build.xml

   1 <?xml version="1.0"?>
   2   <project name="jalviewX" default="usage" basedir=".">
   3 <!-- we use jalopy to format our sources -->
   4 <taskdef name="jalopy"
   5          classname="de.hunsicker.jalopy.plugin.ant.AntPlugin">
   6   <classpath>
   7     <fileset dir="utils/jalopy/lib">
   8       <include name="*.jar" />
   9     </fileset>
  10   </classpath>
  11 </taskdef>
  12
  13    <target name="usage">
  14      <echo message="~~~Jalview Ant build.xml Usage~~~~"/>
  15      <echo message="Targets available:"/>
  16      <echo message="usage - default target, displays this message"/>
  17      <echo message="buildindices - generates JavaHelpSearch from the help files"/>
  18      <echo message="build - compiles all necessary files for Application"/>
  19      <echo message="makedist - compiles and places all necessary jar files into directory dist"/>
  20      <echo message="makefulldist - signs all jar files and builds jnlp file for full distribution"/>
  21      <echo message="compileApplet - compiles all necessary files for Applet"/>
  22      <echo message="makeApplet - compiles, then packages and obfuscates the Applet"/>
  23    </target>
  24
  25
  26     <!-- utils is a class path to additional utilities needed for
  27     building docs, jars and webstart stuff -->
  28
  29 <!--
  30         Userdefined build property defaults
  31
  32         wsdl.server list (plus namespace mapping info ???)  - also want
  33                 ... to make this a dynamically generatable property
  34         WebStart Location
  35         Build location - provide a temporary root for speed
  36         jarsigner keystore and info
  37         Jakarta and axis classpath ?
  38         Default argument for starting Jalview (if it exists).
  39
  40 -->
  41
  42     <target name="init">
  43       <path id="axis.classpath">
  44 <!-->        <fileset dir="/usr/local/axis/lib">
  45           <include name="**/*.jar" />
  46         </fileset>
  47         <fileset dir="/usr/local/jakarta-tomcat-5/webapps/axis/WEB-INF/lib">
  48           <include name="**/*.jar"/>
  49           <include name="*.jar"/>
  50         </fileset> -->
  51       </path>
  52
  53       <property name="JALVIEW_VERSION" value="ANNOTATION_TEST"/>
  54       <property name="" value=""/>
  55       <property name="libDir" value="lib"/>
  56       <property name="resourceDir" value="resources"/>
  57       <property name="helpDir" value="help"/>
  58       <property name="docDir" value="doc"/>
  59       <property name="sourceDir" value="src" />
  60       <property name="outputDir" value="classes" />
  61       <property name="packageDir" value="dist" />
  62       <property name="outputJar" value="jalview.jar" />
  63       <property name="wsdl.File" value="http://www.compbio.dundee.ac.uk/JalviewWS/services/jpred?wsdl" />
  64       <property name="wsdl.Files" value="http://www.compbio.dundee.ac.uk/JalviewWS/services/vamsas?wsdlFiles" />
  65       <property name="wsdl.MsaWS" value="http://www.compbio.dundee.ac.uk/JalviewWS/services/MuscleWS?wsdl" />
  66       <property name="wsdl.MsaWS2" value="http://www.compbio.dundee.ac.uk/JalviewWS/services/ClustalWS?wsdl" />
  67       <property name="wsdl.MsaWS2" value="http://www.compbio.dundee.ac.uk/JalviewWS/services/ClustalWS?wsdl" />
  68         <property name="WSInterf" value="MsaWS" />
  69       <property name="WebStartLocation" value="http://www.jalview.org/webstart"/>
  70       <property name="wsdl.Namespace" value="vamsas" />
  71       <property name="wsdl.ClientNS" value="ext.vamsas" />
  72
  73       <path id="build.classpath">
  74         <fileset dir="utils">
  75           <include name="*.jar"/>
  76           <include name="**/*.jar"/>
  77         </fileset>
  78         <fileset dir="${libDir}">
  79           <include name="*.jar"/>
  80           <include name="**/*.jar"/>
  81         </fileset>
  82 <!--        <fileset dir="old_lib_signed">
  83 <include name="lib_axis.jar"/>
  84
  85         </fileset>-->
  86       </path>
  87       <!-->    <uptodate property="help.uptodate"
  88       targetfile="${helpDir}/helpIndex.xml">
  89       <srcfiles
  90                  dir="${helpDir}"
  91                  includes="**/*.html" />
  92                </uptodate>
  93       -->
  94     </target>
  95
  96
  97     <taskdef classpath="utils/roxes-ant-tasks-1.2-2004-01-30.jar" resource="com/roxes/tools/ant/taskdefs.properties"/>
  98     <target name="buildPropertiesFile" depends="init">
  99       <tstamp prefix="build">
 100         <format property="date" pattern="dd MMMM yyyy"/>
 101       </tstamp>
 102       <properties file="${outputDir}/.build_properties">
 103         <header>
 104           ---Jalview Build Details---
 105         </header>
 106         <property name="VERSION" value="${JALVIEW_VERSION}"/>
 107         <property name="BUILD_DATE" value="${build.date}"/>
 108       </properties>
 109     </target>
 110
 111
 112     <target name="clean" depends="init">
