@include "rna/_cr_lib_stages.mro"

call BARCODE_CORRECTION(
    gem_well               = 1,
    invalid_uncorrected    = ["/gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/_MATRIX_COMPUTER/MAKE_SHARD/fork0/chnk0-ufe8a67f515/files/invalid.shard"],
    barcode_whitelist      = "visium-v1",
    barcode_counts         = "/gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/_MATRIX_COMPUTER/MAKE_SHARD/fork0/join-ufe8a67f50a/files/barcode_counts.bcc.bincode",
    valid_read_metrics     = "/gpfs/data/yanailab/public/linda_share/maayan_STalign/ST358_A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/_MATRIX_COMPUTER/MAKE_SHARD/fork0/join-ufe8a67f50a/files/bc_correct_summary.bcm.bincode",
    libraries_to_translate = [],
)
