CHANGELOG

v2.1
- Fix generated expressions, where a parameter is not a valid javascript name
- Remove console.log and incorrect comments from the javascript library
- Generate gatk version 4.0.0.0

v2.0
- Added no_docker and use_cache command line option
- Fixed beheviour of array and tag types
- Rewrote gen_cwl_arg to be clearer
- Reduced the dependance on the command line for the tests
### Breaking changes:
- Removed the refIndex, refDict and analysis_type cwl parameters
- Changed docker_container_name to docker_image_name

v1.4.2
- Use full GATK versions in release paths (i.e. "3.8-0" instead of just "3-8") and refer to specific version of latest GATK 4 beta release ("4.beta.6" rather than "latest").

v1.4.1
- Add releases in .tgz and .tar.bz2 archive formats. Add gatk-cwl-generator version to release filenames.

v1.4
- Changes generated CWL to YAML format rather than JSON for improved readability.

v1.3
- Changed the docker container to be broad institute's official docker container, not wtsi-hgi own container

v1.2.2
- Resolving secondaryFiles to a relative path, to work with newer cwl-runner versions and the advice in "secondaryFiles" of http://www.commonwl.org/v1.0/Workflow.html#WorkflowOutputParameter 

v1.2.1
- Array types are type | type[]

v1.1:
- Made output arguments's ids be <NAME>Output instead of adding dashes
- Outputting to gatk_cmdline_tools