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Heterodon is a single jar containing a Jython distribution plus the Python dependencies required for Cromwell.

Heterodon is built with Clamp. The resulting jar runs on the JVM and does not require CPython to be installed.

docker build . -t broadinstitute/heterodon

docker run --rm -v $PWD:$PWD broadinstitute/heterodon sh -c "cp -v /heterodon/heterodon-*-single.jar $PWD"

See SaladFileTest.java for an example.

Be sure to update the version both in setup.py and pom.xml.

Navigate to the JFrog Artifact Repository Browser:

• Login to jfrog.
• In the left nav select Artifacts.

For both the jar file and the pom.xml:

• Find the "Deploy" button on the top right.
• Set "Target Repository" to "libs-release-local".
• Under "Single" upload or drop the file to deploy.
• Set the appropriate versioned "Target Path" for the file, for example:
  • org/broadinstitute/heterodon/1.0.0-beta0/heterodon-1.0.0-beta0.pom, or
  • org/broadinstitute/heterodon/1.0.0-beta0/heterodon-1.0.0-beta0-single.jar
• Leave any other boxes unchecked.
• Click the "Deploy" button.