def get_refs(genome_build, aligner, config):
"""Retrieve reference genome data from a standard bcbio directory structure.
"""
find_fn = _find_file(config[CONFIG_KEY], startswith=True)
ref_prefix = sret.find_ref_prefix(genome_build, find_fn)
return sret.standard_genome_refs(genome_build, aligner, ref_prefix,
_list(config[CONFIG_KEY]))
def get_refs(genome_build, aligner, config):
"""Retrieve reference genome data from a standard bcbio directory structure.
"""
ref_prefix = sret.find_ref_prefix(
genome_build, functools.partial(_find_file, config[KEY]))
return sret.standard_genome_refs(genome_build, aligner, ref_prefix,
objectstore.list)
def get_refs(genome_build, aligner, config):
"""Retrieve reference genome data from a standard bcbio directory structure.
"""
find_fn = _find_file(config[CONFIG_KEY], startswith=True)
ref_prefix = sret.find_ref_prefix(genome_build, find_fn)
return sret.standard_genome_refs(genome_build, aligner, ref_prefix, _list(config[CONFIG_KEY]))
def get_refs(genome_build, aligner, config):
"""Retrieve reference genome data from a standard bcbio directory structure.
"""
find_fn = _find_file(config[KEY], prefix=config[KEY]["ref"])
ref_prefix = sret.find_ref_prefix(genome_build, find_fn)
return sret.standard_genome_refs(genome_build, aligner, ref_prefix, objectstore.list)
def get_refs(genome_build, aligner, config):
ref_prefix = sret.find_ref_prefix(
genome_build, functools.partial(_find_ref_file, config[KEY]))
return sret.standard_genome_refs(genome_build, aligner, ref_prefix, _list)