Traceback (most recent call last):


 "/home/hodl/local/share/bcbio/anaconda/lib/python2.7/site-packages/bcbio/provenance/do.py", line 21, in run

_do_run(cmd, checks, log_stdout)


 "/home/hodl/local/share/bcbio/anaconda/lib/python2.7/site-packages/bcbio/provenance/do.py", line 95, in _do_run

raise subprocess.CalledProcessError(exitcode, error_msg)
CalledProcessError: Command '/home/hodl/local/share/bcbio/anaconda/bin/cnvkit.py antitarget -g /media/storage3/hodl/Projects/2016_breast_cancer/cnvkit/batch1_cnvkit/work/structural/BC031-13112014_T/cnvkit/77_gene_panel_GrCh37-merged.bed /media/storage3/hodl/Projects/2016_breast_cancer/cnvkit/batch1_cnvkit/work/structural/BC031-13112014_T/cnvkit/raw/77_gene_panel_GrCh37-merged-annotated.target.bed -o /media/storage3/hodl/Projects/2016_breast_cancer/cnvkit/batch1_cnvkit/work/structural/BC031-13112014_T/cnvkit/raw/tx/tmp2RwXaT/77_gene_panel_GrCh37-merged-annotated.antitarget.bed

Traceback (most recent call last):


 "/usr/local/python/bin/certbot", line 11, in <module>

sys.exit(main())


 "/usr/local/python/lib/python3.5/site-packages/certbot/main.py", line 729, in main

args = cli.prepare_and_parse_args(plugins, cli_args)


 "/usr/local/python/lib/python3.5/site-packages/certbot/cli.py", line 1089, in prepare_and_parse_args

helpful.add_deprecated_argument("--agree-dev-preview", 0)


 "/usr/local/python/lib/python3.5/site-packages/certbot/cli.py", line 741, in add_deprecated_argument

self.parser.add_argument, argument_name, num_args)


 "/usr/local/python/lib/python3.5/site-packages/certbot/util.py", line 479, in add_deprecated_argument

configargparse.ACTION_TYPES_THAT_DONT_NEED_A_VALUE.add(ShowWarning)
AttributeError: 'tuple' object has no attribute 'add'
