def bin_contigs_concoct(self):
if not __CONCOCT_IS_AVAILABLE__:
self.run.warning(
'The CONCOCT module is not available. Skipping the unsupervised binning\
with CONCOCT.')
return
class Args:
pass
args = Args()
args.profile_db = self.profile_db_path
args.contigs_db = self.contigs_db_path
args.debug = self.debug
c = concoct.CONCOCT(args)
c.cluster()
c.store_clusters_in_db()
def bin_contigs_concoct(self):
self.run.info_single("Automatic binning with CONCOCT...", nl_before=1, nl_after=1, mc="blue")
if not __CONCOCT_IS_AVAILABLE__:
self.run.warning('The CONCOCT module is not available. Skipping the unsupervised binning\
with CONCOCT.')
return
class Args:
pass
args = Args()
args.profile_db = self.merged_profile_db_path
args.contigs_db = self.contigs_db_path
args.debug = self.debug
c = concoct.CONCOCT(args)
c.cluster()
c.store_clusters_in_db()