refs #20: added tests for smart tag (and insert since it wasnt tested) and links with multiple runs
refs #20: correctly handled smart tags and hyperlinks with multiple run tags. In addition did some code cleanup.
refs #20: update note
refs #20: added a test showing which file extensions gets skipped
refs #20: fixed a comment
refs #20: updated update note
Merge pull request #20 from PolicyStat/issue_20

Deal with smartTag and links with multiple runs