build.xml

<?xml version="1.0"?>
<!--
  ~ The MIT License
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  ~ Copyright (c) 2009 The Broad Institute
  ~
  ~ Permission is hereby granted, free of charge, to any person obtaining a copy
  ~ of this software and associated documentation files (the "Software"), to deal
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  ~ copies of the Software, and to permit persons to whom the Software is
  ~ furnished to do so, subject to the following conditions:
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  ~ The above copyright notice and this permission notice shall be included in
  ~ all copies or substantial portions of the Software.
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<project name="htsjdk" basedir="." default="all">


    <property name="gradle.executable" location="gradlew"/>

    <echo>
        ANT IS DEPRECATED FOR BUILDING HTSJDK

        Please switch to using gradlew

        Examples:
        compile htsjdk or it's tests
          ./gradlew compileJava
          ./gradlew compileTest

        build a jar
          ./gradlew jar

        build a jar, along with source and document jars
        ./gradlew build

        build a jar that packages all of htsjdk's dependencies in a single jar
        ./gradlew shadowJar

        run tests, or a single test, or run a test and wait for the debugger
          ./gradlew test
          ./gradlew test --tests "*AlleleUnitTest"
          ./gradlew test --tests "*AlleleUnitTest" --debug-jvm

        clean the project directory
          ./gradlew clean

        see an exhaustive list of all available targets
          ./gradlew tasks
    </echo>

</project>