dataRequirements/gaps-in-care catch un-calculable intervals before they error out

[hossenlopp]

Summary

Fixes error with running dataRequirements on CMS1028.

New behavior

Now checks for query source alias usage (often done in a function call) in the Interval operator before attempting to calculate an Interval for a data requirement which would fail if one exists.

Also adds the ability to scan one level deep in folders when using --patient-directory. Also filters out non .json files. This is need to run the new MADiE test case export format.

Code changes

• src/cli.ts - New function for finding json files in a given directory and immediate sub directory. Use this function when --patient-directory is defined.
• src/gaps/QueryFilterParser.ts - Added function to find AliasRef usage and expanded the search for both AliasRef and Property usages to properly traverse the low and high properties of an ELM Interval statement. This are used to not attempt interval calculation and denote an unknown filter while parsing a comparison to an interval for gaps of care and data requirements.
• src/types/ELMTypes - Added some missing ELM Types that were needed for unit tests.
• test/unit/queryFilters/interpretIn.test.ts - Unit tests for these

Testing guidance

Run unit tests. Run dataRequirements on CMS1028 and insure it doesn't error out.

For --patient-directory change: Ensure the functionality still is functional with a normal directory of patients. Move a patient into a sub folder and see if it is still executed.

[github-actions[bot]]

Coverage report

St.:grey_question:	Category	Percentage	Covered / Total
🟢	Statements	86.15% (+0.16% 🔼)	2333/2708
🟡	Branches	73.14% (+0.13% 🔼)	2140/2926
🟢	Functions	89.08% (+0.02% 🔼)	424/476
🟢	Lines	86.49% (+0.16% 🔼)	2254/2606

Test suite run success

435 tests passing in 31 suites.

Report generated by 🧪jest coverage report action from 92f16fec99d7f346eb2306a7581c840bb6ddee75

[elsaperelli]

Thanks for fixing the comment!