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Extract frequency from file #27

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merged 2 commits into from
Jun 1, 2021
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Merged

Extract frequency from file #27

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70cf196
extract frequency from file
mgrover1 May 28, 2021
6f272c6
fix whitespace issue
mgrover1 May 28, 2021
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79 changes: 42 additions & 37 deletions ecgtools/parsers/cesm.py
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Original file line number Diff line number Diff line change
@@ -9,55 +9,54 @@
from .utilities import extract_attr_with_regex

_STREAMS_DICT = {
'cam.h0': {'component': 'atm', 'frequency': 'month_1'},
'cam.h1': {'component': 'atm', 'frequency': 'day_1'},
'cam.h2': {'component': 'atm', 'frequency': 'hour_6'},
'cam.h3': {'component': 'atm', 'frequency': 'hour_3'},
'cam.h4': {'component': 'atm', 'frequency': 'hour_1'},
'cam.h5': {'component': 'atm', 'frequency': 'subhour_3'},
'cam.h6': {'component': 'atm', 'frequency': 'day_1'},
'cam.h7': {'component': 'atm', 'frequency': 'day_5'},
'cam.h8': {'component': 'atm', 'frequency': 'day_10'},
'clm2.h0': {'component': 'lnd', 'frequency': 'month_1'},
'clm.h1': {'component': 'lnd', 'frequency': 'month_1'},
'clm.h2': {'component': 'lnd', 'frequency': 'month_1'},
'clm.h3': {'component': 'lnd', 'frequency': 'day_365'},
'clm.h4': {'component': 'lnd', 'frequency': 'day_365'},
'clm.h5': {'component': 'lnd', 'frequency': 'day_1'},
'clm.h6': {'component': 'lnd', 'frequency': 'day_1'},
'clm.h7': {'component': 'lnd', 'frequency': 'hour_3'},
'clm.h8': {'component': 'lnd', 'frequency': 'day_1'},
'mosart.h0': {'component': 'rof', 'frequency': 'month_1'},
'mosart.h1': {'component': 'rof', 'frequency': 'day_1'},
'mosart.h2': {'component': 'rof', 'frequency': 'hour_6'},
'mosart.h3': {'component': 'rof', 'frequency': 'hour_3'},
'pop.h': {'component': 'ocn', 'frequency': 'month_1'},
'pop.h.nday1': {'component': 'ocn', 'frequency': 'day_1'},
'pop.h.nyear1': {'component': 'ocn', 'frequency': 'year_1'},
'pop.h.ecosys': {'component': 'ocn', 'frequency': 'month_1'},
'pop.h.ecosys.nday1': {'component': 'ocn', 'frequency': 'day_1'},
'pop.h.ecosys.nyear1': {'component': 'ocn', 'frequency': 'year_1'},
'cice.h': {'component': 'ice', 'frequency': 'month_1'},
'cice.h1': {'component': 'ice', 'frequency': 'day_1'},
'cism.h': {'component': 'glc', 'frequency': 'year_1'},
'cism.h1': {'component': 'glc', 'frequency': 'month_1'},
'ww3.h': {'component': 'wav', 'frequency': 'month_1'},
'cam.h0': {'component': 'atm'},
'cam.h1': {'component': 'atm'},
'cam.h2': {'component': 'atm'},
'cam.h3': {'component': 'atm'},
'cam.h4': {'component': 'atm'},
'cam.h5': {'component': 'atm'},
'cam.h6': {'component': 'atm'},
'cam.h7': {'component': 'atm'},
'cam.h8': {'component': 'atm'},
'clm2.h0': {'component': 'lnd'},
'clm.h1': {'component': 'lnd'},
'clm.h2': {'component': 'lnd'},
'clm.h3': {'component': 'lnd'},
'clm.h4': {'component': 'lnd'},
'clm.h5': {'component': 'lnd'},
'clm.h6': {'component': 'lnd'},
'clm.h7': {'component': 'lnd'},
'clm.h8': {'component': 'lnd'},
'mosart.h0': {'component': 'rof'},
'mosart.h1': {'component': 'rof'},
'mosart.h2': {'component': 'rof'},
'mosart.h3': {'component': 'rof'},
'pop.h': {'component': 'ocn'},
'pop.h.nday1': {'component': 'ocn'},
'pop.h.nyear1': {'component': 'ocn'},
'pop.h.ecosys': {'component': 'ocn'},
'pop.h.ecosys.nday1': {'component': 'ocn'},
'pop.h.ecosys.nyear1': {'component': 'ocn'},
'cice.h': {'component': 'ice'},
'cice.h1': {'component': 'ice'},
'cism.h': {'component': 'glc'},
'cism.h1': {'component': 'glc'},
'ww3.h': {'component': 'wav'},
}


@dataclasses.dataclass
class Stream:
name: str
component: str
frequency: str


# Make sure to sort the streams in reverse, the reverse=True is required so as
# not to confuse `pop.h.ecosys.nday1` and `pop.h.ecosys.nday1` when looping over
# the list of streams in the parsing function

CESM_STREAMS = [
Stream(name=key, component=value['component'], frequency=value['frequency'])
Stream(name=key, component=value['component'])
for key, value in sorted(_STREAMS_DICT.items(), reverse=True)
]

@@ -89,11 +88,16 @@ def parse_cesm_history(file):
info['stream'] = stream.name
z = file.stem.lower().split(extracted_stream)
info['case'] = z[0].strip('.')
info['frequency'] = stream.frequency
info['date'] = z[-1].strip('.')
break
with xr.open_dataset(file, chunks={}, decode_times=False) as ds:
time = ds.cf['T'].name
try:
time = ds.cf['time'].name
except KeyError:
time = ds.cf['T'].name
except:
print('Unable to parse time')
# If missing time bounds, fill with empty string
try:
time_bounds = ds.cf.get_bounds('time').name
except KeyError:
@@ -103,6 +107,7 @@ def parse_cesm_history(file):
for v, da in ds.variables.items()
if time in da.dims and v not in {time, time_bounds}
]
info['frequency'] = ds.attrs['time_period_freq']
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Thank you, @mgrover1! Can we confirm whether this time_period_freq attribute is only available in CESM2+? As far as I can remember from my conversation with @sherimickelson, older versions of CESM didn't output this attribute across all components.

info['variables'] = variables
info['path'] = str(file)
return info