R1:32f669d56665

Invert include/exclude logic on DivinerAtomQuery

Summary: Fixes T8401. Change `withIncludeGhosts()` to `withExcludeGhosts()` and `withIncludeUndocumentable()` to `withExcludeDocumentable()`. In particular, this allows querying for atoms by PHID to work as expected.

Test Plan: I got confused with double negatives so I might have gotten some of these wrong... I poked around Diviner and re-generated documentation to verify that this is working as expected.

Reviewers: epriestley, #blessed_reviewers…