From: <jo...@us...> - 2008-07-23 13:04:41
|
Revision: 6239 http://bioclipse.svn.sourceforge.net/bioclipse/?rev=6239&view=rev Author: jonalv Date: 2008-07-23 13:04:39 +0000 (Wed, 23 Jul 2008) Log Message: ----------- Updated all classpath on olas++ suggestion Modified Paths: -------------- bioclipse2/trunk/_playground_/net.bioclipse.pkpd/.classpath bioclipse2/trunk/_playground_/net.bioclipse.springBasedPrototypePlugin/.classpath bioclipse2/trunk/_playground_/net.bioclipse.templateUI/.classpath bioclipse2/trunk/_playground_/net.bioclipse.usermanager.demo/.classpath bioclipse2/trunk/_playground_/testCNF/.classpath bioclipse2/trunk/plugins/net.bioclipse.analysis/.classpath bioclipse2/trunk/plugins/net.bioclipse.biojava/.classpath bioclipse2/trunk/plugins/net.bioclipse.biojava.business/.classpath bioclipse2/trunk/plugins/net.bioclipse.biojava.business.tests/.classpath bioclipse2/trunk/plugins/net.bioclipse.biojava.ui/.classpath bioclipse2/trunk/plugins/net.bioclipse.biojava.ui.test/.classpath bioclipse2/trunk/plugins/net.bioclipse.biomart/.classpath bioclipse2/trunk/plugins/net.bioclipse.biomoby/.classpath bioclipse2/trunk/plugins/net.bioclipse.biomoby.tests/.classpath bioclipse2/trunk/plugins/net.bioclipse.biomoby.ui/.classpath bioclipse2/trunk/plugins/net.bioclipse.cdk.business/.classpath bioclipse2/trunk/plugins/net.bioclipse.cdk.business.test/.classpath bioclipse2/trunk/plugins/net.bioclipse.cdk.ui/.classpath bioclipse2/trunk/plugins/net.bioclipse.cdk.ui.tests/.classpath bioclipse2/trunk/plugins/net.bioclipse.cdk10/.classpath bioclipse2/trunk/plugins/net.bioclipse.cdk10.jchempaint/.classpath bioclipse2/trunk/plugins/net.bioclipse.cdk10.rdfeditor/.classpath bioclipse2/trunk/plugins/net.bioclipse.cdk10.sdfeditor/.classpath bioclipse2/trunk/plugins/net.bioclipse.cdk10.ui/.classpath bioclipse2/trunk/plugins/net.bioclipse.core/.classpath bioclipse2/trunk/plugins/net.bioclipse.core.tests/.classpath bioclipse2/trunk/plugins/net.bioclipse.data.sampledata/.classpath bioclipse2/trunk/plugins/net.bioclipse.hsqldb/.classpath bioclipse2/trunk/plugins/net.bioclipse.hsqldb.tests/.classpath bioclipse2/trunk/plugins/net.bioclipse.jalview/.classpath bioclipse2/trunk/plugins/net.bioclipse.jmol/.classpath bioclipse2/trunk/plugins/net.bioclipse.logger/.classpath bioclipse2/trunk/plugins/net.bioclipse.molfilter.editor/.classpath bioclipse2/trunk/plugins/net.bioclipse.moss/.classpath bioclipse2/trunk/plugins/net.bioclipse.pcore.edit/.classpath bioclipse2/trunk/plugins/net.bioclipse.qsar/.classpath bioclipse2/trunk/plugins/net.bioclipse.r/.classpath bioclipse2/trunk/plugins/net.bioclipse.scripting/.classpath bioclipse2/trunk/plugins/net.bioclipse.scripting.tests/.classpath bioclipse2/trunk/plugins/net.bioclipse.services/.classpath bioclipse2/trunk/plugins/net.bioclipse.services.embrace/.classpath bioclipse2/trunk/plugins/net.bioclipse.statistics/.classpath bioclipse2/trunk/plugins/net.bioclipse.statistics.jama/.classpath bioclipse2/trunk/plugins/net.bioclipse.structuredb/src/net/bioclipse/structuredb/business/StructuredbManager.java bioclipse2/trunk/plugins/net.bioclipse.structuredb.tests/.classpath bioclipse2/trunk/plugins/net.bioclipse.ui/.classpath bioclipse2/trunk/plugins/net.bioclipse.ui.tests/.classpath bioclipse2/trunk/plugins/net.bioclipse.usermanager/.classpath bioclipse2/trunk/plugins/net.bioclipse.usermanager.tests/.classpath bioclipse2/trunk/plugins/net.bioclipse.xom/.classpath bioclipse2/trunk/plugins/nu.psnet.quickimage/.classpath Modified: bioclipse2/trunk/_playground_/net.bioclipse.pkpd/.classpath =================================================================== --- bioclipse2/trunk/_playground_/net.bioclipse.pkpd/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/_playground_/net.bioclipse.pkpd/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/_playground_/net.bioclipse.springBasedPrototypePlugin/.classpath =================================================================== --- bioclipse2/trunk/_playground_/net.bioclipse.springBasedPrototypePlugin/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/_playground_/net.bioclipse.springBasedPrototypePlugin/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/_playground_/net.bioclipse.templateUI/.classpath =================================================================== --- bioclipse2/trunk/_playground_/net.bioclipse.templateUI/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/_playground_/net.bioclipse.templateUI/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/_playground_/net.bioclipse.usermanager.demo/.classpath =================================================================== --- bioclipse2/trunk/_playground_/net.bioclipse.usermanager.demo/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/_playground_/net.bioclipse.usermanager.demo/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/_playground_/testCNF/.classpath =================================================================== --- bioclipse2/trunk/_playground_/testCNF/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/_playground_/testCNF/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry