X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=build.xml;h=49fd37eb8a826798ae9ca5b12ce04b44c453520f;hb=e2d6753e8cf3c5eaf8bccf34f4f5e9d651e9cb8e;hp=283e492bd41b4524779928b843d26562b93b985f;hpb=cd250a12829fec580ad045e1e927416efca46bd4;p=jalview.git

diff --git a/build.xml b/build.xml
index 283e492..49fd37e 100755
--- a/build.xml
+++ b/build.xml
@@ -1,7 +1,7 @@
 <?xml version="1.0"?>
 <!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
  * 
  * This file is part of Jalview.
  * 
@@ -62,8 +62,12 @@
         <include name="*.jar"/>
       </fileset> -->
       </path>
+  	
     <!-- Jalview Version String displayed by application on startup and used to check for updates -->
     <property name="JALVIEW_VERSION" value="DEVELOPMENT" />
+  	
+    <property name="INSTALLATION" value="Source" />
+  	
     <!-- 2.4 (VAMSAS)" -->
     <!-- Include debugging information in javac true or false -->
     <property name="javac.debug" value="true" />
@@ -83,7 +87,7 @@
     <!-- Webstart Image - looked for in resources/images -->
     <property name="WebStartImage" value="JalviewLogo_big.png"/>
     <!-- J2SE version needed for webstart launch -->
-<!-- Anne's version needs 1.7 - should rebuild VARNA to java 1.6 for release -->
+    <!-- Anne's version needs 1.7 - should rebuild VARNA to java 1.6 for release -->
     <property name="j2sev" value="1.7+"/>
 
     <!-- Permissions for running Java applets and applications. -->
@@ -106,7 +110,7 @@
     <property name="outputJar" value="jalview.jar" />
     <!-- Jalview Applet JMol Jar Dependency -->
     <property name="jmolJar" value="JmolApplet-12.2.4.jar" />
-    <property name="varnaJar" value="VARNAv3-9.jar" />
+    <property name="varnaJar" value="VARNAv3-91.jar" />
     <property name="jalviewLiteJar" value="jalviewApplet.jar" />
     <!-- switch to indicate if we should obfuscate jalviewLite -->
     <!-- <property name="donotobfuscate" value="true"/> -->
@@ -138,7 +142,7 @@
         <!-- the JmolApplet includes the JmolApplet console and the application javac seems to always try and build all packages 
 				-->
         <include name="${jmolJar}" />
-	<include name="${varnaJar}" />
+        <include name="${varnaJar}" />
       </fileset>
 
     </path>
@@ -175,8 +179,9 @@
     <properties file="${outputDir}/.build_properties">
       <header>
           ---Jalview Build Details---
-        </header>
+        </header>    	
       <property name="VERSION" value="${JALVIEW_VERSION}" />
+      <property name="INSTALLATION" value="${INSTALLATION}" />
       <property name="BUILD_DATE" value="${build.date}" />
     </properties>
   </target>
@@ -344,9 +349,16 @@
             <include name="*.jar" />
             <include name="*_*.jar" />
             <exclude name="jalview.jar" />
+          	<exclude name="*jnilib.jar"/>
           </fileset>
+      	</resources>
+        <resources os="Mac OS X">
           <property name="jalview.version" value="${JALVIEW_VERSION}" />
+        	<fileset dir="${packageDir}">
+        		<include name="*quaqua*.jnilib.jar"/>
+        	</fileset>
         </resources>
+      	
         <application_desc main_class="jalview.bin.Jalview">
         </application_desc>
         <security>
@@ -356,13 +368,13 @@
     </presetdef>
 
     <jnlpf toFile="${jnlpFile}"/>
-  
+
   </target>
-  
+
   <target name="-dofakejnlpfileassoc" depends="-generatejnlpf" if="nojnlpfileassocs">
     <echo message="Not adding JNLP File Associations"/>
   </target>
-  
+
   <target name="-dojnlpfileassoc" depends="-generatejnlpf" unless="nojnlpfileassocs">
     <replace file="${jnlpFile}">
       <replacetoken>
@@ -382,9 +394,9 @@
         <association mime-type="application-x/ext-file" extensions="stk"/>
         <association mime-type="application-x/ext-file" extensions="jvp"/>
       </information>]]></replacevalue>
-    </replace>
-    <echo message="Added file associations to JNLP file"/>
-    </target>
+  </replace>
+  <echo message="Added file associations to JNLP file"/>
+</target>
 <target name="writejnlpf" depends="-dojnlpfileassoc,-dofakejnlpfileassoc">
 </target>
 
@@ -734,6 +746,20 @@
   </signjar>
   <!-- bizarre bug causes JmolApplet to always get signed, even if excluded from above. so copy explicitly -->
   <copy file="appletlib/${jmolJar}" tofile="${packageDir}/examples/u_${jmolJar}" overwrite="true" />
+	<!-- finally, replace any launchApp servlet tags with a version specification -->
+	<replace value="http://www.jalview.org/services/launchApp?version=${JALVIEW_VERSION}&quot;">
+		<replacetoken><![CDATA[http://www.jalview.org/services/launchApp"]]></replacetoken>
+		<fileset dir="${packageDir}/examples">
+			<include name="**/*.html"/>
+		</fileset>
+	</replace>
+	<replace value="http://www.jalview.org/services/launchApp?version=${JALVIEW_VERSION}'">
+		<replacetoken><![CDATA[http://www.jalview.org/services/launchApp']]></replacetoken>
+		<fileset dir="${packageDir}/examples">
+			<include name="**/*.html"/>
+		</fileset>
+	</replace>
+
 </target>
 <target name="sourcedoc" description="Create jalview source documentation pages" depends="init">
   <javadoc destdir="${javadocDir}">