def run(self): """Run""" iceq = IceQuiver(root_dir=self.root_dir, bas_fofn=self.bas_fofn, fasta_fofn=self.fasta_fofn, sge_opts=self.sge_opts) iceq.validate_inputs() iceq.run() icepq = IceQuiverPostprocess(root_dir=self.root_dir, use_sge=self.sge_opts.use_sge, quit_if_not_done=False, ipq_opts=self.ipq_opts) icepq.run()
def run(self): """Run""" iceq = IceQuiver(root_dir=self.root_dir, bas_fofn=self.bas_fofn, fasta_fofn=self.fasta_fofn, sge_opts=self.sge_opts) iceq.validate_inputs() iceq.run() icepq = IceQuiverPostprocess(root_dir=self.root_dir, use_sge=self.sge_opts.use_sge, quit_if_not_done=False, ipq_opts=self.ipq_opts) icepq.run()
def run(self): """Run""" cmd_str = self.cmd_str() iceq = IceQuiver(root_dir=self.root_dir, bas_fofn=self.bas_fofn, fasta_fofn=self.fasta_fofn, sge_opts=self.sge_opts, prog_name="ice_quiver_{i}of{N}". format(i=self.i, N=self.N)) iceq.add_log(cmd_str) iceq.add_log("root_dir: {d}.".format(d=self.root_dir)) iceq.add_log("Index of chunks: i = {i}.".format(i=self.i)) iceq.add_log("Total number of chunks: N = {N}.".format(N=self.N)) iceq.validate_inputs() iceq.process_chunk_i(i=self.i, num_chunks=self.N) iceq.close_log()