excluding="rcpCNF/NavigatorRoot.java|editors/TextEditor.java" kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry excluding="rcpCNF/NavigatorRoot.java|editors/TextEditor.java" kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.analysis/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.analysis/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.analysis/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry excluding="net/bioclipse/analysis/editors/MatrixEditorOLD.java" kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry excluding="net/bioclipse/analysis/editors/MatrixEditorOLD.java" kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.biojava/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.biojava/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.biojava/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,9 +1,9 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> + <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> + <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> <classpathentry kind="src" path="src"/> <classpathentry exported="true" kind="lib" path="jars/biojava-live.jar" sourcepath="/biojava"/> - <classpathentry exported="true" kind="lib" path="jars/bytecode.jar"/> - <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> - <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry exported="true" kind="lib" path="jars/bytecode.jar" sourcepath="net.bioclipse.biojavasrc.zip"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.biojava.business/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.biojava.business/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.biojava.business/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,8 +1,8 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> + <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> + <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> <classpathentry kind="src" path="src"/> <classpathentry kind="src" path="META-INF"/> - <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> - <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.biojava.business.tests/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.biojava.business.tests/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.biojava.business.tests/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="tests"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="tests"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.biojava.ui/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.biojava.ui/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.biojava.ui/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.biojava.ui.test/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.biojava.ui.test/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.biojava.ui.test/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.biomart/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.biomart/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.biomart/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,14 +1,14 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> + <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> + <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> <classpathentry kind="src" path="src"/> - <classpathentry exported="true" kind="lib" path="lib/commons-io-1.3.1.jar"/> - <classpathentry exported="true" kind="lib" path="lib/jdom-1.0.jar"/> + <classpathentry exported="true" kind="lib" path="lib/commons-httpclient-3.0-rc2.jar" sourcepath="net.bioclipse.biomartsrc.zip"/> + <classpathentry exported="true" kind="lib" path="lib/commons-logging-1.1.jar" sourcepath="net.bioclipse.biomartsrc.zip"/> + <classpathentry exported="true" kind="lib" path="lib/commons-codec-1.3.jar" sourcepath="net.bioclipse.biomartsrc.zip"/> + <classpathentry exported="true" kind="lib" path="lib/martservice-0.6.3.jar" sourcepath="/martservice"/> <classpathentry exported="true" kind="lib" path="lib/martj-0.6.jar" sourcepath="/martj"/> - <classpathentry exported="true" kind="lib" path="lib/martservice-0.6.3.jar" sourcepath="/martservice"/> - <classpathentry exported="true" kind="lib" path="lib/commons-codec-1.3.jar"/> - <classpathentry exported="true" kind="lib" path="lib/commons-httpclient-3.0-rc2.jar"/> - <classpathentry exported="true" kind="lib" path="lib/commons-logging-1.1.jar"/> - <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> - <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry exported="true" kind="lib" path="lib/commons-io-1.3.1.jar" sourcepath="net.bioclipse.biomartsrc.zip"/> + <classpathentry exported="true" kind="lib" path="lib/jdom-1.0.jar" sourcepath="net.bioclipse.biomartsrc.zip"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.biomoby/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.biomoby/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.biomoby/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,53 +1,51 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry excluding="net/bioclipse/actions/MobyServiceDialog.java" kind="src" path="src"/> - <classpathentry exported="true" kind="lib" path="extjars/commons-logging-1.0.4.