@dev.open-bio.org>


drepchevski
Thu Dec 17 12:21:05 EST 2009
Update of /home/repository/moby/moby-live/Java/xmls
In directory dev.open-bio.org:/tmp/cvs-serv30175/xmls

Modified Files:
	inbMoby.xml 
Log Message:

moby-live/Java/xmls inbMoby.xml,1.7,1.8
===================================================================
RCS file: /home/repository/moby/moby-live/Java/xmls/inbMoby.xml,v
retrieving revision 1.7
retrieving revision 1.8
diff -u -r1.7 -r1.8
--- /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/17 14:06:03	1.7
+++ /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/17 17:21:05	1.8
@@ -11,6 +11,7 @@
 
 <property name="inb.config.dir" location="${src.config}/inb"/>
 <property name="inb.core.jar" value="MobyCore.jar"/>
+<property name="inb.core.service.jar" value="MobyCoreService.jar"/>
 <property name="inb.central.jar" value="MobyCentral.jar"/>
 <property name="inb.central.model.jar" value="MobyCentralModel.jar"/>
 <property name="inb.central.gui.jar" value="MobyGUIComponents.jar"/>
@@ -36,6 +37,21 @@
 </target>
 
 <!-- ================================================================== -->
+<!-- Build INB MobyCoreService                                          -->
+<!-- ================================================================== -->
+<target name="build-core-service" depends="build-core, inb-core-service-compile"
+  description="Build MobyCoreService">
+  <property name="released.date" value="${TODAY_SHORT}"/>
+  <jar destfile="${build.lib}/${inb.core.service.jar}">
+    <manifest>
+      <attribute name="Built-By"      value="${user.name}"/>
+      <attribute name="Released-Date" value="${released.date}"/>
+    </manifest>
+    <fileset dir="${build.inb.core.service}"/>
+  </jar>
+</target>
+
+<!-- ================================================================== -->
 <!-- Build INB MobyCentral                                              -->
 <!-- ================================================================== -->
 <target name="build-central" depends="build-core, inb-central-compile"
@@ -221,7 +237,7 @@
   </target>
 
   <!-- ================================================================== -->
-  <!-- Compiles inb central model source                                        -->
+  <!-- Compiles inb generator utility source                              -->
   <!-- ================================================================== -->
   <target name="inb-generator-compile" depends="inb-init"
     description="Compile generator applet source code">
@@ -249,3 +265,33 @@
       <compilerarg value="${xlint.param}"/>
     </javac>
   </target>
+
+  <!-- ================================================================== -->
+  <!-- Compiles inb core server source                                    -->
+  <!-- ================================================================== -->
+  <target name="inb-core-service-compile" depends="inb-init"
+    description="Compile core service source code">
+
+    <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
+      <istrue value="${compile.warnings}"/>
+    </condition>
+
+    <javac
+      sourcepath=""
+      srcdir="${src.main}"
+      destdir="${build.inb.core.service}"
+      classpath="${build.lib}/${inb.core.jar}"
+      verbose="${compile.verbose}"
+      debug="${compile.debug}"
+      debuglevel="lines,vars,source"
+      deprecation="${compile.deprecation}"
+      optimize="${compile.optimize}"
+      includes="org/inb/biomoby/service/*,org/inb/biomoby/service/resolver/*"
+      excludes="org/inb/biomoby/shared/*">
+      
+      <classpath refid="build.classpath"/>
+      <classpath refid="dependency.classpath"/>
+      
+      <compilerarg value="${xlint.param}"/>
+    </javac>
+  </target>



From drepchevski at dev.open-bio.org  Thu Dec 17 18:05:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Thu, 17 Dec 2009 13:05:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912171805.nBHI53bK030925@dev.open-bio.org>


drepchevski
Thu Dec 17 13:05:03 EST 2009
Update of /home/repository/moby/moby-live/Java/docs
In directory dev.open-bio.org:/tmp/cvs-serv30886

Modified Files:
	inb_moby.html inb_moby_core.html 
Added Files:
	inb_moby_central_gui.html inb_moby_core_async_service.html 
	inb_moby_core_service.html inb_moby_generator.html 
Log Message:
some documentation added
moby-live/Java/docs inb_moby_central_gui.html,NONE,1.1 inb_moby_core_async_service.html,NONE,1.1 inb_moby_core_service.html,NONE,1.1 inb_moby_generator.html,NONE,1.1 inb_moby.html,1.4,1.5 inb_moby_core.html,1.3,1.4
===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/inb_moby.html,v
retrieving revision 1.4
retrieving revision 1.5
diff -u -r1.4 -r1.5
--- /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/12/16 17:42:25	1.4
+++ /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/12/17 18:05:03	1.5
@@ -68,11 +68,26 @@
   </p>
 
   <p>
+    <a href="inb_moby_core_service.html">MobyCoreSrevice</a> library helps developers to implement a BioMoby web services based on JAX-WS specification.
+    The library is built using an <span class="command"> ant build-core-service </span> command.
+  </p>
+
+  <p>
     <a href="inb_moby_central_model.html">MobyCentralModel</a> is an auxiliary library that provides a cache implementation for BioMoby Registry.
     The library can be built using <span class="command"> ant build-central-model </span> command.
   </p>
 
   <p>
+    Some developers could find interesting a <a href="inb_moby_central_gui.html">MobyGUIComponents</a> that is a set of Swing components to work with a BioMoby Registry.
+    To build the library use <span class="command"> ant build-central-gui </span> command.
+  </p>
+
+  <p>
+    <a href="inb_moby_core.html">MobyCore</a> can work with generated by <a href="inb_moby_generator.html">MobyGenerator</a> utility java ontology classes.
+    To create an utility library use <span class="command"> ant build-generator </span> command.
+  </p>
+
+  <p>
     Generated libraries could be found in
     <span class="command"> /moby-live/Java/build/lib/ </span> directory.
   </p>

===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/inb_moby_core.html,v
retrieving revision 1.3
retrieving revision 1.4
diff -u -r1.3 -r1.4
--- /home/repository/moby/moby-live/Java/docs/inb_moby_core.html	2009/10/16 12:18:46	1.3
+++ /home/repository/moby/moby-live/Java/docs/inb_moby_core.html	2009/12/17 18:05:03	1.4
@@ -135,8 +135,8 @@
   <h2> Generating JAXB-annotated ontology classes </h2>
 
   <p>
-    Even MobyCore may work without generated ontology classes, they facilitate a development.
-    Generated classes are nothing more than JAXB annotated beans with properties.
+    Even <span class="highlight">MobyCore</span> may work without generated ontology classes, they facilitate a development.
+    Generated by <a class="highlight" href="inb_moby_generator.html">MobyGenerator</a> classes are nothing more than JAXB annotated beans with properties.
 
