def create_knope_parser():
"""
Create the argument parser for ``cwinpy_knope``.
"""
description = """\
A script to run the CWInPy known pulsar analysis pipeline; gravitational-wave \
data will be preprocessed based on the phase evolution of a pulsar which will \
then be used to infer the unknown signal parameters.
"""
parser = ArgumentParser(description=description, allow_abbrev=False)
parser.add(
"--heterodyne-config",
action="append",
help=(
"A configuration file for the heterodyne pre-processing using "
"cwinpy_heterodyne. If requiring multiple detectors then this "
"option can be used multiple times to pass configuration files "
"for each detector."
),
required=True,
)
parser.add(
"--pe-config",
type=str,
help=(
"A configuration file for the Bayesian inference stage using " "cwinpy_pe."
),
required=True,
)
parser.add(
"--version",
action="version",
version="%(prog)s {version}".format(version=cwinpy.__version__),
)
return parser
def parseArgs():
'''
Process command line args using argparse or if not available the optparse
in a backwards compatible way
Returns tuple of (args, remnants) where args is object with attributes
corresponding to named arguments and remnants is list of remaining
unnamed positional arguments
'''
try: # make backwards compatible with deprecated optparse
from argparse import ArgumentParser as Parser
Parser.add = Parser.add_argument
Parser.add_group = Parser.add_argument_group
Parser.parse = Parser.parse_known_args
except ImportError as ex:
from optparse import OptionParser as Parser
Parser.add = Parser.add_option
Parser.add_group = Parser.add_option_group
Parser.parse = Parser.parse_args
d = "Runs localhost web application wsgi service on given host address and port. "
d += "\nDefault host:port is 0.0.0.0:8080."
d += "\n(0.0.0.0 is any interface on localhost)"
p = Parser(description = d)
p.add('-l','--level',
action='store',
default='info',
choices=aiding.LOGGING_LEVELS.keys(),
help="Logging level.")
p.add('-s','--server',
action = 'store',
default='paste',
help = "Web application WSGI server type.")
p.add('-a','--host',
action = 'store',
default='0.0.0.0',
help = "Web application WSGI server ip host address.")
p.add('-p','--port',
action = 'store',
default='8080',
help = "Web application WSGI server ip port.")
p.add('-b','--base',
action = 'store',
default = '',
help = "Base Url path prefix for client side web application.")
p.add('-x','--cors',
action = 'store_true',
default = False,
help = "Enable CORS Cross Origin Resource Sharing on server.")
p.add('-t','--tls',
action = 'store_true',
default = False,
help = "Use TLS/SSL (https).")
p.add('-c','--cert',
action = 'store',
default = '/etc/pki/tls/certs/localhost.crt',
help = "File path to tls/ssl cacert certificate file.")
p.add('-k','--key',
action = 'store',
default = '/etc/pki/tls/certs/localhost.key',
help = "File path to tls/ssl private key file.")
p.add('-e','--pem',
action = 'store',
default = '/etc/pki/tls/certs/localhost.pem',
help = "File path to tls/ssl pem file with both cert and key.")
p.add('-g','--gen',
action = 'store_true',
default = False,
help = ("Generate web app load file. Default is 'app/main.html'"
" or if provided the file specified by -f option."))
p.add('-f','--load',
action = 'store',
default = 'app/main.html',
help = "Filepath to save generated web app load file upon -g option.")
p.add('-C','--coffee',
action = 'store_true',
default = False,
help = "Upon -g option generate to load coffeescript.")
p.add('-d','--devel',
action = 'store_true',
default = False,
help = "Development mode.")
return (p.parse())
def parse_args(): # add this ot the train of model in R&D
#parser = ArgParser(allow_config=True,
#config_file_parser_class=YAMLConfigFileParser)
parser = ArgumentParser()
parser.add("--csv-file",
type=str,
required=True,
default=r"data\gt.csv",
help="Path to csv file that contains "
"Image location and the corresponding list keywords ")
parser.add(
"--model-name",
type=str,
required=True,
default=r"data\gt.csv",
help=
"name of model to save. Specify different names for different models when training to save "
"multiple models. At each run, current model name is loaded ")
parser.add("--epochs",
type=int,
required=True,
default=5,
help="Number of times to run cycle through training data ")
parser.add(
"--log-interval",
type=int,
required=True,
default=10,
help=
"Period to display training progress, corresponding to the number of samples seen "
)
parser.add("--source-folder",
type=str,
default=r"data\nondata",
help="Path to directory that contains "
"a set of image files where or sub-directory of images ")
parser.add("--destination",
type=str,
default=r"data\output",
help="Path to a folder to save extracted .txt files.")
args = parser.parse_args()
return args
def parseArgs():
'''
Process command line args using argparse or if not available the optparse
in a backwards compatible way
Returns tuple of (args, remnants) where args is object with attributes
corresponding to named arguments and remnants is list of remaining
unnamed positional arguments
'''
try: # make backwards compatible with deprecated optparse
from argparse import ArgumentParser as Parser
Parser.add = Parser.add_argument
Parser.add_group = Parser.add_argument_group
Parser.parse = Parser.parse_known_args
except ImportError as ex:
from optparse import OptionParser as Parser
Parser.add = Parser.add_option
Parser.add_group = Parser.add_option_group
Parser.parse = Parser.parse_args
d = "Runs localhost web application wsgi service on given host address and port. "
d += "\nDefault host:port is 0.0.0.0:8080."
d += "\n(0.0.0.0 is any interface on localhost)"
p = Parser(description = d)
p.add('-l','--level',
action='store',
default='info',
choices=aiding.LOGGING_LEVELS.keys(),
help="Logging level.")
