Build dictionary from bed file

[ns-rse]

Currently we have...

    utron_coords = defaultdict(list)
    z = 0

    with iotools.open_file(argv_as_dictionary["utron_bed"]) as bedfile:
        # with iotools.open_file(bed_path) as bedfile:
        for line in bedfile:
            if z < 5:
                print(line)
                z += 1
            contents = line.strip().split("\t")
            chromosome, start, end, transcript_id, bedstrand = (
                contents[0],
                int(contents[1]),
                int(contents[2]),
                contents[3].strip("_intron"),
                contents[5],
            )
            bed_tuple = (chromosome, start, end, transcript_id, bedstrand)
            utron_coords[transcript_id].append(bed_tuple)
            # utron_coords.append(bed_tuple)