Add test cases for truncated call vcf
There are two ways in which a variant can be no call. The variant can be present in the vcf file with a ./. genotype, or the variant can be missing from the vcf file altogether. This commit adds a test case to verify that no call sites are counted properly when they are missing from the called vcf file. Sites that are missing from the positive vcf file do not count towards alleles_no_call, since we do not care about variants which are not present in the positive vcf file.
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