def get_bed_file(gff_file, stype, key):
from jcvi.formats.gff import bed
opr = stype.replace(",", "") + ".bed"
bed_opts = ["--type=" + stype, "--key=" + key]
bed_file = ".".join((gff_file.split(".")[0], opr))
if need_update(gff_file, bed_file):
bed([gff_file, "--outfile={0}".format(bed_file)] + bed_opts)
return bed_file
def get_bed_file(gff_file, stype, key):
from jcvi.formats.gff import bed
opr = stype.replace(",", "") + ".bed"
bed_opts = ["--type=" + stype, "--key=" + key]
bed_file = ".".join((gff_file.split(".")[0], opr))
if need_update(gff_file, bed_file):
bed([gff_file, "--outfile={0}".format(bed_file)] + bed_opts)
return bed_file