   </p>
   



From drepchevski at dev.open-bio.org  Fri Dec 18 10:47:01 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:47:01 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181047.nBIAl1KF019730@dev.open-bio.org>


drepchevski
Fri Dec 18 05:47:01 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui
In directory dev.open-bio.org:/tmp/cvs-serv19696/gui

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui added to the repository

moby-live/Java/src/main/org/inb/biomoby/client/gui - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Fri Dec 18 10:47:21 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:47:21 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181047.nBIAlLR0019786@dev.open-bio.org>


drepchevski
Fri Dec 18 05:47:21 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/auxiliary
In directory dev.open-bio.org:/tmp/cvs-serv19750/auxiliary

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/auxiliary added to the repository

moby-live/Java/src/main/org/inb/biomoby/client/gui/auxiliary - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/auxiliary/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/auxiliary/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/auxiliary/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Fri Dec 18 10:47:22 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:47:22 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181047.nBIAlMMw019805@dev.open-bio.org>


drepchevski
Fri Dec 18 05:47:22 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/ontology
In directory dev.open-bio.org:/tmp/cvs-serv19750/ontology

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/ontology added to the repository

moby-live/Java/src/main/org/inb/biomoby/client/gui/ontology - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/ontology/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/ontology/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/ontology/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Fri Dec 18 10:47:22 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:47:22 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181047.nBIAlMl6019826@dev.open-bio.org>


drepchevski
Fri Dec 18 05:47:22 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing
In directory dev.open-bio.org:/tmp/cvs-serv19750/swing

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing added to the repository

moby-live/Java/src/main/org/inb/biomoby/client/gui/swing - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Fri Dec 18 10:48:37 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:48:37 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181048.nBIAmbFQ020000@dev.open-bio.org>


drepchevski
Fri Dec 18 05:48:36 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/border
In directory dev.open-bio.org:/tmp/cvs-serv19964/border

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/border added to the repository

moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/border - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/border/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/border/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/border/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Fri Dec 18 10:52:22 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:52:22 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181052.nBIAqMdv020206@dev.open-bio.org>


drepchevski
Fri Dec 18 05:52:22 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui
In directory dev.open-bio.org:/tmp/cvs-serv20171

Added Files:
	AbstractMobyComponent.java DefaultMobyComponent.java 
	DynamicMobyComponent.java IDynamicComponent.java 
	ISequenceCoordinateTransformer.java ISequenceDependent.java 
	ISequenceTransformer.java ITransformable.java 
	MobyMessageQueue.java SequenceTransformerBean.java 
	StringPainter.java Subsequence.java 
Log Message:
added inb biomoby swing visualizer components
moby-live/Java/src/main/org/inb/biomoby/client/gui AbstractMobyComponent.java,NONE,1.1 DefaultMobyComponent.java,NONE,1.1 DynamicMobyComponent.java,NONE,1.1 IDynamicComponent.java,NONE,1.1 ISequenceCoordinateTransformer.java,NONE,1.1 ISequenceDependent.java,NONE,1.1 ISequenceTransformer.java,NONE,1.1 ITransformable.java,NONE,1.1 MobyMessageQueue.java,NONE,1.1 SequenceTransformerBean.java,NONE,1.1 StringPainter.java,NONE,1.1 Subsequence.java,NONE,1.1


From drepchevski at dev.open-bio.org  Fri Dec 18 10:52:23 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:52:23 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181052.nBIAqNEI020236@dev.open-bio.org>


drepchevski
Fri Dec 18 05:52:23 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/ontology
In directory dev.open-bio.org:/tmp/cvs-serv20171/ontology

Added Files:
	AminoAcidSequenceComponent.java 
	AnnotatedAASequenceComponent.java 
	AnnotatedNASequenceComponent.java 
	AnnotatedStructureComponent.java AnnotationComponent.java 
	AnnotationHitsComponent.java 
	AntigenicAnnotatedAASequenceComponent.java 
	AntigenicReportComponent.java ArrayXYDataComponent.java 
	BlocksAnnotatedAASequenceComponent.java 
	CommentedAASequenceComponent.java 
	CommentedAASubsequenceComponent.java 
	CommentedNASequenceComponent.java DigestReportComponent.java 
	EquicktandemAnnotatedNASequenceComponent.java 
	EquicktandemReportComponent.java 
	FeatureAASequenceComponent.java 
	FeatureAnnotatedAASequenceComponent.java 
	FeatureAnnotationComponent.java GenericSequenceComponent.java 
	GenericSubsequenceComponent.java HMMPfam_ReportComponent.java 
	Image_EncodedComponent.java 
	InterProMotifAnnotatedAASequenceComponent.java 
	MobyComponentFactory.java MobyObjectComponent.java 
	MolWeightsAnnotatedAASequenceComponent.java 
	MotifAnnotatedAASequenceComponent.java 
	MotifMatrixComponent.java OMIMComponent.java 
	PDB__TextComponent.java PPSearchReportComponent.java 
	PatmatdbReportComponent.java PatmatmotifsReportComponent.java 
	PatternComponent.java Pepcoil_TextComponent.java 
	PepinfoReportComponent.java Pepstats_TextComponent.java 
	PrositeMotifComponent.java 
	RestrictAnnotatedNASequenceComponent.java 
	RestrictReportComponent.java RulesComponent.java 
	ScoredMotifAnnotatedAASequenceComponent.java 
	Sequence_alignment_reportComponent.java 
	SigcleaveAnnotatedAASequenceComponent.java 
	SigcleaveReportComponent.java Stockholm_TextComponent.java 
	StructureBoundariesComponent.java 
	StructureDomainComponent.java StructureFragmentComponent.java 
	Text__formattedComponent.java Text__plainComponent.java 
	TransmembraneAnnotatedAASequenceComponent.java 
	TransmembraneReportComponent.java 
Log Message:
added inb biomoby swing visualizer components
moby-live/Java/src/main/org/inb/biomoby/client/gui/ontology AminoAcidSequenceComponent.java,NONE,1.1 AnnotatedAASequenceComponent.java,NONE,1.1 AnnotatedNASequenceComponent.java,NONE,1.1 AnnotatedStructureComponent.java,NONE,1.1 AnnotationComponent.java,NONE,1.1 AnnotationHitsComponent.java,NONE,1.1 AntigenicAnnotatedAASequenceComponent.java,NONE,1.1 AntigenicReportComponent.java,NONE,1.1 ArrayXYDataComponent.java,NONE,1.1 BlocksAnnotatedAASequenceComponent.java,NONE,1.1 CommentedAASequenceComponent.java,NONE,1.1 CommentedAASubsequenceComponent.java,NONE,1.1 CommentedNASequenceComponent.java,NONE,1.1 DigestReportComponent.java,NONE,1.1 EquicktandemAnnotatedNASequenceComponent.java,NONE,1.1 EquicktandemReportComponent.java,NONE,1.1 FeatureAASequenceComponent.java,NONE,1.1 FeatureAnnotatedAASequenceComponent.java,NONE,1.1 FeatureAnnotationComponent.java,NONE,1.1 GenericSequenceComponent.java,NONE,1.1 GenericSubsequenceComponent.java,NONE,1.1 HMMPfam_ReportComponent.java,NONE,1!
 .1 Image_EncodedComponent.java,NONE,1.1 InterProMotifAnnotatedAASequenceComponent.java,NONE,1.1 MobyComponentFactory.java,NONE,1.1 MobyObjectComponent.java,NONE,1.1 MolWeightsAnnotatedAASequenceComponent.java,NONE,1.1 MotifAnnotatedAASequenceComponent.java,NONE,1.1 MotifMatrixComponent.java,NONE,1.1 OMIMComponent.java,NONE,1.1 PDB__TextComponent.java,NONE,1.1 PPSearchReportComponent.java,NONE,1.1 PatmatdbReportComponent.java,NONE,1.1 PatmatmotifsReportComponent.java,NONE,1.1 PatternComponent.java,NONE,1.1 Pepcoil_TextComponent.java,NONE,1.1 PepinfoReportComponent.java,NONE,1.1 Pepstats_TextComponent.java,NONE,1.1 PrositeMotifComponent.java,NONE,1.1 RestrictAnnotatedNASequenceComponent.java,NONE,1.1 RestrictReportComponent.java,NONE,1.1 RulesComponent.java,NONE,1.1 ScoredMotifAnnotatedAASequenceComponent.java,NONE,1.1 Sequence_alignment_reportComponent.java,NONE,1.1 SigcleaveAnnotatedAASequenceComponent.java,NONE,1.1 SigcleaveReportComponent.java,NONE,1.1 Stockholm_TextCompo!
 nent.java,NONE,1.1 StructureBoundariesComponent.java,NONE,1.1 !
 Structur
eDomainComponent.java,NONE,1.1 StructureFragmentComponent.java,NONE,1.1 Text__formattedComponent.java,NONE,1.1 Text__plainComponent.java,NONE,1.1 TransmembraneAnnotatedAASequenceComponent.java,NONE,1.1 TransmembraneReportComponent.java,NONE,1.1