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/activation.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/adenine.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/alltools2.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/axis.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/axis-ant.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/castor-0.9.5.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/commons-collections-2.1.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/commons-dbcp-1.1.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/commons-discovery-0.2.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/commons-httpclient-3.0-rc2.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/commons-io-1.0.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/commons-lang-2.1.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/commons-pool-1.1.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/concurrent.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/dnsjava-1.3.2.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/icis-pedigree.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/icu4j.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/jakarta-oro-2.0.5.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/jaxen-core.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/jaxen-jdom.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/jaxrpc.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/jcalendar.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/jdom.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/jena.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/jfcunit.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/junit.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/log4j-1.2.12.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/lsid-client-1.1.2.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/lsid-server-1.1.2.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/mail.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/mailapi_1_3_1.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/mysql-connector-java-3.1.7-bin.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/rdf-api-2001-01-19.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/saaj.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/saxpath.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/servlet.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/taverna.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/wsdl4j-1.5.1.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/xalan.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/xercesImpl.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/xercesSamples.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/xml-apis.jar"/> - <classpathentry exported="true" kind="lib" path="extjars/xmlParserAPIs.jar"/> - <classpathentry exported="true" kind="lib" path="lib/biomoby-datatypes.jar"/> - <classpathentry exported="true" kind="lib" path="lib/jmoby-1.0.0.jar" sourcepath="/jmoby"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry excluding="net/bioclipse/actions/MobyServiceDialog.java" kind="src" path="src"/> + <classpathentry exported="true" kind="lib" path="extjars/activation.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/adenine.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/alltools2.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/axis.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/axis-ant.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/castor-0.9.5.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/commons-collections-2.1.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/commons-dbcp-1.1.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/commons-discovery-0.2.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/commons-httpclient-3.0-rc2.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/commons-io-1.0.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/commons-lang-2.1.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/commons-pool-1.1.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/concurrent.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/dnsjava-1.3.2.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/icis-pedigree.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/icu4j.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/jakarta-oro-2.0.5.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/jaxen-core.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/jaxen-jdom.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/jaxrpc.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/jcalendar.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/jdom.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/jena.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/jfcunit.