Slightly expanded re-indexing intro
New CLI reindex commands
Clarify *when* to re-index
Migrate troubleshooting text to search.txt
Add note about fewer results during indexing
Fix indent in bullets
Clarify that FileAnnotations are not under 'annotation:'
Replace broken links with TODOs
Suggested improvements from Petr
More improvements of why corruption can occur
Handle double hyphen with mem
Use bold rather than italics
Add travis_retry to sudo apt-get install commands in .travis.yml
Fix 'Reasons that'->'Reasons why'
Merge pull request #870 from joshmoore/new-search-docs

New search docs
Merge pull request #884 from sbesson/travis_retry

Add travis_retry to sudo apt-get install commands in .travis.yml