# -*- coding: utf-8 -*-
"""
pairsamtools
~~~~~~~~~~~~

CLI tools to process mapped Hi-C data

:copyright: (c) 2017 Massachusetts Institute of Technology
:author: Mirny Lab
:license: MIT

"""

__version__ = '0.0.1-dev'

from . import __version__

import click

CONTEXT_SETTINGS = {
    'help_option_names': ['-h', '--help'],
}

@click.version_option(version=__version__)
@click.group(context_settings=CONTEXT_SETTINGS)
def cli():
    pass

from .pairsam_dedup import dedup
from .pairsam_sort import sort
from .pairsam_merge import merge
from .pairsam_select import select
from .pairsam_split import split
from .pairsam_parse import parse, parse_cigar, parse_algn


@@ -216,34 +216,8 @@
 v'%0A%0A
-from . import __version__%0A
 %0Aimp
@@ -503,16 +503,57 @@
 t merge%0A
+from .pairsam_markasdup import markasdup%0A
 from .pa

add markasdup to cli