<?xml version="1.0"?>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.1)
- * 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.
*
* The Jalview Authors are detailed in the 'AUTHORS' file.
-->
<project name="jalviewX" default="usage" basedir=".">
- <!-- we use jalopy to format our sources -->
- <taskdef name="jalopy" classname="de.hunsicker.jalopy.plugin.ant.AntPlugin">
- <classpath>
- <fileset dir="utils/jalopy/lib">
- <include name="*.jar" />
- </fileset>
- </classpath>
- </taskdef>
-
<target name="help" depends="usage" />
<target name="usage">
<echo message="~~~Jalview Ant build.xml Usage~~~~" />
<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" />
<!-- Key Password -->
<property name="jalview.key.pass" value="alignmentisfun" />
-
-
<!-- Don't change anything below here unless you know what you are doing! -->
<!-- Url path for WebStart in JNLP file -->
<property name="WebStartLocation" value="http://www.jalview.org/webstart" />
<!-- Webstart Image - looked for in resources/images -->
<property name="WebStartImage" value="JalviewLogo_big.png"/>
<!-- J2SE version needed for webstart launch -->
- <property name="j2sev" value="1.6+"/>
+ <!-- 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. -->
<!-- Defaults are those suitable for deploying jalview webstart www.jalview.org -->
<property name="outputJar" value="jalview.jar" />
<!-- Jalview Applet JMol Jar Dependency -->
<property name="jmolJar" value="JmolApplet-12.2.4.jar" />
+ <property name="varnaJar" value="VARNAv3-91.jar" />
<property name="jalviewLiteJar" value="jalviewApplet.jar" />
<!-- switch to indicate if we should obfuscate jalviewLite -->
- <!--<property name="donotobfuscate" value="true"/> -->
+ <!-- <property name="donotobfuscate" value="true"/> -->
+ <!-- switch to exclude associations from generated jnlp files -->
+ <!-- <property name="nojnlpfileassocs" value="true"/> -->
<!-- Jalview Web Service Clients - see the comments in 'buildextclients' for details -->
<property name="wsdl.File" value="http://www.compbio.dundee.ac.uk/JalviewWS/services/jpred?wsdl" />
<!-- the JmolApplet includes the JmolApplet console and the application javac seems to always try and build all packages
-->
<include name="${jmolJar}" />
+ <include name="${varnaJar}" />
</fileset>
</path>
<property name="source.dist.name" value="${basedir}/jalview-src.tar.gz" />
<!-- The Location of the java 1.1.8 jdk -->
- <!--<property name="java118.home" value="C:\Sun\jdk1.1.8" />
- -->
+ <!--<property name="java118.home" value="C:\Sun\jdk1.1.8" /> -->
<property name="java118.home" value="${java.home}" />
- <!--<property name="applet.jre.tools" value="${java118.home}/lib/classes.zip" />
+ <!-- <property name="applet.jre.tools" value="${java118.home}/lib/classes.zip" />
-->
<!-- jre for 1.4 version -->
<property name="applet.jre.tools" value="${java.home}/lib/rt.jar"/>
<include name="plugin.jar"/>
</fileset>
<pathelement location="appletlib/${jmolJar}" />
+ <pathelement location="lib/${varnaJar}" />
</path>
<!-- default location for outputting javadoc -->
<property name="javadocDir" value="${packageDir}/javadoc"/>
<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>
<echo>java -classpath ${run.classpath} jalview.bin.Jalview
</echo>
</target>
- <target name="writejnlpf">
+
+ <target name="-generatejnlpf">
<presetdef name="jnlpf">
<jnlp codebase="${WebStartLocation}">
<information>
<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>
</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>
<![CDATA[</information>]]></replacetoken>
<replacevalue>
<![CDATA[
- <association mime-type="application-x/ext-file" extensions="fa" />
+ <association mime-type="application-x/ext-file" extensions="fa" />
<association mime-type="application-x/ext-file" extensions="fasta" />
<association mime-type="application-x/ext-file" extensions="mfa" />
<association mime-type="application-x/ext-file" extensions="fastq" />
<association mime-type="application-x/ext-file" extensions="jvp"/>
</information>]]></replacevalue>
</replace>
+ <echo message="Added file associations to JNLP file"/>
</target>
+<target name="writejnlpf" depends="-dojnlpfileassoc,-dofakejnlpfileassoc">
+</target>
+
<target name="buildextclients" depends="init">
<input message="Building external client source from WSDLs - Do you really want to do this ? (Yy/Nn)" validargs="Y,y,n,N" defaultvalue="N" addproperty="doextbuild.response" />
<condition property="dontextbuild">
<mkdir dir="${outputDir}" />
<javac source="1.5" target="1.5" srcdir="${sourceDir}" destdir="${outputDir}" debug="${javac.debug}"
classpathref="jalviewlite.deps" includes="jalview/appletgui/**"
- excludes="ext/**,MCview/**,org/**,vamsas/**" />
+ excludes="ext/**,MCview/**,org/**,vamsas/**,jalview/ext/paradise/**" />
</target>
<target name="packageApplet" depends="compileApplet, buildPropertiesFile">
</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}"">
+ <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}">
git://source.jalview.org / jalview.git / blobdiff