X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=.classpath;h=e80b0656833dfcbae1e73ac18b1fc6535e556b56;hb=aaa5f22a4544c3e72b5d29ef2f319e55af8e14f7;hp=0a7e4b3483835e3d9145d5fe639b9235e50aecac;hpb=17e4ea278bc9a5fb280db1252ce78b7a295215f5;p=jalview.git

diff --git a/.classpath b/.classpath
index 0a7e4b3..e80b065 100644
--- a/.classpath
+++ b/.classpath
@@ -1,158 +1,121 @@
 <?xml version="1.0" encoding="UTF-8"?>
 <classpath>
-	<classpathentry kind="src" output="bin/main" path="src">
+	<classpathentry output="bin/main" kind="src" path="src">
 		<attributes>
 			<attribute name="gradle_scope" value="main"/>
 			<attribute name="gradle_used_by_scope" value=""/>
 		</attributes>
 	</classpathentry>
-	<classpathentry kind="src" output="bin/test" path="test">
+	<classpathentry output="bin/test" kind="src" path="test">
 		<attributes>
-			<attribute name="test" value="true"/>
 			<attribute name="gradle_scope" value="test"/>
 			<attribute name="gradle_used_by_scope" value=""/>
-		</attributes>
-	</classpathentry>
-	<classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER">
-		<attributes>
-			<attribute name="module" value="true"/>
+			<attribute name="test" value="true"/>
 		</attributes>
 	</classpathentry>
 	<classpathentry kind="con" path="org.eclipse.buildship.core.gradleclasspathcontainer"/>
+	<classpathentry kind="output" path="bin/default"/>
+	<classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER/org.eclipse.jdt.internal.debug.ui.launcher.StandardVMType/JavaSE-11/"/>
+	<classpathentry kind="output" path="bin/main"/>
 	<classpathentry kind="lib" path="help"/>
 	<classpathentry kind="lib" path="resources"/>
+	<classpathentry kind="lib" path="j11lib/htsjdk-2.12.0.jar"/>
+	<classpathentry kind="lib" path="j11lib/javax.servlet-api-4.0.1.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-json-2.5.7.jar"/>
 	<classpathentry kind="lib" path="j11lib/apache-mime4j-0.6.jar"/>
-	<classpathentry kind="lib" path="j11lib/axis.jar"/>
-	<classpathentry kind="lib" path="j11lib/biojava-core-4.1.0.jar"/>
-	<classpathentry kind="lib" path="j11lib/biojava-ontology-4.1.0.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-test-2.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/libquaqua-8.0.jnilib.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-docgenerator-2.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/mail-MODULE.jar"/>
+	<classpathentry kind="lib" path="j11lib/JGoogleAnalytics_0.3.jar"/>
+	<classpathentry kind="lib" path="j11lib/slf4j-api-1.7.26.jar"/>
+	<classpathentry kind="lib" path="j11lib/javax.annotation-api-1.3.2.jar"/>
+	<classpathentry kind="lib" path="j11lib/quaqua-filechooser-only-8.0.jar"/>
 	<classpathentry kind="lib" path="j11lib/commons-codec-1.3.jar"/>
-	<classpathentry kind="lib" path="j11lib/commons-compress-1.18.jar"/>
-	<classpathentry kind="lib" path="j11lib/commons-discovery.jar"/>
-	<classpathentry kind="lib" path="j11lib/commons-logging-1.1.1.jar"/>
-	<classpathentry kind="lib" path="j11lib/FastInfoset.jar"/>
+	<classpathentry kind="lib" path="j11lib/json_simple-1.1.jar"/>
+	<classpathentry kind="lib" path="j11lib/jaxws-api-2.3.1.jar"/>
+	<classpathentry kind="lib" path="j11lib/httpmime-4.0.3.jar"/>
 	<classpathentry kind="lib" path="j11lib/getdown-core.jar"/>
-	<classpathentry kind="lib" path="j11lib/gmbal-api-only-MODULE.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-2.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/mimepull-1.9.11.jar"/>
+	<classpathentry kind="lib" path="j11lib/java-json.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-swing-2.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/miglayout-4.0-swing.jar"/>
