def handle_arg():
"""
Handle command-line application arguments.
"""
# :: Create Argument Parser
arg_parser = argparse.ArgumentParser(
description=__doc__,
epilog=fmtm('v.{version} - {author}\n{license}', INFO),
formatter_class=argparse.RawDescriptionHelpFormatter)
# :: Add POSIX standard arguments
arg_parser.add_argument(
'--ver',
'--version',
version=fmt(
'%(prog)s - ver. {version}\n{}\n{copyright} {author}\n{notice}',
next(line for line in __doc__.splitlines() if line), **INFO),
action='version')
arg_parser.add_argument(
'-v',
'--verbose',
action='count',
default=D_VERB_LVL,
help='increase the level of verbosity [%(default)s]')
# :: Add additional arguments
arg_parser.add_argument('-f',
'--force',
action='store_true',
help='force new processing [%(default)s]')
arg_parser.add_argument('-d',
'--dir',
metavar='DIR',
default='.',
help='set working directory [%(default)s]')
arg_parser.add_argument('-l',
'--delay',
metavar='X',
type=float,
default=60.0,
help='set checking interval in min [%(default)s]')
arg_parser.add_argument(
'-r',
'--delay_var',
metavar='DX',
type=float,
default=5,
help='set random variance in the delay as percentage [%(default)s]')
arg_parser.add_argument(
'-m',
'--max_count',
metavar='NUM',
type=int,
default=0,
help='maximum number of actions to be performed [%(default)s]')
arg_parser.add_argument(
'-c',
'--cmd',
metavar='EXECUTABLE',
default=os.path.dirname(__file__) + '/dcm_analyze_dir.py {}',
help='execute when finding a new dir with DICOMs [%(default)s]')
return arg_parser
def handle_arg():
"""
Handle command-line application arguments.
"""
# :: Define DEFAULT values
# verbosity
d_verbose = D_VERB_LVL
# default input directory
d_input_dir = '.'
# default output directory
d_output_dir = '.'
# default method
d_method = 'pydicom'
# :: Create Argument Parser
arg_parser = argparse.ArgumentParser(
description=__doc__,
epilog=fmtm('v.{version} - {author}\n{license}', INFO),
formatter_class=argparse.RawDescriptionHelpFormatter)
# :: Add POSIX standard arguments
arg_parser.add_argument(
'--ver',
'--version',
version=fmt(
'%(prog)s - ver. {version}\n{}\n{copyright} {author}\n{notice}',
next(line for line in __doc__.splitlines() if line), **INFO),
action='version')
arg_parser.add_argument(
'-v',
'--verbose',
action='count',
default=d_verbose,
help='increase the level of verbosity [%(default)s]')
# :: Add additional arguments
arg_parser.add_argument('-f',
'--force',
action='store_true',
help='force new processing [%(default)s]')
arg_parser.add_argument('-i',
'--in_dirpath',
metavar='DIR',
default=d_input_dir,
help='set input directory [%(default)s]')
arg_parser.add_argument('-o',
'--out_dirpath',
metavar='DIR',
default=d_output_dir,
help='set output directory [%(default)s]')
arg_parser.add_argument('-m',
'--method',
metavar='METHOD',
default=d_method,
help='set extraction method [%(default)s]')
arg_parser.add_argument('-t',
'--type_ext',
action='store_true',
help='add type extension [%(default)s]')
return arg_parser
def handle_arg():
"""
Handle command-line application arguments.