From drepchevski at dev.open-bio.org  Fri Dec 18 10:52:23 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:52:23 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181052.nBIAqNOo020272@dev.open-bio.org>


drepchevski
Fri Dec 18 05:52:23 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/border
In directory dev.open-bio.org:/tmp/cvs-serv20171/swing/border

Added Files:
	HRBorder.java HeaderBorder.java RoundedBorder.java 
Log Message:
added inb biomoby swing visualizer components
moby-live/Java/src/main/org/inb/biomoby/client/gui/swing/border HRBorder.java,NONE,1.1 HeaderBorder.java,NONE,1.1 RoundedBorder.java,NONE,1.1


From drepchevski at dev.open-bio.org  Fri Dec 18 10:52:23 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:52:23 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181052.nBIAqNjF020254@dev.open-bio.org>


drepchevski
Fri Dec 18 05:52:23 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/swing
In directory dev.open-bio.org:/tmp/cvs-serv20171/swing

Added Files:
	CollapsablePanel.java RoundedButton.java 
	RoundedMultilineLabel.java 
Log Message:
added inb biomoby swing visualizer components
moby-live/Java/src/main/org/inb/biomoby/client/gui/swing CollapsablePanel.java,NONE,1.1 RoundedButton.java,NONE,1.1 RoundedMultilineLabel.java,NONE,1.1


From drepchevski at dev.open-bio.org  Fri Dec 18 10:52:23 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 05:52:23 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181052.nBIAqNhV020220@dev.open-bio.org>


drepchevski
Fri Dec 18 05:52:22 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/client/gui/auxiliary
In directory dev.open-bio.org:/tmp/cvs-serv20171/auxiliary

Added Files:
	AbstractAnnotationListPane.java 
	AbstractDescriptionMobyComponent.java 
	AbstractMultilineDescriptionMobyComponent.java 
	AbstractPopupMobyComponent.java 
	AbstractTransformableMobyPanel.java 
	AntigenicAnnotationListPane.java ArrayFloatChartPane.java 
	AssertedWrapperComponent.java Base64.java 
	DummyMobyObjectFactory.java DynamicMobyPanel.java 
	EquicktandemAnnotationListPane.java 
	FamilyBLOCKAnnotationPane.java FeatureAnnotationListPane.java 
	ImageComponent.java InterProMotifAnnotationListPane.java 
	JmolPane.java LabeledAnnotationListPane.java 
	MolWeightAnnotationListPane.java MotifAnnotationListPane.java 
	MultilineCommentedAASequenceDescriptionPane.java 
	MultilineCommentedNASequenceDescriptionMobyComponent.java 
	RestrictAnnotationListPane.java 
	ScoredMotifAnnotationListPane.java ScrollableTextPane.java 
	SigcleaveAnnotationListPane.java 
	StructureBoundariesListPane.java 
	StructureFragmentListPane.java 
	TransmembraneAnnotationListPane.java 
Log Message:
added inb biomoby swing visualizer components
moby-live/Java/src/main/org/inb/biomoby/client/gui/auxiliary AbstractAnnotationListPane.java,NONE,1.1 AbstractDescriptionMobyComponent.java,NONE,1.1 AbstractMultilineDescriptionMobyComponent.java,NONE,1.1 AbstractPopupMobyComponent.java,NONE,1.1 AbstractTransformableMobyPanel.java,NONE,1.1 AntigenicAnnotationListPane.java,NONE,1.1 ArrayFloatChartPane.java,NONE,1.1 AssertedWrapperComponent.java,NONE,1.1 Base64.java,NONE,1.1 DummyMobyObjectFactory.java,NONE,1.1 DynamicMobyPanel.java,NONE,1.1 EquicktandemAnnotationListPane.java,NONE,1.1 FamilyBLOCKAnnotationPane.java,NONE,1.1 FeatureAnnotationListPane.java,NONE,1.1 ImageComponent.java,NONE,1.1 InterProMotifAnnotationListPane.java,NONE,1.1 JmolPane.java,NONE,1.1 LabeledAnnotationListPane.java,NONE,1.1 MolWeightAnnotationListPane.java,NONE,1.1 MotifAnnotationListPane.java,NONE,1.1 MultilineCommentedAASequenceDescriptionPane.java,NONE,1.1 MultilineCommentedNASequenceDescriptionMobyComponent.java,NONE,1.1 RestrictAnnotationListPane!
 .java,NONE,1.1 ScoredMotifAnnotationListPane.java,NONE,1.1 ScrollableTextPane.java,NONE,1.1 SigcleaveAnnotationListPane.java,NONE,1.1 StructureBoundariesListPane.java,NONE,1.1 StructureFragmentListPane.java,NONE,1.1 TransmembraneAnnotationListPane.java,NONE,1.1


From drepchevski at dev.open-bio.org  Fri Dec 18 11:18:17 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 06:18:17 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181118.nBIBIHpu021794@dev.open-bio.org>


drepchevski
Fri Dec 18 06:18:17 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/ontology
In directory dev.open-bio.org:/tmp/cvs-serv21760/ontology