 	<classpathentry kind="lib" path="j11lib/groovy-ant-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-bsf-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-cli-commons-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-cli-picocli-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-console-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-datetime-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-dateutil-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-docgenerator-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-groovydoc-2.5.7.jar"/>
 	<classpathentry kind="lib" path="j11lib/groovy-groovysh-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-jaxb-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-jmx-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-json-2.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/javax.activation-api-1.2.0.jar"/>
+	<classpathentry kind="lib" path="j11lib/jetty-util-9.2.10.v20150310.jar"/>
 	<classpathentry kind="lib" path="j11lib/groovy-json-direct-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-jsr223-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-macro-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-nio-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-servlet-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-sql-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-swing-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-templates-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-test-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-test-junit5-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-testng-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/groovy-xml-2.5.7.jar"/>
-	<classpathentry kind="lib" path="j11lib/htsjdk-2.12.0.jar"/>
 	<classpathentry kind="lib" path="j11lib/httpclient-4.0.3.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-cli-picocli-2.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/gmbal-api-only-MODULE.jar"/>
+	<classpathentry kind="lib" path="j11lib/Jmol-14.29.17-no_netscape.jar"/>
 	<classpathentry kind="lib" path="j11lib/httpcore-4.0.1.jar"/>
-	<classpathentry kind="lib" path="j11lib/httpmime-4.0.3.jar"/>
-	<classpathentry kind="lib" path="j11lib/intervalstore-v1.0.jar"/>
-	<classpathentry kind="lib" path="j11lib/istack-commons-runtime.jar"/>
-	<classpathentry kind="lib" path="j11lib/jabaws-min-client-2.2.0.jar"/>
-	<classpathentry kind="lib" path="j11lib/java-json.jar"/>
-	<classpathentry kind="lib" path="j11lib/javax.activation-api-1.2.0.jar"/>
-	<classpathentry kind="lib" path="j11lib/javax.annotation-api-1.3.2.jar"/>
-	<classpathentry kind="lib" path="j11lib/javax.jws-api-1.1.jar"/>
-	<classpathentry kind="lib" path="j11lib/javax.servlet-api-4.0.1.jar"/>
-	<classpathentry kind="lib" path="j11lib/javax.xml.rpc-api-1.1.2.jar"/>
+	<classpathentry kind="lib" path="j11lib/jetty-io-9.2.10.v20150310.jar"/>
 	<classpathentry kind="lib" path="j11lib/javax.xml.soap-api-1.4.0.jar"/>
 	<classpathentry kind="lib" path="j11lib/jaxb-api-2.3.1.jar"/>
-	<classpathentry kind="lib" path="j11lib/jaxb-runtime-2.3.2.jar"/>
-	<classpathentry kind="lib" path="j11lib/jaxws-api-2.3.1.jar"/>
+	<classpathentry kind="lib" path="j11lib/jersey-core-1.19.4.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-nio-2.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/jswingreader-0.3.jar"/>
+	<classpathentry kind="lib" path="j11lib/saaj-impl.jar"/>
+	<classpathentry kind="lib" path="j11lib/VARNAv3-93.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-templates-2.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-bsf-2.5.7.jar"/>
 	<classpathentry kind="lib" path="j11lib/jaxws-rt-java9.jar"/>
 	<classpathentry kind="lib" path="j11lib/jersey-client-1.19.4.jar"/>
-	<classpathentry kind="lib" path="j11lib/jersey-core-1.19.4.jar"/>
-	<classpathentry kind="lib" path="j11lib/jersey-json-1.19.4.jar"/>
-	<classpathentry kind="lib" path="j11lib/jetty-http-9.2.10.v20150310.jar"/>
-	<classpathentry kind="lib" path="j11lib/jetty-io-9.2.10.v20150310.jar"/>
-	<classpathentry kind="lib" path="j11lib/jetty-server-9.2.10.v20150310.jar"/>
-	<classpathentry kind="lib" path="j11lib/jetty-util-9.2.10.v20150310.jar"/>
