def align(self, options):
"""Create MSA from marker genes."""
check_dir_exists(options.identify_dir)
make_sure_path_exists(options.out_dir)
if not hasattr(options, 'outgroup_taxon'):
options.outgroup_taxon = None
markers = Markers(options.cpus)
markers.align(options.identify_dir, options.taxa_filter,
options.min_perc_aa, options.custom_msa_filters,
options.consensus, options.min_perc_taxa,
options.out_dir, options.prefix, options.outgroup_taxon)
self.logger.info('Done.')
