@include "rna/_cr_aggr_stages.mro"

call WRITE_CONTIG_PROTO(
    vdj_reference_path      = "/scratch/etanis/ST-118/references/refdata-cellranger-vdj-GRCh38-alts-ensembl-5.0.0",
    contig_annotations_json = "/scratch/etanis/ST-118/multi/dimitri-multi/SC_MULTI_CS/SC_MULTI_CORE/VDJ_T_CLONOTYPE_ASSIGNER/HANDLE_NO_VDJ_REF/fork0/chnk0-ucc6a7a7cd7/files/all_contig_annotations.json",
    metrics_summary_json    = "/scratch/etanis/ST-118/multi/dimitri-multi/SC_MULTI_CS/SC_MULTI_CORE/MULTI_REPORTER/VDJ_T_REPORTER/SUMMARIZE_VDJ_REPORTS/fork0/join-ucc6a7a7ce0/files/metrics_summary_json.json",
    receptor                = "TR",
    gem_wells               = [1],
    cell_barcodes           = "/scratch/etanis/ST-118/multi/dimitri-multi/SC_MULTI_CS/SC_MULTI_CORE/MULTI_REPORTER/VDJ_T_REPORTER/WRITE_CONTIG_OUTS/fork0/chnk0-ucc6a7a7cd7/files/cell_barcodes.json",
    sample_id               = "dimitri-multi",
    sample_desc             = "",
    multi_config_sha        = "441f739f093e36c43f57328492fe5aa9703c212f8c5a330ff0ef60c31a5f08c4",
)
