Updates to HaplotypeCaller step

[Nicklas Nordborg]

#1001 introduced the HaplotypeCaller step for genotyping. We should make some improvements to it:

• A longer list with SNP:s to check (~200+) should give us better sensitivity for contamination (HET > 65%).
• Instead of storing the HET count we should store the HET%
• The auto-confirmation step should flag the RNA and stop the auto-confirmation if the HET% is high. This will allow an admin to use the "Flagged RNA" wizard to re-schedule a new library prep from the RNA for a second try.

[Nicklas Nordborg]

(In [4658]) References #1018: Updates to HaplotypeCaller step

Changed the QC_GenoTypeHET to QC_GenoTypeHET_PCT and updated all places that used the old value.

The manual and auto-confirmation wizards have been updated to flag the RNA if the HET percentage is over 65%.