build.xml

   1 <?xml version="1.0"?>
   2   <project name="jalviewX" default="build" basedir=".">
   3     <!-- utils is a class path to additional utilities needed for
   4     building docs, jars and webstart stuff -->
   5
   6 <!--
   7         Userdefined build property defaults
   8
   9         wsdl.server list (plus namespace mapping info ???)  - also want
  10                 ... to make this a dynamically generatable property
  11         WebStart Location
  12         Build location - provide a temporary root for speed
  13         jarsigner keystore and info
  14         Jakarta and axis classpath ?
  15         Default argument for starting Jalview (if it exists).
  16
  17 -->
  18
  19     <target name="init">
  20       <path id="axis.classpath">
  21 <!-->        <fileset dir="/usr/local/axis/lib">
  22           <include name="**/*.jar" />
  23         </fileset>
  24         <fileset dir="/usr/local/jakarta-tomcat-5/webapps/axis/WEB-INF/lib">
  25           <include name="**/*.jar"/>
  26           <include name="*.jar"/>
  27         </fileset> -->
  28       </path>
  29
  30       <property name="" value=""/>
  31       <property name="libDir" value="lib"/>
  32       <property name="resourceDir" value="resources"/>
  33       <property name="helpDir" value="help"/>
  34       <property name="docDir" value="doc"/>
  35       <property name="sourceDir" value="src" />
  36       <property name="outputDir" value="classes" />
  37       <property name="packageDir" value="dist" />
  38       <property name="outputJar" value="jalview.jar" />
  39       <property name="wsdl.File" value="http://anaplog.compbio.dundee.ac.uk:8080/axis/services/jpred?wsdl" />
  40       <property name="wsdl.Files" value="http://anaplog.compbio.dundee.ac.uk:8080/axis/services/vamsas?wsdlFiles" />
  41       <property name="wsdl.MsaWS" value="http://anaplog.compbio.dundee.ac.uk:8080/axis/services/MuscleWS?wsdl" />
  42       <property name="wsdl.MsaWS2" value="http://anaplog.compbio.dundee.ac.uk:8080/axis/services/ClustalWS?wsdl" />
  43       <property name="wsdl.MsaWS2" value="http://anaplog.compbio.dundee.ac.uk:8080/axis/services/ClustalWS?wsdl" />
  44         <property name="WSInterf" value="MsaWS" />
  45       <property name="WebStartLocation" value="http://www.compbio.dundee.ac.uk/~jimp/jalviewtest"/>
  46       <property name="wsdl.Namespace" value="vamsas" />
  47       <property name="wsdl.ClientNS" value="ext.vamsas" />
  48
  49       <path id="build.classpath">
  50         <fileset dir="utils">
  51           <include name="*.jar"/>
  52           <include name="**/*.jar"/>
  53         </fileset>
  54         <fileset dir="${libDir}">
  55           <include name="*.jar"/>
  56           <include name="**/*.jar"/>
  57         </fileset>
  58 <!--        <fileset dir="old_lib_signed">
  59 <include name="lib_axis.jar"/>
  60
  61         </fileset>-->
  62       </path>
  63       <!-->    <uptodate property="help.uptodate"
  64       targetfile="${helpDir}/helpIndex.xml">
  65       <srcfiles
  66                  dir="${helpDir}"
  67                  includes="**/*.html" />
  68                </uptodate>
  69       -->
  70     </target>
  71
  72     <target name="clean" depends="init">
  73       <!-- not efficient yet. -->
  74       <delete dir="${outputDir}"/>
  75     </target>
  76
  77     <target name="distclean" depends="init, clean">
  78
  79       <echo message="REMOVING ALL BACKUP/AUTOSAVES!"/>
  80       <delete>
  81         <fileset dir=".">
  82           <include name="${outputJar}"/>
  83           <include name="#*#"/>
  84           <include name="#*.*#"/>
  85           <include name="**/#*#"/>
  86           <include name="**/#*.*#"/>
  87           <include name="*~"/>
  88           <include name="*.*~"/>
  89           <include name="**/*~"/>
  90           <include name="**/*.*~"/>
  91         </fileset>
  92       </delete>
  93     </target>
  94
  95     <target name="prepare" depends="init">
  96       <mkdir dir="${outputDir}"/>
  97       <copy todir="${outputDir}">
  98         <fileset dir=".">
  99
 100           <include name="${docDir}/**/*.*"/>
 101           <include name="${helpDir}/**/*.*"/>
 102           <include name="${libDir}/*.*"/>
 103         </fileset>
 104         <fileset dir="${resourceDir}">
 105           <include name="**/*.*"/>
 106         </fileset>
 107       </copy>
 108     </target>
 109
 110     <target name="build" depends="prepare">
 111       <!-- not efficient yet. -->
 112       <javac source="1.4" target="1.4" srcdir="${sourceDir}" destdir="${outputDir}"
 113       classpathref="build.classpath" />
 114     </target>
 115     <target name="buildindices" depends="init, prepare"
 116     unless="help.uptodate">