Log Message:
Directory /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/ontology added to the repository

moby-live/Java/src/main/org/inb/biomoby/shared/ontology - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/ontology/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/ontology/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/ontology/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Fri Dec 18 11:20:57 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Fri, 18 Dec 2009 06:20:57 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912181120.nBIBKv9g021958@dev.open-bio.org>


drepchevski
Fri Dec 18 06:20:57 EST 2009
Update of /home/repository/moby/moby-live/Java/src/main/org/inb/biomoby/shared/ontology
In directory dev.open-bio.org:/tmp/cvs-serv21923

Added Files:
	AminoAcidSequence.java AnnotatedAASequence.java 
	AnnotatedDomain.java AnnotatedNASequence.java 
	AnnotatedStructure.java Annotation.java AnnotationHits.java 
	AntigenicAnnotatedAASequence.java AntigenicAnnotation.java 
	AntigenicReport.java Array.java ArrayFloat.java 
	ArrayInteger.java ArrayString.java ArrayXYData.java 
	BL2GAnnotation.java BLAST_XML.java BLAST__Text.java 
	BLOCKAnnotation.java BasicAnnotation.java 
	BlocksAnnotatedAASequence.java ByoDynInput.java 
	ByoDynOEDParameter.java ByoDynTarget.java CATHDomain.java 
	CathDomainDescription_XML.java Clustalw_Evaluated_Text.java 
	Clustalw_Text.java ClusterProfile_Text.java Clustering.java 
	CodcmpReport_Text.java CodonUsageTable_Text.java 
	CommentedAASequence.java CommentedAASubsequence.java 
	CommentedDNASequence.java CommentedNASequence.java 
	CommentedObject.java CommentedRNASequence.java 
	CommentedWeightedObject.java Consensus_Sequence_Text.java 
	CpGAnnotatedNASequence.java CpGAnnotation.java CpGReport.java 
	DASGFF.java DCCP_Text.java DGPI_Report.java DNASequence.java 
	DSSP_Text.java DTA_Text.java 
	DifferentialExpressionTest_Text.java 
	DifferentialExpressionTest__Text.java DigestReport.java 
	Distance_Matrix.java Domain.java DomainAnnotatedSequence.java 
	EMBL_Text.java ENSEMBLHomolog.java Element.java 
	ElementFloat.java ElementInteger.java ElementString.java 
	ElementXYData.java EmowseAnnotatedAASequence.java 
	Enzymatic_Text.java EquicktandemAnnotatedNASequence.java 
	EquicktandemAnnotation.java EquicktandemReport.java 
	ExpressionCore.java ExpressionStatistics.java FASTA.java 
	FASTA_AA.java FASTA_AA_multi.java FASTA_NA.java 
	FASTA_NA_multi.java FASTA_Text.java FASTA_pep.java 
	FSOLV_Text.java FSSP_Text.java FamilyBLOCKAnnotation.java 
	FatiGO_Text.java FatiGO__XML.java FatiScan_Text.java 
	FatiScan__XML.java FeatureAASequence.java 
	FeatureAnnotatedAASequence.java FeatureAnnotation.java 
	FunCUT_Annotation_XML.java GFF.java GFF2.java GFF3.java 
	GOGraph.java GOTerm.java GenBank_Text.java 
	GenericSequence.java HMMPfam_Report.java HMMSearch_Report.java 
	HMM_Text.java HSSP_Text.java HierarchicalClustering.java 
	ISS_Annotation_XML.java ISS_Report.java Image_Encoded.java 
	IntAct_XML.java InterProMotifAnnotatedAASequence.java 
	InterProMotifAnnotation.java Interaction.java 
	InteractionMethod.java Interactor.java List_Text.java 
	List__Text.java LutefiskAnnotatedAASequence.java 
	LutefiskAnnotation.java LutefiskReport.java MEME_Text.java 
	MSF.java MatchingPattern.java Matrix.java MatrixFloat.java 
	MatrixInteger.java MatrixString.java Meta_Alignment_Text.java 
	MicroArrayData_Text.java MicroArrayData__Text.java 
	MmCIF_Text.java MmCIF__Text.java MolWeightAnnotation.java 
	MolWeightsAnnotatedAASequence.java MolWeightsArray.java 
	MotifAnnotatedAASequence.java MotifAnnotation.java 
	MotifMatrix.java MultiParameter.java NAMD_Conf_Text.java 
	NAMD_Output.java NAMD_Structure.java NCBI_BLAST_Text.java 
	NCut_Clusters.java NCut_Matrix.java NCut_Text.java 
	NDB__Text.java Newick_Text.java Newick__Text.java 
	NucleotideSequence.java OMIM.java PDB_Enriched.java 
	PDB__Text.java PHD_Text.java PIR_Text.java PMUT_Text.java 
	PPSearchReport.java PSF_Text.java Parameter.java 
	Parameters4Values.java ParametersToVary.java 
	PatmatdbReport.java PatmatmotifsReport.java Pattern.java 
	PepNovoReport.java Pepcoil_Text.java PepinfoReport.java 
	Pepstats_Text.java Phylip_Interleaved_Text.java 
	Phylip_Text.java Phylip_tree_Text.java 
	Phylip_treefile_Text.java PredictionModel__XML.java 
	Prediction__Text.java PredictorTraining_Text.java 
	ProbMolWeightAnnotation.java 
	ProbMolWeightsAnnotatedAASequence.java ProdomMotif.java 
	PropertySequence.java PrositeDoc_Text.java PrositeMotif.java 
	RNASequence.java RefSeq_Text.java 
	RestrictAnnotatedNASequence.java RestrictAnnotation.java 
	RestrictReport.java Rules.java SCOPDomain.java 
	SCOPLayerNode.java SIAM_Annotation_XML.java 
	ScoredMotifAnnotatedAASequence.java ScoredMotifAnnotation.java 
	SequenceDescription_Text.java Sequence_alignment_report.java 
	SigcleaveAnnotatedAASequence.java SigcleaveAnnotation.java 
	SigcleaveReport.java Stockholm_Text.java 
	StructureBoundaries.java StructureDomain.java 
	StructureFragment.java Structure_Alignment_Report.java 
	SwissProt_Text.java TFscan_Text.java TTS.java Target.java 
	TargetArgument.java Text__formatted.java Text__html.java 
	Text__plain.java Text__xhtml.java Text__xml.java 
	TransmembraneAnnotatedAASequence.java 
	TransmembraneAnnotation.java TransmembraneReport.java 
	TreeDet_Annotation_HTML.java TreeDet_Annotation_XML.java 
	TreeDet_Report.java Typed_Image.java URL__Text.java 
	VirtualSequence.java WeightedAminoAcidSequences.java 
	WeightedList_Text.java WeightedList__Text.java 
	WeightedObject.java Zip_Encoded.java jaxb.index 
	package-info.java 
Log Message:
added generated by MobyGenerator java ontology classes...
moby-live/Java/src/main/org/inb/biomoby/shared/ontology AminoAcidSequence.java,NONE,1.1 AnnotatedAASequence.java,NONE,1.1 AnnotatedDomain.java,NONE,1.1 AnnotatedNASequence.java,NONE,1.1 AnnotatedStructure.java,NONE,1.1 Annotation.java,NONE,1.1 AnnotationHits.java,NONE,1.1 AntigenicAnnotatedAASequence.java,NONE,1.1 AntigenicAnnotation.java,NONE,1.1 AntigenicReport.java,NONE,1.1 Array.java,NONE,1.1 ArrayFloat.java,NONE,1.1 ArrayInteger.java,NONE,1.1 ArrayString.java,NONE,1.1 ArrayXYData.java,NONE,1.1 BL2GAnnotation.java,NONE,1.1 BLAST_XML.java,NONE,1.1 BLAST__Text.java,NONE,1.1 BLOCKAnnotation.java,NONE,1.1 BasicAnnotation.java,NONE,1.1 BlocksAnnotatedAASequence.java,NONE,1.1 ByoDynInput.java,NONE,1.1 ByoDynOEDParameter.java,NONE,1.1 ByoDynTarget.java,NONE,1.1 CATHDomain.java,NONE,1.1 CathDomainDescription_XML.java,NONE,1.1 Clustalw_Evaluated_Text.java,NONE,1.1 Clustalw_Text.java,NONE,1.1 ClusterProfile_Text.java,NONE,1.1 Clustering.java,NONE,1.1 CodcmpReport_Text.java,NONE,1.!
