JalviewApplet jbuilder project

diff --git a/JalviewApplet.jpx b/JalviewApplet.jpx
new file mode 100755 (executable)
index 0000000..19e5526
--- /dev/null
+++ b/JalviewApplet.jpx
@@ -0,0 +1,78 @@
+<?xml version="1.0" encoding="UTF-8"?>\r
+<!--JBuilder XML Project-->\r
+<project>\r
+  <property category="debug.0" name="SmartStepRedefineClasses" value="0"/>\r
+  <property category="debug.0" name="SmartStepSkipStaticInitializers" value="0"/>\r
+  <property category="debug.0" name="SmartStepSkipSynthetics" value="0"/>\r
+  <property category="editor.general" name="line_ending.style" value="2"/>\r
+  <property category="generalFormatting" name="lineEndingStyle" value="2"/>\r
+  <property category="generalFormatting2" name="lineEndingStyle" value="2"/>\r
+  <property category="generalFormatting2" name="overrideBasicFormatting" value="1"/>\r
+  <property category="javaFormatting" name="classBraceNextLine" value="1"/>\r
+  <property category="javaFormatting" name="methodBraceNextLine" value="1"/>\r
+  <property category="javaFormatting" name="otherBraceNextLine" value="1"/>\r
+  <property category="javaFormatting" name="packagePrefixGroups" value="java;javax;BLANK_LINE;java.awt;javax.swing;BLANK_LINE;org;(*)"/>\r
+  <property category="javaFormatting" name="throwsOnNewLine" value="1"/>\r
+  <property category="javadoc" name="custom.tags.1" value="todo;a;To Do:"/>\r
+  <property category="runtime" name="DefaultConfiguration" value="-1"/>\r
+  <property category="runtime.0" name="BuildTargetOnRun" value="com.borland.jbuilder.build.ProjectBuilder$ProjectBuildAction;make"/>\r
+  <property category="runtime.0" name="ConfigurationName" value="Applet"/>\r
+  <property category="runtime.0" name="RunnableType" value="com.borland.jbuilder.runtime.AppletRunner"/>\r
+  <property category="runtime.0" name="applet.appletviewer" value="1"/>\r
+  <property category="runtime.0" name="applet.class" value="jalview.bin.JalviewLite"/>\r
+  <property category="runtime.0" name="applet.html" value="classes/applet.html"/>\r
+  <property category="serverservices" name="single.server.name" value="Tomcat 4.0"/>\r
+  <property category="sys" name="AuthorLabel" value="@author"/>\r
+  <property category="sys" name="BackupPath" value="bak"/>\r
+  <property category="sys" name="CheckStable" value="1"/>\r
+  <property category="sys" name="Company" value=""/>\r
+  <property category="sys" name="CompanyLabel" value="Company:"/>\r
+  <property category="sys" name="Copyright" value="Copyright (c) 2004"/>\r
+  <property category="sys" name="CopyrightLabel" value="Copyright:"/>\r
+  <property category="sys" name="DefaultPath" value="src"/>\r
+  <property category="sys" name="Description" value=""/>\r
+  <property category="sys" name="DescriptionLabel" value="Description:"/>\r
+  <property category="sys" name="DocPath" value="doc"/>\r
+  <property category="sys" name="ExcludeClassEnabled" value="0"/>\r
+  <property category="sys" name="IncludeTestPath" value="1"/>\r
+  <property category="sys" name="InstanceVisibility" value="2"/>\r
+  <property category="sys" name="JDK" value="java version 1.1.8_010"/>\r
+  <property category="sys" name="LastTag" value="0"/>\r
+  <property category="sys" name="Libraries" value=""/>\r
+  <property category="sys" name="MakeStable" value="0"/>\r
+  <property category="sys" name="OutPath" value="classes"/>\r
+  <property category="sys" name="SourcePath" value="src;test"/>\r
+  <property category="sys" name="TestPath" value="src"/>\r
+  <property category="sys" name="Title" value=""/>\r
+  <property category="sys" name="TitleLabel" value="Title:"/>\r
+  <property category="sys" name="Version" value="1.0"/>\r
+  <property category="sys" name="VersionLabel" value="@version"/>\r
+  <property category="sys" name="WorkingDirectory" value="."/>\r
+  <property category="sys" name="enable.auto.packages" value="false"/>\r
+  <node name="jalview.appletgui" type="Package"/>\r
+  <node name="jalview.datamodel" type="Package"/>\r
+  <node name="jalview.jbappletgui" type="Package"/>\r
+  <node name="jalview.math" type="Package"/>\r
+  <node name="jalview.schemes" type="Package"/>\r
+  <node name="jalview.util" type="Package"/>\r
+  <file path="src/jalview/analysis/AAFrequency.java"/>\r
+  <file path="src/jalview/io/AlignFile.java"/>\r
+  <file path="src/jalview/analysis/AlignmentSorter.java"/>\r
+  <file path="src/jalview/analysis/AlignmentUtil.java"/>\r
+  <file path="src/jalview/analysis/AlignSeq.java"/>\r
+  <file path="src/jalview/io/BLCFile.java"/>\r
+  <file path="src/jalview/io/ClustalFile.java"/>\r
+  <file path="src/jalview/analysis/CompareAlignments.java"/>\r
+  <file path="src/jalview/analysis/Conservation.java"/>\r
+  <file path="src/jalview/io/FastaFile.java"/>\r
+  <file path="src/jalview/io/FileParse.java"/>\r
+  <file path="src/jalview/io/FormatAdapter.java"/>\r
+  <file path="src/jalview/io/IdentifyFile.java"/>\r
+  <file path="src/jalview/bin/JalviewLite.java"/>\r
+  <file path="src/jalview/io/MSFfile.java"/>\r
+  <file path="src/jalview/io/NewickFile.java"/>\r
+  <file path="src/jalview/analysis/NJTree.java"/>\r
+  <file path="src/jalview/analysis/PCA.java"/>\r
+  <file path="src/jalview/io/PfamFile.java"/>\r
+  <file path="src/jalview/io/PIRFile.java"/>\r
+</project>\r