X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=build.xml;h=2f71b506eff8a377e0444f98002b149abaab1433;hb=0e6d6540d646bd5496f0bcb1657063162aa40323;hp=9eacab786f203247859466a2b7bfd2837c32be05;hpb=b4bd1607c4065c13d5e78a382d4ee46662d1a547;p=jalview.git

diff --git a/build.xml b/build.xml
index 9eacab7..2f71b50 100755
--- a/build.xml
+++ b/build.xml
@@ -228,7 +228,7 @@
 
 	<target name="makefulldist" depends="makedist">
 		<!-- the default keystore details might need to be edited here -->
-		<signjar storepass="${jalview.keystore.pass}" keypass="${jalview.key.pass}" keystore="${jalview.keystore}" alias="${jalview.key}" lazy="false" verbose="false">
+		<signjar storepass="${jalview.keystore.pass}" keypass="${jalview.key.pass}" keystore="${jalview.keystore}" alias="${jalview.key}" lazy="false" verbose="false" sigalg="SHA1withRSA">
 
 			<fileset dir="${packageDir}">
 				<include name="*.jar" />
@@ -412,7 +412,7 @@
 				<include name="*.jar"/>
 			</fileset>
 		</delete>
-		<jar destfile="${packageDir}/${outputJar}">
+		<jar destfile="${packageDir}/${outputJar}" index="true">
 			<manifest>
 				<attribute name="Main-Class" value="jalview.bin.Jalview" />
         <attribute name="Permissions" value="all-permissions" />
@@ -464,13 +464,14 @@
 	<target name="packageApplet" depends="compileApplet, buildPropertiesFile">
 		<copy file="${resourceDir}/images/idwidth.gif" toFile="${outputDir}/images/idwidth.gif" />
 		<copy file="${resourceDir}/images/link.gif" toFile="${outputDir}/images/link.gif" />
-		<jar destfile="in.jar">
+		<jar destfile="in.jar" index="true">
 			<manifest>
 				<attribute name="Main-Class" value="jalview.bin.JalviewLite" />
-			  <!--				<attribute name="Permissions" value="sandbox" /> -->
-        <!--<attribute name="Trusted-Lib" value="true" /> -->
 				<attribute name="Application-Name" value="JalviewLite Applet"/>
-				<attribute name="Codebase" value="*"/>
+				<!--        	<attribute name="Permissions" value="sandbox" /> -->
+				<!--<attribute name="Trusted-Lib" value="true" /> -->
+				<attribute name="Codebase" value="*.jalview.org *"/>
+				<attribute name="Caller-Allowable-Codebase" value="*.jalview.org *"/>
 			</manifest>
 			<fileset dir="${outputDir}">
 				<include name="com/**" />
@@ -500,11 +501,17 @@
 			<injar file="in.jar" />
 			<outjar file="${jalviewLiteJar}" />
 			<libraryjar refid="obfuscateDeps.path" />
+			<dontwarn/>
 			<keep access="public" type="class" name="jalview.bin.JalviewLite">
 				<field access="public" />
 				<method access="public" />
 				<constructor access="public" />
 			</keep>
+			<keep access="public" type="class" name="jalview.appletgui.AlignFrame">
+				<field access="public" />
+				<method access="public" />
+				<constructor access="public" />
+			</keep>
 			<!--      -libraryjars "${obfuscateDeps}"
       -injars      in.jar
       -outjars     jalviewApplet.jar
@@ -587,7 +594,14 @@
 	  	      <include name="**/*"/>
 	  	        </fileset>
 	  </copy>
-	  		
+	    <jar update="true" index="true" jarfile="${packageDir}/examples/${jalviewLiteJar}"/>
+	    <jar update="true" index="true" jarfile="${packageDir}/examples/$(jmolJar}"/>
+    <signjar storepass="${jalview.keystore.pass}" keypass="${jalview.key.pass}" keystore="${jalview.keystore}" alias="${jalview.key}" lazy="false" verbose="false">
+
+      <fileset dir="${packageDir}/examples">
+        <include name="*.jar" />
+      </fileset>
+    </signjar>
 	</target>
 	<target name="sourcedoc" description="Create jalview source documentation pages" depends="init">
 	 <javadoc destdir="${javadocDir}">