Fix jenkins build

[Tracking bug 21562]

[git-p4: depot-paths = "//depot/software/bioinformatics/tools/GenomicConsensus/": change = 117762]
Add parameter set XL_C2_Beta

[Bug 21918]

[git-p4: depot-paths = "//depot/software/bioinformatics/tools/GenomicConsensus/": change = 117948]
Import dinucleotide-wobbling code from github branch (not enabled yet)

From the code comment:

    We have observed a couple instances where we call the consensus to
    be off the truth by +/- 1 dinucleotide repeat---we are getting
    trapped in an inferor local optimum, like so:

                           likelihood
    truth       ATATATAT      100
    quiver      AT--ATAT       90
    quiver+A    ATA-ATAT       85
    quiver+T    AT-TATAT       85

    To resolve this issue, we need to explore the likelihood change
    for wobbling on every dinucleotide repeat in the window.

    This code is not to be emulated!  It is a stopgap until we can
    bake efficient multi-base mutation testing into ConsensusCore.

[Tracking bug 21562]

[git-p4: depot-paths = "//depot/software/bioinformatics/tools/GenomicConsensus/": change = 117949]
Enable dinucleotide repeat refinement and update E. Coli test accordingly

This reduces the number of discordances in E. Coli from 30 to 20.

[Tracking bug 21562]

[git-p4: depot-paths = "//depot/software/bioinformatics/tools/GenomicConsensus/": change = 118050]
Add a note about -fPIC

[Tracking bug 21562]

[git-p4: depot-paths = "//depot/software/bioinformatics/tools/GenomicConsensus/": change = 118106]