cli Module

CLI of AnchoRNA

anchorna.cli._cmd_combine(fname_anchor, out, convert_nt=False)

anchorna.cli._cmd_create(conf, tutorial=False, tutorial_subset=False, no_cds=False)

anchorna.cli._cmd_cutout(fname, fname_anchor, pos1, pos2, out, fmt, mode='nt', score_use_fluke=None, gap=None)

anchorna.cli._cmd_export(fname_anchor, out, mode=None, score_use_fluke=None, fmt='gff', fname=None)

anchorna.cli._cmd_go(fname, fname_anchor, continue_with=None, removed_anchors_path=None, logconf=None, logfile=None, no_logging=False, **kw)

anchorna.cli._cmd_load(fname_anchor)

anchorna.cli._cmd_print(fname_anchor, verbose=False, mode='aa')

anchorna.cli._cmd_view(fname_anchor, fname, mode='aa', align=None, score_use_fluke=None)

anchorna.cli._configure_logging(loggingc, logfile=None)

anchorna.cli._start_ipy(obj)

anchorna.cli._tutorial_seqs(subset=False)

anchorna.cli.run(command, conf=None, pdb=False, **args)

Dispatch command and call the corresponding function

anchorna.cli.run_cmdline(cmd_args=None)

Main entry point from the command line

Parse arguments and call run().