Load default CWL creator configuration dynamically from resources

[eladrion]

…rewrite calls to TestResources in tests, catch empty JSON objects on failure and implement loading the DefaultCWLCreator configuration from a file instead of hardcoded values in the code. Also, fix the wrong url to goa_human.gaf.

Pull Request Overview

This PR moves TestResources to main package as APEResources, rewrites calls to TestResources in tests, catches empty JSON objects on failure and implements loading the DefaultCWLCreator configuration from a file instead of hardcoded values in the code (as proposed by the TODO in the DefaultCWLCreator). Also, it fixes the wrong url to goa_human.gaf.

Related Issue

Resolves #131

Changes Introduced

As described in the PR overview

How Has This Been Tested?

Local run of test suite and example workflow generation as in the PR for #137.

Checklist

• I have referenced a related issue.
• I have followed the project’s style guidelines.
• My changes include tests, if applicable.
• All tests pass locally.
• I have added myself to the CITATION.cff file, if not already present.

[eladrion]

Hi @vedran-kasalica, this PR fixes the wrong URL and also tackles the TODO in DefaultCWLCreator stating "FIX THIS. IT CANNOT BE HARDCODED." by loading the configuration from a resource JSON file.

[vedran-kasalica]

@eladrion, the changes look nice, thanks for cleaning up the inputs and the naming. I added a small comment to be aware of the method. I remember implementing a few similar methods to make the code a bit cleaner, because Java is really messy when it comes to working with JSON files.

[eladrion]

@vedran-kasalica Thanks for the review, will merge after checks are completed.