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/lsid-client-1.1.2.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/lsid-server-1.1.2.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/mail.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/mailapi_1_3_1.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/mysql-connector-java-3.1.7-bin.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/rdf-api-2001-01-19.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/saaj.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/saxpath.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/servlet.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/taverna.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/wsdl4j-1.5.1.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/xalan.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/xercesImpl.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/xercesSamples.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/xml-apis.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="extjars/xmlParserAPIs.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="lib/biomoby-datatypes.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> + <classpathentry exported="true" kind="lib" path="lib/jmoby-1.0.0.jar" sourcepath="/jmoby"/> + <classpathentry exported="true" kind="lib" path="extjars/commons-logging-1.0.4.jar" sourcepath="net.bioclipse.biomobysrc.zip"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.biomoby.tests/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.biomoby.tests/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.biomoby.tests/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.biomoby.ui/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.biomoby.ui/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.biomoby.ui/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry excluding="net/bioclipse/biomoby/ui/scripts/MobyServiceScripting.java|net/bioclipse/biomoby/ui/views/SeaHawkView.java" kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry excluding="net/bioclipse/biomoby/ui/scripts/MobyServiceScripting.java|net/bioclipse/biomoby/ui/views/SeaHawkView.java" kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.cdk.business/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.cdk.business/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.cdk.business/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.cdk.business.test/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.cdk.business.test/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.cdk.business.test/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.cdk.ui/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.cdk.ui/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.cdk.ui/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry excluding="net/bioclipse/cdk/ui/models/Molecule.java|net/bioclipse/cdk/ui/editors/JCPMultiPageEditor.java|net/bioclipse/cdk/ui/editors/JCPMultiPageEditorContributor.java|org/openscience/cdk/applications/jchempaint/|org/openscience/cdk/applications/jchempaint/action/|org/openscience/cdk/applications/jchempaint/dialogs/|net/bioclipse/cdk/ui/editors/IJCPEditorPart.java|net/bioclipse/cdk/ui/editors/JCPEditor.java|net/bioclipse/cdk/ui/editors/sdf/MoleculeListLabelProvider.java|net/bioclipse/cdk/ui/editors/sdf/SDFEditor2.java|net/bioclipse/cdk/ui/editors/sdf/StructureTablePage2.java" kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry excluding="net/bioclipse/cdk/ui/models/Molecule.java|net/bioclipse/cdk/ui/editors/JCPMultiPageEditor.java|net/bioclipse/cdk/ui/editors/JCPMultiPageEditorContributor.java|org/openscience/cdk/applications/jchempaint/|org/openscience/cdk/applications/jchempaint/action/|org/openscience/cdk/applications/jchempaint/dialogs/|net/bioclipse/cdk/ui/editors/IJCPEditorPart.java|net/bioclipse/cdk/ui/editors/JCPEditor.java|net/bioclipse/cdk/ui/editors/sdf/MoleculeListLabelProvider.java|net/bioclipse/cdk/ui/editors/sdf/SDFEditor2.java|net/bioclipse/cdk/ui/editors/sdf/StructureTablePage2.java" kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.cdk.ui.tests/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.cdk.ui.tests/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.cdk.ui.tests/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.cdk10/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.cdk10/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.cdk10/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,37 +1,37 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry excluding="org/openscience/cdk/database/XindiceReader.java|org/openscience/cdk/test/libio/joelib/JOELibIOTest.java|org/openscience/cdk/applications/DescriptorCalculator.java|org/openscience/cdk/applications/FileConvertor.java|org/openscience/cdk/applications/demo/EventCMLDemo.java|org/openscience/cdk/applications/jchempaint/application/JChemPaint.java|org/openscience/cdk/internet/DADMLReader.java|org/openscience/cdk/internet/DADMLResult.java|org/openscience/cdk/test/internet/DADMLTest.java|org/openscience/cdk/iupac/parser/AttachedGroup.java|org/openscience/cdk/iupac/parser/MoleculeBuilder.java|org/openscience/cdk/libio/biojava/Convertor.java|org/openscience/cdk/test/iupac/ParserTest.java|org/openscience/cdk/test/" kind="src" path="src"/> - <classpathentry