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import sys
import click
import simplejson as json
from ..api import Cooler
from ..util import attrs_to_jsonable
from . import cli
from ._util import exit_on_broken_pipe
@cli.command()
@click.argument(
"cool_uri",
type=str,
metavar="COOL_PATH"
)
@click.option(
"--field", "-f",
help="Print the value of a specific info field.",
type=str
)
@click.option(
"--metadata", "-m",
help="Print the user metadata in JSON format.",
is_flag=True,
default=False,
)
@click.option(
"--out", "-o",
help="Output file (defaults to stdout)"
)
@exit_on_broken_pipe(1)
def info(cool_uri, field, metadata, out):
"""
Display a cooler's info and metadata.
COOL_PATH : Path to a COOL file or cooler URI.
"""
c = Cooler(cool_uri)
# Write output
if out is None:
f = sys.stdout
else:
f = open(out, "w")
if metadata:
json.dump(c.info["metadata"], f, indent=4)
print(end="\n", file=f)
elif field is not None:
try:
result = c.info[field]
except KeyError:
print(f"Data field {field} not found.")
sys.exit(1)
print(result, file=f)
else:
dct = c.info.copy()
dct.pop("metadata", None)
json.dump(attrs_to_jsonable(dct), f, indent=4)
print(end="\n", file=f)
f.flush()
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