Consolidated log into log2 calls (and renames it)

Adds don't prompt again to error prompts
Adds specific error handling for invalid revision vs invalid file
Adds better fallback handling of user entered custom args

- Handles index files when the Git extension doesn't have the repo

Adds support to "publish" to commit as well

Ensures that "lastFetched" sort updates the views properly
Moves sorting settings to a new "Sorting" section

Allows commit message generation for unstaged changes too

Refs: #1660

Ensures correct repository on GitHub/GitLab enriched autolinks

Fixes issues with reviewed files not clearing appropriately on clear/dismiss

- Adds stage/unstage support

- Changes File History view to follow renames by default
 - Adds [Show|Hide] Merge Commits toggle to File History
 - Adds `advanced.fileHistoryShowMergeCommits` setting