@include "_basic_sc_rna_counter_stages.mro"

call MARK_DUPLICATES(
    input = "/ufrc/ewang/lancetdenes/libLTD/h2b_run2/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/join-u85e8943dc4/files/default.bam",
    reference_path = "/ufrc/ewang/lancetdenes/refdata-cellranger-mm10-3.0.0",
    filter_umis = true,
    library_info = [
        {
            "gem_group": 1,
            "library_id": "0",
            "library_type": "Gene Expression"
        }
    ],
)