 1 CodonUsageTable_Text.java,NONE,1.1 CommentedAASequence.java,NONE,1.1 CommentedAASubsequence.java,NONE,1.1 CommentedDNASequence.java,NONE,1.1 CommentedNASequence.java,NONE,1.1 CommentedObject.java,NONE,1.1 CommentedRNASequence.java,NONE,1.1 CommentedWeightedObject.java,NONE,1.1 Consensus_Sequence_Text.java,NONE,1.1 CpGAnnotatedNASequence.java,NONE,1.1 CpGAnnotation.java,NONE,1.1 CpGReport.java,NONE,1.1 DASGFF.java,NONE,1.1 DCCP_Text.java,NONE,1.1 DGPI_Report.java,NONE,1.1 DNASequence.java,NONE,1.1 DSSP_Text.java,NONE,1.1 DTA_Text.java,NONE,1.1 DifferentialExpressionTest_Text.java,NONE,1.1 DifferentialExpressionTest__Text.java,NONE,1.1 DigestReport.java,NONE,1.1 Distance_Matrix.java,NONE,1.1 Domain.java,NONE,1.1 DomainAnnotatedSequence.java,NONE,1.1 EMBL_Text.java,NONE,1.1 ENSEMBLHomolog.java,NONE,1.1 Element.java,NONE,1.1 ElementFloat.java,NONE,1.1 ElementInteger.java,NONE,1.1 ElementString.java,NONE,1.1 ElementXYData.java,NONE,1.1 EmowseAnnotatedAASequence.java,NONE,1.1 E!
 nzymatic_Text.java,NONE,1.1 EquicktandemAnnotatedNASequence.ja!
 va,NONE,
1.1 EquicktandemAnnotation.java,NONE,1.1 EquicktandemReport.java,NONE,1.1 ExpressionCore.java,NONE,1.1 ExpressionStatistics.java,NONE,1.1 FASTA.java,NONE,1.1 FASTA_AA.java,NONE,1.1 FASTA_AA_multi.java,NONE,1.1 FASTA_NA.java,NONE,1.1 FASTA_NA_multi.java,NONE,1.1 FASTA_Text.java,NONE,1.1 FASTA_pep.java,NONE,1.1 FSOLV_Text.java,NONE,1.1 FSSP_Text.java,NONE,1.1 FamilyBLOCKAnnotation.java,NONE,1.1 FatiGO_Text.java,NONE,1.1 FatiGO__XML.java,NONE,1.1 FatiScan_Text.java,NONE,1.1 FatiScan__XML.java,NONE,1.1 FeatureAASequence.java,NONE,1.1 FeatureAnnotatedAASequence.java,NONE,1.1 FeatureAnnotation.java,NONE,1.1 FunCUT_Annotation_XML.java,NONE,1.1 GFF.java,NONE,1.1 GFF2.java,NONE,1.1 GFF3.java,NONE,1.1 GOGraph.java,NONE,1.1 GOTerm.java,NONE,1.1 GenBank_Text.java,NONE,1.1 GenericSequence.java,NONE,1.1 HMMPfam_Report.java,NONE,1.1 HMMSearch_Report.java,NONE,1.1 HMM_Text.java,NONE,1.1 HSSP_Text.java,NONE,1.1 HierarchicalClustering.java,NONE,1.1 ISS_Annotation_XML.java,NONE,1.1 ISS_Report.!
 java,NONE,1.1 Image_Encoded.java,NONE,1.1 IntAct_XML.java,NONE,1.1 InterProMotifAnnotatedAASequence.java,NONE,1.1 InterProMotifAnnotation.java,NONE,1.1 Interaction.java,NONE,1.1 InteractionMethod.java,NONE,1.1 Interactor.java,NONE,1.1 List_Text.java,NONE,1.1 List__Text.java,NONE,1.1 LutefiskAnnotatedAASequence.java,NONE,1.1 LutefiskAnnotation.java,NONE,1.1 LutefiskReport.java,NONE,1.1 MEME_Text.java,NONE,1.1 MSF.java,NONE,1.1 MatchingPattern.java,NONE,1.1 Matrix.java,NONE,1.1 MatrixFloat.java,NONE,1.1 MatrixInteger.java,NONE,1.1 MatrixString.java,NONE,1.1 Meta_Alignment_Text.java,NONE,1.1 MicroArrayData_Text.java,NONE,1.1 MicroArrayData__Text.java,NONE,1.1 MmCIF_Text.java,NONE,1.1 MmCIF__Text.java,NONE,1.1 MolWeightAnnotation.java,NONE,1.1 MolWeightsAnnotatedAASequence.java,NONE,1.1 MolWeightsArray.java,NONE,1.1 MotifAnnotatedAASequence.java,NONE,1.1 MotifAnnotation.java,NONE,1.1 MotifMatrix.java,NONE,1.1 MultiParameter.java,NONE,1.1 NAMD_Conf_Text.java,NONE,1.1 NAMD_Output!
 .java,NONE,1.1 NAMD_Structure.java,NONE,1.1 NCBI_BLAST_Text.ja!
 va,NONE,
1.1 NCut_Clusters.java,NONE,1.1 NCut_Matrix.java,NONE,1.1 NCut_Text.java,NONE,1.1 NDB__Text.java,NONE,1.1 Newick_Text.java,NONE,1.1 Newick__Text.java,NONE,1.1 NucleotideSequence.java,NONE,1.1 OMIM.java,NONE,1.1 PDB_Enriched.java,NONE,1.1 PDB__Text.java,NONE,1.1 PHD_Text.java,NONE,1.1 PIR_Text.java,NONE,1.1 PMUT_Text.java,NONE,1.1 PPSearchReport.java,NONE,1.1 PSF_Text.java,NONE,1.1 Parameter.java,NONE,1.1 Parameters4Values.java,NONE,1.1 ParametersToVary.java,NONE,1.1 PatmatdbReport.java,NONE,1.1 PatmatmotifsReport.java,NONE,1.1 Pattern.java,NONE,1.1 PepNovoReport.java,NONE,1.1 Pepcoil_Text.java,NONE,1.1 PepinfoReport.java,NONE,1.1 Pepstats_Text.java,NONE,1.1 Phylip_Interleaved_Text.java,NONE,1.1 Phylip_Text.java,NONE,1.1 Phylip_tree_Text.java,NONE,1.1 Phylip_treefile_Text.java,NONE,1.1 PredictionModel__XML.java,NONE,1.1 Prediction__Text.java,NONE,1.1 PredictorTraining_Text.java,NONE,1.1 ProbMolWeightAnnotation.java,NONE,1.1 ProbMolWeightsAnnotatedAASequence.java,NONE,1.1 Prod!
 omMotif.java,NONE,1.1 PropertySequence.java,NONE,1.1 PrositeDoc_Text.java,NONE,1.1 PrositeMotif.java,NONE,1.1 RNASequence.java,NONE,1.1 RefSeq_Text.java,NONE,1.1 RestrictAnnotatedNASequence.java,NONE,1.1 RestrictAnnotation.java,NONE,1.1 RestrictReport.java,NONE,1.1 Rules.java,NONE,1.1 SCOPDomain.java,NONE,1.1 SCOPLayerNode.java,NONE,1.1 SIAM_Annotation_XML.java,NONE,1.1 ScoredMotifAnnotatedAASequence.java,NONE,1.1 ScoredMotifAnnotation.java,NONE,1.1 SequenceDescription_Text.java,NONE,1.1 Sequence_alignment_report.java,NONE,1.1 SigcleaveAnnotatedAASequence.java,NONE,1.1 SigcleaveAnnotation.java,NONE,1.1 SigcleaveReport.java,NONE,1.1 Stockholm_Text.java,NONE,1.1 StructureBoundaries.java,NONE,1.1 StructureDomain.java,NONE,1.1 StructureFragment.java,NONE,1.1 Structure_Alignment_Report.java,NONE,1.1 SwissProt_Text.java,NONE,1.1 TFscan_Text.java,NONE,1.1 TTS.java,NONE,1.1 Target.java,NONE,1.1 TargetArgument.java,NONE,1.1 Text__formatted.java,NONE,1.1 Text__html.java,NONE,1.1 Text!
 __plain.java,NONE,1.1 Text__xhtml.java,NONE,1.1 Text__xml.java!
 ,NONE,1.
1 TransmembraneAnnotatedAASequence.java,NONE,1.1 TransmembraneAnnotation.java,NONE,1.1 TransmembraneReport.java,NONE,1.1 TreeDet_Annotation_HTML.java,NONE,1.1 TreeDet_Annotation_XML.java,NONE,1.1 TreeDet_Report.java,NONE,1.1 Typed_Image.java,NONE,1.1 URL__Text.java,NONE,1.1 VirtualSequence.java,NONE,1.1 WeightedAminoAcidSequences.java,NONE,1.1 WeightedList_Text.java,NONE,1.1 WeightedList__Text.java,NONE,1.1 WeightedObject.java,NONE,1.1 Zip_Encoded.java,NONE,1.1 jaxb.index,NONE,1.1 package-info.java,NONE,1.1


