comparison intersect_and_adjacent.py @ 3:10000414e916 draft

planemo upload commit 28919dd79f328dd09dae92661dc19ffa5757a765

2:0dbc7fbad0ab

        type=int,
        default=50,
        help="Allows features this far away to still be considered 'adjacent'",
    )
    parser.add_argument(
        "-stranding",
        action="store_true",
        help="Only allow adjacency for same-strand features",
    )
    parser.add_argument("--oa", type=str, default="a_hits_near_b.gff")
    parser.add_argument("--ob", type=str, default="b_hits_near_a.gff")
    args = parser.parse_args()

    b, a = intersect(args.a, args.b, args.window, args.stranding)

    with open(args.oa, "w") as handle:
        for rec in a:
            gffWrite([rec], handle)

3:10000414e916

        type=int,
        default=50,
        help="Allows features this far away to still be considered 'adjacent'",
    )
    parser.add_argument(
        "stranding",
        nargs="?",
        default="",
        help="Only allow adjacency for same-strand features if set to '-stranding'",
    )
    parser.add_argument("--oa", type=str, default="a_hits_near_b.gff")
    parser.add_argument("--ob", type=str, default="b_hits_near_a.gff")
    args = parser.parse_args()

    stranding = args.stranding == "-stranding"
    b, a = intersect(args.a, args.b, args.window, args.stranding)

    with open(args.oa, "w") as handle:
        for rec in a:
            gffWrite([rec], handle)