exported="true" kind="lib" path="jar/antlr.jar"/> - <classpathentry exported="true" kind="lib" path="jar/batik-awt-util.jar"/> - <classpathentry exported="true" kind="lib" path="jar/batik-dom.jar"/> - <classpathentry exported="true" kind="lib" path="jar/batik-svggen.jar"/> - <classpathentry exported="true" kind="lib" path="jar/batik-util.jar"/> - <classpathentry exported="true" kind="lib" path="jar/batik-xml.jar"/> - <classpathentry exported="true" kind="lib" path="jar/baysmith-io.jar"/> - <classpathentry exported="true" kind="lib" path="jar/bcel-5.1.jar"/> - <classpathentry exported="true" kind="lib" path="jar/biojava-1.4.jar"/> - <classpathentry exported="true" kind="lib" path="jar/commons-cli.jar"/> - <classpathentry exported="true" kind="lib" path="jar/dadml.jar"/> - <classpathentry exported="true" kind="lib" path="jar/jai_codec.jar"/> - <classpathentry exported="true" kind="lib" path="jar/jai_core.jar"/> - <classpathentry exported="true" kind="lib" path="jar/jama.jar"/> - <classpathentry exported="true" kind="lib" path="jar/javacc.jar"/> - <classpathentry exported="true" kind="lib" path="jar/jfontchooser.jar"/> - <classpathentry exported="true" kind="lib" path="jar/jgrapht.jar"/> - <classpathentry exported="true" kind="lib" path="jar/jniinchi-0.4.jar"/> - <classpathentry exported="true" kind="lib" path="jar/JRI.jar"/> - <classpathentry exported="true" kind="lib" path="jar/jumbo52.jar"/> - <classpathentry exported="true" kind="lib" path="jar/log4j-1.2.jar"/> - <classpathentry exported="true" kind="lib" path="jar/mysql-2.0.4.jar"/> - <classpathentry exported="true" kind="lib" path="jar/postgresql7.0-1.2.jar"/> - <classpathentry exported="true" kind="lib" path="jar/sjava-0.68.jar"/> - <classpathentry exported="true" kind="lib" path="jar/vecmath1.2.jar"/> - <classpathentry exported="true" kind="lib" path="jar/weka.jar"/> - <classpathentry exported="true" kind="lib" path="jar/xindice.jar"/> - <classpathentry exported="true" kind="lib" path="jar/xml-apis.jar"/> - <classpathentry exported="true" kind="lib" path="jar/xmldb.jar"/> - <classpathentry exported="true" kind="lib" path="jar/xom.jar"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry excluding="org/openscience/cdk/database/XindiceReader.java|org/openscience/cdk/test/libio/joelib/JOELibIOTest.java|org/openscience/cdk/applications/DescriptorCalculator.java|org/openscience/cdk/applications/FileConvertor.java|org/openscience/cdk/applications/demo/EventCMLDemo.java|org/openscience/cdk/applications/jchempaint/application/JChemPaint.java|org/openscience/cdk/internet/DADMLReader.java|org/openscience/cdk/internet/DADMLResult.java|org/openscience/cdk/test/internet/DADMLTest.java|org/openscience/cdk/iupac/parser/AttachedGroup.java|org/openscience/cdk/iupac/parser/MoleculeBuilder.java|org/openscience/cdk/libio/biojava/Convertor.java|org/openscience/cdk/test/iupac/ParserTest.java|org/openscience/cdk/test/" kind="src" path="src"/> + <classpathentry exported="true" kind="lib" path="jar/antlr.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/batik-awt-util.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/batik-dom.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/batik-svggen.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/batik-util.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/batik-xml.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/baysmith-io.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/bcel-5.1.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/biojava-1.4.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/commons-cli.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/dadml.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/jai_codec.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/jai_core.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/jama.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/javacc.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/jfontchooser.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/jgrapht.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/jniinchi-0.4.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/JRI.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/jumbo52.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/log4j-1.2.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/mysql-2.0.4.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/postgresql7.0-1.2.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/sjava-0.68.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/vecmath1.2.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/weka.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/xindice.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/xml-apis.