Use latest conceptual framework for transcipt segment start/end

[jsstevenson]

Feature description

We're altering when/how to set the start/end values of SequenceLocation objects in transcript segment elements of fusions, rather than setting both start and end every time. Now, start and end should be selectively used based on orientation and position in a fusion. More details are in respective working docs/written on the board next to Jeremy's desk.

Use case

n/a

Proposed solution

No response

Alternatives considered

No response

Implementation details

No response

Potential Impact

No response

Additional context

No response

Contribution

None

[jarbesfeld]

@ahwagner Requesting your thoughts on this to confirm that we are accurately interpreting the correct use of start and end

[ahwagner]

I landed here per #166 (comment) during review. Would you be able to link the working docs / examples referenced in this issue for comment?

[jsstevenson]

Offhand, there's an initial illustration of how to think about orientation here -- https://docs.google.com/document/d/1EE1-evt6NStIKUENWdirR9lXo6rtBhQvCUxvxaGYlXs/edit from Jeremy. I believe he's also writing up something a bit bigger as well.

p.s. relaying in-person discussion -- plan is to produce a draft with examples and refer to ahwagner for review at that point

[korikuzma]

@ahwagner @jarbesfeld and I have been working on updating the locations in a new draft PR #172