From drepchevski at dev.open-bio.org  Sun Dec 20 16:28:54 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Sun, 20 Dec 2009 11:28:54 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912201628.nBKGSsj6031410@dev.open-bio.org>


drepchevski
Sun Dec 20 11:28:54 EST 2009
Update of /home/repository/moby/moby-live/Java/xmls
In directory dev.open-bio.org:/tmp/cvs-serv31355/xmls

Modified Files:
	inbMoby.xml 
Log Message:

moby-live/Java/xmls inbMoby.xml,1.8,1.9
===================================================================
RCS file: /home/repository/moby/moby-live/Java/xmls/inbMoby.xml,v
retrieving revision 1.8
retrieving revision 1.9
diff -u -r1.8 -r1.9
--- /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/17 17:21:05	1.8
+++ /home/repository/moby/moby-live/Java/xmls/inbMoby.xml	2009/12/20 16:28:54	1.9
@@ -16,6 +16,8 @@
 <property name="inb.central.model.jar" value="MobyCentralModel.jar"/>
 <property name="inb.central.gui.jar" value="MobyGUIComponents.jar"/>
 <property name="inb.generator.jar" value="MobyGenerator.jar"/>
+<property name="inb.ontology.jar" value="datatypes.jar"/>
+<property name="inb.visualizers.jar" value="MobyComponents.jar"/>
 
 <!-- ================================================================== -->
 <!-- Initialize (whatever needs to be done)                             -->
@@ -39,7 +41,7 @@
 <!-- ================================================================== -->
 <!-- Build INB MobyCoreService                                          -->
 <!-- ================================================================== -->
-<target name="build-core-service" depends="build-core, inb-core-service-compile"
+<target name="build-core-service" depends="inb-core-service-compile"
   description="Build MobyCoreService">
   <property name="released.date" value="${TODAY_SHORT}"/>
   <jar destfile="${build.lib}/${inb.core.service.jar}">
@@ -54,7 +56,7 @@
 <!-- ================================================================== -->
 <!-- Build INB MobyCentral                                              -->
 <!-- ================================================================== -->
-<target name="build-central" depends="build-core, inb-central-compile"
+<target name="build-central" depends="inb-central-compile"
   description="Build MobyCentral">
   <property name="released.date" value="${TODAY_SHORT}"/>
   <jar destfile="${build.lib}/${inb.central.jar}">
@@ -70,7 +72,7 @@
 <!-- ================================================================== -->
 <!-- Build INB MobyCentralModel                                              -->
 <!-- ================================================================== -->
-<target name="build-central-model" depends="build-central, inb-central-model-compile"
+<target name="build-central-model" depends="inb-central-model-compile"
   description="Build MobyCentralModel">
 
   <property name="released.date" value="${TODAY_SHORT}"/>
@@ -87,7 +89,7 @@
 <!-- ================================================================== -->
 <!-- Build INB MobyGUIComponents                                        -->
 <!-- ================================================================== -->
-<target name="build-central-gui" depends="build-central-model, inb-central-gui-compile"
+<target name="build-central-gui" depends="inb-central-gui-compile"
   description="Build MobyGUIComponents">
 