"""
# :: Create Argument Parser
arg_parser = argparse.ArgumentParser(
description=__doc__,
epilog=fmtm('v.{version} - {author}\n{license}', INFO),
formatter_class=argparse.RawDescriptionHelpFormatter)
# :: Add POSIX standard arguments
arg_parser.add_argument(
'--ver',
'--version',
version=fmt(
'%(prog)s - ver. {version}\n{}\n{copyright} {author}\n{notice}',
next(line for line in __doc__.splitlines() if line), **INFO),
action='version')
arg_parser.add_argument(
'-v',
'--verbose',
action='count',
default=D_VERB_LVL,
help='increase the level of verbosity [%(default)s]')
# :: Add additional arguments
arg_parser.add_argument('-f',
'--force',
action='store_true',
help='force new processing [%(default)s]')
arg_parser.add_argument('-i',
'--in_dirpath',
metavar='DIR',
default='.',
help='set input directory [%(default)s]')
arg_parser.add_argument('-o',
'--out_dirpath',
metavar='DIR',
default='.',
help='set output directory [%(default)s]')
arg_parser.add_argument('-b',
'--basename',
metavar='NAME',
default='{name}_{date}_{time}_{sys}',
help='set output directory [%(default)s]')
arg_parser.add_argument('-m',
'--method',
metavar='METHOD',
default='pydicom',
help='set extraction method [%(default)s]')
arg_parser.add_argument('-a',
'--file_format',
metavar='METHOD',
default='pdf',
help='set output format [%(default)s]')
return arg_parser
def handle_arg():
"""
Handle command-line application arguments.
"""
# :: Create Argument Parser
arg_parser = argparse.ArgumentParser(
description=__doc__,
epilog=fmtm('v.{version} - {author}\n{license}', INFO),
formatter_class=argparse.RawDescriptionHelpFormatter)
# :: Add POSIX standard arguments
arg_parser.add_argument(
'--ver', '--version',
version=fmt(
'%(prog)s - ver. {version}\n{}\n{copyright} {author}\n{notice}',
next(line for line in __doc__.splitlines() if line), **INFO),
action='version')
arg_parser.add_argument(
'-v', '--verbose',
action='count', default=D_VERB_LVL,
help='increase the level of verbosity [%(default)s]')
arg_parser.add_argument(
'-q', '--quiet',
action='store_true',
help='override verbosity settings to suppress output [%(default)s]')
# :: Add additional arguments
arg_parser.add_argument(
'-f', '--force',
action='store_true',
help='force new processing [%(default)s]')
arg_parser.add_argument(
'-i', '--in_dirpath', metavar='DIR',
default='.',
help='set input directory [%(default)s]')
arg_parser.add_argument(
'-o', '--out_dirpath', metavar='DIR',
default='.',
help='set output directory [%(default)s]')
arg_parser.add_argument(
'-n', '--name', metavar='STR',
default='{name}_{date}_{time}_{sys}',
help='set output directory [%(default)s]')
arg_parser.add_argument(
'-m', '--method', metavar='tlz|tgz|tbz2|7z|zip|txz',
default='tlz',
help='set compression method [%(default)s]')
arg_parser.add_argument(
'-k', '--keep',
action='store_true',
help='Keep DICOM sources after do_backup (and test). [%(default)s]')
return arg_parser
def handle_arg():
"""
Handle command-line application arguments.
"""
# :: Create Argument Parser
arg_parser = argparse.ArgumentParser(
description=__doc__,
epilog=fmtm('v.{version} - {author}\n{license}', INFO),
formatter_class=argparse.RawDescriptionHelpFormatter)
# :: Add POSIX standard arguments
arg_parser.add_argument(
'--ver', '--version',
version=fmt(
'%(prog)s - ver. {version}\n{}\n{copyright} {author}\n{notice}',
next(line for line in __doc__.splitlines() if line), **INFO),
action='version')
arg_parser.add_argument(
'-v', '--verbose',
action='count', default=D_VERB_LVL,
help='increase the level of verbosity [%(default)s]')
arg_parser.add_argument(
'-q', '--quiet',
action='store_true',
help='override verbosity settings to suppress output [%(default)s]')
# :: Add additional arguments
arg_parser.add_argument(
'-f', '--force',
action='store_true',
help='force new processing [%(default)s]')
arg_parser.add_argument(
'-i', '--in_dirpath', metavar='DIR',
default='.',
help='set input directory [%(default)s]')
arg_parser.add_argument(
'-o', '--out_dirpath', metavar='DIR',
default='.',
help='set output directory [%(default)s]')
arg_parser.add_argument(
'-m', '--method', metavar='copy|move|symlink|link',
default='symlink',
help='Move DICOM sources instead of copying [%(default)s]')
arg_parser.add_argument(
'-s', '--subpath',
default='{study}/{name}_{date}_{time}_{sys}',
help='Append DICOM-generated subpath to output [%(default)s]')
arg_parser.add_argument(
'-e', '--extra_subpath',
default='dcm',
help='Append static subpath to output [%(default)s]')
return arg_parser
def handle_arg():
"""
Handle command-line application arguments.