 113       <!-- not efficient yet. -->
 114       <delete dir="${outputDir}"/>
 115     </target>
 116
 117     <target name="distclean" depends="init, clean">
 118
 119       <echo message="REMOVING ALL BACKUP/AUTOSAVES!"/>
 120       <delete>
 121         <fileset dir=".">
 122           <include name="${outputJar}"/>
 123           <include name="#*#"/>
 124           <include name="#*.*#"/>
 125           <include name="**/#*#"/>
 126           <include name="**/#*.*#"/>
 127           <include name="*~"/>
 128           <include name="*.*~"/>
 129           <include name="**/*~"/>
 130           <include name="**/*.*~"/>
 131         </fileset>
 132       </delete>
 133     </target>
 134
 135     <target name="prepare" depends="init">
 136       <mkdir dir="${outputDir}"/>
 137       <copy todir="${outputDir}">
 138         <fileset dir=".">
 139           <include name="${docDir}/**/*.*"/>
 140           <include name="${helpDir}/**/*.*"/>
 141           <include name="${libDir}/*.jar"/>
 142         </fileset>
 143         <fileset dir="${resourceDir}">
 144           <include name="**/*.*"/>
 145         </fileset>
 146       </copy>
 147     </target>
 148
 149     <target name="build" depends="prepare">
 150       <!-- not efficient yet. -->
 151       <javac source="1.4" target="1.4"
 152         srcdir ="${sourceDir}"
 153         destdir="${outputDir}"
 154       classpathref="build.classpath">
 155       <exclude name="jalview/*applet*"/>
 156        <exclude name="com/stevesoft/**"/>
 157       </javac>
 158     </target>
 159     <target name="buildindices" depends="init, prepare"
 160     unless="help.uptodate">
 161     <java
 162       classname="com.sun.java.help.search.Indexer"
 163       classpathref="build.classpath"
 164       fork="true"
 165       dir="${outputDir}/${helpDir}"
 166       >
 167       <arg line="html"/>
 168     </java>
 169     </target>
 170
 171     <target name="makefulldist" depends="makedist">
 172  <!-- the default keystore details might need to be edited here -->
 173       <signjar
 174       storepass="alignmentisfun"
 175       keypass="alignmentisfun"
 176       keystore="keys/.keystore"
 177       alias="jalview"
 178       lazy="false"
 179       verbose="false"
 180       >
 181
 182       <fileset dir="${packageDir}">
 183         <include name="*.jar"/>
 184       </fileset>
 185       </signjar>
 186       <taskdef classpathref="build.classpath" resource="com/roxes/tools/ant/taskdefs.properties"/>
 187
 188       <!--    codebase="http://www.jalview.org/jalview/webstart" -->
 189       <jnlp toFile="${packageDir}/jalview.jnlp" href="jalview.jnlp"
 190       codebase="${WebStartLocation}">
 191       <information>
 192         <title>Jalview</title>
 193         <vendor>The Barton Group</vendor>
 194         <homepage href="http://www.jalview.org"/>
 195         <description>Jalview Multiple Alignment Editor</description>
 196         <description kind="short">Jalview</description>
 197         <icon href="logo_big.gif"/>
 198         <offline_allowed/>
 199         <!--
 200         <association mime-type="application-x/ext-file" extensions="fa"/>
 201         <association mime-type="application-x/ext-file" extensions="fasta"/>
 202         <association mime-type="application-x/ext-file" extensions="fastq"/>
 203         <association mime-type="application-x/ext-file" extensions="blc"/>
 204         <association mime-type="application-x/ext-file" extensions="msf"/>
 205         <association mime-type="application-x/ext-file" extensions="pfam"/>
 206         <association mime-type="application-x/ext-file" extensions="aln"/>
 207         <association mime-type="application-x/ext-file" extensions="pir"/>
 208         -->
 209        </information>
 210         <resources>
 211           <j2se version="1.4+"/>
 212           <fileset dir="${packageDir}">
 213             <include name="jalview.jar"/>
 214           </fileset>
 215           <fileset dir="${packageDir}">
 216             <include name="*.jar"/>
 217             <exclude name="jalview.jar"/>
 218           </fileset>
 219           <property name="jalview.version" value="${JALVIEW_VERSION}"/>
 220         </resources>
 221         <application_desc main_class="jalview.bin.Jalview">
 222           </application_desc>
 223         <security>
 224           <all_permissions/>
 225         </security>
 226       </jnlp>
 227     </target>
 228     <target name="runenv" depends="init">
 229       <path id="run.classpath">
 230         <pathelement location="${outputDir}"/>
 231         <fileset dir="${outputDir}">
 232           <include name="${libDir}/*.jar"/>
 233         </fileset>
 234       </path>
 235       <pathconvert targetos="unix" refid="run.classpath" property="run.classpath"/>
 236
 237       <echo>java -classpath ${run.classpath} jalview.bin.Jalview
 238       </echo>
 239     </target>
 240
 241     <target name="buildextclients" depends="init">
 242 <!-- Currently, this doesn't happen automatically.
