Develop a strategy to refactor REST endpoint code used by Galaxy/BAR/CyVerse (maybe AppStore)

IGB implements REST endpoints that trigger loading of genomes and data files. This code is supporting IGB bookmarks, Galaxy and CyVerse bridges, and BAR connectivity.

Currently all the code is written in one place and is handled based on conditions. It makes the code highly complicated, hard to read, and hard/risky to modify.

Goal: Develop a strategy to re-architect this code to make it easier to understand and modify.

Files to look at:
IGB:

• BookmarkUnibrowControlServlet.java
• BookmarkHttpRequestHandler.java

BioViz:

• bar.js
• galaxy.js
• cyversetoigb.js

Important Urls for testing:
BAR:

• https://bar.utoronto.ca/eFP-Seq_Browser/

Galaxy:

• https://usegalaxy.org/u/nfreese/h/visualization-of-whole-genome-dna-methylation-data-in-igb-focus-on-a-feature

CyVerse (You can use testing environment for Bioviz. Take credentials from Cyverse Team):

• bioviz.org/cyverseData.html

Also, you should look at the REST endpoint we wrote to trigger installation of IGB Apps. Ask Riddhi and Charan.