def build_parser(parser):
subcommands.add_infile(parser)
subcommands.add_outfile(parser)
subcommands.add_outdir(parser)
subcommands.add_no_calculate_ion_ratio_avg(parser)
subcommands.add_split_desc(parser)
parser.add_argument(
'-a',
'--show-all',
action='store_true',
default=False,
help='Show all results for each compound (ie, not just QA failures)')
parser.add_argument(
'-O',
'--outcomes-only',
action='store_true',
default=False,
help="""Show outcome for each QA calculation instead of a more
detailed message containing values.""")
parser.add_argument('-c',
'--compound-id',
metavar='NUMBER',
type=int,
default=None,
help='Show results for this compound id only.')
def build_parser(parser):
subcommands.add_infile(parser)
subcommands.add_outfile(parser)
subcommands.add_outdir(parser)
parser.add_argument('-s',
'--sanitize',
action='store_true',
default=False,
help='Remove PHI from patient samples.')
def build_parser(parser):
subcommands.add_infile(parser)
subcommands.add_outfile(parser)
subcommands.add_outdir(parser)
subcommands.add_no_calculate_ion_ratio_avg(parser)
subcommands.add_split_desc(parser)
parser.add_argument('--no-groups', action = 'store_false', default = True,
dest = 'grouped',
help = 'Do not group columns by worksheet.')
def build_parser(parser):
subcommands.add_infile(parser)
subcommands.add_outfile(parser)
subcommands.add_outdir(parser)
subcommands.add_no_calculate_ion_ratio_avg(parser)
subcommands.add_split_desc(parser)
parser.add_argument(
"-a",
"--show-all",
action="store_true",
default=False,
help="Show all results for each compound (ie, not just QA failures)",
)
parser.add_argument(
"-O",
"--outcomes-only",
action="store_true",
default=False,
help="""Show outcome for each QA calculation instead of a more
detailed message containing values.""",
)
parser.add_argument(
"-c", "--compound-id", metavar="NUMBER", type=int, default=None, help="Show results for this compound id only."
)
def build_parser(parser):
subcommands.add_infile(parser)
subcommands.add_outfile(parser)
subcommands.add_outdir(parser)
def build_parser(parser):
subcommands.add_infile(parser)
subcommands.add_outfile(parser)
subcommands.add_outdir(parser)