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/xmldb.jar" sourcepath="net.bioclipse.cdk10src.zip"/> + <classpathentry exported="true" kind="lib" path="jar/xom.jar" sourcepath="net.bioclipse.cdk10src.zip"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.cdk10.jchempaint/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.cdk10.jchempaint/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.cdk10.jchempaint/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry excluding="net/bioclipse/cdk10/jchempaint/outline/BioPolymerContentProvider.java|net/bioclipse/cdk10/jchempaint/outline/ChemTreeView.java" kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry excluding="net/bioclipse/cdk10/jchempaint/outline/BioPolymerContentProvider.java|net/bioclipse/cdk10/jchempaint/outline/ChemTreeView.java" kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.cdk10.rdfeditor/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.cdk10.rdfeditor/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.cdk10.rdfeditor/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.cdk10.sdfeditor/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.cdk10.sdfeditor/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.cdk10.sdfeditor/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.cdk10.ui/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.cdk10.ui/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.cdk10.ui/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.core/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.core/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.core/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,11 +1,11 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry excluding="net/bioclipse/logging/Activator.java|net/bioclipse/core/domain/IMoleculeCollection.java" kind="src" path="src"/> - <classpathentry exported="true" kind="lib" path="libs/js.jar"/> - <classpathentry exported="true" kind="lib" path="libs/groovy-1.0.jar"/> - <classpathentry exported="true" kind="lib" path="libs/asm-2.2.jar"/> - <classpathentry exported="true" kind="lib" path="libs/antlr-2.7.5.jar"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry excluding="net/bioclipse/logging/Activator.java|net/bioclipse/core/domain/IMoleculeCollection.java" kind="src" path="src"/> + <classpathentry exported="true" kind="lib" path="libs/js.jar" sourcepath="net.bioclipse.coresrc.zip"/> + <classpathentry exported="true" kind="lib" path="libs/groovy-1.0.jar" sourcepath="net.bioclipse.coresrc.zip"/> + <classpathentry exported="true" kind="lib" path="libs/asm-2.2.jar" sourcepath="net.bioclipse.coresrc.zip"/> + <classpathentry exported="true" kind="lib" path="libs/antlr-2.7.5.jar" sourcepath="net.bioclipse.coresrc.zip"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.core.tests/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.core.tests/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.core.tests/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="net.bioclipse.recording"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="net.bioclipse.recording"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.data.sampledata/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.data.sampledata/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.data.sampledata/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.hsqldb/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.hsqldb/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.hsqldb/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,8 +1,8 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> - <classpathentry exported="true" kind="lib" path="lib/hsqldb.jar"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> + <classpathentry exported="true" kind="lib" path="lib/hsqldb.jar" sourcepath="net.bioclipse.hsqldbsrc.zip"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.hsqldb.tests/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.hsqldb.tests/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.hsqldb.tests/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="tests"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="tests"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.jalview/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.jalview/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.jalview/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,21 +1,21 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> + <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> + <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> <classpathentry kind="src" path="src"/> - <classpathentry exported="true" kind="lib" path="jars/activation.jar"/> - <classpathentry exported="true" kind="lib" path="jars/axis.jar"/> - <classpathentry exported="true" kind="lib" path="jars/castor-0.9.6-xml.jar"/> - <classpathentry exported="true" kind="lib" path="jars/commons-discovery.jar"/> + <classpathentry exported="true" kind="lib" path="jars/activation.jar" sourcepath="net.bioclipse.jalviewsrc.zip"/> + <classpathentry exported="true" kind="lib" path="jars/axis.jar" sourcepath="net.bioclipse.jalviewsrc.zip"/> + <classpathentry