-	<classpathentry kind="lib" path="j11lib/jfreesvg-2.1.jar"/>
-	<classpathentry kind="lib" path="j11lib/JGoogleAnalytics_0.3.jar"/>
-	<classpathentry kind="lib" path="j11lib/jhall.jar"/>
-	<classpathentry kind="lib" path="j11lib/Jmol-14.29.17.jar"/>
-	<classpathentry kind="lib" path="j11lib/json_simple-1.1.jar"/>
+	<classpathentry kind="lib" path="j11lib/intervalstore-v1.0.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-jaxb-2.5.7.jar"/>
 	<classpathentry kind="lib" path="j11lib/jsoup-1.8.1.jar"/>
-	<classpathentry kind="lib" path="j11lib/jsr311-api-1.1.1.jar"/>
-	<classpathentry kind="lib" path="j11lib/jswingreader-0.3.jar"/>
-	<classpathentry kind="lib" path="j11lib/libquaqua-8.0.jnilib.jar"/>
-	<classpathentry kind="lib" path="j11lib/libquaqua64-8.0.jnilib.jar"/>
+	<classpathentry kind="lib" path="j11lib/commons-discovery.jar"/>
 	<classpathentry kind="lib" path="j11lib/log4j-to-slf4j-2.0-rc2.jar"/>
-	<classpathentry kind="lib" path="j11lib/mail-MODULE.jar"/>
-	<classpathentry kind="lib" path="j11lib/miglayout-4.0-swing.jar"/>
-	<classpathentry kind="lib" path="j11lib/mimepull-1.9.11.jar"/>
+	<classpathentry kind="lib" path="j11lib/jersey-json-1.19.4.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-jsr223-2.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/streambuffer-1.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-console-2.5.7.jar"/>
 	<classpathentry kind="lib" path="j11lib/policy-2.7.6.jar"/>
-	<classpathentry kind="lib" path="j11lib/quaqua-filechooser-only-8.0.jar"/>
-	<classpathentry kind="lib" path="j11lib/regex.jar"/>
-	<classpathentry kind="lib" path="j11lib/saaj-impl.jar"/>
-	<classpathentry kind="lib" path="j11lib/slf4j-api-1.7.26.jar"/>
-	<classpathentry kind="lib" path="j11lib/slf4j-log4j12-1.7.26.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-jmx-2.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/javax.xml.rpc-api-1.1.2.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-xml-2.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/xercesImpl.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-datetime-2.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-2.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/biojava-core-4.1.0.jar"/>
+	<classpathentry kind="lib" path="j11lib/jaxb-runtime-2.3.2.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-groovydoc-2.5.7.jar"/>
 	<classpathentry kind="lib" path="j11lib/stax-ex-1.8.1.jar"/>
+	<classpathentry kind="lib" path="j11lib/regex.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-macro-2.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/javax.jws-api-1.1.jar"/>
+	<classpathentry kind="lib" path="j11lib/vamsas-client.jar"/>
+	<classpathentry kind="lib" path="j11lib/jsr311-api-1.1.1.jar"/>
+	<classpathentry kind="lib" path="j11lib/jhall.jar"/>
+	<classpathentry kind="lib" path="j11lib/jabaws-min-client-2.2.0.jar"/>
+	<classpathentry kind="lib" path="j11lib/commons-logging-1.1.1.jar"/>
+	<classpathentry kind="lib" path="j11lib/jfreesvg-2.1.jar"/>
+	<classpathentry kind="lib" path="j11lib/jetty-http-9.2.10.v20150310.jar"/>
+	<classpathentry kind="lib" path="j11lib/wsdl4j-1.6.3.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-dateutil-2.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-servlet-2.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-test-junit5-2.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/libquaqua64-8.0.jnilib.jar"/>
+	<classpathentry kind="lib" path="j11lib/jetty-server-9.2.10.v20150310.jar"/>
+	<classpathentry kind="lib" path="j11lib/axis.jar"/>
 	<classpathentry kind="lib" path="j11lib/stax2-api-4.2.jar"/>
-	<classpathentry kind="lib" path="j11lib/streambuffer-1.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-sql-2.5.7.jar"/>
 	<classpathentry kind="lib" path="j11lib/txw2-2.3.2.jar"/>
-	<classpathentry kind="lib" path="j11lib/vamsas-client.jar"/>
+	<classpathentry kind="lib" path="j11lib/biojava-ontology-4.1.0.jar"/>
