X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=build.xml;h=eae1d94ead0a597cdd77a1b3e1395185b6b35808;hb=f8661272f34442d8ade497c0fc495efb1ddce713;hp=0f81af7630b76b1df9b8731af617b6361f533de6;hpb=b5707426716749ffdcee495353b71cb48d1433ad;p=jalview.git

diff --git a/build.xml b/build.xml
index 0f81af7..eae1d94 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 digestalg="SHA1" storepass="${jalview.keystore.pass}" keypass="${jalview.key.pass}" keystore="${jalview.keystore}" alias="${jalview.key}" lazy="false" verbose="false">
 
 			<fileset dir="${packageDir}">
 				<include name="*.jar" />
@@ -412,9 +412,13 @@
 				<include name="*.jar"/>
 			</fileset>
 		</delete>
-		<jar destfile="${packageDir}/${outputJar}">
+		<jar destfile="${packageDir}/${outputJar}" index="true">
 			<manifest>
 				<attribute name="Main-Class" value="jalview.bin.Jalview" />
+        <attribute name="Permissions" value="all-permissions" />
+        <!--<attribute name="Trusted-Lib" value="true" /> -->
+        <attribute name="Application-Name" value="Jalview Desktop"/>
+        <attribute name="Codebase" value="*"/>
 			</manifest>
 			<fileset dir="${outputDir}/">
 				<exclude name="cache*/**" />
@@ -460,9 +464,13 @@
 	<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="www.jalview.org"/>
 			</manifest>
 			<fileset dir="${outputDir}">
 				<include name="com/**" />
@@ -492,11 +500,17 @@
 			<injar file="in.jar" />
 			<outjar file="${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 "${obfuscateDeps}"
       -injars      in.jar
       -outjars     jalviewApplet.jar
@@ -579,7 +593,14 @@
 	  	      <include name="**/*"/>
 	  	        </fileset>
 	  </copy>
-	  		
+	    <jar update="true" index="true" jarfile="${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}">