Fix SEGV in vcf_to_bed: Ignore half-missing call in .vcf file.

This reverts commit b451aa29fddf63b80a8ad42fa6eb59df826a7621.
Merge pull request #6 from mkanai/half_missing_call_in_vcf

Fix SEGV in vcf_to_bed: Ignore half-missing call in .vcf file.
half-missing should actually be treated as homozygous for now (e.g. MT); also handle MT with maximum ploidy > 2 correctly
--r/--r2 multipass bugfix
window_back() bugfix, --r2 now working properly on holger's test dataset
build of the day
correct error message
no need for plink_maxsnp
spell NOLAPACK correctly
--linear/--logistic permutation test bugfix (uninitialized success count array)
--dosage linear regression
dev rebuild
--vcf-half-call
bleah, what was I smoking when writing window_back() and window_forward()
--dosage finished
--qfam stub, build of the day
HIGH_MAX_CHROM directive
oops