MANTA-125 modify pair weight for small SVs
update cl
update cl
fix repeat call selection in sort script
add new vcf util script
decorate inversions
MANTA-125 tier2 chimera rate to reduce somatic FP
MANTA-125 tweak final vcf filter
MANTA-125 add tier2 split read bp relaxation
MANTA-125 add large insertion detector

This is still experimental, so disabled by default.
MANTA-125 update cl and formatting
MANTA-125 adjust tier2 mappng strategy
MANTA-125 adjust tier2 split read strategy
abs(unsigned int) fix
�MANTA-78 resync with master