Update Clinical Significance values for Predisposing evidence to use ACMG values

[malachig]

Currently we use Positive and Negative for Clinical Significance values but it would make more sense to use the nomenclature from the ACMG guidelines for Predictive evidence:

https://www.acmg.net/docs/Standards_Guidelines_for_the_Interpretation_of_Sequence_Variants.pdf

From Table 5:

• Pathogenic
• Likely pathogenic
• Benign
• Likely benign
• Uncertain significance

[acoffman]

@malachig This is straightforward to do on our end! Is there a conversion we can use for our existing values? Or should we introduce these new values alongside our existing ones?

[malachig]

Lets just set the few we have to NULL and we will manually select the right answer for each and have these reviewed by editors.

[acoffman]

(notes for myself)

This will be a little tricky as its stored as an enum, so we can't just remove these values right off the bat. We'll need to add the new ones at the end of the enum and overwrite the existing values to null. Then in a subsequent migration we'll want to left shift everything by two and delete the old values in the middle of the enum.

[malachig]

This sounds like a good approach to me.