v2.0.0

[sean-rohan-NOAA]

gapctd 2.0.0 (October 19, 2023)

This release includes substantial changes to data processing
functions in order to process data from SBE43 dissolved oxygen
and SBE18 pH sensors.

NEW FEATURES

• Modifications were made to numerous core functions to handle
  data from dissolved oxygen and pH channels while retaining
  functionality when the sensors are not used.

• derive_oxygen(): Converts SBE43 voltage into oxygen (ml/l)
  using calibration parameters for the DO sensors. Currently
  allows tau correction to voltage but not the hysteresis correct-
  ion. References:

  • Edwards, B., Murphy, D., Janzen, C., Larson, A.N., 2010.
    Calibration, response, and hysteresis in deep-sea dissolved
    oxygen measurements. J. Atmos. Ocean. Technol. 27, 920–931.
    https://doi.org/10.1175/2009JTECHO693.1
  • Garcia, H.E., Gordon, L.I., 1992. Oxygen solubility in seawater:
    Better fitting equations. Limnol. Oceanogr. 37, 1307–1312.
    https://doi.org/10.4319/lo.1992.37.6.1307

• extract_calibration_xmlcon(): Extracts calibration parameters
  for temperature, pressure, conductivity, dissolved oxygen, and
  pH sensors from a CTD configuration (.xmlcon) file.

• align_oxygen(): Aligns oxygen channel data using user-specified
  offset value.

• wrapper_align_oxygen(): Aligns oxygen for multiple user-specified
  alignment offset values using align_oxygen().

• select_best_oxygen_method(): Similar to select_best_method()
  for temperature/salinity/density, an interface for users to
  select the best oxygen alignment value based on visual inspection
  of oxygen profiles.

• review_oxygen_ph_profiles(): Similar to review_profiles() for
  temperature/salinity/density, an interface for users to select
  oxygen and pH profiles to include in the final data product.

FUNCTIONALITY CHANGES

• qc_flag_interpolate(): Allows "oxygen" and "ph" as arguments
  to 'review'

• .check_duplicates: Internal (AFSC) use. Checks hex files for
  duplicate casts and multiple serial numbers to avoid processing
  errors.