 117     <java
 118       classname="com.sun.java.help.search.Indexer"
 119       classpathref="build.classpath"
 120       fork="true"
 121       dir="${outputDir}/${helpDir}"
 122       >
 123       <arg line="html"/>
 124     </java>
 125     </target>
 126
 127     <target name="makejars" depends="build, buildindices">
 128       <!-- make the package jar -->
 129       <mkdir dir="${packageDir}"/>
 130
 131       <jar destfile="${packageDir}/${outputJar}">
 132         <fileset dir="${outputDir}/">
 133           <exclude name="*.jar" />
 134           <exclude name="*.jar.*" />
 135           <exclude name="**/*.jar" />
 136           <exclude name="**/*.jar.*" />
 137         </fileset>
 138       </jar>
 139
 140       <copy toDir="${packageDir}" flatten="true">
 141         <fileset dir="${outputDir}">
 142           <include name="*.jar"/>
 143           <include name="**/*.jar"/>
 144         </fileset>
 145       </copy>
 146
 147       <signjar
 148       storepass="alignmentisfun"
 149       keypass="alignmentisfun"
 150       keystore="keys/.keystore"
 151       alias="jalview"
 152       lazy="false"
 153       verbose="false"
 154       >
 155
 156       <fileset dir="${packageDir}">
 157         <include name="*.jar"/>
 158       </fileset>
 159       </signjar>
 160       <taskdef classpathref="build.classpath" resource="com/roxes/tools/ant/taskdefs.properties"/>
 161
 162       <!--    codebase="http://www.jalview.org/jalview/webstart" -->
 163       <jnlp toFile="${packageDir}/Jalview.jnlp" href="Jalview.jnlp"
 164       codebase="${WebStartLocation}">
 165       <information>
 166         <title>Jalview</title>
 167         <vendor>Barton Group</vendor>
 168         <homepage href="www.jalview.org"/>
 169         <description>Jalview Multiple Alignment Editor</description>
 170         <description kind="short">Jalview</description>
 171         <icon href="BartonGroupBanner.gif"/>
 172       </information>
 173         <resources>
 174           <j2se version="1.3+"/>
 175           <fileset dir="${packageDir}">
 176             <include name="jalview.jar"/>
 177           </fileset>
 178           <fileset dir="${packageDir}">
 179             <include name="*.jar"/>
 180             <exclude name="jalview.jar"/>
 181           </fileset>
 182         </resources>
 183         <application_desc main_class="jalview.bin.Jalview">
 184           <argument>http://www.compbio.dundee.ac.uk/~andrew/jalview/glut.msf</argument>
 185         </application_desc>
 186         <security>
 187           <all_permissions/>
 188         </security>
 189       </jnlp>
 190     </target>
 191     <target name="runenv" depends="init">
 192       <path id="run.classpath">
 193         <pathelement location="${outputDir}"/>
 194         <fileset dir="${outputDir}">
 195           <include name="${libDir}/*.jar"/>
 196         </fileset>
 197       </path>
 198       <pathconvert targetos="unix" refid="run.classpath" property="run.classpath"/>
 199
 200       <echo>java -classpath ${run.classpath} jalview.bin.Jalview
 201       </echo>
 202     </target>
 203
 204     <target name="buildextclients" depends="init">
 205 <!-- Currently, we do not do this automatically.
 206      1. Run WSDL2Java as below, which generates an ext.vamsas +
 207      vamsas.<datapackages> fileset.
 208      2. refactor ext.vamsas.SpecificserviceWS* to
 209      ext.vamsas.ServiceclassWS* that implements the ServiceclassWSI interface.
 210      3. Update the jalview.ws.*WServices classes to reflect the
 211      interface type, and all locations of this wsdl type that Jalview
 212      might be using.
 213
 214 -->
 215       <path id="axisbuild">
 216         <!--        <path refid="axis.classpath"/> -->
 217         <path refid="build.classpath"/>
 218       </path>
 219       <taskdef resource="axis-tasks.properties" classpathref="axisbuild"/>
 220       <move todir="./bak">
 221         <fileset dir="${sourceDir}" id="client">
 222           <include name="${wsdl.ClientNS}/*.*"/>
 223         </fileset>
 224       </move>
 225
 226       <axis-wsdl2java
 227       output="${sourceDir}"
 228       verbose="true"
 229       url="${wsdl.MsaWS2}"
 230       serverside="false"
 231       deployscope="Request"
 232       debug="false"
 233       helpergen="true"
 234       all="true"
 235       >
 236       <mappingSet>
 237         <mapping
 238         namespace="${wsdl.Namespace}"
 239         package="${wsdl.ClientNS}"
 240         />
 241         <mapping namespace="http://dataTypes.vamsas"
 242         package="${wsdl.ClientNS}"/>
 243         </mappingSet>
 244     </axis-wsdl2java>
 245
 246   </target>
 247   <target name="package" depends="init, build">
 248
 249   </target>
 250 </project>