gatk-3.8/settings/ivysettings.xml

<ivysettings>
  <properties file="${ivy.settings.dir}/ivysettings.properties"/>
  <settings defaultResolver="libraries"/>
  <resolvers>
    <filesystem name="projects">
	 <artifact pattern="${repository.dir}/[organisation]/[artifact]-[revision].[ext]" />
	 <ivy pattern="${repository.dir}/[organisation]/[module]-[revision].xml" />
    </filesystem>
    <ibiblio name="libraries" m2compatible="true" />
    <ibiblio name="libraries_with_inconsistent_poms" checkconsistency="false" m2compatible="true" />
    <ibiblio name="reflections-repo" m2compatible="true" root="http://reflections.googlecode.com/svn/repo" />
    <ibiblio name="java.net" m2compatible="false" root="http://download.java.net/maven/1/" pattern="[organisation]/jars/[artifact]-[revision].[ext]"/>
  </resolvers>
  <modules>
    <module organisation="edu.mit.broad" resolver="projects" />
    <module organisation="net.sf" module="functionalj" resolver="projects" />
    <module organisation="net.sf" module="samtools" resolver="projects" />
    <module organisation="org.reflections" module="reflections" resolver="reflections-repo" />
    <module organisation="org.broad" module="tribble" resolver="projects" />
    <module organisation="gov.nist" module="Jama" resolver="projects" />
    <!-- If colt fixes the version in the pom for 1.2.0 then this line can be removed. -->
    <module organisation="colt" module="colt" resolver="libraries_with_inconsistent_poms" />
    <module organisation="javax.mail" resolver="java.net" />
    <module organisation="javax.activation" resolver="java.net" />
  </modules>
</ivysettings>