 243      1. Run WSDL2Java as below, which generates an ext.vamsas +
 244      vamsas.<datapackages> fileset.
 245      2. refactor ext.vamsas.SpecificserviceWS* to
 246      ext.vamsas.ServiceclassWS* that implements the ServiceclassWSI interface.
 247      3. Update the jalview.ws.*WServices classes to reflect the
 248      interface type, and all locations of this wsdl type that Jalview
 249      might be using.
 250
 251 -->
 252       <path id="axisbuild">
 253         <!--        <path refid="axis.classpath"/> -->
 254         <path refid="build.classpath"/>
 255       </path>
 256       <taskdef resource="axis-tasks.properties" classpathref="axisbuild"/>
 257       <move todir="./bak">
 258         <fileset dir="${sourceDir}" id="client">
 259           <include name="${wsdl.ClientNS}/*.*"/>
 260         </fileset>
 261       </move>
 262
 263       <axis-wsdl2java
 264       output="${sourceDir}"
 265       verbose="true"
 266       url="${wsdl.MsaWS2}"
 267       serverside="false"
 268       deployscope="Request"
 269       debug="false"
 270       helpergen="true"
 271       all="true"
 272       >
 273       <mappingSet>
 274         <mapping
 275         namespace="${wsdl.Namespace}"
 276         package="${wsdl.ClientNS}"
 277         />
 278         <mapping namespace="http://dataTypes.vamsas"
 279         package="${wsdl.ClientNS}"/>
 280         </mappingSet>
 281     </axis-wsdl2java>
 282     </target>
 283
 284     <target name="makedist" depends="build, buildPropertiesFile, buildindices">
 285       <!-- make the package jar -->
 286       <mkdir dir="${packageDir}"/>
 287
 288       <jar destfile="${packageDir}/${outputJar}">
 289         <manifest>
 290              <attribute name="Main-Class" value="jalview.bin.Jalview"/>
 291         </manifest>
 292         <fileset dir="${outputDir}/">
 293           <exclude name="cache*/**"/>
 294           <exclude name="*.jar" />
 295           <exclude name="*.jar.*" />
 296           <exclude name="**/*.jar" />
 297           <exclude name="**/*.jar.*" />
 298         </fileset>
 299       </jar>
 300
 301       <copy toDir="${packageDir}" flatten="true">
 302         <fileset dir="${outputDir}">
 303           <include name="*.jar"/>
 304           <include name="**/*.jar"/>
 305         </fileset>
 306       </copy>
 307   </target>
 308
 309
 310
 311   <target name="package" depends="init, build">
 312
 313   </target>
 314   <!-- jalopy code reformatter -->
 315   <target name="sourcescrub" depends="init,build">
 316     <jalopy destdir="jsrc" classpathref="run.classpath"
 317       convention="jalview-jalopy.xml">
 318       <fileset dir="${sourceDir}">
 319         <include name="*.java"/>
 320         <include name="**/*.java"/>
 321         <include name="**/**/*.java"/>
 322       </fileset>
 323       </jalopy>
 324   </target>
 325
 326
 327
 328   <!-- Compile, package and obfuscate Jalview Applet -->
 329   <target name="makeApplet" depends="obfuscate"/>
 330
 331   <target name="compileApplet" depends="init,clean">
 332     <mkdir dir="${outputDir}"/>
 333     <javac source="1.2" target="1.1" srcdir="${sourceDir}" destdir="${outputDir}"
 334        includes="jalview/analysis/**,jalview/appletgui/**,jalview/datamodel/**jalview/jbappletgui/**,jalview/math/**,jalview/schemes/**"
 335        excludes="ext/**,MCview/**,org/**,vamsas/**"/>
 336   </target>
 337
 338   <target name="packageApplet" depends="compileApplet, buildPropertiesFile">
 339   <copy file="${resourceDir}/images/idwidth.gif" toFile="${outputDir}/images/idwidth.gif"/>
 340        <jar destfile="in.jar">
 341         <manifest>
 342             <attribute name="Main-Class" value="jalview.bin.JalviewLite"/>
 343         </manifest>
 344         <fileset dir="${outputDir}">
 345           <include name="com/**"/>
 346           <include name="MCview/**"/>
 347           <include name="jalview/**"/>
 348           <include name=".build_properties"/>
 349           <include name="images/idwidth.gif"/>
 350         </fileset>
 351       </jar>
 352   </target>
 353
 354   <target name="obfuscate" depends="packageApplet">
 355     <taskdef resource="proguard/ant/task.properties" classpath="utils/proguard.jar" />
 356     <proguard>
 357       -libraryjars "${java.home}/lib/rt.jar"
 358       -injars      in.jar
 359       -outjars     jalviewApplet.jar
 360       -keep public class jalview.bin.JalviewLite
 361        { public * ; }
 362     </proguard>
 363     <delete file="in.jar"/>
 364   </target>
 365
 366
 367 </project>