"""
# :: Create Argument Parser
arg_parser = argparse.ArgumentParser(
description=__doc__,
epilog=fmtm('v.{version} - {author}\n{license}', INFO),
formatter_class=argparse.RawDescriptionHelpFormatter)
# :: Add POSIX standard arguments
arg_parser.add_argument(
'--ver',
'--version',
version=fmt(
'%(prog)s - ver. {version}\n{}\n{copyright} {author}\n{notice}',
next(line for line in __doc__.splitlines() if line), **INFO),
action='version')
arg_parser.add_argument(
'-v',
'--verbose',
action='count',
default=D_VERB_LVL,
help='increase the level of verbosity [%(default)s]')
# :: Add additional arguments
arg_parser.add_argument('-f',
'--force',
action='store_true',
help='force new processing [%(default)s]')
arg_parser.add_argument('-d',
'--dirpath',
metavar='DIR',
default='.',
help='set working directory [%(default)s]')
arg_parser.add_argument(
'-m',
'--match',
metavar='STR',
default='{"_concat":"and","OperatorsName":"*****@*****.**"}',
help='set a match in the DICOM information [%(default)s]')
arg_parser.add_argument('-a',
'--action',
metavar='STR',
default='email+preprocess',
help='set action to perform [%(default)s]')
return arg_parser
def handle_arg():
"""
Handle command-line application arguments.
"""
# :: Create Argument Parser
arg_parser = argparse.ArgumentParser(
description=__doc__,
epilog=fmtm('v.{version} - {author}\n{license}', INFO),
formatter_class=argparse.RawDescriptionHelpFormatter)
# :: Add POSIX standard arguments
arg_parser.add_argument(
'--ver',
'--version',
version=fmt(
'%(prog)s - ver. {version}\n{}\n{copyright} {author}\n{notice}',
next(line for line in __doc__.splitlines() if line), **INFO),
action='version')
arg_parser.add_argument(
'-v',
'--verbose',
action='count',
default=D_VERB_LVL,
help='increase the level of verbosity [%(default)s]')
# :: Add additional arguments
arg_parser.add_argument('-d',
'--dirpath',
metavar='DIR',
default='.',
help='set working directory [%(default)s]')
arg_parser.add_argument('-c',
'--dcm_info',
metavar='DIR',
default='{'
'"PatientID": null, '
'"PatientBirthDate": null, '
'"PatientName": null}',
help='set DICOM fields to update [%(default)s]')
arg_parser.add_argument(
'-b',
'--backup_prefix',
default=None,
help='set prefix to be prepended to backup files [%(default)s]')
return arg_parser
def handle_arg():
"""
Handle command-line application arguments.
"""
# :: Create Argument Parser
arg_parser = argparse.ArgumentParser(
description=__doc__,
epilog=fmtm('v.{version} - {author}\n{license}', INFO),
formatter_class=argparse.RawDescriptionHelpFormatter)
# :: Add POSIX standard arguments
arg_parser.add_argument(
'--ver',
'--version',
version=fmt(
'%(prog)s - ver. {version}\n{}\n{copyright} {author}\n{notice}',
next(line for line in __doc__.splitlines() if line), **INFO),
action='version')
arg_parser.add_argument(
'-v',
'--verbose',
action='count',
default=D_VERB_LVL,
help='increase the level of verbosity [%(default)s]')
# :: Add additional arguments
arg_parser.add_argument('ui_mode',
nargs='?',
default='tui',
help='set UI mode [%(default)s]')
arg_parser.add_argument('-f',
'--force',
action='store_true',
help='force new processing [%(default)s]')
arg_parser.add_argument(
'-c',
'--config',
metavar='FILE',
default=CFG_FILENAME,
help='set configuration file name/path [%(default)s]')
return arg_parser
def handle_arg():
"""
Handle command-line application arguments.
