glidertools.processing.calc_oxygen¶
-
glidertools.processing.
calc_oxygen
(o2raw, pressure, salinity, temperature, auto_conversion=True, spike_window=7, spike_method='median', savitzky_golay_window=0, savitzky_golay_order=2, verbose=True)¶ This function processes oxygen.
It is assumed that either mL/L or umol/kg are passed as input. The units are automatically detected by looking at the mean ratio. Below are some conversions to help with the Oxygen units:
>>> µmol/l > µmol/kg * 1.025 µmol/l > ml/l * 44.66 µmol/l > mg/l * 31.25
Parameters: - o2raw (array, dtype=float, shape=[n, ]) – raw oxygen without unit conversion
- pressure (array, dtype=float, shape=[n, ]) –
- salinity (array, dtype=float, shape=[n, ]) –
- temperature (array, dtype=float, shape=[n, ]) –
- conversion (bool=True) – tries to determine the unit of oxygen based on
o2raw
values. The user needs to do a manual conversion if False - spike_window (int=7) – rolling window size to apply for the
cleaning.despike
function. - spike_method (string='median') – can be ‘median’ or ‘minmax’. see
cleaning.despike
for more info. - savitzky_golay_window (int=0) – rolling window size for
cleaning.savitzky_golay
function - savitzky_golay_order (int=2) – polynomial order for
cleaning.savitzky_golay
function - verbose (bool=True) –
Returns: - o2mll (array, dtype=float, shape=[n, ]) – oxygen concentration in mL/L (if unit auto_conversion is set True)
- o2pct (array, dtype=float, shape=[n, ]) – theoretical oxygen saturation percentage
- o2aou (array, dtype=float, shape=[n, ]) – aparent oxygen utilisation based on measured oxygen and oxygen saturation.
Note
To Do: Oxygen processing should have its own section to be consistent