[FIX] Fixing unused variable warning in overlap_info_computation.h.
[DOC] Fixing documentation bug in consensus_alignment_options.h.
[FIX] Only use colors in terminals with Dox.
Revert "[FIX] Attempting a fix to seqcons2."

This reverts commit 0fedbe53ceca78c87216321aef6f5fce74a32a37.
[FIX] Updates to consensus module for RC'ed reads.
[TEST] Updates to test for seqcons2.