"""
# :: Create Argument Parser
arg_parser = argparse.ArgumentParser(
description=__doc__,
epilog=fmtm('v.{version} - {author}\n{license}', INFO),
formatter_class=argparse.RawDescriptionHelpFormatter)
# :: Add POSIX standard arguments
arg_parser.add_argument(
'--ver',
'--version',
version=fmt(
'%(prog)s - ver. {version}\n{}\n{copyright} {author}\n{notice}',
next(line for line in __doc__.splitlines() if line), **INFO),
action='version')
arg_parser.add_argument(
'-v',
'--verbose',
action='count',
default=D_VERB_LVL,
help='increase the level of verbosity [%(default)s]')
# :: Add additional arguments
arg_parser.add_argument('-f',
'--force',
action='store_true',
help='force new processing [%(default)s]')
arg_parser.add_argument(
'-s',
'--summary',
default=utl.D_SUMMARY + '.' + utl.EXT['json'],
help='set expt. summary filepath (empty to skip) [%(default)s]')
arg_parser.add_argument('-d',
'--dirpath',
metavar='DIR',
default='.',
help='set i/o directory path [%(default)s]')
return arg_parser
def handle_arg():
"""
Handle command-line application arguments.
"""
# :: Create Argument Parser
arg_parser = argparse.ArgumentParser(
description=__doc__,
epilog=fmtm('v.{version} - {author}\n{license}', INFO),
formatter_class=argparse.RawDescriptionHelpFormatter)
# :: Add POSIX standard arguments
arg_parser.add_argument(
'--ver',
'--version',
version=fmt(
'%(prog)s - ver. {version}\n{}\n{copyright} {author}\n{notice}',
next(line for line in __doc__.splitlines() if line), **INFO),
action='version')
arg_parser.add_argument(
'-v',
'--verbose',
action='count',
default=D_VERB_LVL,
help='increase the level of verbosity [%(default)s]')
# :: Add additional arguments
arg_parser.add_argument('-f',
'--force',
action='store_true',
help='force new processing [%(default)s]')
arg_parser.add_argument('-i',
'--in_dirpath',
metavar='DIR',
default='.',
help='set input directory [%(default)s]')
arg_parser.add_argument('-o',
'--out_dirpath',
metavar='DIR',
default='.',
help='set output directory [%(default)s]')
arg_parser.add_argument(
'-s',
'--subpath',
default=utl.TPL['acquire'],
help='Append DICOM-generated subpath to output [%(default)s]')
arg_parser.add_argument(
'-n',
'--niz_subpath',
default=utl.ID['niz'],
help='Sub-path for NIfTI extraction. Empty to skip [%(default)s]')
arg_parser.add_argument(
'-m',
'--meta_subpath',
default=utl.ID['meta'],
help='Sub-path for META extraction. Empty to skip [%(default)s]')
arg_parser.add_argument(
'-p',
'--prot_subpath',
default=utl.ID['prot'],
help='Sub-path for PROT extraction. Empty to skip [%(default)s]')
arg_parser.add_argument(
'-t',
'--info_subpath',
default=utl.ID['info'],
help='Sub-path for INFO extraction. Empty to skip [%(default)s]')
arg_parser.add_argument(
'-r',
'--report_subpath',
default=utl.TPL['report'],
help='Template for the report filename. Empty to skip [%(default)s]')
arg_parser.add_argument(
'-b',
'--backup_subpath',
default=utl.TPL['backup'],
help='Template for the backup filename. Empty to skip [%(default)s]')
return arg_parser