Update core dependencies

[uniqueg]

Problem

Since #150, cwl-tes is sourced from a fork, which is not an ideal solution for the mid- to long-term. Moreover, cwltool, cwl-tes and py-tes versions have all progressed to a point where they are not compatible anymore with the current version of this service.

Proposed solution

• Update the cwl-tes fork to be compatible with cwl-tes==0.3.0, while removing public key requirement and/or disabling audience verification (see Token and public key #150)
• Figure out the latest compatible cwl-tool and py-tes versions
• File a pull request to official cwl-tes repo and ask for version bump and new release; in the meantime, bump cwl-tes dependency to latest commit in fork
• Bump cwltool and py-tes versions in requirements.txt accordingly
• Fix all arising issues (e.g., log parsing, API changes)