convert
fun convertVariantInfoToContext(sampleName: String, variantInfo: AssemblyVariantInfo, outJustGT: Boolean, delAsSymbolic: Boolean, maxDeletionSize: Int): VariantContext
Function to turn the AssemblyVariantInfo into an actual VariantContext. If the Assembly annotations are not in the VariantInfo, we do not add them into the VariantContext.