 	<classpathentry kind="lib" path="j11lib/VAqua5-patch.jar"/>
-	<classpathentry kind="lib" path="j11lib/VARNAv3-93.jar"/>
-	<classpathentry kind="lib" path="j11lib/wsdl4j-1.6.3.jar"/>
-	<classpathentry kind="lib" path="j11lib/xercesImpl.jar"/>
-	<classpathentry kind="lib" path="utils/ant-contrib-1.0b3.jar">
-		<attributes>
-			<attribute name="test" value="true"/>
-		</attributes>
-	</classpathentry>
-	<classpathentry kind="lib" path="utils/axis-ant.jar">
-		<attributes>
-			<attribute name="test" value="true"/>
-		</attributes>
-	</classpathentry>
-	<classpathentry kind="lib" path="utils/classgraph-4.1.6.jar">
-		<attributes>
-			<attribute name="test" value="true"/>
-		</attributes>
-	</classpathentry>
-	<classpathentry kind="lib" path="utils/hamcrest-core-1.3.jar">
-		<attributes>
-			<attribute name="test" value="true"/>
-		</attributes>
-	</classpathentry>
-	<classpathentry kind="lib" path="utils/jhall.jar">
-		<attributes>
-			<attribute name="test" value="true"/>
-		</attributes>
-	</classpathentry>
-	<classpathentry kind="lib" path="utils/jhindexer.jar">
-		<attributes>
-			<attribute name="test" value="true"/>
-		</attributes>
-	</classpathentry>
-	<classpathentry kind="lib" path="utils/junit-4.12.jar">
-		<attributes>
-			<attribute name="test" value="true"/>
-		</attributes>
-	</classpathentry>
-	<classpathentry kind="lib" path="utils/proguard_5.3.3.jar">
+	<classpathentry kind="lib" path="j11lib/FastInfoset.jar"/>
+	<classpathentry kind="lib" path="j11lib/slf4j-log4j12-1.7.26.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-cli-commons-2.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/commons-compress-1.18.jar"/>
+	<classpathentry kind="lib" path="j11lib/groovy-testng-2.5.7.jar"/>
+	<classpathentry kind="lib" path="j11lib/istack-commons-runtime.jar"/>
+	<classpathentry kind="lib" path="utils/testnglibs/guava-base-r03.jar">
 		<attributes>
 			<attribute name="test" value="true"/>
 		</attributes>
 	</classpathentry>
-	<classpathentry kind="lib" path="utils/roxes-ant-tasks-1.2-2004-01-30.jar">
+	<classpathentry kind="lib" path="utils/testnglibs/guava-collections-r03.jar">
 		<attributes>
 			<attribute name="test" value="true"/>
 		</attributes>
@@ -162,17 +125,17 @@
 			<attribute name="test" value="true"/>
 		</attributes>
 	</classpathentry>
-	<classpathentry kind="lib" path="utils/testnglibs/guava-base-r03.jar">
+	<classpathentry kind="lib" path="utils/testnglibs/snakeyaml.jar">
 		<attributes>
 			<attribute name="test" value="true"/>
 		</attributes>
 	</classpathentry>
-	<classpathentry kind="lib" path="utils/testnglibs/guava-collections-r03.jar">
+	<classpathentry kind="lib" path="utils/testnglibs/testng-sources.jar">
 		<attributes>
 			<attribute name="test" value="true"/>
 		</attributes>
 	</classpathentry>
-	<classpathentry kind="lib" path="utils/testnglibs/jcommander.jar">
+	<classpathentry kind="lib" path="utils/testnglibs/testng.jar">
 		<attributes>
 			<attribute name="test" value="true"/>
 		</attributes>
@@ -182,25 +145,14 @@
 			<attribute name="test" value="true"/>
 		</attributes>
 	</classpathentry>
-	<classpathentry kind="lib" path="utils/testnglibs/snakeyaml.jar">
-		<attributes>
-			<attribute name="test" value="true"/>
-		</attributes>
-	</classpathentry>
-	<classpathentry kind="lib" path="utils/testnglibs/testng-sources.jar">
-		<attributes>
-			<attribute name="test" value="true"/>
-		</attributes>
-	</classpathentry>
-	<classpathentry kind="lib" path="utils/testnglibs/testng.jar">
+	<classpathentry kind="lib" path="utils/testnglibs/jcommander.jar">
 		<attributes>
 			<attribute name="test" value="true"/>
 		</attributes>
 	</classpathentry>
-	<classpathentry kind="lib" path="utils/wsdl4j.jar">
+	<classpathentry kind="lib" path="utils/testlibs/classgraph-4.1.6.jar">
 		<attributes>
 			<attribute name="test" value="true"/>
 		</attributes>
 	</classpathentry>
-	<classpathentry kind="output" path="bin/main"/>
 </classpath>