   <property name="released.date" value="${TODAY_SHORT}"/>
@@ -104,7 +106,7 @@
 <!-- ================================================================== -->
 <!-- Build INB MobyGenerator                                            -->
 <!-- ================================================================== -->
-<target name="build-generator" depends="build-central-gui, inb-generator-compile"
+<target name="build-generator" depends="inb-generator-compile"
   description="Build MobyGenerator">
 
   <property name="released.date" value="${TODAY_SHORT}"/>
@@ -120,6 +122,39 @@
   </jar>
 </target>
 
+<!-- ================================================================== -->
+<!-- Build INB Ontology Datatypes                                       -->
+<!-- ================================================================== -->
+<target name="build-ontology" depends="inb-datatypes-ontology-compile"
+  description="Build MobyComponents">
+
+  <property name="released.date" value="${TODAY_SHORT}"/>
+  <jar destfile="${build.lib}/${inb.ontology.jar}">
+    <manifest>
+      <attribute name="Built-By"      value="${user.name}"/>
+      <attribute name="Released-Date" value="${released.date}"/>
+    </manifest>
+    <fileset dir="${inb.config.dir}/ontology"/>
+    <fileset dir="${build.inb.ontology}"/>
+  </jar>
+</target>
+
+<!-- ================================================================== -->
+<!-- Build INB Ontology Visual Components                               -->
+<!-- ================================================================== -->
+<target name="build-ontology-components" depends="inb-visualizer-components-compile"
+  description="Build MobyComponents">
+
+  <property name="released.date" value="${TODAY_SHORT}"/>
+  <jar destfile="${build.lib}/${inb.visualizers.jar}">
+    <manifest>
+      <attribute name="Built-By"      value="${user.name}"/>
+      <attribute name="Released-Date" value="${released.date}"/>
+    </manifest>
+    <fileset dir="${build.inb.visualizers}"/>
+  </jar>
+</target>
+
   <!-- ================================================================== -->
   <!-- Compiles inb core source                                           -->
   <!-- ================================================================== -->
@@ -149,7 +184,7 @@
   <!-- ================================================================== -->
   <!-- Compiles inb central source                                        -->
   <!-- ================================================================== -->
-  <target name="inb-central-compile" depends="inb-init"
+  <target name="inb-central-compile" depends="build-core"
     description="Compile all inb central source code">
 
     <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
@@ -177,9 +212,9 @@
   </target>
 
   <!-- ================================================================== -->
-  <!-- Compiles inb central model source                                        -->
+  <!-- Compiles inb central model source                                  -->
   <!-- ================================================================== -->
-  <target name="inb-central-model-compile" depends="inb-init"
+  <target name="inb-central-model-compile" depends="build-central"
     description="Compile all inb central model source code">
 
     <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
@@ -209,7 +244,7 @@
   <!-- ================================================================== -->
   <!-- Compiles inb central model source                                        -->
   <!-- ================================================================== -->
-  <target name="inb-central-gui-compile" depends="inb-init"
+  <target name="inb-central-gui-compile" depends="build-central-model"
     description="Compile all inb central gui components source code">
 
     <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
@@ -220,7 +255,7 @@
       sourcepath=""
       srcdir="${src.main}"
       destdir="${build.inb.model.gui}"
-      classpath="${build.lib}/${inb.core.jar};${build.lib}/${inb.central.jar};;${build.lib}/${inb.central.model.jar};"
+      classpath="${build.lib}/${inb.core.jar};${build.lib}/${inb.central.jar};${build.lib}/${inb.central.model.jar}"
       verbose="${compile.verbose}"
       debug="${compile.debug}"
       debuglevel="lines,vars,source"
@@ -239,7 +274,7 @@
   <!-- ================================================================== -->
   <!-- Compiles inb generator utility source                              -->
   <!-- ================================================================== -->
-  <target name="inb-generator-compile" depends="inb-init"
+  <target name="inb-generator-compile" depends="build-central-gui"
     description="Compile generator applet source code">
 
     <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
@@ -267,9 +302,9 @@
   </target>
 
   <!-- ================================================================== -->
-  <!-- Compiles inb core server source                                    -->
+  <!-- Compiles inb core service source                                    -->
   <!-- ================================================================== -->
-  <target name="inb-core-service-compile" depends="inb-init"
+  <target name="inb-core-service-compile" depends="build-core"
     description="Compile core service source code">
 
     <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
@@ -294,4 +329,67 @@
       
       <compilerarg value="${xlint.param}"/>
     </javac>
+
+  </target>
+
+  <!-- ================================================================== -->
+  <!-- Compiles inb visualizer components source                          -->
+  <!-- ================================================================== -->
+  <target name="inb-visualizer-components-compile" depends="build-ontology"
+    description="Compile swing visualizer components source code">
+
+    <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
+      <istrue value="${compile.warnings}"/>
+    </condition>
+
+    <javac
+      sourcepath=""
+      srcdir="${src.main}"
+      destdir="${build.inb.visualizers}"
+      classpath="${build.lib}/${inb.core.jar};${build.lib}/${inb.ontology.jar}"
+      verbose="${compile.verbose}"
+      debug="${compile.debug}"
+      debuglevel="lines,vars,source"
+      deprecation="${compile.deprecation}"
+      optimize="${compile.optimize}"
+      includes="org/inb/biomoby/client/gui/*,org/inb/biomoby/client/gui/swing/*,org/inb/biomoby/client/gui/swing/border/*,org/inb/biomoby/client/gui/auxiliary/*,org/inb/biomoby/client/gui/ontology/*"
+      >
+      
+      <classpath refid="build.classpath"/>
+      <classpath refid="dependency.classpath"/>
+      
+      <compilerarg value="${xlint.param}"/>
+    </javac>
+
+  </target>
+
+  <!-- ================================================================== -->
+  <!-- Compiles inb datatypes ontology objects source                     -->
+  <!-- =======	=========================================================== -->
+  <target name="inb-datatypes-ontology-compile" depends="build-core"
+    description="Compile generated ontology datatype classes source code">
+
+    <condition property="xlint.param" value="-Xlint:unchecked" else="-Xlint:none">
+      <istrue value="${compile.warnings}"/>
+    </condition>
+
+    <javac
+      sourcepath=""
+      srcdir="${src.main}"
+      destdir="${build.inb.ontology}"
+      classpath="${build.lib}/${inb.core.jar}"
+      verbose="${compile.verbose}"
+      debug="${compile.debug}"
+      debuglevel="lines,vars,source"
+      deprecation="${compile.deprecation}"
+      optimize="${compile.optimize}"
+      includes="org/inb/biomoby/shared/ontology/*"
+      >
+      
+      <classpath refid="build.classpath"/>
+      <classpath refid="dependency.classpath"/>
+      
+      <compilerarg value="${xlint.param}"/>
+    </javac>
+
   </target>



From drepchevski at dev.open-bio.org  Sun Dec 20 16:28:54 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Sun, 20 Dec 2009 11:28:54 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912201628.nBKGSsxh031390@dev.open-bio.org>


drepchevski
Sun Dec 20 11:28:54 EST 2009
Update of /home/repository/moby/moby-live/Java
In directory dev.open-bio.org:/tmp/cvs-serv31355

