Added flag file tokenizer.

Added a small inline tokenizer to resolve a few problems with flag files
(see issue #436).
Ignore Eclipse settings directory.
Add support for classes with extends clauses (still no support for super calls).
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Created by MOE: http://code.google.com/p/moe-java
MOE_MIGRATED_REVID=68281935
Added super check.
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Created by MOE: http://code.google.com/p/moe-java
MOE_MIGRATED_REVID=68283207
Merge remote-tracking branch 'origin/master' into custom