exported="true" kind="lib" path="jars/castor-0.9.6-xml.jar" sourcepath="net.bioclipse.jalviewsrc.zip"/> + <classpathentry exported="true" kind="lib" path="jars/commons-discovery.jar" sourcepath="net.bioclipse.jalviewsrc.zip"/> <classpathentry exported="true" kind="lib" path="jars/jalview.jar" sourcepath="/jalview"/> - <classpathentry exported="true" kind="lib" path="jars/jaxrpc.jar"/> - <classpathentry exported="true" kind="lib" path="jars/jhall.jar"/> - <classpathentry exported="true" kind="lib" path="jars/mail.jar"/> - <classpathentry exported="true" kind="lib" path="jars/regex.jar"/> - <classpathentry exported="true" kind="lib" path="jars/saaj.jar"/> - <classpathentry exported="true" kind="lib" path="jars/vamsas-client.jar"/> - <classpathentry exported="true" kind="lib" path="jars/wsdl4j.jar"/> - <classpathentry exported="true" kind="lib" path="jars/xercesImpl.jar"/> - <classpathentry exported="true" kind="lib" path="jars/xml-apis.jar"/> - <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> - <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry exported="true" kind="lib" path="jars/jaxrpc.jar" sourcepath="net.bioclipse.jalviewsrc.zip"/> + <classpathentry exported="true" kind="lib" path="jars/jhall.jar" sourcepath="net.bioclipse.jalviewsrc.zip"/> + <classpathentry exported="true" kind="lib" path="jars/mail.jar" sourcepath="net.bioclipse.jalviewsrc.zip"/> + <classpathentry exported="true" kind="lib" path="jars/regex.jar" sourcepath="net.bioclipse.jalviewsrc.zip"/> + <classpathentry exported="true" kind="lib" path="jars/saaj.jar" sourcepath="net.bioclipse.jalviewsrc.zip"/> + <classpathentry exported="true" kind="lib" path="jars/vamsas-client.jar" sourcepath="net.bioclipse.jalviewsrc.zip"/> + <classpathentry exported="true" kind="lib" path="jars/wsdl4j.jar" sourcepath="net.bioclipse.jalviewsrc.zip"/> + <classpathentry exported="true" kind="lib" path="jars/xercesImpl.jar" sourcepath="net.bioclipse.jalviewsrc.zip"/> + <classpathentry exported="true" kind="lib" path="jars/xml-apis.jar" sourcepath="net.bioclipse.jalviewsrc.zip"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.jmol/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.jmol/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.jmol/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,8 +1,8 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> + <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> + <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> <classpathentry kind="src" path="src"/> <classpathentry exported="true" kind="lib" path="jars/Jmol.jar" sourcepath="/Jmol"/> - <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> - <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.logger/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.logger/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.logger/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,8 +1,8 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> - <classpathentry exported="true" kind="lib" path="log4j/log4j-1.2.15.jar"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> + <classpathentry exported="true" kind="lib" path="log4j/log4j-1.2.15.jar" sourcepath="net.bioclipse.loggersrc.zip"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.molfilter.editor/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.molfilter.editor/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.molfilter.editor/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER/org.eclipse.jdt.internal.debug.ui.launcher.StandardVMType/J2SE-1.5"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.moss/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.moss/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.moss/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ -<?xml version="1.0" encoding="UTF-8"?> -<classpath> - <classpathentry kind="src" path="src"/> - <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> - <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> - <classpathentry kind="output" path="bin"/> -</classpath> +<?xml version="1.0" encoding="UTF-8"?> +<classpath> + <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> + <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> + <classpathentry kind="output" path="bin"/> +</classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.pcore.edit/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.pcore.edit/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.pcore.edit/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER/org.eclipse.jdt.internal.debug.ui.launcher.StandardVMType/J2SE-1.5"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.qsar/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.qsar/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.qsar/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry excluding="net/bioclipse/qsar/builder/QSARBuilderREF.java|net/bioclipse/qsar/builder/QSARNatureREF.java" kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry excluding="net/bioclipse/qsar/builder/QSARBuilderREF.java|net/bioclipse/qsar/builder/QSARNatureREF.java" kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.r/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.r/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.r/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.scripting/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.scripting/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.scripting/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,17 +1,17 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> - <classpathentry exported="true" kind="lib" path="libs/antlr-2.7.5.jar"/> - <classpathentry exported="true" kind="lib" path="libs/asm-2.2.jar"/> - <classpathentry exported="true" kind="lib" path="libs/groovy-1.0.jar"/> - <classpathentry exported="true" kind="lib" path="libs/js.jar"/> - <classpathentry exported="true" kind="lib" path="libs/jruby.jar"/> - <classpathentry exported="true" kind="lib" path="libs/asm-2.2.3.jar"/> - <classpathentry exported="true" kind="lib" path="libs/asm-commons-2.2.3.jar"/> - <classpathentry exported="true" kind="lib" path="libs/backport-util-concurrent.jar"/> - <classpathentry exported="true" kind="lib" path="libs/bsf.jar"/> - <classpathentry exported="true" kind="lib" path="libs/jline-0.9.91.jar"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> + <classpathentry exported="true" kind="lib" path="libs/antlr-2.7.5.jar" sourcepath="net.bioclipse.scriptingsrc.zip"/> + <classpathentry exported="true" kind="lib" path="libs/asm-2.2.jar" sourcepath="net.bioclipse.scriptingsrc.zip"/> + <classpathentry exported="true" kind="lib" path="libs/groovy-1.0.jar" sourcepath="net.bioclipse.scriptingsrc.zip"/> + <classpathentry exported="true" kind="lib" path="libs/js.jar" sourcepath="net.bioclipse.scriptingsrc.zip"/> + <classpathentry exported="true" kind="lib" path="libs/jruby.jar" sourcepath="net.bioclipse.scriptingsrc.zip"/> + <classpathentry exported="true" kind="lib" path="libs/asm-2.2.3.jar" sourcepath="net.bioclipse.scriptingsrc.zip"/> + <classpathentry exported="true" kind="lib" path="libs/asm-commons-2.2.3.jar" sourcepath="net.bioclipse.scriptingsrc.zip"/> + <classpathentry exported="true" kind="lib" path="libs/backport-util-concurrent.jar" sourcepath="net.bioclipse.scriptingsrc.zip"/> + <classpathentry exported="true" kind="lib" path="libs/bsf.jar" sourcepath="net.bioclipse.scriptingsrc.zip"/> + <classpathentry exported="true" kind="lib" path="libs/jline-0.9.91.jar" sourcepath="net.bioclipse.scriptingsrc.zip"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.scripting.tests/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.scripting.tests/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.scripting.tests/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.services/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.services/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.services/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.services.embrace/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.services.embrace/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclipse2/trunk/plugins/net.bioclipse.services.embrace/.classpath 2008-07-23 13:04:39 UTC (rev 6239) @@ -1,13 +1,13 @@ <?xml version="1.0" encoding="UTF-8"?> <classpath> - <classpathentry kind="src" path="src"/> - <classpathentry exported="true" kind="lib" path="lib/axis.jar"/> - <classpathentry exported="true" kind="lib" path="lib/commons-discovery-0.2.jar"/> - <classpathentry exported="true" kind="lib" path="lib/commons-logging.jar"/> - <classpathentry exported="true" kind="lib" path="lib/jaxrpc.jar"/> - <classpathentry exported="true" kind="lib" path="lib/saaj.jar"/> - <classpathentry exported="true" kind="lib" path="lib/wsdl4j-1.5.1.jar"/> <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/> <classpathentry kind="con" path="org.eclipse.pde.core.requiredPlugins"/> + <classpathentry kind="src" path="src"/> + <classpathentry exported="true" kind="lib" path="lib/axis.jar" sourcepath="net.bioclipse.services.embracesrc.zip"/> + <classpathentry exported="true" kind="lib" path="lib/commons-discovery-0.2.jar" sourcepath="net.bioclipse.services.embracesrc.zip"/> + <classpathentry exported="true" kind="lib" path="lib/commons-logging.jar" sourcepath="net.bioclipse.services.embracesrc.zip"/> + <classpathentry exported="true" kind="lib" path="lib/jaxrpc.jar" sourcepath="net.bioclipse.services.embracesrc.zip"/> + <classpathentry exported="true" kind="lib" path="lib/saaj.jar" sourcepath="net.bioclipse.services.embracesrc.zip"/> + <classpathentry exported="true" kind="lib" path="lib/wsdl4j-1.5.1.jar" sourcepath="net.bioclipse.services.embracesrc.zip"/> <classpathentry kind="output" path="bin"/> </classpath> Modified: bioclipse2/trunk/plugins/net.bioclipse.statistics/.classpath =================================================================== --- bioclipse2/trunk/plugins/net.bioclipse.statistics/.classpath 2008-07-23 12:47:40 UTC (rev 6238) +++ bioclip... 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