{
	"vcffilter": {
		"path": "/usr/bin/vcffilter",
		"flags": ""
	},
	"vt": {
		"path": "/usr/bin/vt",
		"flags": "-q"
	},
	"bgzip": {
		"path": "/usr/local/bin/bgzip",
		"flags": ""
	},
	"tabix": {
		"path": "/usr/local/bin/tabix",
		"flags": "-f -p vcf"
	},
	"rsync": {
		"flags": "-a -v --remove-source-files"
	}
}
{
	"reference_location": "/reference/genome.fa",
	"vcffilter": {
		"path": "/usr/bin/vcffilter",
		"flags": ""
	},
	"vt": {
		"path": "/usr/bin/vt",
		"flags": "-q"
	},
	"bgzip": {
		"path": "/usr/local/bin/bgzip",
		"flags": ""
	},
	"tabix": {
		"path": "/usr/local/bin/tabix",
		"flags": "-f -p vcf"
	},
	"rsync": {
		"flags": "-a -v --remove-source-files"
	}
}
Add reference location to the workflow configuration.
Add reference location to the workflow configuration.
