Feature/json streaming

[svandenhoek]

Changes

• Added new package containing code for GeneDiseaseCollection JSON (de)serialization
  • Re-used old JSON (de)serialization where possible
  • Implemented streaming option
  • Made old classes @deprecated
• Updated version to 5.2.0-SNAPSHOT
• New dependency: gson

Important notes

GeneDiseaseCollectionSerializer and GeneDiseaseCollectionDeserializer are now simply children of newly implemented classes without any additional code. As these new classes give the same output (except a slight re-ordering of what is written in the output first), this shouldn't cause any major issues (old tests still succeed after adjusting the validation String that the json format stores the combinations after the genes/diseases/sources).

When a new major release is done, deprecated code should be removed.

Checklists

Please update the checklists when steps are completed.

Before merge

• [test afterwards whether memory issues are resolved on vibe.molgeniscloud.org] Functionality works & meets specs
• [] Code reviewed
• [n.a.] Documentation was updated

After merge

• Added feature/fix to draft release notes
• Removed merged branches

[dennishendriksen]

1. Could you take a look at the code smells reported by Sonar?
2. Why introduce deprecated code instead of removing it immediately?

[sonarcloud]

Kudos, SonarCloud Quality Gate passed!   

0 Bugs
0 Vulnerabilities
0 Security Hotspots
7 Code Smells

95.0% Coverage
1.5% Duplication

[svandenhoek]

1. Could you take a look at the code smells reported by Sonar?

All code smells fixed except (duplicate code in) @deprecated classes/methods.

2. Why introduce deprecated code instead of removing it immediately?

To adhere to semantic version so we don't have to make yet another major release yet.