INNER CODE UNIT · Python

run

MariaNattestad/assemblytics · assemblytics/index.py:9

def run(args):

    coords = args.coords
    output_dir = args.out
    if output_dir:
        os.makedirs(output_dir, exist_ok=True)

    f = open(coords)
    f.readline() # ignore header

    fields_by_query = {}
    existing_query_names = set()
    existing_reference_names = set()
    reference_lengths = []
    query_lengths = {}
    for line in f:
        fields = line.strip().split(",")
        query_name = fields[7]

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