@include "rna/_cr_lib_stages.mro"

call ALIGN_AND_COUNT(
    gem_well                    = 1,
    read_chunks                 = [
        {
            "chemistry": {
                "barcode": [
                    {
                        "kind": "gel_bead",
                        "length": 16,
                        "offset": 0,
                        "read_type": "R1",
                        "whitelist": "737K-august-2016",
                    },
                ],
                "description": "Single Cell 5' R2-only",
                "endedness": "five_prime",
                "name": "SC5P-R2",
                "rna": {
                    "length": null,
                    "min_length": null,
                    "offset": 0,
                    "read_type": "R2",
                },
                "rna2": null,
                "strandedness": "-",
                "umi": {
                    "length": 10,
                    "min_length": null,
                    "offset": 16,
                    "read_type": "R1",
                },
            },
            "chunk_id": 0,
            "fastq_id": null,
            "fastqs": {
                "i1": null,
                "i2": null,
                "r1": "/scratch/etanis/ST-118/FASTQ/dimitri_RNA_S1_L001_R1_001.fastq.gz",
                "r1_interleaved": false,
                "r2": "/scratch/etanis/ST-118/FASTQ/dimitri_RNA_S1_L001_R2_001.fastq.gz",
            },
            "gem_group": 1,
            "library_id": 0,
            "library_type": "Gene Expression",
            "read_group": "dimitri:0:1:HKLTCBGXL:1",
            "read_lengths": {},
            "subsample_rate": null,
        },
        {
            "chemistry": {
                "barcode": [
                    {
                        "kind": "gel_bead",
                        "length": 16,
                        "offset": 0,
                        "read_type": "R1",
                        "whitelist": "737K-august-2016",
                    },
                ],
                "description": "Single Cell 5' R2-only",
                "endedness": "five_prime",
                "name": "SC5P-R2",
                "rna": {
                    "length": null,
                    "min_length": null,
                    "offset": 0,
                    "read_type": "R2",
                },
                "rna2": null,
                "strandedness": "-",
                "umi": {
                    "length": 10,
                    "min_length": null,
                    "offset": 16,
                    "read_type": "R1",
                },
            },
            "chunk_id": 1,
            "fastq_id": null,
            "fastqs": {
                "i1": null,
                "i2": null,
                "r1": "/scratch/etanis/ST-118/FASTQ/dimitri_BCR_S1_L001_R1_001.fastq.gz",
                "r1_interleaved": false,
                "r2": "/scratch/etanis/ST-118/FASTQ/dimitri_BCR_S1_L001_R2_001.fastq.gz",
            },
            "gem_group": 1,
            "library_id": 0,
            "library_type": "Gene Expression",
            "read_group": "dimitri:0:1:HKLTCBGXL:1",
            "read_lengths": {},
            "subsample_rate": null,
        },
        {
            "chemistry": {
                "barcode": [
                    {
                        "kind": "gel_bead",
                        "length": 16,
                        "offset": 0,
                        "read_type": "R1",
                        "whitelist": "737K-august-2016",
                    },
                ],
                "description": "Single Cell 5' R2-only",
                "endedness": "five_prime",
                "name": "SC5P-R2",
                "rna": {
                    "length": null,
                    "min_length": null,
                    "offset": 0,
                    "read_type": "R2",
                },
                "rna2": null,
                "strandedness": "-",
                "umi": {
                    "length": 10,
                    "min_length": null,
                    "offset": 16,
                    "read_type": "R1",
                },
            },
            "chunk_id": 2,
            "fastq_id": null,
            "fastqs": {
                "i1": null,
                "i2": null,
                "r1": "/scratch/etanis/ST-118/FASTQ/dimitri_TCR_S1_L001_R1_001.fastq.gz",
                "r1_interleaved": false,
                "r2": "/scratch/etanis/ST-118/FASTQ/dimitri_TCR_S1_L001_R2_001.fastq.gz",
            },
            "gem_group": 1,
            "library_id": 0,
            "library_type": "Gene Expression",
            "read_group": "dimitri:0:1:HKLTCBGXL:1",
            "read_lengths": {},
            "subsample_rate": null,
        },
    ],
    reference_path              = "/scratch/etanis/refs/10x_ref/refdata-gex-GRCh38-2020-A",
    read_shards                 = {
        corrected_reads: [
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk00-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk01-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk02-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk03-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk04-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk05-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk06-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk07-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk08-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk09-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk10-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk11-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk12-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk13-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk14-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk15-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk16-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk17-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk18-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk19-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk20-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk21-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk22-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk23-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk24-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk25-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk26-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk27-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk28-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk29-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk30-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk31-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk32-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk33-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk34-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk35-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk36-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk37-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk38-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk39-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk40-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk41-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk42-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk43-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk44-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk45-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk46-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk47-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk48-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk49-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk50-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk51-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk52-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk53-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk54-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk55-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk56-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk57-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk58-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk59-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk60-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk61-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk62-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk63-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk64-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk65-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk66-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk67-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk68-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk69-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk70-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk71-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk72-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk73-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk74-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk75-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk76-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk77-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk78-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk79-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk80-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk81-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk82-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk83-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk84-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk85-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk86-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk87-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk88-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk89-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk90-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk91-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk92-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk93-u4c9f5eb30b/files/valid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk94-u4c9f5eb30b/files/valid_shard.shard",
        ],
        invalid_reads: [
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk00-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk01-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk02-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk03-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk04-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk05-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk06-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk07-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk08-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk09-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk10-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk11-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk12-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk13-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk14-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk15-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk16-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk17-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk18-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk19-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk20-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk21-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk22-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk23-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk24-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk25-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk26-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk27-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk28-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk29-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk30-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk31-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk32-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk33-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk34-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk35-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk36-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk37-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk38-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk39-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk40-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk41-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk42-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk43-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk44-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk45-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk46-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk47-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk48-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk49-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk50-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk51-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk52-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk53-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk54-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk55-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk56-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk57-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk58-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk59-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk60-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk61-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk62-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk63-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk64-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk65-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk66-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk67-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk68-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk69-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk70-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk71-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk72-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk73-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk74-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk75-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk76-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk77-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk78-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk79-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk80-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk81-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk82-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk83-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk84-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk85-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk86-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk87-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk88-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk89-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk90-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk91-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk92-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk93-u4c9f5eb30b/files/invalid_shard.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/chnk94-u4c9f5eb30b/files/invalid_shard.shard",
        ],
        valid_reads: [
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/MAKE_SHARD/fork0/chnk0-u4c9f5ead7c/files/valid.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/MAKE_SHARD/fork0/chnk1-u4c9f5ead7c/files/valid.shard",
            "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/MAKE_SHARD/fork0/chnk2-u4c9f5ead7c/files/valid.shard",
        ],
    },
    feature_counts              = "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/MAKE_SHARD/fork0/join-u4c9f5ead77/files/feature_counts.fbc.bincode",
    feature_reference           = "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/MAKE_SHARD/fork0/split-u4c9f5ead77/files/feature_reference.frf.bincode",
    target_set                  = null,
    chemistry_def               = {
        barcode: [
            {
                kind:      "gel_bead",
                length:    16,
                offset:    0,
                read_type: "R1",
                whitelist: "737K-august-2016",
            },
        ],
        description:  "Single Cell 5' R2-only",
        endedness:    "five_prime",
        name:         "SC5P-R2",
        rna: {
            length:     null,
            min_length: null,
            offset:     0,
            read_type:  "R2",
        },
        rna2:         null,
        strandedness: "-",
        umi: {
            length:     10,
            min_length: null,
            offset:     16,
            read_type:  "R1",
        },
    },
    aligner                     = null,
    aligner_subsample_rate      = null,
    include_introns             = false,
    is_pd                       = false,
    targeted_umi_min_read_count = null,
    transcriptome_min_score     = 30,
    trim_polya_min_score        = 20,
    trim_tso_min_score          = 20,
    total_barcode_counts        = "/scratch/etanis/software/cellranger-6.1.2/dimitri/SC_RNA_COUNTER_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/COUNT_GEM_WELL_PROCESSOR/_BASIC_SC_RNA_COUNTER/_MATRIX_COMPUTER/BARCODE_CORRECTION/fork0/join-u4c9f5eb30b/files/total_barcode_counts.tbcc.bincode",
    barcode_subset              = null,
)
