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Instantiate alt_count when there is no FORMAT column #135

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Instantiate alt_count when there is no FORMAT column #135

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1 change: 1 addition & 0 deletions neat/read_simulator/utils/vcf_func.py
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Expand Up @@ -232,6 +232,7 @@ def parse_input_vcf(input_dict: dict[str: ContigVariants],
else:
# If there was no format column, there's no sample column, so we'll generate one
format_column = "GT"
alt_count = len(record[4].split(';'))
genotype = pick_ploids(ploidy, homozygous_frequency, alt_count, options.rng)
normal_sample_field = get_genotype_string(genotype)

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