GenomicConsensus: Add back ability to key on "pacbio contig name" ("ref000001") in -w

[Tracking bug 23893]

[git-p4: depot-paths = "//depot/software/bioinformatics/tools/GenomicConsensus/": change = 131367]
Fix --dumpEvidence

[Tracking bug 23893]

[git-p4: depot-paths = "//depot/software/bioinformatics/tools/GenomicConsensus/": change = 131368]
Fix for dumbview

[Tracking bug 23893]

[git-p4: depot-paths = "//depot/software/bioinformatics/tools/GenomicConsensus/": change = 131461]
Fix for P5-C3 slowness

[Tracking bug 23893]

[git-p4: depot-paths = "//depot/software/bioinformatics/tools/GenomicConsensus/": change = 131462]
Update QuiverFAQ with warning about unsupported chemistry mixes

[Tracking bug 23893]

[git-p4: depot-paths = "//depot/software/bioinformatics/tools/GenomicConsensus/": change = 131466]
Work on CHANGELOG for 2.2 release (Quiver 0.8.0)

[Tracking bug 23893]

[git-p4: depot-paths = "//depot/software/bioinformatics/tools/GenomicConsensus/": change = 131467]
Add -W (for file of windows) for scatter/gather support

[Tracking bug 23893]

[git-p4: depot-paths = "//depot/software/bioinformatics/tools/GenomicConsensus/": change = 131510]
Strip whitespace/newline

[Tracking bug 23893]

[git-p4: depot-paths = "//depot/software/bioinformatics/tools/GenomicConsensus/": change = 131520]
Warn on unsupported chemistry mixture

[Tracking bug 23893]

[git-p4: depot-paths = "//depot/software/bioinformatics/tools/GenomicConsensus/": change = 131524]
       Fix typo in InDelQVsModel.  Does not impact production code.

       [Tracking bug 23893]

[git-p4: depot-paths = "//depot/software/bioinformatics/tools/GenomicConsensus/": change = 131878]
Add verbiage to FAQ regarding iteration of (consensus . mapping)

[Tracking bug 23893]

[git-p4: depot-paths = "//depot/software/bioinformatics/tools/GenomicConsensus/": change = 131984]