vg_wdl/params/vg_map_call_sv_test.json at master · vgteam/vg_wdl · GitHub

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{
    "vgMapCallSV.INPUT_READ_FILE_1": "tests/small_sim_graph/reads_1.fastq.gz",
    "vgMapCallSV.INPUT_READ_FILE_2": "tests/small_sim_graph/reads_2.fastq.gz",
    "vgMapCallSV.SAMPLE_NAME": "test_sample_SV",
    "vgMapCallSV.XG_FILE": "tests/small_sim_graph/graph.xg",
    "vgMapCallSV.GCSA_FILE": "tests/small_sim_graph/graph.gcsa",
    "vgMapCallSV.GCSA_LCP_FILE": "tests/small_sim_graph/graph.gcsa.lcp",
    "vgMapCallSV.SNARL_FILE": "tests/small_sim_graph/graph.snarls",
    "vgMapCallSV.GBWT_FILE": "tests/small_sim_graph/graph.gbwt",
    "vgMapCallSV.VG_DOCKER": "quay.io/vgteam/vg:v1.64.0",
    "vgMapCallSV.READS_PER_CHUNK": 10000000,
    "vgMapCallSV.SPLIT_READ_CORES": 32,
    "vgMapCallSV.SPLIT_READ_DISK": 200,
    "vgMapCallSV.MAP_CORES": 32,
    "vgMapCallSV.MAP_DISK": 100,
    "vgMapCallSV.MAP_MEM": 100,
    "vgMapCallSV.MERGE_GAM_CORES": 64,
    "vgMapCallSV.MERGE_GAM_DISK": 400,
    "vgMapCallSV.MERGE_GAM_MEM": 100,
    "vgMapCallSV.MERGE_GAM_TIME": 2400,
    "vgMapCallSV.VGCALL_CORES": 10,
    "vgMapCallSV.VGCALL_DISK": 200,
    "vgMapCallSV.VGCALL_MEM": 100,
    "vgMapCallSV.GOOGLE_CLEANUP_MODE": true,
    "vgMapCallSV.CLEANUP_MODE": false
}