analysis_pipeline/cluster_cfg.json at master · SAONLIB/analysis_pipeline · GitHub

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{
    "name": "UW_Cluster_config",
    "version": "3",
    "debug": 0,
    "configuration": {
        "memory_limits": {
    	    "aggregate_list":2000,
    	    "assoc_aggregate":16000,
    	    "assoc_combine":6000,
    	    "assoc_plots":24000,
    	    "assoc_report":2000,
    	    "assoc_single":8000,
    	    "assoc_window":20000,
    	    "cleanup":1000,
    	    "combine_variants":8000,
    	    "find_unrelated":8000,
    	    "grm":15000,
    	    "grm_combine":4000,
    	    "ibd_king":8000,
    	    "kinship_plots":8000,
    	    "ld_pruning":12000,
    	    "null_model":32000,
    	    "pca_byrel":8000,
    	    "pca_corr":8000,
    	    "pca_corr_plots":32000,
    	    "pca_plots":2000,
    	    "pcrelate":8000,
            "vcf2gds":8000
        },
        "submit_cmd": "qsub",
        "submit_opts": {
            "-cwd":"",
            "-N":"",
            "-j":"y",
            "-q":"topmed.q",
            "-S":"/bin/sh",
            "-terse":"",
            "-v":"R_LIBS=/projects/topmed/working_code/analysis_pipeline/R_library,PATH=/projects/resources/software/apps/bin:$PATH,MKL_NUM_THREADS=1"
        },
        "parallel_env": "local"
    }
}