build.xml

<?xml version="1.0"?>
<project name="lychi" default="dist" basedir=".">
  <property name="build" value="build"/>
  <property name="dist" value="dist"/>
  <property name="lib" value="lib"/>
  <property name="web" value="web/WEB-INF"/>
  <property name="classes" value="${web}/classes"/>
  <property name="weblib" value="${web}/lib"/>
  <property name="src" value="src"/>
  <mkdir dir="${weblib}"/>

  <path id="compile.classpath">
    <fileset dir="${lib}">
      <include name="**/*.jar"/>
    </fileset>
    <fileset dir="${weblib}">
      <include name="**/*.jar"/>
    </fileset>
    <fileset dir="${dist}">
      <include name="**/*.jar"/>
    </fileset>
    <pathelement location="${build}"/>
  </path>

  <target name="init">
    <tstamp>
       <format property="touch.time"
                pattern="MM/dd/yyyy 'at' HH:mm:ss z"/>
       <format property="date" pattern="yyyyMMdd"/>
    </tstamp>
    <exec executable="git"
	  outputproperty="commit">
      <arg line="rev-parse --short HEAD"/>
    </exec>
    <property name="jar" value="lychi-${commit}.jar"/>
    <!--
	this version date should be updated only when the underlying
	hash will change!
    -->
    <property name="version" value="20170222"/>
    <echo file="src/lychi/Version.java">package lychi;
public final class Version {
   public static final String VERSION = "${version}";    
   public static final String COMMIT = "${commit}";
   public static final String USER = "${user.name}";
   public static final String TIMESTAMP = "${touch.time}";
   private Version () {}
   public static void main (String[] argv) {
      System.out.println("LyChI Version: commit="+COMMIT+" version="+VERSION+" timestamp="+TIMESTAMP+" user="+USER);
   }
}
</echo>

    <!-- Create the build directory structure used by compile -->
    <mkdir dir="${build}"/>
    <mkdir dir="${dist}"/>
  </target>

  <target name="compile" depends="init">
    <javac srcdir="${src}"
           destdir="${build}"
           deprecation="on"
           debug="on"
           includeantruntime="no"
           target="1.6"
           source="1.6">
      <classpath refid="compile.classpath"/>
    </javac>
  </target>

  <target name="dist" depends="compile">
     <copy todir="${build}">
       <fileset dir="${src}" includes="**/resources/**"/>
     </copy>
     <jar jarfile="${dist}/${jar}"
         basedir="${build}"
         includes="**">
       <manifest>
          <attribute name="Built-By" value="${user.name}"/>
       </manifest>
     </jar>
  </target>

  <target name="deploy" depends="dist">
     <copy todir="${deploy}">
       <fileset dir="${dist}" includes="${jar}"/>
     </copy>
  </target>

  <!-- generate self-contained jar file-->
  <target name="all" depends="dist">
     <property name="tmp" value="${dist}/tmp"/>
     <mkdir dir="${tmp}"/>
     <unjar src="${lib}/jchem3.jar" dest="${tmp}"/>
     <copy todir="${tmp}">
        <fileset dir="${build}" includes="**"/>
     </copy>
     <jar jarfile="${dist}/lychi-all-${commit}.jar"
         basedir="${tmp}"
         includes="**">
       <manifest>
          <attribute name="Built-By" value="${user.name}"/>
          <attribute name="Main-class" value="lychi.LyChIStandardizer"/>
       </manifest>
     </jar>
     <delete dir="${tmp}"/> 
  </target>

  <target name="clean">
     <delete includeEmptyDirs="true"> 
        <fileset dir="${build}" includes="**/*"/>
     </delete>
  </target>

  <target name="test1" depends="dist">
     <echo message="=== Test case 1"/>
     <java classname="lychi.LyChIStandardizer" maxmemory="256m"
            classpathref="compile.classpath" fork="true">
        <arg value="tests/standardizer_case1.smi"/>
     </java>
  </target>

  <target name="run" depends="dist">
     <echo message="==== args: ${args}"/>
     <java classname="lychi.LyChIStandardizer" maxmemory="256m"
            classpathref="compile.classpath" fork="true">
        <arg value="${args}"/>
     </java>
  </target>
</project>