{
    GENOME_FASTA_INPUT: "/share/data/umw_biocore/genome_data/zebrafish/GRCz11plus_ensembl/GRCz11plus_ensembl.fa",
    GENE_ANNOTATION_INPUT: "/share/data/umw_biocore/genome_data/cellrangeratac/zebrafish/GRCz11_v4.2.1/LL_V4.2.1.transcript.gtf",
    MOTIF_INPUT: "/share/data/umw_biocore/genome_data/cellrangeratac/zebrafish/GRCz11_v4.2.1/JASPAR2020_CORE_vertebrates_non-redundant_pfms_jaspar.txt",
    ORGANISM: "Danio rerio",
    NON_NUCLEAR_CONTIGS: ["chrM"],
PRIMARY_CONTIGS: 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}