Modified Files:
	build.xml 
Log Message:

moby-live/Java build.xml,1.82,1.83
===================================================================
RCS file: /home/repository/moby/moby-live/Java/build.xml,v
retrieving revision 1.82
retrieving revision 1.83
diff -u -r1.82 -r1.83
--- /home/repository/moby/moby-live/Java/build.xml	2009/12/17 17:21:05	1.82
+++ /home/repository/moby/moby-live/Java/build.xml	2009/12/20 16:28:54	1.83
@@ -80,6 +80,8 @@
   <property name="build.inb.model"        location="${build.dir}/inb/model"/>
   <property name="build.inb.model.gui"    location="${build.dir}/inb/modelgui"/>
   <property name="build.inb.generator"    location="${build.dir}/inb/generator"/>
+  <property name="build.inb.ontology"     location="${build.dir}/inb/ontology"/>
+  <property name="build.inb.visualizers"  location="${build.dir}/inb/visualizers"/>
 
   <!-- log4j properties -->
   <property name="log4j.configuration"  location="${build.classes}/log4j.properties"/>
@@ -191,6 +193,8 @@
     <mkdir dir="${build.inb.model}"/>
     <mkdir dir="${build.inb.model.gui}"/>
     <mkdir dir="${build.inb.generator}"/>
+    <mkdir dir="${build.inb.ontology}"/>
+    <mkdir dir="${build.inb.visualizers}"/>
     
     <!-- Create .cvsignore files -->
     <!-- [TBD: How can I do this by traversing directory tree automatically?] -->



From drepchevski at dev.open-bio.org  Sun Dec 20 16:57:03 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Sun, 20 Dec 2009 11:57:03 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912201657.nBKGv3CM031785@dev.open-bio.org>


drepchevski
Sun Dec 20 11:57:02 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/ontology
In directory dev.open-bio.org:/tmp/cvs-serv31751/ontology

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/ontology added to the repository

moby-live/Java/src/config/inb/ontology - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Sun Dec 20 16:57:21 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Sun, 20 Dec 2009 11:57:21 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912201657.nBKGvLQo031827@dev.open-bio.org>


drepchevski
Sun Dec 20 11:57:21 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/ontology/org
In directory dev.open-bio.org:/tmp/cvs-serv31793/org

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/ontology/org added to the repository

moby-live/Java/src/config/inb/ontology/org - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Sun Dec 20 16:57:38 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Sun, 20 Dec 2009 11:57:38 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912201657.nBKGvcnM031869@dev.open-bio.org>


drepchevski
Sun Dec 20 11:57:38 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb
In directory dev.open-bio.org:/tmp/cvs-serv31835/inb

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb added to the repository

moby-live/Java/src/config/inb/ontology/org/inb - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Sun Dec 20 16:58:01 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Sun, 20 Dec 2009 11:58:01 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912201658.nBKGw1ni031911@dev.open-bio.org>


drepchevski
Sun Dec 20 11:58:00 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby
In directory dev.open-bio.org:/tmp/cvs-serv31877/biomoby

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby added to the repository

moby-live/Java/src/config/inb/ontology/org/inb/biomoby - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Sun Dec 20 16:58:19 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Sun, 20 Dec 2009 11:58:19 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912201658.nBKGwJCx031953@dev.open-bio.org>


drepchevski
Sun Dec 20 11:58:18 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared
In directory dev.open-bio.org:/tmp/cvs-serv31919/shared

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared added to the repository

moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Sun Dec 20 16:58:35 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Sun, 20 Dec 2009 11:58:35 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912201658.nBKGwZDf031995@dev.open-bio.org>


drepchevski
Sun Dec 20 11:58:35 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/ontology
In directory dev.open-bio.org:/tmp/cvs-serv31961/ontology

Log Message:
Directory /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/ontology added to the repository

moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/ontology - New directory
rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/ontology/RCS/-,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/ontology/RCS/New,v: No such file or directory

rcsdiff: /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/ontology/RCS/directory,v: No such file or directory



From drepchevski at dev.open-bio.org  Sun Dec 20 16:59:41 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Sun, 20 Dec 2009 11:59:41 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912201659.nBKGxfbH032095@dev.open-bio.org>


drepchevski
Sun Dec 20 11:59:41 EST 2009
Update of /home/repository/moby/moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/ontology
In directory dev.open-bio.org:/tmp/cvs-serv32064

Added Files:
	jaxb.index 
Log Message:

moby-live/Java/src/config/inb/ontology/org/inb/biomoby/shared/ontology jaxb.index,NONE,1.1


From drepchevski at dev.open-bio.org  Mon Dec 21 10:55:49 2009
From: drepchevski at dev.open-bio.org (Dmitry Repchevski)
Date: Mon, 21 Dec 2009 05:55:49 -0500
Subject: [MOBY-guts] biomoby commit
Message-ID: <200912211055.nBLAtnQv013277@dev.open-bio.org>


drepchevski
Mon Dec 21 05:55:49 EST 2009
Update of /home/repository/moby/moby-live/Java/docs
In directory dev.open-bio.org:/tmp/cvs-serv13238

Modified Files:
	inb_moby.html inb_moby_central_gui.html 
Added Files:
	inb_moby_components.html 
Log Message:
some documentation...
moby-live/Java/docs inb_moby_components.html,NONE,1.1 inb_moby.html,1.5,1.6 inb_moby_central_gui.html,1.1,1.2
===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/inb_moby.html,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/12/17 18:05:03	1.5
+++ /home/repository/moby/moby-live/Java/docs/inb_moby.html	2009/12/21 10:55:49	1.6
@@ -88,6 +88,16 @@
   </p>
 
   <p>
+    If you do not want to bother with <a href="inb_moby_generator.html">MobyGenerator</a>, you cat try out a precompiled ontology from INB Repository.
+    (<span class="command"> build-ontology </span>).
+  </p>
+
+  <p>
+    Finally, there is a visualization package <a href="inb_moby_components.html">MobyComponents</a>, which is a set of Java Swing Components to visualize Java ontology classes.
+    To create the library use <span class="command"> ant build-ontology-components </span>.
+  </p>
+
+  <p>
     Generated libraries could be found in
     <span class="command"> /moby-live/Java/build/lib/ </span> directory.
   </p>

===================================================================
RCS file: /home/repository/moby/moby-live/Java/docs/inb_moby_central_gui.html,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/docs/inb_moby_central_gui.html	2009/12/17 18:05:03	1.1
+++ /home/repository/moby/moby-live/Java/docs/inb_moby_central_gui.html	2009/12/21 10:55:49	1.2
@@ -1,7 +1,7 @@
 <html>
  <head>
   <title>
-   INB MobyCentral Java API
+   BioMoby Central GUI Components Library
   </title>
   <style type="text/css">
     body {