p.add('-s','--server',
action = 'store',
default='paste',
help = "Web application WSGI server type.")
p.add('-a','--host',
action = 'store',
default='0.0.0.0',
help = "Web application WSGI server ip host address.")
p.add('-p','--port',
action = 'store',
default='8080',
help = "Web application WSGI server ip port.")
p.add('-b','--base',
action = 'store',
default = '',
help = "Base Url path prefix for client side web application.")
p.add('-x','--cors',
action = 'store_true',
default = False,
help = "Enable CORS Cross Origin Resource Sharing on server.")
p.add('-t','--tls',
action = 'store_true',
default = False,
help = "Use TLS/SSL (https).")
p.add('-c','--cert',
action = 'store',
default = '/etc/pki/tls/certs/localhost.crt',
help = "File path to tls/ssl cacert certificate file.")
p.add('-k','--key',
action = 'store',
default = '/etc/pki/tls/certs/localhost.key',
help = "File path to tls/ssl private key file.")
p.add('-e','--pem',
action = 'store',
default = '/etc/pki/tls/certs/localhost.pem',
help = "File path to tls/ssl pem file with both cert and key.")
p.add('-g','--gen',
action = 'store_true',
default = False,
help = ("Generate web app load file. Default is 'app/main.html'"
" or if provided the file specified by -f option."))
p.add('-f','--load',
action = 'store',
default = 'app/main.html',
help = "Filepath to save generated web app load file upon -g option.")
p.add('-C','--coffee',
action = 'store_true',
default = False,
help = "Upon -g option generate to load coffeescript.")
p.add('-d','--devel',
action = 'store_true',
default = False,
help = "Development mode.")
return (p.parse())
def create_parser() -> ArgumentParser:
"""
Create a parser for the lookout.style.format utility.
:return: an ArgumentParser with an handler defined in the handler attribute.
"""
# Deferred imports to speed up loading __init__
from lookout.style.format.benchmarks.evaluate_smoke import evaluate_smoke_entry
from lookout.style.format.benchmarks.generate_smoke import generate_smoke_entry
from lookout.style.format.benchmarks.general_report import print_reports
from lookout.style.format.benchmarks.quality_report_noisy import quality_report_noisy
parser = ArgumentParser(
formatter_class=ArgumentDefaultsHelpFormatterNoNone)
# General options
parser.add("--log-level", default="DEBUG", help="Log verbosity level.")
subparsers = parser.add_subparsers(help="Commands")
def add_parser(name, help):
return subparsers.add_parser(
name,
help=help,
formatter_class=ArgumentDefaultsHelpFormatterNoNone)
# Evaluation
eval_parser = add_parser("eval",
"Evaluate trained model on given dataset.")
eval_parser.set_defaults(handler=print_reports)
add_input_pattern_arg(eval_parser)
add_bblfsh_arg(eval_parser)
add_model_args(eval_parser)
eval_parser.add_argument(
"-n",
"--n-files",
default=0,
type=int,
help="How many files with most mispredictions to show. "
"If n <= 0 show all.")
# Generate the quality report based on the artificial noisy dataset
quality_report_noisy_parser = add_parser(
"quality-report-noisy", "Quality report on the "
"artificial noisy dataset")
quality_report_noisy_parser.set_defaults(handler=quality_report_noisy)
add_bblfsh_arg(quality_report_noisy_parser)
add_rules_thresholds(quality_report_noisy_parser)
quality_report_noisy_parser.add_argument(
"-l",
"--language",
default="javascript",
help="Programming language to use.")
quality_report_noisy_parser.add_argument(
"--repos",
type=str,
help=
"list of urls or paths to the repositories to analyze. Should be strings separated "
"by newlines.")
quality_report_noisy_parser.add_argument(
"--precision-threshold",
type=float,
default=0.95,
help="Precision threshold tolerated for the model.")
quality_report_noisy_parser.add_argument(
"-o",
"--dir-output",
required=True,
type=str,
help=
"Path to the output directory where to store the quality report and the "
"precision-recall curve.")
# Generate dataset of different styles in code for smoke testing.
gen_smoke_parser = add_parser(
"gen-smoke-dataset", "Generate dataset with different styles. "
"Helps to check the basic system functionality. "
"Only JavaScript code is supported now.")
gen_smoke_parser.set_defaults(handler=generate_smoke_entry)
gen_smoke_parser.add_argument(
"inputpath",
type=str,
help="Path to the tar.xz archive containing initial repositories.")
gen_smoke_parser.add_argument(
"outputpath",
type=str,
help=
"Path to the directory where the generated dataset should be stored.")
gen_smoke_parser.add_argument(
"--force",
default=False,
action="store_true",
help="Override output directory if exists.",
)
# Evaluate on different styles dataset
eval_gen_styles_parser = add_parser(
"eval-smoke-dataset", "Evaluate on the dataset with different styles.")
eval_gen_styles_parser.set_defaults(handler=evaluate_smoke_entry)
eval_gen_styles_parser.add_argument(
"inputpath",
type=str,
help="Path to the directory where the generated dataset is stored. "
"To generate a dataset run gen-smoke-dataset command.")
eval_gen_styles_parser.add_argument(
"reportdir",
type=str,
help="Path for report performance output directory.")
add_bblfsh_arg(eval_gen_styles_parser)
eval_gen_styles_parser.add_argument("--train-config",
type=json.loads,
default="{}",
help="Json config for train step.")
eval_gen_styles_parser.add_argument("--analyze-config",
type=json.loads,
default="{}",
help=" Json config for analyze step.")
eval_gen_styles_parser.add_argument(
"--database",
type=str,
default=None,
help="Path to the sqlite3 database with trained models metadata. "
"Enables reusing previously trained models.")
return parser
